Psyllid ID: psy3587

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140-------150-------160-------170-------180-------190-----
Protein Sequence
VVSVSRTPGHTKHFQTIFLTDNIRLCDCPGLVFPSKVPKPLQVVSVSRTPGHTKHFQTIFLTDNIRLCDCPGLVFPSKVPKPLQVLMGSFPIAQLREPYSTVQYLAERMDLIKLLHIKHPDDDEYWCAMDICDGWAQKRSYMTAKTGRYDSYRAANELLRMATEGRICLCLMPPQYLSKQGVSKHSRPAVRRSTK
Secondary Structure (PSIPRED)
cEEEccccccccccccEEccccEEEEcccccccccccccccccEEccccccccccEEEEEEcccEEEEEcccEEcccccccHHHHHcccccccccccHHHHHHHHHHHHHHHHHHccccccccccccHHHHHHHHHHHccccccccccccHHHHHHHHHHHHHcccEEEEEccccccccccccccccHHHHcccc
Secondary Structure Prediction (SSPRO)
cEEEEccccccccEEEEEEccccccccccccccccccccccEEEEEcccccccEEEEEEEEcccEEEEccccEEccccccHHHHHHccEEEHHHHccccccHHHHHHcccHHHEEEEccccccccccHHHHHHHHHHHccccccccccccHHHHHHHHHHHHHccccEEEcccccccccccccccccccHccccc
Coil and Loop (DISEMBL)
vvsvsrtpghtkhfqtifltdnirlcdcpglvfpskvpkplqvvsvsrtpghtkhfqtifltdnirlcdcpglvfpskvpkplqvlmgsfpiaqlrepysTVQYLAERMDLIKLLhikhpdddeywcamdicdgwaqkRSYMtaktgrydsYRAANELLRMATEGriclclmppqylskqgvskhsrpavrrstk
Flexible Loop (DISEMBL)
vvsvsrtpghtkhfqtifltdnirLCDCPGLVFPSKVPKPLQVVSvsrtpghtKHFQTIFLTDNIRLCDCPGLVFPSKVPKPLQVLMGSFPIAQLREPYSTVQYLAERMDLIKLLHIKHPDDDEYWCAMDICDGWAQKRSYMTAKTGRYDSYRAANELLRMATEGRICLCLMppqylskqgvskhsrpavrrstk
Low Complexity Region (SEG)
VVSVSRTPGHTKHFQTIFLTDNIRLCDCPGLVFPSKVPKPLQVVSVSRTPGHTKHFQTIFLTDNIRLCDCPGLVFPSKVPKPLQVLMGSFPIAQLREPYSTVQYLAERMDLIKLLHIKHPDDDEYWCAMDICDGWAQKRSYMTAKTGRYDSYRAANELLRMATEGRICLCLMPPQYLSKQGVSKHSRPAVRRSTK
Disordered region (IsUnstruct)
***********KHFQTIFLTDNIRLCDCPGLVFPSKVPKPLQVVSVSRTPGHTKHFQTIFLTDNIRLCDCPGLVFPSKVPKPLQVLMGSFPIAQLREPYSTVQYLAERMDLIKLLHIKHPDDDEYWCAMDICDGWAQKRSYMTAKTGRYDSYRAANELLRMATEGRICLCLMPPQYL******************
Disordered Region (DISOPRED)
***************TIFLTDNIRLCDCPGLVFPSKVPKPLQVVSVSRTPGHTKHFQTIFLTDNIRLCDCPGLVFPSKVPKPLQVLMGSFPIAQLREPYSTVQYLAERMDLIKLLHIKHPDDDEYWCAMDICDGWAQKRSYMTAKTGRYDSYRAANELLRMATEGRICLCLMPPQ********************
Disordered Region (DISEMBL)
********GHTKHFQTIFLTDNIRLCDCPGLVFPSKVPKPLQVVSVSRTPGHTKHFQTIFLTDNIRLCDCPGLVFPSKVPKPLQVLMGSFPIAQLREPYSTVQYLAERMDLIKLLHIKHPDDDEYWCAMDICDGWAQKRSYMTAKTGRYDSYRAANELLRMATEGRICLCLMPPQYL******************
Disordered Region (DISPRO)
VVSVSRTPGHTKHFQTIFLTDNIRLCDCPGLVFPSKVPKPLQVVSVSRTPGHTKHFQTIFLTDNIRLCDCPGLVFPSKVPKPLQVLMGSFPIAQLREPYSTVQYLAERMDLIKLLHIKHPDDDEYWCAMDICDGWAQKRSYMTAKTGRYDSYRAANELLRMATEGRICLCLMPPQY*******************
Transmembrane Helix (TMHMM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (MEMSAT_SVM)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhoooooooooooooooooooooooooo
TM Helix, Signal Peptide (Phobius)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
VVSVSRTPGHTKHFQTIFLTDNIRLCDCPGLVFPSKVPKPLQVVSVSRTPGHTKHFQTIFLTDNIRLCDCPGLVFPSKVPKPLQVLMGSFPIAQLREPYSTVQYLAERMDLIKLLHIKHPDDDEYWCAMDICDGWAQKRSYMTAKTGRYDSYRAANELLRMATEGRICLCLMPPQYLSKQGVSKHSRPAVRRSTK
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	195	2.2.26 [Sep-21-2011]
P36916	607	Guanine nucleotide-bindin	yes	N/A	0.723	0.232	0.568	1e-46
Q5RA07	607	Guanine nucleotide-bindin	yes	N/A	0.723	0.232	0.568	2e-46
Q7YR35	607	Guanine nucleotide-bindin	yes	N/A	0.723	0.232	0.568	2e-46
P36915	607	Guanine nucleotide-bindin	yes	N/A	0.723	0.232	0.568	2e-46
Q5TM59	607	Guanine nucleotide-bindin	yes	N/A	0.723	0.232	0.568	2e-46
Q4R8D2	607	Guanine nucleotide-bindin	N/A	N/A	0.723	0.232	0.568	2e-46
Q6MG06	607	Guanine nucleotide-bindin	yes	N/A	0.723	0.232	0.561	9e-46
P53145	640	Large subunit GTPase 1 OS	yes	N/A	0.682	0.207	0.4	1e-17
Q10190	616	Large subunit GTPase 1 OS	yes	N/A	0.682	0.215	0.384	3e-15
Q9W590	606	Large subunit GTPase 1 ho	no	N/A	0.630	0.202	0.351	7e-14

>sp|P36916|GNL1_MOUSE Guanine nucleotide-binding protein-like 1 OS=Mus musculus GN=Gnl1 PE=1 SV=4

 Score =  185 bits (470), Expect = 1e-46,   Method: Compositional matrix adjust.
 Identities = 83/146 (56%), Positives = 111/146 (76%), Gaps = 5/146 (3%)

Query: 42  QVVSVSRTPGHTKHFQTIFLTDNIRLCDCPGLVFPSKVPKPLQVLMGSFPIAQLREPYST 101
           +VVSVSRTPGHT++FQT FLT +++LCDCPGL+FPS +P+ LQVL G +PIAQ++EPY++
Sbjct: 384 KVVSVSRTPGHTRYFQTYFLTPSVKLCDCPGLIFPSLLPRQLQVLAGIYPIAQIQEPYTS 443

Query: 102 VQYLAERMDLIKLLHIKHPDDDE-----YWCAMDICDGWAQKRSYMTAKTGRYDSYRAAN 156
           V YLA R+ +  LLH++HP+ ++      WCA DIC+ WA+KR Y TAK  R D YRAAN
Sbjct: 444 VGYLASRIPVQALLHLRHPEAEDPSAEHPWCAWDICEAWAEKRGYKTAKAARNDVYRAAN 503

Query: 157 ELLRMATEGRICLCLMPPQYLSKQGV 182
            LLR+A +GR+ LC  PP Y  ++G 
Sbjct: 504 SLLRLAVDGRLSLCFYPPGYSEQRGT 529

Possible regulatory or functional link with the histocompatibility cluster.
Mus musculus (taxid: 10090)

>sp|Q5RA07|GNL1_PONAB Guanine nucleotide-binding protein-like 1 OS=Pongo abelii GN=GNL1 PE=2 SV=1

 Score =  185 bits (469), Expect = 2e-46,   Method: Compositional matrix adjust.
 Identities = 83/146 (56%), Positives = 110/146 (75%), Gaps = 5/146 (3%)

Query: 42  QVVSVSRTPGHTKHFQTIFLTDNIRLCDCPGLVFPSKVPKPLQVLMGSFPIAQLREPYST 101
           +VVSVSRTPGHT++FQT FLT +++LCDCPGL+FPS +P+ LQVL G +PIAQ++EPY+ 
Sbjct: 384 KVVSVSRTPGHTRYFQTYFLTPSVKLCDCPGLIFPSLLPRQLQVLAGIYPIAQIQEPYTA 443

Query: 102 VQYLAERMDLIKLLHIKHPDDDE-----YWCAMDICDGWAQKRSYMTAKTGRYDSYRAAN 156
           V YLA R+ +  LLH++HP+ ++      WCA DIC+ WA+KR Y TAK  R D YRAAN
Sbjct: 444 VGYLASRIPVQALLHLRHPEAEDPSAEHPWCAWDICEAWAEKRGYKTAKAARNDVYRAAN 503

Query: 157 ELLRMATEGRICLCLMPPQYLSKQGV 182
            LLR+A +GR+ LC  PP Y  ++G 
Sbjct: 504 SLLRLAVDGRLSLCFHPPGYSEQKGT 529

Possible regulatory or functional link with the histocompatibility cluster.

Pongo abelii (taxid: 9601)

>sp|Q7YR35|GNL1_PANTR Guanine nucleotide-binding protein-like 1 OS=Pan troglodytes GN=GNL1 PE=3 SV=3

 Score =  185 bits (469), Expect = 2e-46,   Method: Compositional matrix adjust.
 Identities = 83/146 (56%), Positives = 110/146 (75%), Gaps = 5/146 (3%)

Query: 42  QVVSVSRTPGHTKHFQTIFLTDNIRLCDCPGLVFPSKVPKPLQVLMGSFPIAQLREPYST 101
           +VVSVSRTPGHT++FQT FLT +++LCDCPGL+FPS +P+ LQVL G +PIAQ++EPY+ 
Sbjct: 384 KVVSVSRTPGHTRYFQTYFLTPSVKLCDCPGLIFPSLLPRQLQVLAGIYPIAQIQEPYTA 443

Query: 102 VQYLAERMDLIKLLHIKHPDDDE-----YWCAMDICDGWAQKRSYMTAKTGRYDSYRAAN 156
           V YLA R+ +  LLH++HP+ ++      WCA DIC+ WA+KR Y TAK  R D YRAAN
Sbjct: 444 VGYLASRIPVQALLHLRHPEAEDPSAEHPWCAWDICEAWAEKRGYKTAKAARNDVYRAAN 503

Query: 157 ELLRMATEGRICLCLMPPQYLSKQGV 182
            LLR+A +GR+ LC  PP Y  ++G 
Sbjct: 504 SLLRLAVDGRLSLCFHPPGYSEQKGT 529

Possible regulatory or functional link with the histocompatibility cluster.

Pan troglodytes (taxid: 9598)

>sp|P36915|GNL1_HUMAN Guanine nucleotide-binding protein-like 1 OS=Homo sapiens GN=GNL1 PE=1 SV=2

 Score =  185 bits (469), Expect = 2e-46,   Method: Compositional matrix adjust.
 Identities = 83/146 (56%), Positives = 110/146 (75%), Gaps = 5/146 (3%)

Query: 42  QVVSVSRTPGHTKHFQTIFLTDNIRLCDCPGLVFPSKVPKPLQVLMGSFPIAQLREPYST 101
           +VVSVSRTPGHT++FQT FLT +++LCDCPGL+FPS +P+ LQVL G +PIAQ++EPY+ 
Sbjct: 384 KVVSVSRTPGHTRYFQTYFLTPSVKLCDCPGLIFPSLLPRQLQVLAGIYPIAQIQEPYTA 443

Query: 102 VQYLAERMDLIKLLHIKHPDDDE-----YWCAMDICDGWAQKRSYMTAKTGRYDSYRAAN 156
           V YLA R+ +  LLH++HP+ ++      WCA DIC+ WA+KR Y TAK  R D YRAAN
Sbjct: 444 VGYLASRIPVQALLHLRHPEAEDPSAEHPWCAWDICEAWAEKRGYKTAKAARNDVYRAAN 503

Query: 157 ELLRMATEGRICLCLMPPQYLSKQGV 182
            LLR+A +GR+ LC  PP Y  ++G 
Sbjct: 504 SLLRLAVDGRLSLCFHPPGYSEQKGT 529

Possible regulatory or functional link with the histocompatibility cluster.

Homo sapiens (taxid: 9606)

>sp|Q5TM59|GNL1_MACMU Guanine nucleotide-binding protein-like 1 OS=Macaca mulatta GN=GNL1 PE=3 SV=1

 Score =  185 bits (469), Expect = 2e-46,   Method: Compositional matrix adjust.
 Identities = 83/146 (56%), Positives = 110/146 (75%), Gaps = 5/146 (3%)

Query: 42  QVVSVSRTPGHTKHFQTIFLTDNIRLCDCPGLVFPSKVPKPLQVLMGSFPIAQLREPYST 101
           +VVSVSRTPGHT++FQT FLT +++LCDCPGL+FPS +P+ LQVL G +PIAQ++EPY+ 
Sbjct: 384 KVVSVSRTPGHTRYFQTYFLTPSVKLCDCPGLIFPSLLPRQLQVLAGIYPIAQIQEPYTA 443

Query: 102 VQYLAERMDLIKLLHIKHPDDDE-----YWCAMDICDGWAQKRSYMTAKTGRYDSYRAAN 156
           V YLA R+ +  LLH++HP+ ++      WCA DIC+ WA+KR Y TAK  R D YRAAN
Sbjct: 444 VGYLASRIPVQALLHLRHPEAEDPSAEHPWCAWDICEAWAEKRGYKTAKAARNDVYRAAN 503

Query: 157 ELLRMATEGRICLCLMPPQYLSKQGV 182
            LLR+A +GR+ LC  PP Y  ++G 
Sbjct: 504 SLLRLAVDGRLSLCFHPPGYSEQKGT 529

Possible regulatory or functional link with the histocompatibility cluster.

Macaca mulatta (taxid: 9544)

>sp|Q4R8D2|GNL1_MACFA Guanine nucleotide-binding protein-like 1 OS=Macaca fascicularis GN=GNL1 PE=2 SV=1

 Score =  185 bits (469), Expect = 2e-46,   Method: Compositional matrix adjust.
 Identities = 83/146 (56%), Positives = 110/146 (75%), Gaps = 5/146 (3%)

Query: 42  QVVSVSRTPGHTKHFQTIFLTDNIRLCDCPGLVFPSKVPKPLQVLMGSFPIAQLREPYST 101
           +VVSVSRTPGHT++FQT FLT +++LCDCPGL+FPS +P+ LQVL G +PIAQ++EPY+ 
Sbjct: 384 KVVSVSRTPGHTRYFQTYFLTPSVKLCDCPGLIFPSLLPRQLQVLAGIYPIAQIQEPYTA 443

Query: 102 VQYLAERMDLIKLLHIKHPDDDE-----YWCAMDICDGWAQKRSYMTAKTGRYDSYRAAN 156
           V YLA R+ +  LLH++HP+ ++      WCA DIC+ WA+KR Y TAK  R D YRAAN
Sbjct: 444 VGYLASRIPVQALLHLRHPEAEDPSAEHPWCAWDICEAWAEKRGYKTAKAARNDVYRAAN 503

Query: 157 ELLRMATEGRICLCLMPPQYLSKQGV 182
            LLR+A +GR+ LC  PP Y  ++G 
Sbjct: 504 SLLRLAVDGRLSLCFHPPGYSEQKGT 529

Possible regulatory or functional link with the histocompatibility cluster.

Macaca fascicularis (taxid: 9541)

>sp|Q6MG06|GNL1_RAT Guanine nucleotide-binding protein-like 1 OS=Rattus norvegicus GN=Gnl1 PE=2 SV=1

 Score =  182 bits (463), Expect = 9e-46,   Method: Compositional matrix adjust.
 Identities = 82/146 (56%), Positives = 111/146 (76%), Gaps = 5/146 (3%)

Query: 42  QVVSVSRTPGHTKHFQTIFLTDNIRLCDCPGLVFPSKVPKPLQVLMGSFPIAQLREPYST 101
           +VVSVSRTPGHT++FQT FLT +++LCDCPGL+FPS +P+ LQVL G +PIAQ++EPY++
Sbjct: 384 KVVSVSRTPGHTRYFQTYFLTPSVKLCDCPGLIFPSLLPRQLQVLAGIYPIAQIQEPYTS 443

Query: 102 VQYLAERMDLIKLLHIKHPDDDE-----YWCAMDICDGWAQKRSYMTAKTGRYDSYRAAN 156
           V YLA R+ +  LLH++HP+ ++      WCA D+C+ WA+KR Y TAK  R D YRAAN
Sbjct: 444 VGYLACRIPVQALLHLRHPEAEDPSAEHPWCAWDVCEAWAEKRGYKTAKAARNDVYRAAN 503

Query: 157 ELLRMATEGRICLCLMPPQYLSKQGV 182
            LLR+A +GR+ LC  PP Y  ++G 
Sbjct: 504 SLLRLAVDGRLSLCFHPPGYSEQRGT 529

Possible regulatory or functional link with the histocompatibility cluster.

Rattus norvegicus (taxid: 10116)

>sp|P53145|LSG1_YEAST Large subunit GTPase 1 OS=Saccharomyces cerevisiae (strain ATCC 204508 / S288c) GN=LSG1 PE=1 SV=1

 Score = 89.7 bits (221), Expect = 1e-17,   Method: Composition-based stats.
 Identities = 58/145 (40%), Positives = 79/145 (54%), Gaps = 12/145 (8%)

Query: 44  VSVSRTPGHTKHFQTIFLTDNIRLCDCPGLVFPS-KVPKPLQVLMGSFPIAQLREPYSTV 102
           VSVS TPG TKHFQTI L+D++ LCDCPGLVFP+    K   V  G  PI QLR+     
Sbjct: 362 VSVSSTPGKTKHFQTIKLSDSVMLCDCPGLVFPNFAYNKGELVCNGVLPIDQLRDYIGPA 421

Query: 103 QYLAER-----MDLIKLLHIKHPDDDE-----YWCAMDICDGWAQKRSYMTAKTGRYDSY 152
             +AER     ++ I  +HI+    DE        A ++   +A+ R YMT   G  D  
Sbjct: 422 GLVAERIPKYYIEAIYGIHIQTKSRDEGGNGDIPTAQELLVAYARARGYMTQGYGSADEP 481

Query: 153 RAANELLRMATEGRICLCLMPPQYL 177
           RA+  +L+    G++ L + PP +L
Sbjct: 482 RASRYILKDYVNGKL-LYVNPPPHL 505

GTPase required for the nuclear export of the 60S ribosomal subunit. Acts by mediating the release of NMD3 from the 60S ribosomal subunit after export into the cytoplasm.

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

EC: 3

EC: .

EC: 6

EC: .

EC: 1

EC: .

EC: -

>sp|Q10190|LSG1_SCHPO Large subunit GTPase 1 OS=Schizosaccharomyces pombe (strain 972 / ATCC 24843) GN=lsg1 PE=3 SV=1

 Score = 81.3 bits (199), Expect = 3e-15,   Method: Composition-based stats.
 Identities = 55/143 (38%), Positives = 74/143 (51%), Gaps = 10/143 (6%)

Query: 44  VSVSRTPGHTKHFQTIFLTDNIRLCDCPGLVFPS-KVPKPLQVLMGSFPIAQLREPYSTV 102
           VSVS TPG TKHFQTI L++ + L DCPGLVFPS    +   VL G  PI QLRE     
Sbjct: 327 VSVSSTPGKTKHFQTINLSEKVSLLDCPGLVFPSFATTQADLVLDGVLPIDQLREYTGPS 386

Query: 103 QYLAER-----MDLIKLLHIKHPDDDE----YWCAMDICDGWAQKRSYMTAKTGRYDSYR 153
             +AER     ++ +  + I+    +E       A ++   +A+ R +M A  G  D  R
Sbjct: 387 ALMAERIPKEVLETLYTIRIRIKPIEEGGTGVPSAQEVLFPFARSRGFMRAHHGTPDDSR 446

Query: 154 AANELLRMATEGRICLCLMPPQY 176
           AA  LL+    G++     PP Y
Sbjct: 447 AARILLKDYVNGKLLYVHPPPNY 469

GTPase required for the nuclear export of the 60S ribosomal subunit. Acts by mediating the release of nmd3 from the 60S ribosomal subunit after export into the cytoplasm.

Schizosaccharomyces pombe (strain 972 / ATCC 24843) (taxid: 284812)

EC: 3

EC: .

EC: 6

EC: .

EC: 1

EC: .

EC: -

>sp|Q9W590|LSG1_DROME Large subunit GTPase 1 homolog OS=Drosophila melanogaster GN=ns3 PE=1 SV=1

 Score = 77.0 bits (188), Expect = 7e-14,   Method: Compositional matrix adjust.
 Identities = 52/148 (35%), Positives = 73/148 (49%), Gaps = 25/148 (16%)

Query: 44  VSVSRTPGHTKHFQTIFLTDNIRLCDCPGLVFPSKV-PKPLQVLMGSFPIAQLREPYSTV 102
           VSVS TPG TK FQT+FL  +I LCDCPGLV PS V  K   +L G  PI Q+R+    V
Sbjct: 363 VSVSATPGKTKRFQTLFLDKDILLCDCPGLVMPSFVLTKADMLLNGILPIDQMRDHVPAV 422

Query: 103 QYLAERMDLIKLLHIKHPDDDEYWCAM----------------DICDGWAQKRSYMTAKT 146
             L ER+        +H  +D+Y   +                ++   +   R +MT+  
Sbjct: 423 NLLCERIP-------RHVLEDKYGIVIAKPLEGEDMERPPHSEELLLAYGYNRGFMTS-N 474

Query: 147 GRYDSYRAANELLRMATEGRICLCLMPP 174
           G+ D  R+A  +L+    GR+   + PP
Sbjct: 475 GQPDQARSARYVLKDYVNGRLLYAMSPP 502

GTPase required for the nuclear export of the 60S ribosomal subunit. Probably acts by mediating the release of NMD3 from the 60S ribosomal subunit after export into the cytoplasm (By similarity). Regulator of body size; acts in serotonergic neurons to regulate insulin signaling and thus exert global growth control.

Drosophila melanogaster (taxid: 7227)

EC: 3

EC: .

EC: 6

EC: .

EC: 1

EC: .

EC: -

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	195
189235276	1234	PREDICTED: similar to mmr1/hsr1 GTP bind	0.712	0.112	0.748	1e-60
270004156	584	hypothetical protein TcasGA2_TC003476 [T	0.712	0.238	0.748	2e-60
383855489	577	PREDICTED: guanine nucleotide-binding pr	0.774	0.261	0.664	2e-56
340729193	585	PREDICTED: guanine nucleotide-binding pr	0.748	0.249	0.666	2e-55
380017144	583	PREDICTED: guanine nucleotide-binding pr	0.774	0.259	0.638	1e-54
307168068	570	Guanine nucleotide-binding protein-like	0.774	0.264	0.664	2e-54
110757680	583	PREDICTED: nucleostemin 4 [Apis mellifer	0.774	0.259	0.638	3e-54
350416844	589	PREDICTED: guanine nucleotide-binding pr	0.738	0.244	0.662	9e-54
345488722	578	PREDICTED: guanine nucleotide-binding pr	0.758	0.256	0.651	2e-53
357610504	471	putative mmr1/hsr1 GTP binding protein [	0.682	0.282	0.691	6e-53

>gi|189235276|ref|XP_973489.2| PREDICTED: similar to mmr1/hsr1 GTP binding protein [Tribolium castaneum]

 Score =  238 bits (607), Expect = 1e-60,   Method: Compositional matrix adjust.
 Identities = 104/139 (74%), Positives = 125/139 (89%)

Query: 42   QVVSVSRTPGHTKHFQTIFLTDNIRLCDCPGLVFPSKVPKPLQVLMGSFPIAQLREPYST 101
            +VVSVSRTPGHTKHFQTIFLT N+RLCDCPGLVFPSK PK +QVLMGSFPIAQLREP++T
Sbjct: 1014 KVVSVSRTPGHTKHFQTIFLTPNVRLCDCPGLVFPSKTPKVIQVLMGSFPIAQLREPFTT 1073

Query: 102  VQYLAERMDLIKLLHIKHPDDDEYWCAMDICDGWAQKRSYMTAKTGRYDSYRAANELLRM 161
            ++YLAERMDL  +L I+HP++D+ WCAMDICDGWA+KR ++TAK  R DSYRAAN+LLRM
Sbjct: 1074 IKYLAERMDLPNMLRIEHPENDDTWCAMDICDGWAKKRGFLTAKAARLDSYRAANDLLRM 1133

Query: 162  ATEGRICLCLMPPQYLSKQ 180
            A +G+ICLCL PP+Y +K+
Sbjct: 1134 ALDGKICLCLRPPKYSNKK 1152

Source: Tribolium castaneum

Species: Tribolium castaneum

Genus: Tribolium

Family: Tenebrionidae

Order: Coleoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|270004156|gb|EFA00604.1| hypothetical protein TcasGA2_TC003476 [Tribolium castaneum]

 Score =  237 bits (604), Expect = 2e-60,   Method: Compositional matrix adjust.
 Identities = 104/139 (74%), Positives = 125/139 (89%)

Query: 42  QVVSVSRTPGHTKHFQTIFLTDNIRLCDCPGLVFPSKVPKPLQVLMGSFPIAQLREPYST 101
           +VVSVSRTPGHTKHFQTIFLT N+RLCDCPGLVFPSK PK +QVLMGSFPIAQLREP++T
Sbjct: 364 KVVSVSRTPGHTKHFQTIFLTPNVRLCDCPGLVFPSKTPKVIQVLMGSFPIAQLREPFTT 423

Query: 102 VQYLAERMDLIKLLHIKHPDDDEYWCAMDICDGWAQKRSYMTAKTGRYDSYRAANELLRM 161
           ++YLAERMDL  +L I+HP++D+ WCAMDICDGWA+KR ++TAK  R DSYRAAN+LLRM
Sbjct: 424 IKYLAERMDLPNMLRIEHPENDDTWCAMDICDGWAKKRGFLTAKAARLDSYRAANDLLRM 483

Query: 162 ATEGRICLCLMPPQYLSKQ 180
           A +G+ICLCL PP+Y +K+
Sbjct: 484 ALDGKICLCLRPPKYSNKK 502

Source: Tribolium castaneum

Species: Tribolium castaneum

Genus: Tribolium

Family: Tenebrionidae

Order: Coleoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|383855489|ref|XP_003703243.1| PREDICTED: guanine nucleotide-binding protein-like 1-like [Megachile rotundata]

 Score =  223 bits (569), Expect = 2e-56,   Method: Compositional matrix adjust.
 Identities = 101/152 (66%), Positives = 126/152 (82%), Gaps = 1/152 (0%)

Query: 42  QVVSVSRTPGHTKHFQTIFLTDNIRLCDCPGLVFPSKVPKPLQVLMGSFPIAQLREPYST 101
           +VVSVSRTPGHTKHFQTI+LT  + LCDCPGLVFPS VPK LQ+LMGSFPIAQ+REPY+T
Sbjct: 357 KVVSVSRTPGHTKHFQTIYLTKTVCLCDCPGLVFPSTVPKQLQILMGSFPIAQVREPYTT 416

Query: 102 VQYLAERMDLIKLLHIKHPDDDEYWCAMDICDGWAQKRSYMTAKTGRYDSYRAANELLRM 161
           +++LAER+DL KLL I HPD+D+ W AMDICDGWA KR+++TA+TGR+DSYRAAN LLRM
Sbjct: 417 IKFLAERIDLPKLLKIPHPDNDDTWSAMDICDGWALKRNFVTARTGRFDSYRAANSLLRM 476

Query: 162 ATEGRICLCLMPPQY-LSKQGVSKHSRPAVRR 192
           A EG+IC+ + PP + ++K+    H    + R
Sbjct: 477 ALEGKICIYVYPPDWVVNKENWENHPEVEIVR 508

Source: Megachile rotundata

Species: Megachile rotundata

Genus: Megachile

Family: Megachilidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|340729193|ref|XP_003402891.1| PREDICTED: guanine nucleotide-binding protein-like 1-like [Bombus terrestris]

 Score =  220 bits (560), Expect = 2e-55,   Method: Compositional matrix adjust.
 Identities = 98/147 (66%), Positives = 122/147 (82%), Gaps = 1/147 (0%)

Query: 42  QVVSVSRTPGHTKHFQTIFLTDNIRLCDCPGLVFPSKVPKPLQVLMGSFPIAQLREPYST 101
           +VVSVSRTPGHTKHFQTIFLT  + LCDCPGLVFPS VPK LQ+LMGSFPIAQ+ EPY+T
Sbjct: 357 KVVSVSRTPGHTKHFQTIFLTKTVCLCDCPGLVFPSTVPKQLQILMGSFPIAQVSEPYTT 416

Query: 102 VQYLAERMDLIKLLHIKHPDDDEYWCAMDICDGWAQKRSYMTAKTGRYDSYRAANELLRM 161
           +++LAER+DL K+L ++H D+D+ W AMDICD WA KR++ TA+T RYDSYRAAN LLRM
Sbjct: 417 IKFLAERIDLPKILKLQHQDNDDTWSAMDICDSWASKRNFFTARTARYDSYRAANSLLRM 476

Query: 162 ATEGRICLCLMPPQY-LSKQGVSKHSR 187
           A EG+IC+ + PP + L+K+ +  HS 
Sbjct: 477 ALEGKICIYVYPPDWSLNKEKLENHSE 503

Source: Bombus terrestris

Species: Bombus terrestris

Genus: Bombus

Family: Apidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|380017144|ref|XP_003692522.1| PREDICTED: guanine nucleotide-binding protein-like 1-like [Apis florea]

 Score =  218 bits (555), Expect = 1e-54,   Method: Compositional matrix adjust.
 Identities = 97/152 (63%), Positives = 125/152 (82%), Gaps = 1/152 (0%)

Query: 42  QVVSVSRTPGHTKHFQTIFLTDNIRLCDCPGLVFPSKVPKPLQVLMGSFPIAQLREPYST 101
           +VVSVSRTPGHTKHFQTIFLT  + LCDCPGLVFPS VPK LQ+LMGSFPIAQ+REPY+T
Sbjct: 358 KVVSVSRTPGHTKHFQTIFLTKTVCLCDCPGLVFPSTVPKQLQILMGSFPIAQVREPYTT 417

Query: 102 VQYLAERMDLIKLLHIKHPDDDEYWCAMDICDGWAQKRSYMTAKTGRYDSYRAANELLRM 161
           +++LAER+DL K+L ++H D+D+ W A+DICD WA KR+++TA+T R+D+YRAAN LLRM
Sbjct: 418 IKFLAERIDLPKILKLQHLDNDDTWSAIDICDSWASKRNFITARTARFDTYRAANSLLRM 477

Query: 162 ATEGRICLCLMPPQY-LSKQGVSKHSRPAVRR 192
           A EG+IC+ + PP + L+K+    HS   + R
Sbjct: 478 ALEGKICIYVYPPDWVLNKEKWENHSEVELVR 509

Source: Apis florea

Species: Apis florea

Genus: Apis

Family: Apidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|307168068|gb|EFN61374.1| Guanine nucleotide-binding protein-like 1 [Camponotus floridanus]

 Score =  217 bits (553), Expect = 2e-54,   Method: Compositional matrix adjust.
 Identities = 101/152 (66%), Positives = 121/152 (79%), Gaps = 1/152 (0%)

Query: 42  QVVSVSRTPGHTKHFQTIFLTDNIRLCDCPGLVFPSKVPKPLQVLMGSFPIAQLREPYST 101
           +VVSVSRTPGHTKHFQTI+LT  + LCDCPGLVFPS VPK LQ+LMGSFPIAQ+REPY+T
Sbjct: 353 KVVSVSRTPGHTKHFQTIYLTKTVCLCDCPGLVFPSTVPKQLQILMGSFPIAQVREPYTT 412

Query: 102 VQYLAERMDLIKLLHIKHPDDDEYWCAMDICDGWAQKRSYMTAKTGRYDSYRAANELLRM 161
           V++LAERMDL KLL I HP++D+ W AMDICDGWA KR + TA+  R D+YRAAN LLRM
Sbjct: 413 VKFLAERMDLPKLLRIPHPENDDTWSAMDICDGWAIKRDFRTARAARLDTYRAANSLLRM 472

Query: 162 ATEGRICLCLMPPQY-LSKQGVSKHSRPAVRR 192
           A EG+ICL + PP + + K+    HS   + R
Sbjct: 473 ALEGKICLYIYPPNWTVDKKKWESHSDVEIVR 504

Source: Camponotus floridanus

Species: Camponotus floridanus

Genus: Camponotus

Family: Formicidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|110757680|ref|XP_396436.3| PREDICTED: nucleostemin 4 [Apis mellifera]

 Score =  216 bits (551), Expect = 3e-54,   Method: Compositional matrix adjust.
 Identities = 97/152 (63%), Positives = 124/152 (81%), Gaps = 1/152 (0%)

Query: 42  QVVSVSRTPGHTKHFQTIFLTDNIRLCDCPGLVFPSKVPKPLQVLMGSFPIAQLREPYST 101
           +VVSVSRTPGHTKHFQTIFLT  + LCDCPGLVFPS VPK LQ+LMGSFPIAQ+REPY+T
Sbjct: 358 KVVSVSRTPGHTKHFQTIFLTKTVCLCDCPGLVFPSTVPKQLQILMGSFPIAQVREPYTT 417

Query: 102 VQYLAERMDLIKLLHIKHPDDDEYWCAMDICDGWAQKRSYMTAKTGRYDSYRAANELLRM 161
           +++LAER+DL K+L ++H D+D+ W A+DICD WA KR+++TA+T R D+YRAAN LLRM
Sbjct: 418 IKFLAERIDLPKILKLQHLDNDDTWSAIDICDSWASKRNFITARTARLDTYRAANSLLRM 477

Query: 162 ATEGRICLCLMPPQY-LSKQGVSKHSRPAVRR 192
           A EG+IC+ + PP + L+K+    HS   + R
Sbjct: 478 ALEGKICIYVYPPDWVLNKEKWENHSEVELVR 509

Source: Apis mellifera

Species: Apis mellifera

Genus: Apis

Family: Apidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|350416844|ref|XP_003491131.1| PREDICTED: guanine nucleotide-binding protein-like 1-like [Bombus impatiens]

 Score =  215 bits (547), Expect = 9e-54,   Method: Composition-based stats.
 Identities = 96/145 (66%), Positives = 119/145 (82%), Gaps = 1/145 (0%)

Query: 42  QVVSVSRTPGHTKHFQTIFLTDNIRLCDCPGLVFPSKVPKPLQVLMGSFPIAQLREPYST 101
           +VVSVSRTPGHTKHFQTIFLT  + LCDCPGLVFPS VPK LQ+LMGSFPIAQ+ EPY+T
Sbjct: 358 KVVSVSRTPGHTKHFQTIFLTKTVCLCDCPGLVFPSTVPKQLQILMGSFPIAQVSEPYTT 417

Query: 102 VQYLAERMDLIKLLHIKHPDDDEYWCAMDICDGWAQKRSYMTAKTGRYDSYRAANELLRM 161
           +++LAER+DL K+L ++H D+D+ W AMDICD WA KR++ TA+T RYDSYRAAN LLRM
Sbjct: 418 IKFLAERIDLPKILKLQHQDNDDTWSAMDICDSWAAKRNFFTARTARYDSYRAANSLLRM 477

Query: 162 ATEGRICLCLMPPQY-LSKQGVSKH 185
           A EG+IC+ + P  + L+K  +  H
Sbjct: 478 ALEGKICIYVYPQDWSLNKGKLENH 502

Source: Bombus impatiens

Species: Bombus impatiens

Genus: Bombus

Family: Apidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|345488722|ref|XP_001605060.2| PREDICTED: guanine nucleotide-binding protein-like 1-like [Nasonia vitripennis]

 Score =  213 bits (543), Expect = 2e-53,   Method: Compositional matrix adjust.
 Identities = 97/149 (65%), Positives = 119/149 (79%), Gaps = 1/149 (0%)

Query: 42  QVVSVSRTPGHTKHFQTIFLTDNIRLCDCPGLVFPSKVPKPLQVLMGSFPIAQLREPYST 101
           +VVSVSRTPGHTKHFQTI+LT N+ LCDCPGLVFPS VPK  Q+LMGSFPIAQ+REPY+T
Sbjct: 355 KVVSVSRTPGHTKHFQTIYLTKNVCLCDCPGLVFPSTVPKQFQILMGSFPIAQVREPYTT 414

Query: 102 VQYLAERMDLIKLLHIKHPDDDEYWCAMDICDGWAQKRSYMTAKTGRYDSYRAANELLRM 161
           ++++AER+DL KLL ++H D+D+ W AMDICD WA KR+Y TAK  R D+YRAAN LLRM
Sbjct: 415 IKFMAERVDLPKLLKLQHQDNDDTWSAMDICDSWAAKRNYHTAKAARLDTYRAANSLLRM 474

Query: 162 ATEGRICLCLMPPQYLSKQGVSKHSRPAV 190
           A EG+IC+   PP + SK+     S P +
Sbjct: 475 ALEGKICVYAYPPNW-SKEKERWESHPDI 502

Source: Nasonia vitripennis

Species: Nasonia vitripennis

Genus: Nasonia

Family: Pteromalidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|357610504|gb|EHJ67009.1| putative mmr1/hsr1 GTP binding protein [Danaus plexippus]

 Score =  212 bits (540), Expect = 6e-53,   Method: Compositional matrix adjust.
 Identities = 92/133 (69%), Positives = 114/133 (85%)

Query: 42  QVVSVSRTPGHTKHFQTIFLTDNIRLCDCPGLVFPSKVPKPLQVLMGSFPIAQLREPYST 101
           +VVSVSRTPGHTKHFQTIFLT  +RLCDCPGLVFPS VP+P+QVLMGS+PIAQLREPY+T
Sbjct: 273 KVVSVSRTPGHTKHFQTIFLTSQVRLCDCPGLVFPSLVPRPIQVLMGSYPIAQLREPYTT 332

Query: 102 VQYLAERMDLIKLLHIKHPDDDEYWCAMDICDGWAQKRSYMTAKTGRYDSYRAANELLRM 161
           ++++ ER+DL  LL I+HPD+D+ W   D+CDGWA++R Y+TAK  R D+YRAAN LLRM
Sbjct: 333 IRFIGERIDLPTLLRIQHPDNDDTWSPRDVCDGWAKQRGYLTAKAARLDTYRAANSLLRM 392

Query: 162 ATEGRICLCLMPP 174
           A +G++CL L PP
Sbjct: 393 ALDGKLCLWLRPP 405

Source: Danaus plexippus

Species: Danaus plexippus

Genus: Danaus

Family: Nymphalidae

Order: Lepidoptera

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	195
MGI|MGI:95764	607	Gnl1 "guanine nucleotide bindi	0.758	0.243	0.564	1.2e-44
UNIPROTKB|A8MPZ0	262	GNL1 "cDNA FLJ53828, highly si	0.717	0.534	0.586	2.4e-44
UNIPROTKB|B0V0L0	407	GNL1 "Guanine nucleotide-bindi	0.717	0.343	0.586	2.4e-44
UNIPROTKB|B4DWZ0	404	GNL1 "cDNA FLJ52448, moderatel	0.717	0.346	0.586	2.4e-44
UNIPROTKB|E7ETJ1	429	GNL1 "Guanine nucleotide-bindi	0.717	0.326	0.586	2.4e-44
UNIPROTKB|P36915	607	GNL1 "Guanine nucleotide-bindi	0.717	0.230	0.586	2.4e-44
UNIPROTKB|Q5TM59	607	GNL1 "Guanine nucleotide-bindi	0.717	0.230	0.586	2.4e-44
UNIPROTKB|Q7YR35	607	GNL1 "Guanine nucleotide-bindi	0.717	0.230	0.586	2.4e-44
UNIPROTKB|I7GF95	607	GNL1 "Uncharacterized protein"	0.717	0.230	0.586	3.1e-44
RGD|1303051	607	Gnl1 "guanine nucleotide bindi	0.758	0.243	0.558	3.1e-44

MGI|MGI:95764 Gnl1 "guanine nucleotide binding protein-like 1" [Mus musculus (taxid:10090)]

 Score = 470 (170.5 bits), Expect = 1.2e-44, P = 1.2e-44
 Identities = 87/154 (56%), Positives = 115/154 (74%)

Query:    42 QVVSVSRTPGHTKHFQTIFLTDNIRLCDCPGLVFPSKVPKPLQVLMGSFPIAQLREPYST 101
             +VVSVSRTPGHT++FQT FLT +++LCDCPGL+FPS +P+ LQVL G +PIAQ++EPY++
Sbjct:   384 KVVSVSRTPGHTRYFQTYFLTPSVKLCDCPGLIFPSLLPRQLQVLAGIYPIAQIQEPYTS 443

Query:   102 VQYLAERMDLIKLLHIKHPD-DD---EY-WCAMDICDGWAQKRSYMTAKTGRYDSYRAAN 156
             V YLA R+ +  LLH++HP+ +D   E+ WCA DIC+ WA+KR Y TAK  R D YRAAN
Sbjct:   444 VGYLASRIPVQALLHLRHPEAEDPSAEHPWCAWDICEAWAEKRGYKTAKAARNDVYRAAN 503

Query:   157 ELLRMATEGRICLCLMPPQYLSKQGV-SKHSRPA 189
              LLR+A +GR+ LC  PP Y  ++G    H   A
Sbjct:   504 SLLRLAVDGRLSLCFYPPGYSEQRGTWESHPETA 537

GO:0000166 "nucleotide binding" evidence=IEA

GO:0003924 "GTPase activity" evidence=IBA

GO:0005525 "GTP binding" evidence=IEA

GO:0005829 "cytosol" evidence=IBA

GO:0006184 "GTP catabolic process" evidence=IBA

GO:0006974 "response to DNA damage stimulus" evidence=ISO

GO:0042254 "ribosome biogenesis" evidence=IBA

UNIPROTKB|A8MPZ0 GNL1 "cDNA FLJ53828, highly similar to Guanine nucleotide-binding protein-like 1" [Homo sapiens (taxid:9606)]

 Score = 467 (169.5 bits), Expect = 2.4e-44, P = 2.4e-44
 Identities = 85/145 (58%), Positives = 112/145 (77%)

Query:    42 QVVSVSRTPGHTKHFQTIFLTDNIRLCDCPGLVFPSKVPKPLQVLMGSFPIAQLREPYST 101
             +VVSVSRTPGHT++FQT FLT +++LCDCPGL+FPS +P+ LQVL G +PIAQ++EPY+ 
Sbjct:    39 KVVSVSRTPGHTRYFQTYFLTPSVKLCDCPGLIFPSLLPRQLQVLAGIYPIAQIQEPYTA 98

Query:   102 VQYLAERMDLIKLLHIKHPD-DD---EY-WCAMDICDGWAQKRSYMTAKTGRYDSYRAAN 156
             V YLA R+ +  LLH++HP+ +D   E+ WCA DIC+ WA+KR Y TAK  R D YRAAN
Sbjct:    99 VGYLASRIPVQALLHLRHPEAEDPSAEHPWCAWDICEAWAEKRGYKTAKAARNDVYRAAN 158

Query:   157 ELLRMATEGRICLCLMPPQYLSKQG 181
              LLR+A +GR+ LC  PP Y  ++G
Sbjct:   159 SLLRLAVDGRLSLCFHPPGYSEQKG 183

GO:0005525 "GTP binding" evidence=IEA

UNIPROTKB|B0V0L0 GNL1 "Guanine nucleotide-binding protein-like 1" [Homo sapiens (taxid:9606)]

 Score = 467 (169.5 bits), Expect = 2.4e-44, P = 2.4e-44
 Identities = 85/145 (58%), Positives = 112/145 (77%)

Query:    42 QVVSVSRTPGHTKHFQTIFLTDNIRLCDCPGLVFPSKVPKPLQVLMGSFPIAQLREPYST 101
             +VVSVSRTPGHT++FQT FLT +++LCDCPGL+FPS +P+ LQVL G +PIAQ++EPY+ 
Sbjct:   184 KVVSVSRTPGHTRYFQTYFLTPSVKLCDCPGLIFPSLLPRQLQVLAGIYPIAQIQEPYTA 243

Query:   102 VQYLAERMDLIKLLHIKHPD-DD---EY-WCAMDICDGWAQKRSYMTAKTGRYDSYRAAN 156
             V YLA R+ +  LLH++HP+ +D   E+ WCA DIC+ WA+KR Y TAK  R D YRAAN
Sbjct:   244 VGYLASRIPVQALLHLRHPEAEDPSAEHPWCAWDICEAWAEKRGYKTAKAARNDVYRAAN 303

Query:   157 ELLRMATEGRICLCLMPPQYLSKQG 181
              LLR+A +GR+ LC  PP Y  ++G
Sbjct:   304 SLLRLAVDGRLSLCFHPPGYSEQKG 328

GO:0005525 "GTP binding" evidence=IEA

UNIPROTKB|B4DWZ0 GNL1 "cDNA FLJ52448, moderately similar to Guanine nucleotide-binding protein-like 1" [Homo sapiens (taxid:9606)]

 Score = 467 (169.5 bits), Expect = 2.4e-44, P = 2.4e-44
 Identities = 85/145 (58%), Positives = 112/145 (77%)

Query:    42 QVVSVSRTPGHTKHFQTIFLTDNIRLCDCPGLVFPSKVPKPLQVLMGSFPIAQLREPYST 101
             +VVSVSRTPGHT++FQT FLT +++LCDCPGL+FPS +P+ LQVL G +PIAQ++EPY+ 
Sbjct:   181 KVVSVSRTPGHTRYFQTYFLTPSVKLCDCPGLIFPSLLPRQLQVLAGIYPIAQIQEPYTA 240

Query:   102 VQYLAERMDLIKLLHIKHPD-DD---EY-WCAMDICDGWAQKRSYMTAKTGRYDSYRAAN 156
             V YLA R+ +  LLH++HP+ +D   E+ WCA DIC+ WA+KR Y TAK  R D YRAAN
Sbjct:   241 VGYLASRIPVQALLHLRHPEAEDPSAEHPWCAWDICEAWAEKRGYKTAKAARNDVYRAAN 300

Query:   157 ELLRMATEGRICLCLMPPQYLSKQG 181
              LLR+A +GR+ LC  PP Y  ++G
Sbjct:   301 SLLRLAVDGRLSLCFHPPGYSEQKG 325

GO:0005525 "GTP binding" evidence=IEA

UNIPROTKB|E7ETJ1 GNL1 "Guanine nucleotide-binding protein-like 1" [Homo sapiens (taxid:9606)]

 Score = 467 (169.5 bits), Expect = 2.4e-44, P = 2.4e-44
 Identities = 85/145 (58%), Positives = 112/145 (77%)

Query:    42 QVVSVSRTPGHTKHFQTIFLTDNIRLCDCPGLVFPSKVPKPLQVLMGSFPIAQLREPYST 101
             +VVSVSRTPGHT++FQT FLT +++LCDCPGL+FPS +P+ LQVL G +PIAQ++EPY+ 
Sbjct:   206 KVVSVSRTPGHTRYFQTYFLTPSVKLCDCPGLIFPSLLPRQLQVLAGIYPIAQIQEPYTA 265

Query:   102 VQYLAERMDLIKLLHIKHPD-DD---EY-WCAMDICDGWAQKRSYMTAKTGRYDSYRAAN 156
             V YLA R+ +  LLH++HP+ +D   E+ WCA DIC+ WA+KR Y TAK  R D YRAAN
Sbjct:   266 VGYLASRIPVQALLHLRHPEAEDPSAEHPWCAWDICEAWAEKRGYKTAKAARNDVYRAAN 325

Query:   157 ELLRMATEGRICLCLMPPQYLSKQG 181
              LLR+A +GR+ LC  PP Y  ++G
Sbjct:   326 SLLRLAVDGRLSLCFHPPGYSEQKG 350

GO:0005525 "GTP binding" evidence=IEA

UNIPROTKB|P36915 GNL1 "Guanine nucleotide-binding protein-like 1" [Homo sapiens (taxid:9606)]

 Score = 467 (169.5 bits), Expect = 2.4e-44, P = 2.4e-44
 Identities = 85/145 (58%), Positives = 112/145 (77%)

Query:    42 QVVSVSRTPGHTKHFQTIFLTDNIRLCDCPGLVFPSKVPKPLQVLMGSFPIAQLREPYST 101
             +VVSVSRTPGHT++FQT FLT +++LCDCPGL+FPS +P+ LQVL G +PIAQ++EPY+ 
Sbjct:   384 KVVSVSRTPGHTRYFQTYFLTPSVKLCDCPGLIFPSLLPRQLQVLAGIYPIAQIQEPYTA 443

Query:   102 VQYLAERMDLIKLLHIKHPD-DD---EY-WCAMDICDGWAQKRSYMTAKTGRYDSYRAAN 156
             V YLA R+ +  LLH++HP+ +D   E+ WCA DIC+ WA+KR Y TAK  R D YRAAN
Sbjct:   444 VGYLASRIPVQALLHLRHPEAEDPSAEHPWCAWDICEAWAEKRGYKTAKAARNDVYRAAN 503

Query:   157 ELLRMATEGRICLCLMPPQYLSKQG 181
              LLR+A +GR+ LC  PP Y  ++G
Sbjct:   504 SLLRLAVDGRLSLCFHPPGYSEQKG 528

GO:0003924 "GTPase activity" evidence=IBA

GO:0005829 "cytosol" evidence=IBA

GO:0042254 "ribosome biogenesis" evidence=IBA

GO:0006974 "response to DNA damage stimulus" evidence=IDA

GO:0005525 "GTP binding" evidence=NAS

GO:0007165 "signal transduction" evidence=NAS

GO:0005198 "structural molecule activity" evidence=NAS

GO:0005615 "extracellular space" evidence=NAS

GO:0002456 "T cell mediated immunity" evidence=NAS

GO:0006184 "GTP catabolic process" evidence=IBA

UNIPROTKB|Q5TM59 GNL1 "Guanine nucleotide-binding protein-like 1" [Macaca mulatta (taxid:9544)]

 Score = 467 (169.5 bits), Expect = 2.4e-44, P = 2.4e-44
 Identities = 85/145 (58%), Positives = 112/145 (77%)

Query:    42 QVVSVSRTPGHTKHFQTIFLTDNIRLCDCPGLVFPSKVPKPLQVLMGSFPIAQLREPYST 101
             +VVSVSRTPGHT++FQT FLT +++LCDCPGL+FPS +P+ LQVL G +PIAQ++EPY+ 
Sbjct:   384 KVVSVSRTPGHTRYFQTYFLTPSVKLCDCPGLIFPSLLPRQLQVLAGIYPIAQIQEPYTA 443

Query:   102 VQYLAERMDLIKLLHIKHPD-DD---EY-WCAMDICDGWAQKRSYMTAKTGRYDSYRAAN 156
             V YLA R+ +  LLH++HP+ +D   E+ WCA DIC+ WA+KR Y TAK  R D YRAAN
Sbjct:   444 VGYLASRIPVQALLHLRHPEAEDPSAEHPWCAWDICEAWAEKRGYKTAKAARNDVYRAAN 503

Query:   157 ELLRMATEGRICLCLMPPQYLSKQG 181
              LLR+A +GR+ LC  PP Y  ++G
Sbjct:   504 SLLRLAVDGRLSLCFHPPGYSEQKG 528

GO:0003924 "GTPase activity" evidence=IBA

GO:0005829 "cytosol" evidence=IBA

GO:0006184 "GTP catabolic process" evidence=IBA

GO:0042254 "ribosome biogenesis" evidence=IBA

UNIPROTKB|Q7YR35 GNL1 "Guanine nucleotide-binding protein-like 1" [Pan troglodytes (taxid:9598)]

 Score = 467 (169.5 bits), Expect = 2.4e-44, P = 2.4e-44
 Identities = 85/145 (58%), Positives = 112/145 (77%)

Query:    42 QVVSVSRTPGHTKHFQTIFLTDNIRLCDCPGLVFPSKVPKPLQVLMGSFPIAQLREPYST 101
             +VVSVSRTPGHT++FQT FLT +++LCDCPGL+FPS +P+ LQVL G +PIAQ++EPY+ 
Sbjct:   384 KVVSVSRTPGHTRYFQTYFLTPSVKLCDCPGLIFPSLLPRQLQVLAGIYPIAQIQEPYTA 443

Query:   102 VQYLAERMDLIKLLHIKHPD-DD---EY-WCAMDICDGWAQKRSYMTAKTGRYDSYRAAN 156
             V YLA R+ +  LLH++HP+ +D   E+ WCA DIC+ WA+KR Y TAK  R D YRAAN
Sbjct:   444 VGYLASRIPVQALLHLRHPEAEDPSAEHPWCAWDICEAWAEKRGYKTAKAARNDVYRAAN 503

Query:   157 ELLRMATEGRICLCLMPPQYLSKQG 181
              LLR+A +GR+ LC  PP Y  ++G
Sbjct:   504 SLLRLAVDGRLSLCFHPPGYSEQKG 528

GO:0003924 "GTPase activity" evidence=IBA

GO:0005829 "cytosol" evidence=IBA

GO:0006184 "GTP catabolic process" evidence=IBA

GO:0042254 "ribosome biogenesis" evidence=IBA

UNIPROTKB|I7GF95 GNL1 "Uncharacterized protein" [Sus scrofa (taxid:9823)]

 Score = 466 (169.1 bits), Expect = 3.1e-44, P = 3.1e-44
 Identities = 85/145 (58%), Positives = 112/145 (77%)

Query:    42 QVVSVSRTPGHTKHFQTIFLTDNIRLCDCPGLVFPSKVPKPLQVLMGSFPIAQLREPYST 101
             +VVSVSRTPGHT++FQT FLT +++LCDCPGL+FPS +P+ LQVL G +PIAQ++EPY+ 
Sbjct:   384 KVVSVSRTPGHTRYFQTYFLTPSVKLCDCPGLIFPSLLPRQLQVLAGIYPIAQIQEPYTA 443

Query:   102 VQYLAERMDLIKLLHIKHPD-DD---EY-WCAMDICDGWAQKRSYMTAKTGRYDSYRAAN 156
             V YLA R+ +  LLH++HP+ +D   E+ WCA DIC+ WA+KR Y TAK  R D YRAAN
Sbjct:   444 VGYLASRIPVQALLHLRHPEAEDPSAEHPWCAWDICEAWAEKRGYKTAKAARNDVYRAAN 503

Query:   157 ELLRMATEGRICLCLMPPQYLSKQG 181
              LLR+A +GR+ LC  PP Y  ++G
Sbjct:   504 SLLRLALDGRLSLCFHPPGYSEQKG 528

GO:0005525 "GTP binding" evidence=IEA

RGD|1303051 Gnl1 "guanine nucleotide binding protein-like 1" [Rattus norvegicus (taxid:10116)]

 Score = 466 (169.1 bits), Expect = 3.1e-44, P = 3.1e-44
 Identities = 86/154 (55%), Positives = 116/154 (75%)

Query:    42 QVVSVSRTPGHTKHFQTIFLTDNIRLCDCPGLVFPSKVPKPLQVLMGSFPIAQLREPYST 101
             +VVSVSRTPGHT++FQT FLT +++LCDCPGL+FPS +P+ LQVL G +PIAQ++EPY++
Sbjct:   384 KVVSVSRTPGHTRYFQTYFLTPSVKLCDCPGLIFPSLLPRQLQVLAGIYPIAQIQEPYTS 443

Query:   102 VQYLAERMDLIKLLHIKHPD-DD---EY-WCAMDICDGWAQKRSYMTAKTGRYDSYRAAN 156
             V YLA R+ +  LLH++HP+ +D   E+ WCA D+C+ WA+KR Y TAK  R D YRAAN
Sbjct:   444 VGYLACRIPVQALLHLRHPEAEDPSAEHPWCAWDVCEAWAEKRGYKTAKAARNDVYRAAN 503

Query:   157 ELLRMATEGRICLCLMPPQYLSKQGV-SKHSRPA 189
              LLR+A +GR+ LC  PP Y  ++G    H+  A
Sbjct:   504 SLLRLAVDGRLSLCFHPPGYSEQRGTWESHAETA 537

GO:0003674 "molecular_function" evidence=ND

GO:0003924 "GTPase activity" evidence=IBA

GO:0005525 "GTP binding" evidence=IEA

GO:0005575 "cellular_component" evidence=ND

GO:0005829 "cytosol" evidence=IBA

GO:0006184 "GTP catabolic process" evidence=IBA

GO:0006974 "response to DNA damage stimulus" evidence=IEA;ISO

GO:0008150 "biological_process" evidence=ND

GO:0042254 "ribosome biogenesis" evidence=IBA

---

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)
P36915	GNL1_HUMAN	No assigned EC number	0.5684	0.7230	0.2322	yes	N/A
Q5TM59	GNL1_MACMU	No assigned EC number	0.5684	0.7230	0.2322	yes	N/A
Q5RA07	GNL1_PONAB	No assigned EC number	0.5684	0.7230	0.2322	yes	N/A
Q6MG06	GNL1_RAT	No assigned EC number	0.5616	0.7230	0.2322	yes	N/A
P36916	GNL1_MOUSE	No assigned EC number	0.5684	0.7230	0.2322	yes	N/A
Q7YR35	GNL1_PANTR	No assigned EC number	0.5684	0.7230	0.2322	yes	N/A

EC Number Prediction by EFICAz Software

No EC number assignment, probably not an enzyme!

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database

ID	Length	Definition	E-value
Query	195
cd01857	140	cd01857, HSR1_MMR1, A circularly permuted subfamil	1e-21
cd01857	140	cd01857, HSR1_MMR1, A circularly permuted subfamil	3e-21
COG1161	322	COG1161, COG1161, Predicted GTPases [General funct	5e-14
cd04178	171	cd04178, Nucleostemin_like, A circularly permuted	3e-04
cd04178	171	cd04178, Nucleostemin_like, A circularly permuted	3e-04
cd01876	170	cd01876, YihA_EngB, YihA (EngB) GTPase family	3e-04
cd01849	146	cd01849, YlqF_related_GTPase, Circularly permuted	0.003
cd01849	146	cd01849, YlqF_related_GTPase, Circularly permuted	0.003
PRK09563	287	PRK09563, rbgA, GTPase YlqF; Reviewed	0.003

>gnl|CDD|206750 cd01857, HSR1_MMR1, A circularly permuted subfamily of the Ras GTPases

 Score = 85.4 bits (212), Expect = 1e-21
 Identities = 27/35 (77%), Positives = 28/35 (80%)

Query: 42  QVVSVSRTPGHTKHFQTIFLTDNIRLCDCPGLVFP 76
           + VSVS TPG TKHFQTIFL   I LCDCPGLVFP
Sbjct: 106 KKVSVSSTPGKTKHFQTIFLEPGITLCDCPGLVFP 140

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. Length = 140

>gnl|CDD|206750 cd01857, HSR1_MMR1, A circularly permuted subfamily of the Ras GTPases

 Score = 84.6 bits (210), Expect = 3e-21
 Identities = 27/34 (79%), Positives = 27/34 (79%)

Query: 1   VVSVSRTPGHTKHFQTIFLTDNIRLCDCPGLVFP 34
            VSVS TPG TKHFQTIFL   I LCDCPGLVFP
Sbjct: 107 KVSVSSTPGKTKHFQTIFLEPGITLCDCPGLVFP 140

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. Length = 140

>gnl|CDD|224083 COG1161, COG1161, Predicted GTPases [General function prediction only]

 Score = 68.6 bits (168), Expect = 5e-14
 Identities = 40/164 (24%), Positives = 65/164 (39%), Gaps = 13/164 (7%)

Query: 43  VVSVSRTPGHTKHFQTIFLTDNIRLCDCPGLVFPSKVPKPLQVLMGSFPIAQLREPYSTV 102
           V   S  PG TK  Q I L D I L D PG++ P      L VL+   P  ++++P    
Sbjct: 157 VAKTSNRPGTTKGIQWIKLDDGIYLLDTPGIIPPKFDDDEL-VLLKLAPKGEIKDPVLPA 215

Query: 103 QYLAERMDLIKLLHIKH-----------PDDDEYWCAMDICDGWAQKRSYMTAKTGRYDS 151
             +AER+ L  LL  +H            +        +  +  A+KR ++  K G  D 
Sbjct: 216 DEVAERL-LGGLLIDEHYGEKLNITRYESNPIHRTDPEEFLELIAKKRGWLLLKGGEPDL 274

Query: 152 YRAANELLRMATEGRICLCLMPPQYLSKQGVSKHSRPAVRRSTK 195
            RAA  +L+    G++    +     + + V+           +
Sbjct: 275 ERAAETILKDIRNGKLGWFSLEEPEDNIEVVTIRDPEGSVVKAR 318

Length = 322

>gnl|CDD|206753 cd04178, Nucleostemin_like, A circularly permuted subfamily of the Ras GTPases

 Score = 39.5 bits (93), Expect = 3e-04
 Identities = 12/30 (40%), Positives = 17/30 (56%)

Query: 1   VVSVSRTPGHTKHFQTIFLTDNIRLCDCPG 30
             +V  TPG TK  Q + L  +++L D PG
Sbjct: 141 ACNVGATPGVTKSMQEVHLDKHVKLLDSPG 170

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 protein. Length = 171

>gnl|CDD|206753 cd04178, Nucleostemin_like, A circularly permuted subfamily of the Ras GTPases

 Score = 39.5 bits (93), Expect = 3e-04
 Identities = 12/30 (40%), Positives = 17/30 (56%)

Query: 43  VVSVSRTPGHTKHFQTIFLTDNIRLCDCPG 72
             +V  TPG TK  Q + L  +++L D PG
Sbjct: 141 ACNVGATPGVTKSMQEVHLDKHVKLLDSPG 170

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 protein. Length = 171

>gnl|CDD|206665 cd01876, YihA_EngB, YihA (EngB) GTPase family

 Score = 39.4 bits (93), Expect = 3e-04
 Identities = 22/87 (25%), Positives = 34/87 (39%), Gaps = 17/87 (19%)

Query: 46  VSRTPGHTKHFQTIFLTDNIRLCDCPGLVFPSKVPKPLQVLMGSFPIAQLREPYSTVQYL 105
            S+TPG T+      + D  RL D PG  + +KV K ++   G              +YL
Sbjct: 28  TSKTPGRTQLINFFNVGDKFRLVDLPGYGY-AKVSKEVREKWGKL----------IEEYL 76

Query: 106 AERMDLIKLLH---IKHP---DDDEYW 126
             R +L  ++     +H     D E  
Sbjct: 77  ENRENLKGVVLLIDARHGPTPIDLEML 103

The YihA (EngB) 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. Length = 170

>gnl|CDD|206746 cd01849, YlqF_related_GTPase, Circularly permuted YlqF-related GTPases

 Score = 36.6 bits (85), Expect = 0.003
 Identities = 12/30 (40%), Positives = 15/30 (50%)

Query: 2   VSVSRTPGHTKHFQTIFLTDNIRLCDCPGL 31
           + V   PG TK  Q + L   I L D PG+
Sbjct: 117 LKVGSIPGTTKLQQDVKLDKEIYLYDTPGI 146

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. Length = 146

>gnl|CDD|206746 cd01849, YlqF_related_GTPase, Circularly permuted YlqF-related GTPases

 Score = 36.6 bits (85), Expect = 0.003
 Identities = 12/30 (40%), Positives = 15/30 (50%)

Query: 44  VSVSRTPGHTKHFQTIFLTDNIRLCDCPGL 73
           + V   PG TK  Q + L   I L D PG+
Sbjct: 117 LKVGSIPGTTKLQQDVKLDKEIYLYDTPGI 146

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. Length = 146

>gnl|CDD|236570 PRK09563, rbgA, GTPase YlqF; Reviewed

 Score = 37.1 bits (87), Expect = 0.003
 Identities = 37/148 (25%), Positives = 52/148 (35%), Gaps = 36/148 (24%)

Query: 43  VVSVSRTPGHTKHFQTIFLTDNIRLCDCPGLVFPSKVPK------------------PLQ 84
           +      PG TK  Q I L   + L D PG +   K+                     L+
Sbjct: 146 IAKTGNRPGVTKAQQWIKLGKGLELLDTPG-ILWPKLEDQEVGLKLALTGAIKDEALDLE 204

Query: 85  VLMGSFPIAQLREPYSTVQYLAERMDLIKLLHIKHPDDDEYWCAMDICDGWAQKRSYMTA 144
             +  F +  L + Y     L ER  L +L     P+D      ++     A+KR     
Sbjct: 205 -EVAIFALEYLSKHYPER--LKERYKLDEL-----PEDILEL--LEA---IARKRG-ALR 250

Query: 145 KTGRYDSYRAANELL---RMATEGRICL 169
           K G  D  RA+  LL   R    G+I L
Sbjct: 251 KGGEIDYERASELLLNEFRNGKLGKITL 278

Length = 287

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	195
KOG1424|consensus	562		100.0
KOG2484|consensus	435		100.0
KOG2423|consensus	572		100.0
PRK09563	287	rbgA GTPase YlqF; Reviewed	100.0
TIGR03596	276	GTPase_YlqF ribosome biogenesis GTP-binding protei	100.0
COG1161	322	Predicted GTPases [General function prediction onl	100.0
KOG2485|consensus	335		99.87
cd04178	172	Nucleostemin_like Nucleostemin-like. Nucleostemin	99.63
cd01857	141	HSR1_MMR1 HSR1/MMR1. Human HSR1, is localized to t	99.59
cd01858	157	NGP_1 NGP-1. Autoantigen NGP-1 (Nucleolar G-protei	99.58
cd01849	155	YlqF_related_GTPase YlqF-related GTPases. These pr	99.38
cd01855	190	YqeH YqeH. YqeH is an essential GTP-binding protei	99.32
PRK13796	365	GTPase YqeH; Provisional	99.29
PF02421	156	FeoB_N: Ferrous iron transport protein B; InterPro	99.22
cd01856	171	YlqF YlqF. Proteins of the YlqF family contain all	99.19
TIGR03597	360	GTPase_YqeH ribosome biogenesis GTPase YqeH. This	99.15
cd01859	156	MJ1464 MJ1464. This family represents archaeal GTP	99.15
PF01926	116	MMR_HSR1: 50S ribosome-binding GTPase; InterPro: I	99.13
COG0218	200	Predicted GTPase [General function prediction only	99.13
PRK12289	352	GTPase RsgA; Reviewed	99.11
COG1159	298	Era GTPase [General function prediction only]	99.1
KOG1424|consensus	562		99.07
TIGR00157	245	ribosome small subunit-dependent GTPase A. The Aqu	99.07
PRK12288	347	GTPase RsgA; Reviewed	98.99
COG1160	444	Predicted GTPases [General function prediction onl	98.97
KOG1423|consensus	379		98.97
PRK12298	390	obgE GTPase CgtA; Reviewed	98.95
TIGR00436	270	era GTP-binding protein Era. Era is an essential G	98.86
cd01852	196	AIG1 AIG1 (avrRpt2-induced gene 1). This represent	98.84
COG1084	346	Predicted GTPase [General function prediction only	98.81
KOG2423|consensus	572		98.81
PRK00098	298	GTPase RsgA; Reviewed	98.77
PRK09601	364	GTP-binding protein YchF; Reviewed	98.75
cd01900	274	YchF YchF subfamily. YchF is a member of the Obg f	98.75
PRK00454	196	engB GTP-binding protein YsxC; Reviewed	98.73
COG0486	454	ThdF Predicted GTPase [General function prediction	98.73
PRK12299	335	obgE GTPase CgtA; Reviewed	98.72
PTZ00258	390	GTP-binding protein; Provisional	98.72
TIGR03598	179	GTPase_YsxC ribosome biogenesis GTP-binding protei	98.71
TIGR03594	429	GTPase_EngA ribosome-associated GTPase EngA. EngA	98.7
PRK12297	424	obgE GTPase CgtA; Reviewed	98.68
PRK12296	500	obgE GTPase CgtA; Reviewed	98.6
cd01853	249	Toc34_like Toc34-like (Translocon at the Outer-env	98.58
PRK00089	292	era GTPase Era; Reviewed	98.58
PRK04213	201	GTP-binding protein; Provisional	98.57
PRK15494	339	era GTPase Era; Provisional	98.55
TIGR02729	329	Obg_CgtA Obg family GTPase CgtA. This model descri	98.54
COG1160	444	Predicted GTPases [General function prediction onl	98.52
KOG1191|consensus	531		98.5
PRK03003	472	GTP-binding protein Der; Reviewed	98.49
cd01854	287	YjeQ_engC YjeQ/EngC. YjeQ (YloQ in Bacillus subtil	98.48
PRK00093	435	GTP-binding protein Der; Reviewed	98.48
cd01898	170	Obg Obg subfamily. The Obg nucleotide binding prot	98.44
PRK05291	449	trmE tRNA modification GTPase TrmE; Reviewed	98.43
PRK09518	712	bifunctional cytidylate kinase/GTPase Der; Reviewe	98.4
TIGR00450	442	mnmE_trmE_thdF tRNA modification GTPase TrmE. TrmE	98.39
COG0370	653	FeoB Fe2+ transport system protein B [Inorganic io	98.38
TIGR03156	351	GTP_HflX GTP-binding protein HflX. This protein fa	98.38
TIGR00991	313	3a0901s02IAP34 GTP-binding protein (Chloroplast En	98.38
PRK11058	426	GTPase HflX; Provisional	98.38
PRK00093	435	GTP-binding protein Der; Reviewed	98.37
cd01897	168	NOG NOG1 is a nucleolar GTP-binding protein presen	98.36
PRK09554	772	feoB ferrous iron transport protein B; Reviewed	98.36
cd01879	158	FeoB Ferrous iron transport protein B (FeoB) subfa	98.34
cd04164	157	trmE TrmE (MnmE, ThdF, MSS1) is a 3-domain protein	98.32
cd04163	168	Era Era subfamily. Era (E. coli Ras-like protein)	98.3
TIGR00993	763	3a0901s04IAP86 chloroplast protein import componen	98.3
cd01876	170	YihA_EngB The YihA (EngB) subfamily. This subfamil	98.3
cd01894	157	EngA1 EngA1 subfamily. This CD represents the firs	98.27
PRK03003	472	GTP-binding protein Der; Reviewed	98.27
PRK09602	396	translation-associated GTPase; Reviewed	98.25
cd01881	176	Obg_like The Obg-like subfamily consists of five w	98.22
TIGR03594	429	GTPase_EngA ribosome-associated GTPase EngA. EngA	98.2
PRK09518	712	bifunctional cytidylate kinase/GTPase Der; Reviewe	98.18
PF03193	161	DUF258: Protein of unknown function, DUF258; Inter	98.17
cd01895	174	EngA2 EngA2 subfamily. This CD represents the seco	98.12
cd01896	233	DRG The developmentally regulated GTP-binding prot	98.12
cd01899	318	Ygr210 Ygr210 subfamily. Ygr210 is a member of Obg	98.07
TIGR00231	161	small_GTP small GTP-binding protein domain. This m	98.03
PRK01889	356	GTPase RsgA; Reviewed	98.03
PLN03118	211	Rab family protein; Provisional	98.03
KOG1490|consensus	620		97.95
cd04171	164	SelB SelB subfamily. SelB is an elongation factor	97.95
PF04548	212	AIG1: AIG1 family; InterPro: IPR006703 This entry	97.93
cd00154	159	Rab Rab family. Rab GTPases form the largest famil	97.93
TIGR00437	591	feoB ferrous iron transporter FeoB. FeoB (773 amin	97.92
cd01863	161	Rab18 Rab18 subfamily. Mammalian Rab18 is implicat	97.86
cd01887	168	IF2_eIF5B IF2/eIF5B (initiation factors 2/ eukaryo	97.86
cd01851	224	GBP Guanylate-binding protein (GBP), N-terminal do	97.84
TIGR00092	368	GTP-binding protein YchF. This predicted GTP-bindi	97.8
cd01860	163	Rab5_related Rab5-related subfamily. This subfamil	97.8
cd00880	163	Era_like Era (E. coli Ras-like protein)-like. This	97.79
COG1163	365	DRG Predicted GTPase [General function prediction	97.78
KOG1489|consensus	366		97.78
cd01866	168	Rab2 Rab2 subfamily. Rab2 is localized on cis-Golg	97.78
cd01878	204	HflX HflX subfamily. A distinct conserved domain w	97.76
cd04156	160	ARLTS1 ARLTS1 subfamily. ARLTS1 (Arf-like tumor su	97.75
cd01868	165	Rab11_like Rab11-like. Rab11a, Rab11b, and Rab25 a	97.74
KOG2484|consensus	435		97.74
cd01861	161	Rab6 Rab6 subfamily. Rab6 is involved in microtubu	97.74
COG0536	369	Obg Predicted GTPase [General function prediction	97.72
PRK15467	158	ethanolamine utilization protein EutP; Provisional	97.7
cd01867	167	Rab8_Rab10_Rab13_like Rab8/Sec4/Ypt2. Rab8/Sec4/Yp	97.69
cd00878	158	Arf_Arl Arf (ADP-ribosylation factor)/Arl (Arf-lik	97.68
cd04157	162	Arl6 Arl6 subfamily. Arl6 (Arf-like 6) forms a sub	97.68
cd00881	189	GTP_translation_factor GTP translation factor fami	97.65
cd04119	168	RJL RJL (RabJ-Like) subfamily. RJLs are found in m	97.62
cd04166	208	CysN_ATPS CysN_ATPS subfamily. CysN, together with	97.62
smart00175	164	RAB Rab subfamily of small GTPases. Rab GTPases ar	97.61
cd04154	173	Arl2 Arl2 subfamily. Arl2 (Arf-like 2) GTPases are	97.6
cd04145	164	M_R_Ras_like M-Ras/R-Ras-like subfamily. This subf	97.57
cd04153	174	Arl5_Arl8 Arl5/Arl8 subfamily. Arl5 (Arf-like 5) a	97.55
COG3596	296	Predicted GTPase [General function prediction only	97.53
cd04160	167	Arfrp1 Arfrp1 subfamily. Arfrp1 (Arf-related prote	97.53
cd04113	161	Rab4 Rab4 subfamily. Rab4 has been implicated in n	97.52
cd04104	197	p47_IIGP_like p47 (47-kDa) family. The p47 GTPase	97.5
smart00178	184	SAR Sar1p-like members of the Ras-family of small	97.5
cd04155	173	Arl3 Arl3 subfamily. Arl3 (Arf-like 3) is an Arf f	97.49
cd01864	165	Rab19 Rab19 subfamily. Rab19 proteins are associat	97.48
cd01862	172	Rab7 Rab7 subfamily. Rab7 is a small Rab GTPase th	97.48
cd04151	158	Arl1 Arl1 subfamily. Arl1 (Arf-like 1) localizes t	97.44
cd04137	180	RheB Rheb (Ras Homolog Enriched in Brain) subfamil	97.44
KOG2486|consensus	320		97.43
cd04118	193	Rab24 Rab24 subfamily. Rab24 is distinct from othe	97.43
cd04161	167	Arl2l1_Arl13_like Arl2l1/Arl13 subfamily. Arl2l1 (	97.43
cd01890	179	LepA LepA subfamily. LepA belongs to the GTPase fa	97.43
cd04138	162	H_N_K_Ras_like H-Ras/N-Ras/K-Ras subfamily. H-Ras,	97.42
cd01869	166	Rab1_Ypt1 Rab1/Ypt1 subfamily. Rab1 is found in ev	97.42
cd04177	168	RSR1 RSR1 subgroup. RSR1/Bud1p is a member of the	97.39
COG0012	372	Predicted GTPase, probable translation factor [Tra	97.37
cd00876	160	Ras Ras family. The Ras family of the Ras superfam	97.35
cd01889	192	SelB_euk SelB subfamily. SelB is an elongation fac	97.35
cd01865	165	Rab3 Rab3 subfamily. The Rab3 subfamily contains R	97.35
cd04110	199	Rab35 Rab35 subfamily. Rab35 is one of several Rab	97.33
smart00173	164	RAS Ras subfamily of RAS small GTPases. Similar in	97.3
cd04122	166	Rab14 Rab14 subfamily. Rab14 GTPases are localized	97.29
cd04112	191	Rab26 Rab26 subfamily. First identified in rat pan	97.29
COG1162	301	Predicted GTPases [General function prediction onl	97.29
cd04142	198	RRP22 RRP22 subfamily. RRP22 (Ras-related protein	97.28
TIGR02528	142	EutP ethanolamine utilization protein, EutP. This	97.27
cd04136	163	Rap_like Rap-like subfamily. The Rap subfamily con	97.25
cd04149	168	Arf6 Arf6 subfamily. Arf6 (ADP ribosylation factor	97.25
cd04125	188	RabA_like RabA-like subfamily. RabA was first iden	97.24
cd01891	194	TypA_BipA TypA (tyrosine phosphorylated protein A)	97.24
cd04152	183	Arl4_Arl7 Arl4/Arl7 subfamily. Arl4 (Arf-like 4) i	97.22
cd04139	164	RalA_RalB RalA/RalB subfamily. The Ral (Ras-like)	97.21
cd04106	162	Rab23_lke Rab23-like subfamily. Rab23 is a member	97.21
cd00879	190	Sar1 Sar1 subfamily. Sar1 is an essential componen	97.2
cd01850	276	CDC_Septin CDC/Septin. Septins are a conserved fam	97.19
cd04144	190	Ras2 Ras2 subfamily. The Ras2 subfamily, found exc	97.16
cd04159	159	Arl10_like Arl10-like subfamily. Arl9/Arl10 was id	97.15
cd04116	170	Rab9 Rab9 subfamily. Rab9 is found in late endosom	97.13
cd04135	174	Tc10 TC10 subfamily. TC10 is a Rho family protein	97.12
cd04123	162	Rab21 Rab21 subfamily. The localization and functi	97.11
COG1161	322	Predicted GTPases [General function prediction onl	97.11
PLN03110	216	Rab GTPase; Provisional	97.09
cd04114	169	Rab30 Rab30 subfamily. Rab30 appears to be associa	97.09
cd04158	169	ARD1 ARD1 subfamily. ARD1 (ADP-ribosylation factor	97.08
PRK12317	425	elongation factor 1-alpha; Reviewed	97.08
cd04176	163	Rap2 Rap2 subgroup. The Rap2 subgroup is part of t	97.07
cd00157	171	Rho Rho (Ras homology) family. Members of the Rho	97.07
CHL00071	409	tufA elongation factor Tu	97.05
cd04140	165	ARHI_like ARHI subfamily. ARHI (A Ras homolog memb	97.03
smart00174	174	RHO Rho (Ras homology) subfamily of Ras-like small	97.02
PTZ00133	182	ADP-ribosylation factor; Provisional	97.0
cd04124	161	RabL2 RabL2 subfamily. RabL2 (Rab-like2) subfamily	96.98
cd01893	166	Miro1 Miro1 subfamily. Miro (mitochondrial Rho) pr	96.97
cd04117	161	Rab15 Rab15 subfamily. Rab15 colocalizes with the	96.96
cd04115	170	Rab33B_Rab33A Rab33B/Rab33A subfamily. Rab33B is u	96.94
TIGR00487	587	IF-2 translation initiation factor IF-2. This mode	96.94
KOG1491|consensus	391		96.94
cd04127	180	Rab27A Rab27a subfamily. The Rab27a subfamily cons	96.93
cd04150	159	Arf1_5_like Arf1-Arf5-like subfamily. This subfami	96.9
cd04101	164	RabL4 RabL4 (Rab-like4) subfamily. RabL4s are nove	96.86
cd04107	201	Rab32_Rab38 Rab38/Rab32 subfamily. Rab32 and Rab38	96.85
PF05049	376	IIGP: Interferon-inducible GTPase (IIGP); InterPro	96.83
smart00177	175	ARF ARF-like small GTPases; ARF, ADP-ribosylation	96.83
cd04148	221	RGK RGK subfamily. The RGK (Rem, Rem2, Rad, Gem/Ki	96.83
cd01870	175	RhoA_like RhoA-like subfamily. The RhoA subfamily	96.82
cd01886	270	EF-G Elongation factor G (EF-G) subfamily. Translo	96.76
PLN00223	181	ADP-ribosylation factor; Provisional	96.75
cd00877	166	Ran Ran (Ras-related nuclear proteins) /TC4 subfam	96.75
PTZ00369	189	Ras-like protein; Provisional	96.74
cd04146	165	RERG_RasL11_like RERG/RasL11-like subfamily. RERG	96.72
cd04108	170	Rab36_Rab34 Rab34/Rab36 subfamily. Rab34, found pr	96.72
cd04111	211	Rab39 Rab39 subfamily. Found in eukaryotes, Rab39	96.69
cd04175	164	Rap1 Rap1 subgroup. The Rap1 subgroup is part of t	96.68
cd00882	157	Ras_like_GTPase Ras-like GTPase superfamily. The R	96.68
cd04147	198	Ras_dva Ras-dva subfamily. Ras-dva (Ras - dorsal-v	96.67
cd04132	187	Rho4_like Rho4-like subfamily. Rho4 is a GTPase th	96.66
TIGR00491	590	aIF-2 translation initiation factor aIF-2/yIF-2. T	96.66
PLN03108	210	Rab family protein; Provisional	96.66
cd01884	195	EF_Tu EF-Tu subfamily. This subfamily includes ort	96.63
PRK05306	787	infB translation initiation factor IF-2; Validated	96.62
cd04170	268	EF-G_bact Elongation factor G (EF-G) subfamily. Tr	96.62
PLN03071	219	GTP-binding nuclear protein Ran; Provisional	96.62
cd04109	215	Rab28 Rab28 subfamily. First identified in maize,	96.54
PRK12735	396	elongation factor Tu; Reviewed	96.47
CHL00189	742	infB translation initiation factor 2; Provisional	96.43
COG1100	219	GTPase SAR1 and related small G proteins [General	96.43
cd04141	172	Rit_Rin_Ric Rit/Rin/Ric subfamily. Rit (Ras-like p	96.39
cd04134	189	Rho3 Rho3 subfamily. Rho3 is a member of the Rho f	96.37
COG0218	200	Predicted GTPase [General function prediction only	96.35
cd04126	220	Rab20 Rab20 subfamily. Rab20 is one of several Rab	96.26
KOG1486|consensus	364		96.25
TIGR00475	581	selB selenocysteine-specific elongation factor Sel	96.25
cd04105	203	SR_beta Signal recognition particle receptor, beta	96.23
PRK12739	691	elongation factor G; Reviewed	96.22
cd04162	164	Arl9_Arfrp2_like Arl9/Arfrp2-like subfamily. Arl9	96.1
TIGR00484	689	EF-G translation elongation factor EF-G. After pep	96.06
PRK09563	287	rbgA GTPase YlqF; Reviewed	96.04
PF08477	119	Miro: Miro-like protein; InterPro: IPR013684 Mitoc	96.01
PF00735	281	Septin: Septin; InterPro: IPR000038 Septins consti	95.99
PRK00049	396	elongation factor Tu; Reviewed	95.98
PLN03127	447	Elongation factor Tu; Provisional	95.98
PRK00007	693	elongation factor G; Reviewed	95.94
cd04130	173	Wrch_1 Wrch-1 subfamily. Wrch-1 (Wnt-1 responsive	95.88
PF10662	143	PduV-EutP: Ethanolamine utilisation - propanediol	95.87
cd04168	237	TetM_like Tet(M)-like subfamily. Tet(M), Tet(O), T	95.84
PRK04004	586	translation initiation factor IF-2; Validated	95.83
TIGR00485	394	EF-Tu translation elongation factor TU. This align	95.8
cd01892	169	Miro2 Miro2 subfamily. Miro (mitochondrial Rho) pr	95.68
TIGR02836	492	spore_IV_A stage IV sporulation protein A. A compa	95.61
cd01882	225	BMS1 Bms1. Bms1 is an essential, evolutionarily co	95.53
KOG1547|consensus	336		95.49
cd01874	175	Cdc42 Cdc42 subfamily. Cdc42 is an essential GTPas	95.44
cd04169	267	RF3 RF3 subfamily. Peptide chain release factor 3	95.43
cd04128	182	Spg1 Spg1p. Spg1p (septum-promoting GTPase) was fi	95.41
TIGR03596	276	GTPase_YlqF ribosome biogenesis GTP-binding protei	95.35
PF00071	162	Ras: Ras family; InterPro: IPR001806 Small GTPases	95.27
cd04129	187	Rho2 Rho2 subfamily. Rho2 is a fungal GTPase that	95.26
PTZ00132	215	GTP-binding nuclear protein Ran; Provisional	95.25
cd04143	247	Rhes_like Rhes_like subfamily. This subfamily incl	95.23
cd04167	213	Snu114p Snu114p subfamily. Snu114p is one of sever	95.14
PRK12736	394	elongation factor Tu; Reviewed	95.13
PRK05506	632	bifunctional sulfate adenylyltransferase subunit 1	95.09
PRK10512	614	selenocysteinyl-tRNA-specific translation factor;	95.08
cd01871	174	Rac1_like Rac1-like subfamily. The Rac1-like subfa	95.05
KOG1487|consensus	358		95.0
COG2262	411	HflX GTPases [General function prediction only]	94.83
PLN03126	478	Elongation factor Tu; Provisional	94.75
cd04121	189	Rab40 Rab40 subfamily. This subfamily contains Rab	94.69
cd04131	178	Rnd Rnd subfamily. The Rnd subfamily contains Rnd1	94.51
PF00009	188	GTP_EFTU: Elongation factor Tu GTP binding domain;	94.42
COG5019	373	CDC3 Septin family protein [Cell division and chro	94.23
cd04120	202	Rab12 Rab12 subfamily. Rab12 was first identified	94.14
cd01883	219	EF1_alpha Eukaryotic elongation factor 1 (EF1) alp	94.01
PF00025	175	Arf: ADP-ribosylation factor family The prints ent	93.95
TIGR01393	595	lepA GTP-binding protein LepA. LepA (GUF1 in Sacca	93.86
cd04102	202	RabL3 RabL3 (Rab-like3) subfamily. RabL3s are nove	93.52
cd01885	222	EF2 EF2 (for archaea and eukarya). Translocation r	93.22
PF00350	168	Dynamin_N: Dynamin family; InterPro: IPR001401 Mem	93.02
cd04173	222	Rnd2_Rho7 Rnd2/Rho7 subfamily. Rnd2/Rho7 is a memb	92.97
cd04133	176	Rop_like Rop subfamily. The Rop (Rho-related prote	92.85
PLN00023	334	GTP-binding protein; Provisional	92.68
TIGR00483	426	EF-1_alpha translation elongation factor EF-1 alph	92.44
TIGR00503	527	prfC peptide chain release factor 3. This translat	92.4
PRK10218	607	GTP-binding protein; Provisional	92.3
cd01875	191	RhoG RhoG subfamily. RhoG is a GTPase with high se	92.11
TIGR03680	406	eif2g_arch translation initiation factor 2 subunit	92.08
cd04172	182	Rnd3_RhoE_Rho8 Rnd3/RhoE/Rho8 subfamily. Rnd3/RhoE	91.76
PRK05124	474	cysN sulfate adenylyltransferase subunit 1; Provis	91.65
KOG2655|consensus	366		91.58
PRK00741	526	prfC peptide chain release factor 3; Provisional	91.51
PF04670	232	Gtr1_RagA: Gtr1/RagA G protein conserved region; I	91.49
PTZ00416	836	elongation factor 2; Provisional	91.19
cd04103	158	Centaurin_gamma Centaurin gamma. The centaurins (a	90.99
TIGR02034	406	CysN sulfate adenylyltransferase, large subunit. H	90.92
PRK13351	687	elongation factor G; Reviewed	90.77
TIGR01425	429	SRP54_euk signal recognition particle protein SRP5	90.23
cd04174	232	Rnd1_Rho6 Rnd1/Rho6 subfamily. Rnd1/Rho6 is a memb	89.91
smart00176	200	RAN Ran (Ras-related nuclear proteins) /TC4 subfam	89.88
TIGR01526	325	nadR_NMN_Atrans nicotinamide-nucleotide adenylyltr	89.83
TIGR00490	720	aEF-2 translation elongation factor aEF-2. This mo	89.74
TIGR03597	360	GTPase_YqeH ribosome biogenesis GTPase YqeH. This	89.66
PRK05433	600	GTP-binding protein LepA; Provisional	89.6
PRK08118	167	topology modulation protein; Reviewed	89.11
TIGR01394	594	TypA_BipA GTP-binding protein TypA/BipA. This bact	88.52
PF13207	121	AAA_17: AAA domain; PDB: 3AKC_A 3AKE_A 3AKD_A 2QL6	88.37
cd04165	224	GTPBP1_like GTPBP1-like. Mammalian GTP binding pro	88.35
KOG0395|consensus	196		88.32
PRK00625	173	shikimate kinase; Provisional	88.18
PRK07261	171	topology modulation protein; Provisional	87.89
PLN00116	843	translation elongation factor EF-2 subunit; Provis	87.89
PRK09866	741	hypothetical protein; Provisional	87.31
PF13238	129	AAA_18: AAA domain; PDB: 3IIK_A 3IIJ_A 3IIL_A 1RKB	86.93
PRK03839	180	putative kinase; Provisional	86.89
COG0563	178	Adk Adenylate kinase and related kinases [Nucleoti	86.74
PRK13796	365	GTPase YqeH; Provisional	86.18
KOG0410|consensus	410		86.15
PF13671	143	AAA_33: AAA domain; PDB: 1LTQ_A 2IA5_K 1RC8_A 1LY1	86.09
COG0466	782	Lon ATP-dependent Lon protease, bacterial type [Po	85.95
PRK13949	169	shikimate kinase; Provisional	85.65
cd01873	195	RhoBTB RhoBTB subfamily. Members of the RhoBTB sub	85.2
cd01888	203	eIF2_gamma eIF2-gamma (gamma subunit of initiation	84.88
PRK12740	668	elongation factor G; Reviewed	84.82
PRK13947	171	shikimate kinase; Provisional	84.09
cd01983	99	Fer4_NifH The Fer4_NifH superfamily contains a var	82.86
KOG1249|consensus	572		82.58
KOG3347|consensus	176		82.43
PRK14530	215	adenylate kinase; Provisional	82.37
TIGR01359	183	UMP_CMP_kin_fam UMP-CMP kinase family. This subfam	82.34
PRK07560	731	elongation factor EF-2; Reviewed	81.27
PTZ00141	446	elongation factor 1- alpha; Provisional	80.93
COG0703	172	AroK Shikimate kinase [Amino acid transport and me	80.78
PRK06217	183	hypothetical protein; Validated	80.45
COG2019	189	AdkA Archaeal adenylate kinase [Nucleotide transpo	80.17

>KOG1424|consensus

Probab=100.00  E-value=1e-44  Score=326.10  Aligned_cols=163  Identities=40%  Similarity=0.632  Sum_probs=149.9

Q ss_pred             ceEeecCCCCccCC--CCCCCCcccccCCCCCCccceeEEEecCCeEEecCCCCCCCCCCC-hhhhhhhCCCCCccccCH
Q psy3587          22 NIRLCDCPGLVFPS--KVPKPLQVVSVSRTPGHTKHFQTIFLTDNIRLCDCPGLVFPSKVP-KPLQVLMGSFPIAQLREP   98 (195)
Q Consensus        22 ~v~vvG~PNVGKSs--N~L~~kk~v~vg~~PGvTk~~Q~i~l~~~i~LlDtPGIv~p~~~~-~~~l~l~g~~~~~~i~d~   98 (195)
                      .||+||||||||||  |+|+|+|.|+|+++||+|||+|+|.|++.+.||||||++||++.. ...|+|.|++|+|+++|+
T Consensus       316 tVG~VGYPNVGKSSTINaLvG~KkVsVS~TPGkTKHFQTi~ls~~v~LCDCPGLVfPSf~~~r~emvl~GiLPIDQmrd~  395 (562)
T KOG1424|consen  316 TVGFVGYPNVGKSSTINALVGRKKVSVSSTPGKTKHFQTIFLSPSVCLCDCPGLVFPSFSPTRAEMVLNGILPIDQLRDH  395 (562)
T ss_pred             EEEeecCCCCchhHHHHHHhcCceeeeecCCCCcceeEEEEcCCCceecCCCCccccCCCchHHHHHHhcCccHHHhhcc
Confidence            59999999999999  999999999999999999999999999999999999999999987 567999999999999999


Q ss_pred             HHHHHHHHHHcCHHHHhhcCC------CCCCCcCCHHHHHHHHHHHcCcccccCCcccHHHHHHHHHHHHHcCCcceEeC
Q psy3587          99 YSTVQYLAERMDLIKLLHIKH------PDDDEYWCAMDICDGWAQKRSYMTAKTGRYDSYRAANELLRMATEGRICLCLM  172 (195)
Q Consensus        99 ~~~~~~l~~~~~~~~l~~~~~------~~~~~~~~~~e~L~~iA~k~g~l~~kgG~~D~~rAa~~~L~d~~~Gkl~~~~~  172 (195)
                      ..++.+|++++|++.|..+|.      +++..+++..++|.++|.+|||++ .+|.+|..|||+.||+||.+|||.|+.+
T Consensus       396 ~~~~~llaerIP~~~Le~~Y~~k~~e~~~~~~pp~A~ell~a~a~~RGfmt-s~~~~D~~RAAr~ILKDyv~GKL~~~~~  474 (562)
T KOG1424|consen  396 YGAVGLLAERIPRHVLERLYGHKPREDPEDSRPPSAAELLNAYAYKRGFMT-SKGLPDEYRAARYILKDYVSGKLLYCFP  474 (562)
T ss_pred             cchHHHHHHhcCHHHHHHHhCCCcccccCCCCCchHHHHHHHHHHhcchhh-hccCCcchHHHHHHHHHHhCCeeeeeeC
Confidence            999999999999888877773      333456789999999999999995 5566699999999999999999999999


Q ss_pred             CCCCCCccccccc
Q psy3587         173 PPQYLSKQGVSKH  185 (195)
Q Consensus       173 Pp~~~~~~~~~~~  185 (195)
                      ||++++.+++|..
T Consensus       475 PPg~~~~~~~~~~  487 (562)
T KOG1424|consen  475 PPGYEPQKFTWEE  487 (562)
T ss_pred             CCCCCccccchhh
Confidence            9999988877663

>KOG2484|consensus

Probab=100.00  E-value=9.4e-40  Score=287.02  Aligned_cols=152  Identities=25%  Similarity=0.338  Sum_probs=143.4

Q ss_pred             ceEeecCCCCccCC--CCCCCCcccccCCCCCCccceeEEEecCCeEEecCCCCCCCCCCChhhhhhhCCCCCccccCHH
Q psy3587          22 NIRLCDCPGLVFPS--KVPKPLQVVSVSRTPGHTKHFQTIFLTDNIRLCDCPGLVFPSKVPKPLQVLMGSFPIAQLREPY   99 (195)
Q Consensus        22 ~v~vvG~PNVGKSs--N~L~~kk~v~vg~~PGvTk~~Q~i~l~~~i~LlDtPGIv~p~~~~~~~l~l~g~~~~~~i~d~~   99 (195)
                      ++||||||||||||  |+|..+++|.||+.||+||.+||++||++|.|+||||+++++.++.++++|.+++++..+.||+
T Consensus       254 rvGViG~PNVGKSSvINsL~~~k~C~vg~~pGvT~smqeV~Ldk~i~llDsPgiv~~~~~~~~~~~Lrn~~~i~~~~dp~  333 (435)
T KOG2484|consen  254 RVGIIGYPNVGKSSVINSLKRRKACNVGNVPGVTRSMQEVKLDKKIRLLDSPGIVPPSIDEKDALALRNCIPIGKVADPV  333 (435)
T ss_pred             EeeeecCCCCChhHHHHHHHHhccccCCCCccchhhhhheeccCCceeccCCceeecCCCccchhhhhcccccccccCcc
Confidence            79999999999999  9999999999999999999999999999999999999999999887789999999999999999


Q ss_pred             HHHHHHHHHcCHHHHhhcCCCCCCCcCCHHHHHHHHHHHcCcccccCCcccHHHHHHHHHHHHHcCCcceEeCCCCC
Q psy3587         100 STVQYLAERMDLIKLLHIKHPDDDEYWCAMDICDGWAQKRSYMTAKTGRYDSYRAANELLRMATEGRICLCLMPPQY  176 (195)
Q Consensus       100 ~~~~~l~~~~~~~~l~~~~~~~~~~~~~~~e~L~~iA~k~g~l~~kgG~~D~~rAa~~~L~d~~~Gkl~~~~~Pp~~  176 (195)
                      .++..++.++..+.+..+|..+.++  ...+||+++|+++|++ .+||.||.+.||+.||+||+.|||.||++||..
T Consensus       334 ~~v~~iL~~~~~e~~~~~Y~~~~~~--~~~~Fl~~~ar~~G~~-~kGG~pd~~~AA~~vl~Dw~~Gki~y~~~pp~~  407 (435)
T KOG2484|consen  334 TPVSCILKRCSKESRSVLYNIPSIR--ATDDFLEKFARRRGLL-LKGGIPDVNAAAFAVLNDWRTGKIGYYTLPPTS  407 (435)
T ss_pred             chHHHHHHHhhHHHHHHHhcCCCcc--hHHHHHHHHHHHHhhh-hcCCCCcHHHHHHHHHHhhccCceeeeeCCChh
Confidence            9999999999988887788766543  6889999999999999 799999999999999999999999999999873

>KOG2423|consensus

Probab=100.00  E-value=1.2e-39  Score=286.54  Aligned_cols=165  Identities=24%  Similarity=0.314  Sum_probs=153.4

Q ss_pred             cceeEEEEecC---ceEeecCCCCccCC--CCCCCCcccccCCCCCCccceeEEEecCCeEEecCCCCCCCCCCChhhhh
Q psy3587          11 TKHFQTIFLTD---NIRLCDCPGLVFPS--KVPKPLQVVSVSRTPGHTKHFQTIFLTDNIRLCDCPGLVFPSKVPKPLQV   85 (195)
Q Consensus        11 tk~~q~~~l~~---~v~vvG~PNVGKSs--N~L~~kk~v~vg~~PGvTk~~Q~i~l~~~i~LlDtPGIv~p~~~~~~~l~   85 (195)
                      -|+|..+|.|+   .|++||||||||||  |.|+.+++|+|++.||-||-+|+|.|.+.|+|+|||||++|...+....+
T Consensus       295 lRQf~kLh~dkkqISVGfiGYPNvGKSSiINTLR~KkVCkvAPIpGETKVWQYItLmkrIfLIDcPGvVyps~dset~iv  374 (572)
T KOG2423|consen  295 LRQFAKLHSDKKQISVGFIGYPNVGKSSIINTLRKKKVCKVAPIPGETKVWQYITLMKRIFLIDCPGVVYPSSDSETDIV  374 (572)
T ss_pred             HHHHHhhccCccceeeeeecCCCCchHHHHHHHhhcccccccCCCCcchHHHHHHHHhceeEecCCCccCCCCCchHHHH
Confidence            36777888888   79999999999999  99999999999999999999999999999999999999999987777789


Q ss_pred             hhCCCCCccccCHHHHHHHHHHHcCHHHHhhcCCCCCCCcCCHHHHHHHHHHHcCcccccCCcccHHHHHHHHHHHHHcC
Q psy3587          86 LMGSFPIAQLREPYSTVQYLAERMDLIKLLHIKHPDDDEYWCAMDICDGWAQKRSYMTAKTGRYDSYRAANELLRMATEG  165 (195)
Q Consensus        86 l~g~~~~~~i~d~~~~~~~l~~~~~~~~l~~~~~~~~~~~~~~~e~L~~iA~k~g~l~~kgG~~D~~rAa~~~L~d~~~G  165 (195)
                      |.|++.++.+.+|...+..+++|+..+.|.+.|+++.+  .+..+||+.+|++.|.| .|||+||+.-.|+++|+||+.|
T Consensus       375 LkGvVRVenv~~pe~yi~~vl~R~k~ehl~rtYkI~~w--~d~~dfle~La~k~GkL-lKGGEPd~~~vsKmvLnDwqRG  451 (572)
T KOG2423|consen  375 LKGVVRVENVKNPEDYIDGVLERCKPEHLSRTYKISGW--NDSTDFLEKLAIKQGKL-LKGGEPDLVVVSKMVLNDWQRG  451 (572)
T ss_pred             hhceeeeeecCCHHHHHHHHHHhhhHHHHHhhhCCCcc--ccHHHHHHHHHHHhCcc-ccCCCCchhHHHHHHhhHhhcC
Confidence            99999999999999999999999998899899988764  37999999999999999 6999999999999999999999


Q ss_pred             CcceEeCCCCCCC
Q psy3587         166 RICLCLMPPQYLS  178 (195)
Q Consensus       166 kl~~~~~Pp~~~~  178 (195)
                      ||+||.+||+.+.
T Consensus       452 kiP~FVpPp~~e~  464 (572)
T KOG2423|consen  452 KIPFFVPPPGLEE  464 (572)
T ss_pred             CCceecCCCcccc
Confidence            9999999986553

>PRK09563 rbgA GTPase YlqF; Reviewed

Probab=100.00  E-value=4.7e-35  Score=251.97  Aligned_cols=149  Identities=19%  Similarity=0.218  Sum_probs=128.0

Q ss_pred             ceEeecCCCCccCC--CCCCCCcccccCCCCCCccceeEEEecCCeEEecCCCCCCCCCCChh---hhhhhCCCCCcccc
Q psy3587          22 NIRLCDCPGLVFPS--KVPKPLQVVSVSRTPGHTKHFQTIFLTDNIRLCDCPGLVFPSKVPKP---LQVLMGSFPIAQLR   96 (195)
Q Consensus        22 ~v~vvG~PNVGKSs--N~L~~kk~v~vg~~PGvTk~~Q~i~l~~~i~LlDtPGIv~p~~~~~~---~l~l~g~~~~~~i~   96 (195)
                      +++++|+|||||||  |+|.+++.+.|++.||+||++|++.++..++|+|||||++|++.+.+   .++++|+++.+ +.
T Consensus       123 ~~~~~G~pnvGKSsliN~l~~~~~~~~~~~~g~T~~~~~~~~~~~~~l~DtPGi~~~~~~~~~~~~~l~~~~~i~~~-~~  201 (287)
T PRK09563        123 RAMIIGIPNVGKSTLINRLAGKKIAKTGNRPGVTKAQQWIKLGKGLELLDTPGILWPKLEDQEVGLKLALTGAIKDE-AL  201 (287)
T ss_pred             EEEEECCCCCCHHHHHHHHhcCCccccCCCCCeEEEEEEEEeCCcEEEEECCCcCCCCCCcHHHHHHHHHhCCcchh-hc
Confidence            69999999999999  99999999999999999999999999999999999999999987764   47899998865 43


Q ss_pred             CHHHHHHHHHHHcC---HHHHhhcCCCCCCCcCCHHHHHHHHHHHcCcccccCCcccHHHHHHHHHHHHHcCCcceEeCC
Q psy3587          97 EPYSTVQYLAERMD---LIKLLHIKHPDDDEYWCAMDICDGWAQKRSYMTAKTGRYDSYRAANELLRMATEGRICLCLMP  173 (195)
Q Consensus        97 d~~~~~~~l~~~~~---~~~l~~~~~~~~~~~~~~~e~L~~iA~k~g~l~~kgG~~D~~rAa~~~L~d~~~Gkl~~~~~P  173 (195)
                      ++...+.++++++.   .+.+..+|+++.+. .+.++||+++|+++|++ .|||+||+++||+.||+||++|||+++++.
T Consensus       202 ~~~~~~~~ll~~l~~~~~~~l~~~y~~~~~~-~~~~~~l~~~a~~~g~~-~k~g~~D~~~aa~~~l~d~~~Gklg~~~ld  279 (287)
T PRK09563        202 DLEEVAIFALEYLSKHYPERLKERYKLDELP-EDILELLEAIARKRGAL-RKGGEIDYERASELLLNEFRNGKLGKITLE  279 (287)
T ss_pred             ChHHHHHHHHHHHHhhCHHHHHHHhCCCCCC-CCHHHHHHHHHHHhCcc-ccCCccCHHHHHHHHHHHHHcCCCCcEEcc
Confidence            55556666666554   34567777765432 38999999999999999 699999999999999999999999999843

>TIGR03596 GTPase_YlqF ribosome biogenesis GTP-binding protein YlqF

Probab=100.00  E-value=1.2e-33  Score=241.81  Aligned_cols=148  Identities=23%  Similarity=0.246  Sum_probs=127.1

Q ss_pred             ceEeecCCCCccCC--CCCCCCcccccCCCCCCccceeEEEecCCeEEecCCCCCCCCCCChh---hhhhhCCCCCcccc
Q psy3587          22 NIRLCDCPGLVFPS--KVPKPLQVVSVSRTPGHTKHFQTIFLTDNIRLCDCPGLVFPSKVPKP---LQVLMGSFPIAQLR   96 (195)
Q Consensus        22 ~v~vvG~PNVGKSs--N~L~~kk~v~vg~~PGvTk~~Q~i~l~~~i~LlDtPGIv~p~~~~~~---~l~l~g~~~~~~i~   96 (195)
                      +++++|+|||||||  |+|.+++.+.|++.||+|++.|++.++.+++|+||||+++|.+.+.+   .++++|+++.+.+ 
T Consensus       120 ~~~~vG~~nvGKSslin~l~~~~~~~~~~~~g~T~~~~~~~~~~~~~l~DtPG~~~~~~~~~~~~~~l~~~g~i~~~~~-  198 (276)
T TIGR03596       120 RAMIVGIPNVGKSTLINRLAGKKVAKVGNRPGVTKGQQWIKLSDGLELLDTPGILWPKFEDQEVGLKLAATGAIKDEAL-  198 (276)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCCccccCCCCCeecceEEEEeCCCEEEEECCCcccCCCCchHHHHHHHHhCCcccccC-
Confidence            69999999999999  99999999999999999999999999999999999999999988764   4789999987755 


Q ss_pred             CHHHHHHHHHHHcC---HHHHhhcCCCCCCCcCCHHHHHHHHHHHcCcccccCCcccHHHHHHHHHHHHHcCCcceEeC
Q psy3587          97 EPYSTVQYLAERMD---LIKLLHIKHPDDDEYWCAMDICDGWAQKRSYMTAKTGRYDSYRAANELLRMATEGRICLCLM  172 (195)
Q Consensus        97 d~~~~~~~l~~~~~---~~~l~~~~~~~~~~~~~~~e~L~~iA~k~g~l~~kgG~~D~~rAa~~~L~d~~~Gkl~~~~~  172 (195)
                      ++...+.++++.+.   .+.+.+.|+.+.+ ..+.++||+++|+++|++ .|||+||+++||+.||+||++|||+++++
T Consensus       199 ~~~~~~~~~~~~l~~~~~~~l~~~y~i~~~-~~~~~~~l~~~a~~~g~~-~k~g~~D~~~aa~~~l~d~~~Gklg~~~l  275 (276)
T TIGR03596       199 DLEDVALFLLEYLLEHYPERLKERYKLDEL-PEDIVELLEAIAKKRGCL-LKGGELDLDRAAEILLNDFRKGKLGRITL  275 (276)
T ss_pred             ChHHHHHHHHHHHHhhCHHHHHHHhCcCCC-CCCHHHHHHHHHHHhCcc-ccCCccCHHHHHHHHHHHHHcCCCCceec
Confidence            44555555554443   2566677776532 238999999999999999 79999999999999999999999999975

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.

>COG1161 Predicted GTPases [General function prediction only]

Probab=100.00  E-value=3.3e-34  Score=250.66  Aligned_cols=156  Identities=22%  Similarity=0.222  Sum_probs=127.5

Q ss_pred             CceEeecCCCCccCC--CCCCCCcccccCCCCCCccceeEEEecCCeEEecCCCCCCCCCCChhhhhhhCCCCCccccCH
Q psy3587          21 DNIRLCDCPGLVFPS--KVPKPLQVVSVSRTPGHTKHFQTIFLTDNIRLCDCPGLVFPSKVPKPLQVLMGSFPIAQLREP   98 (195)
Q Consensus        21 ~~v~vvG~PNVGKSs--N~L~~kk~v~vg~~PGvTk~~Q~i~l~~~i~LlDtPGIv~p~~~~~~~l~l~g~~~~~~i~d~   98 (195)
                      .+++|||+|||||||  |+|++++.|.||+.||+||++|||++++.++|+|||||+||++.+. .+++.+..+.+.++++
T Consensus       133 ~~v~vvG~PNVGKSslIN~L~~k~~~~~s~~PG~Tk~~q~i~~~~~i~LlDtPGii~~~~~~~-~~v~~~l~~~~~Ik~~  211 (322)
T COG1161         133 IRVGVVGYPNVGKSTLINRLLGKKVAKTSNRPGTTKGIQWIKLDDGIYLLDTPGIIPPKFDDD-ELVLLKLAPKGEIKDP  211 (322)
T ss_pred             eEEEEEcCCCCcHHHHHHHHhcccceeeCCCCceecceEEEEcCCCeEEecCCCcCCCCccch-HHHhhccccccccCcc
Confidence            369999999999999  9999999999999999999999999999999999999999999884 3677788888888888


Q ss_pred             HHHHHHHHHHcCH----HHHh-h-----cCCCCCCCcCCHHHHHHHHHHHcCcccccCCcccHHHHHHHHHHHHHcCCcc
Q psy3587          99 YSTVQYLAERMDL----IKLL-H-----IKHPDDDEYWCAMDICDGWAQKRSYMTAKTGRYDSYRAANELLRMATEGRIC  168 (195)
Q Consensus        99 ~~~~~~l~~~~~~----~~l~-~-----~~~~~~~~~~~~~e~L~~iA~k~g~l~~kgG~~D~~rAa~~~L~d~~~Gkl~  168 (195)
                      ...+..+..++..    ++.+ .     .|...+....+.+++++.+|.++|+++.+||++|+++||..+++||+.|+|+
T Consensus       212 ~~~~~~v~~~~~~~~~~~~~~~~~~~~~~y~~~~~~~~~~~~~l~~~a~~rg~~l~~~g~~d~~~~~~~~~~d~~~gklg  291 (322)
T COG1161         212 VLPADEVAERLLGGLLIDEHYGEKLNITRYESNPIHRTDPEEFLELIAKKRGWLLLKGGEPDLERAAETILKDIRNGKLG  291 (322)
T ss_pred             ccChHHHHHHHHhhhhhhhhhhHhhCCcccccccccccCHHHHHHHHHHHhhhhhcCCCCccHHHHHHHHHHHHHhCCcc
Confidence            7666655554431    1111 1     1222112234788999999999995547899999999999999999999999


Q ss_pred             eEeCCCCCC
Q psy3587         169 LCLMPPQYL  177 (195)
Q Consensus       169 ~~~~Pp~~~  177 (195)
                      |+++|+..+
T Consensus       292 ~~~~~~~~~  300 (322)
T COG1161         292 WFSLEEPED  300 (322)
T ss_pred             eeecCCccc
Confidence            999887643

>KOG2485|consensus

Probab=99.87  E-value=3.1e-22  Score=172.26  Aligned_cols=154  Identities=19%  Similarity=0.141  Sum_probs=118.2

Q ss_pred             EEEecCceEeecCCCCccCC--CC-----CCCCcccccCCCCCCccceeE-EEe--cCCeEEecCCCCCCCCCCChh---
Q psy3587          16 TIFLTDNIRLCDCPGLVFPS--KV-----PKPLQVVSVSRTPGHTKHFQT-IFL--TDNIRLCDCPGLVFPSKVPKP---   82 (195)
Q Consensus        16 ~~~l~~~v~vvG~PNVGKSs--N~-----L~~kk~v~vg~~PGvTk~~Q~-i~l--~~~i~LlDtPGIv~p~~~~~~---   82 (195)
                      |...+.+|||+|+|||||||  |+     |..+|+++||+.||+|+.++. |++  ++.+|++|||||+.|++.+.+   
T Consensus       139 t~~~~~~vmVvGvPNVGKSsLINa~r~~~Lrk~k~a~vG~~pGVT~~V~~~iri~~rp~vy~iDTPGil~P~I~~~e~~l  218 (335)
T KOG2485|consen  139 TLNSEYNVMVVGVPNVGKSSLINALRNVHLRKKKAARVGAEPGVTRRVSERIRISHRPPVYLIDTPGILVPSIVDVEDGL  218 (335)
T ss_pred             ccCCceeEEEEcCCCCChHHHHHHHHHHHhhhccceeccCCCCceeeehhheEeccCCceEEecCCCcCCCCCCCHHHhh
Confidence            34556789999999999999  75     567899999999999999999 666  578999999999999998876   


Q ss_pred             hhhhhCCCCCccccCHHHHHHHHHHHcCHHH--H-hhcCCCCCCCcCCHHHHHHHHHHHcCccc---ccCCc-------c
Q psy3587          83 LQVLMGSFPIAQLREPYSTVQYLAERMDLIK--L-LHIKHPDDDEYWCAMDICDGWAQKRSYMT---AKTGR-------Y  149 (195)
Q Consensus        83 ~l~l~g~~~~~~i~d~~~~~~~l~~~~~~~~--l-~~~~~~~~~~~~~~~e~L~~iA~k~g~l~---~kgG~-------~  149 (195)
                      .|+|+|+++.. +.+++..++|++..++...  . .+.+++......+++.-|.-+|.++.+..   .-.|.       +
T Consensus       219 KLAL~g~Vkd~-~V~~~~~adylL~~lN~~~~~~y~~~l~~~~~~~dd~~~nl~~l~v~~~~~~k~s~fdg~~~~ei~~~  297 (335)
T KOG2485|consen  219 KLALCGLVKDH-LVGEETIADYLLYLLNSHSDFSYVKDLKPGSTPADDIEQNLAVLAVRRTKNEKVSAFDGNNKLEIEQP  297 (335)
T ss_pred             hhhhccccccc-ccCHHHHHHHHHHHHhccCcchhHHHhccCCCccccHHHHHHHHHHHHHhcceeeEecCCceeEEech
Confidence            58999999855 5577888999988877432  1 12223332223478888899999876541   11222       2


Q ss_pred             cHHHHHHHHHHHHHcCCcceE
Q psy3587         150 DSYRAANELLRMATEGRICLC  170 (195)
Q Consensus       150 D~~rAa~~~L~d~~~Gkl~~~  170 (195)
                      .+-++|+.+++-|++|.++-+
T Consensus       298 ~~ln~~e~~l~~~rsg~l~~~  318 (335)
T KOG2485|consen  298 NLLNLARFFLATFRSGLLGPE  318 (335)
T ss_pred             HHHHHHHHHHHHHHhccccce
Confidence            467899999999999998765

>cd04178 Nucleostemin_like Nucleostemin-like

Probab=99.63  E-value=1.1e-16  Score=128.55  Aligned_cols=52  Identities=29%  Similarity=0.486  Sum_probs=50.8

Q ss_pred             ceEeecCCCCccCC--CCCCCCcccccCCCCCCccceeEEEecCCeEEecCCCC
Q psy3587          22 NIRLCDCPGLVFPS--KVPKPLQVVSVSRTPGHTKHFQTIFLTDNIRLCDCPGL   73 (195)
Q Consensus        22 ~v~vvG~PNVGKSs--N~L~~kk~v~vg~~PGvTk~~Q~i~l~~~i~LlDtPGI   73 (195)
                      +++++|+|||||||  |+|.+++.+.|++.||+|+++||+.++.+++|+|||||
T Consensus       119 ~~~~vG~pnvGKSslin~l~~~~~~~~~~~pg~T~~~~~~~~~~~~~l~DtPGi  172 (172)
T cd04178         119 TVGVVGFPNVGKSSLINSLKRSRACNVGATPGVTKSMQEVHLDKKVKLLDSPGI  172 (172)
T ss_pred             EEEEEcCCCCCHHHHHHHHhCcccceecCCCCeEcceEEEEeCCCEEEEECcCC
Confidence            79999999999999  99999999999999999999999999999999999997

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

>cd01857 HSR1_MMR1 HSR1/MMR1

Probab=99.59  E-value=7.8e-16  Score=118.97  Aligned_cols=55  Identities=58%  Similarity=0.889  Sum_probs=53.3

Q ss_pred             ceEeecCCCCccCC--CCCCCCcccccCCCCCCccceeEEEecCCeEEecCCCCCCC
Q psy3587          22 NIRLCDCPGLVFPS--KVPKPLQVVSVSRTPGHTKHFQTIFLTDNIRLCDCPGLVFP   76 (195)
Q Consensus        22 ~v~vvG~PNVGKSs--N~L~~kk~v~vg~~PGvTk~~Q~i~l~~~i~LlDtPGIv~p   76 (195)
                      +++++|.|||||||  |+|.+++.+.++..||.|++.|++.++++++|+||||+++|
T Consensus        85 ~~~~~G~~~vGKstlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~DtpG~~~p  141 (141)
T cd01857          85 TIGLVGYPNVGKSSLINALVGKKKVSVSATPGKTKHFQTIFLTPTITLCDCPGLVFP  141 (141)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCCceeeCCCCCcccceEEEEeCCCEEEEECCCcCCC
Confidence            79999999999999  99999999999999999999999999999999999999998

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.

>cd01858 NGP_1 NGP-1

Probab=99.58  E-value=7.3e-16  Score=120.92  Aligned_cols=52  Identities=33%  Similarity=0.531  Sum_probs=50.4

Q ss_pred             ceEeecCCCCccCC--CCCCCCcccccCCCCCCccceeEEEecCCeEEecCCCC
Q psy3587          22 NIRLCDCPGLVFPS--KVPKPLQVVSVSRTPGHTKHFQTIFLTDNIRLCDCPGL   73 (195)
Q Consensus        22 ~v~vvG~PNVGKSs--N~L~~kk~v~vg~~PGvTk~~Q~i~l~~~i~LlDtPGI   73 (195)
                      +++++|.|||||||  |+|.+.+.+.|++.||.|++.|++.+++.++|+|||||
T Consensus       104 ~v~~~G~~nvGKStliN~l~~~~~~~~~~~~g~T~~~~~~~~~~~~~liDtPGi  157 (157)
T cd01858         104 SVGFIGYPNVGKSSIINTLRSKKVCKVAPIPGETKVWQYITLMKRIYLIDCPGV  157 (157)
T ss_pred             EEEEEeCCCCChHHHHHHHhcCCceeeCCCCCeeEeEEEEEcCCCEEEEECcCC
Confidence            68999999999999  99999999999999999999999999989999999997

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.

>cd01849 YlqF_related_GTPase YlqF-related GTPases

Probab=99.38  E-value=1.9e-13  Score=107.09  Aligned_cols=54  Identities=24%  Similarity=0.348  Sum_probs=51.2

Q ss_pred             cCceEeecCCCCccCC--CCCCCCcccccCCCCCCccceeEEEecCCeEEecCCCC
Q psy3587          20 TDNIRLCDCPGLVFPS--KVPKPLQVVSVSRTPGHTKHFQTIFLTDNIRLCDCPGL   73 (195)
Q Consensus        20 ~~~v~vvG~PNVGKSs--N~L~~kk~v~vg~~PGvTk~~Q~i~l~~~i~LlDtPGI   73 (195)
                      ..+++++|.|||||||  |.|.+.+.+++++.||.|++.|++.++..++|+||||+
T Consensus       100 ~~~~~~~G~~~~GKstlin~l~~~~~~~~~~~~~~t~~~~~~~~~~~~~liDtPG~  155 (155)
T cd01849         100 SITVGVIGYPNVGKSSVINALLNKLKLKVGNVPGTTTSQQEVKLDNKIKLLDTPGI  155 (155)
T ss_pred             CcEEEEEccCCCCHHHHHHHHHccccccccCCCCcccceEEEEecCCEEEEECCCC
Confidence            3479999999999999  99999999999999999999999999999999999997

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.

>cd01855 YqeH YqeH

Probab=99.32  E-value=5.3e-13  Score=107.60  Aligned_cols=53  Identities=19%  Similarity=0.316  Sum_probs=48.0

Q ss_pred             CceEeecCCCCccCC--CCCCCC--------cccccCCCCCCccceeEEEecCCeEEecCCCC
Q psy3587          21 DNIRLCDCPGLVFPS--KVPKPL--------QVVSVSRTPGHTKHFQTIFLTDNIRLCDCPGL   73 (195)
Q Consensus        21 ~~v~vvG~PNVGKSs--N~L~~k--------k~v~vg~~PGvTk~~Q~i~l~~~i~LlDtPGI   73 (195)
                      .++++||.|||||||  |+|.+.        ..+.++..||.|++.|++.++.+++|+||||+
T Consensus       128 ~~~~~~G~~nvGKStliN~l~~~~~~~~~~~~~~~~~~~~gtT~~~~~~~~~~~~~~~DtPG~  190 (190)
T cd01855         128 GDVYVVGATNVGKSTLINALLKKDNGKKKLKDLLTTSPIPGTTLDLIKIPLGNGKKLYDTPGI  190 (190)
T ss_pred             CcEEEEcCCCCCHHHHHHHHHHhcccccccccccccCCCCCeeeeeEEEecCCCCEEEeCcCC
Confidence            579999999999999  998764        34789999999999999999889999999997

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.

>PRK13796 GTPase YqeH; Provisional

Probab=99.29  E-value=1.1e-12  Score=116.67  Aligned_cols=58  Identities=22%  Similarity=0.267  Sum_probs=51.1

Q ss_pred             cCceEeecCCCCccCC--CCCCCC-----cccccCCCCCCccceeEEEecCCeEEecCCCCCCCC
Q psy3587          20 TDNIRLCDCPGLVFPS--KVPKPL-----QVVSVSRTPGHTKHFQTIFLTDNIRLCDCPGLVFPS   77 (195)
Q Consensus        20 ~~~v~vvG~PNVGKSs--N~L~~k-----k~v~vg~~PGvTk~~Q~i~l~~~i~LlDtPGIv~p~   77 (195)
                      ..++++||+|||||||  |+|.++     +.+.+|+.||+|++.+++.++++.+|+||||++.+.
T Consensus       160 ~~~v~vvG~~NvGKSTLiN~L~~~~~~~~~~~~~s~~pGTT~~~~~~~l~~~~~l~DTPGi~~~~  224 (365)
T PRK13796        160 GRDVYVVGVTNVGKSTLINRIIKEITGEKDVITTSRFPGTTLDKIEIPLDDGSFLYDTPGIIHRH  224 (365)
T ss_pred             CCeEEEEcCCCCcHHHHHHHHHhhccCccceEEecCCCCccceeEEEEcCCCcEEEECCCccccc
Confidence            3479999999999999  998743     467799999999999999999999999999998553

>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=99.22  E-value=2.9e-12  Score=101.70  Aligned_cols=59  Identities=22%  Similarity=0.241  Sum_probs=45.2

Q ss_pred             ceEeecCCCCccCC--CCCCCCcccccCCCCCCccceeEE--Ee-cCCeEEecCCCCCCCCCCCh
Q psy3587          22 NIRLCDCPGLVFPS--KVPKPLQVVSVSRTPGHTKHFQTI--FL-TDNIRLCDCPGLVFPSKVPK   81 (195)
Q Consensus        22 ~v~vvG~PNVGKSs--N~L~~kk~v~vg~~PGvTk~~Q~i--~l-~~~i~LlDtPGIv~p~~~~~   81 (195)
                      +|.++|.|||||||  |+|.|++ ++||+.||+|.....-  .+ +..+.|+|+||+.-..-.+.
T Consensus         2 ~ialvG~PNvGKStLfN~Ltg~~-~~v~n~pG~Tv~~~~g~~~~~~~~~~lvDlPG~ysl~~~s~   65 (156)
T PF02421_consen    2 RIALVGNPNVGKSTLFNALTGAK-QKVGNWPGTTVEKKEGIFKLGDQQVELVDLPGIYSLSSKSE   65 (156)
T ss_dssp             EEEEEESTTSSHHHHHHHHHTTS-EEEEESTTSSSEEEEEEEEETTEEEEEEE----SSSSSSSH
T ss_pred             EEEEECCCCCCHHHHHHHHHCCC-ceecCCCCCCeeeeeEEEEecCceEEEEECCCcccCCCCCc
Confidence            58999999999999  9999999 8899999999887653  33 46899999999965444443

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 ....

>cd01856 YlqF YlqF

Probab=99.19  E-value=8.8e-12  Score=99.19  Aligned_cols=53  Identities=26%  Similarity=0.364  Sum_probs=50.4

Q ss_pred             ceEeecCCCCccCC--CCCCCCcccccCCCCCCccceeEEEecCCeEEecCCCCC
Q psy3587          22 NIRLCDCPGLVFPS--KVPKPLQVVSVSRTPGHTKHFQTIFLTDNIRLCDCPGLV   74 (195)
Q Consensus        22 ~v~vvG~PNVGKSs--N~L~~kk~v~vg~~PGvTk~~Q~i~l~~~i~LlDtPGIv   74 (195)
                      +++++|.|||||||  |.|.+.+.+.+++.||+|++.|++.++..++++||||++
T Consensus       117 ~~~~~G~~~vGKstlin~l~~~~~~~~~~~~~~T~~~~~~~~~~~~~~iDtpG~~  171 (171)
T cd01856         117 RAMVVGIPNVGKSTLINRLRGKKVAKVGNKPGVTKGIQWIKISPGIYLLDTPGIL  171 (171)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCCceeecCCCCEEeeeEEEEecCCEEEEECCCCC
Confidence            69999999999999  999998888999999999999999998899999999985

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.

>TIGR03597 GTPase_YqeH ribosome biogenesis GTPase YqeH

Probab=99.15  E-value=1.4e-11  Score=109.44  Aligned_cols=57  Identities=23%  Similarity=0.301  Sum_probs=51.3

Q ss_pred             CceEeecCCCCccCC--CCCCCC-----cccccCCCCCCccceeEEEecCCeEEecCCCCCCCC
Q psy3587          21 DNIRLCDCPGLVFPS--KVPKPL-----QVVSVSRTPGHTKHFQTIFLTDNIRLCDCPGLVFPS   77 (195)
Q Consensus        21 ~~v~vvG~PNVGKSs--N~L~~k-----k~v~vg~~PGvTk~~Q~i~l~~~i~LlDtPGIv~p~   77 (195)
                      .++++||+|||||||  |+|.++     +.+.+++.||.|++++.+.++.+++|+||||+..+.
T Consensus       155 ~~v~~vG~~nvGKStliN~l~~~~~~~~~~~~~s~~pgtT~~~~~~~~~~~~~l~DtPG~~~~~  218 (360)
T TIGR03597       155 KDVYVVGVTNVGKSSLINKLLKQNNGDKDVITTSPFPGTTLDLIEIPLDDGHSLYDTPGIINSH  218 (360)
T ss_pred             CeEEEECCCCCCHHHHHHHHHhhccCCcceeeecCCCCeEeeEEEEEeCCCCEEEECCCCCChh
Confidence            479999999999999  998763     468999999999999999998899999999999764

This family describes YqeH, a member of a larger family of GTPases involved in ribosome biogenesis. Like YqlF, it shows a cyclical permutation relative to GTPases EngA (in which the GTPase domain is duplicated), Era, and others. Members of this protein family are found in a relatively small number of bacterial species, including Bacillus subtilis but not Escherichia coli.

>cd01859 MJ1464 MJ1464

Probab=99.15  E-value=2.2e-11  Score=95.02  Aligned_cols=53  Identities=30%  Similarity=0.370  Sum_probs=50.1

Q ss_pred             CceEeecCCCCccCC--CCCCCCcccccCCCCCCccceeEEEecCCeEEecCCCC
Q psy3587          21 DNIRLCDCPGLVFPS--KVPKPLQVVSVSRTPGHTKHFQTIFLTDNIRLCDCPGL   73 (195)
Q Consensus        21 ~~v~vvG~PNVGKSs--N~L~~kk~v~vg~~PGvTk~~Q~i~l~~~i~LlDtPGI   73 (195)
                      .+++++|.|||||||  |.|.+.+.+.+++++|.|++.|.+.++..++|+|||||
T Consensus       102 ~~~~~ig~~~~Gkssl~~~l~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~DtpGi  156 (156)
T cd01859         102 GKVGVVGYPNVGKSSIINALKGRHSASTSPSPGYTKGEQLVKITSKIYLLDTPGV  156 (156)
T ss_pred             cEEEEECCCCCCHHHHHHHHhCCCccccCCCCCeeeeeEEEEcCCCEEEEECcCC
Confidence            478999999999999  99999889999999999999999999889999999997

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.

>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=99.13  E-value=2.3e-11  Score=90.29  Aligned_cols=56  Identities=18%  Similarity=0.229  Sum_probs=48.3

Q ss_pred             ceEeecCCCCccCC--CCCCCCcccccCCCCCCccceeE--EEec-CCeEEecCCCCCCCC
Q psy3587          22 NIRLCDCPGLVFPS--KVPKPLQVVSVSRTPGHTKHFQT--IFLT-DNIRLCDCPGLVFPS   77 (195)
Q Consensus        22 ~v~vvG~PNVGKSs--N~L~~kk~v~vg~~PGvTk~~Q~--i~l~-~~i~LlDtPGIv~p~   77 (195)
                      +|+|+|.||+||||  |+|.+.+.+.++..||.|++.+.  +.++ ..+.|+||||+..+.
T Consensus         1 ~V~iiG~~~~GKSTlin~l~~~~~~~~~~~~~~T~~~~~~~~~~~~~~~~~vDtpG~~~~~   61 (116)
T PF01926_consen    1 RVAIIGRPNVGKSTLINALTGKKLAKVSNIPGTTRDPVYGQFEYNNKKFILVDTPGINDGE   61 (116)
T ss_dssp             EEEEEESTTSSHHHHHHHHHTSTSSEESSSTTSSSSEEEEEEEETTEEEEEEESSSCSSSS
T ss_pred             CEEEECCCCCCHHHHHHHHhccccccccccccceeeeeeeeeeeceeeEEEEeCCCCcccc
Confidence            58999999999999  99999889999999999999955  3343 467999999988654

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 ....

>COG0218 Predicted GTPase [General function prediction only]

Probab=99.13  E-value=2.7e-11  Score=99.26  Aligned_cols=59  Identities=22%  Similarity=0.329  Sum_probs=54.3

Q ss_pred             ceEeecCCCCccCC--CCCCCCc-ccccCCCCCCccceeEEEecCCeEEecCCCCCCCCCCC
Q psy3587          22 NIRLCDCPGLVFPS--KVPKPLQ-VVSVSRTPGHTKHFQTIFLTDNIRLCDCPGLVFPSKVP   80 (195)
Q Consensus        22 ~v~vvG~PNVGKSs--N~L~~kk-~v~vg~~PGvTk~~Q~i~l~~~i~LlDtPGIv~p~~~~   80 (195)
                      -|.++|..||||||  |+|.++| .|+||++||.|+.+-.+.+++.+.|+|-||-=+-+...
T Consensus        26 EIaF~GRSNVGKSSlIN~l~~~k~LArtSktPGrTq~iNff~~~~~~~lVDlPGYGyAkv~k   87 (200)
T COG0218          26 EIAFAGRSNVGKSSLINALTNQKNLARTSKTPGRTQLINFFEVDDELRLVDLPGYGYAKVPK   87 (200)
T ss_pred             EEEEEccCcccHHHHHHHHhCCcceeecCCCCCccceeEEEEecCcEEEEeCCCcccccCCH
Confidence            69999999999999  9999955 69999999999999999999999999999998877654

>PRK12289 GTPase RsgA; Reviewed

Probab=99.11  E-value=3.8e-11  Score=106.53  Aligned_cols=59  Identities=22%  Similarity=0.250  Sum_probs=55.0

Q ss_pred             cCceEeecCCCCccCC--CCCCCCcccccCCCCC-------CccceeEEEecCCeEEecCCCCCCCCC
Q psy3587          20 TDNIRLCDCPGLVFPS--KVPKPLQVVSVSRTPG-------HTKHFQTIFLTDNIRLCDCPGLVFPSK   78 (195)
Q Consensus        20 ~~~v~vvG~PNVGKSs--N~L~~kk~v~vg~~PG-------vTk~~Q~i~l~~~i~LlDtPGIv~p~~   78 (195)
                      ++.++|+|.|||||||  |+|.+...+.||..||       .|++.|++.++.+.+|+||||+..+.+
T Consensus       172 ~ki~v~iG~SgVGKSSLIN~L~~~~~~~t~~vs~~~~rGrHTT~~~~l~~l~~g~~liDTPG~~~~~l  239 (352)
T PRK12289        172 NKITVVAGPSGVGKSSLINRLIPDVELRVGKVSGKLGRGRHTTRHVELFELPNGGLLADTPGFNQPDL  239 (352)
T ss_pred             cceEEEEeCCCCCHHHHHHHHcCccccccccccCCCCCCCCcCceeEEEECCCCcEEEeCCCcccccc
Confidence            4468999999999999  9999999999999999       899999999987789999999999887

>COG1159 Era GTPase [General function prediction only]

Probab=99.10  E-value=4.2e-11  Score=103.13  Aligned_cols=57  Identities=19%  Similarity=0.294  Sum_probs=50.7

Q ss_pred             ceEeecCCCCccCC--CCCCCCcccccCCCCCCccc-eeEEEe--cCCeEEecCCCCCCCCC
Q psy3587          22 NIRLCDCPGLVFPS--KVPKPLQVVSVSRTPGHTKH-FQTIFL--TDNIRLCDCPGLVFPSK   78 (195)
Q Consensus        22 ~v~vvG~PNVGKSs--N~L~~kk~v~vg~~PGvTk~-~Q~i~l--~~~i~LlDtPGIv~p~~   78 (195)
                      -|+|||-|||||||  |+|.|.|.+=||++|..||+ ++.|..  +.+|.++||||+..|+-
T Consensus         8 fVaIiGrPNvGKSTLlN~l~G~KisIvS~k~QTTR~~I~GI~t~~~~QiIfvDTPGih~pk~   69 (298)
T COG1159           8 FVAIIGRPNVGKSTLLNALVGQKISIVSPKPQTTRNRIRGIVTTDNAQIIFVDTPGIHKPKH   69 (298)
T ss_pred             EEEEEcCCCCcHHHHHHHHhcCceEeecCCcchhhhheeEEEEcCCceEEEEeCCCCCCcch
Confidence            48999999999999  99999999999999999986 566655  45899999999999964

>KOG1424|consensus

Probab=99.07  E-value=4.7e-11  Score=108.93  Aligned_cols=50  Identities=60%  Similarity=0.974  Sum_probs=39.8

Q ss_pred             CccccCCCCccceeEEEEecCceEeecCCCCccCCCCCCCCcccccCCCC
Q psy3587           1 VVSVSRTPGHTKHFQTIFLTDNIRLCDCPGLVFPSKVPKPLQVVSVSRTP   50 (195)
Q Consensus         1 ~~~v~~~~g~tk~~q~~~l~~~v~vvG~PNVGKSsN~L~~kk~v~vg~~P   50 (195)
                      +||||+|||||||||||+|+..+|+|||||.++.|-+..+.-.+-.|-.|
T Consensus       339 kVsVS~TPGkTKHFQTi~ls~~v~LCDCPGLVfPSf~~~r~emvl~GiLP  388 (562)
T KOG1424|consen  339 KVSVSSTPGKTKHFQTIFLSPSVCLCDCPGLVFPSFSPTRAEMVLNGILP  388 (562)
T ss_pred             eeeeecCCCCcceeEEEEcCCCceecCCCCccccCCCchHHHHHHhcCcc
Confidence            58999999999999999999999999999999998544333333333333

>TIGR00157 ribosome small subunit-dependent GTPase A

Probab=99.07  E-value=3.6e-11  Score=101.57  Aligned_cols=76  Identities=13%  Similarity=0.086  Sum_probs=60.0

Q ss_pred             cccCCCCc--cceeEEEEecCceEeecCCCCccCC--CCCCCCcccccCCCCC-------CccceeEEEecCCeEEecCC
Q psy3587           3 SVSRTPGH--TKHFQTIFLTDNIRLCDCPGLVFPS--KVPKPLQVVSVSRTPG-------HTKHFQTIFLTDNIRLCDCP   71 (195)
Q Consensus         3 ~v~~~~g~--tk~~q~~~l~~~v~vvG~PNVGKSs--N~L~~kk~v~vg~~PG-------vTk~~Q~i~l~~~i~LlDtP   71 (195)
                      .+|+..|.  ..-++.+. .+.++++|.|||||||  |.|.+....+||..++       .|++.+++.+ .+-+|+|||
T Consensus       102 ~~SAktg~gi~eLf~~l~-~~~~~~~G~sgvGKStLiN~L~~~~~~~t~~i~~~~~~G~hTT~~~~l~~l-~~~~liDtP  179 (245)
T TIGR00157       102 MTSSKNQDGLKELIEALQ-NRISVFAGQSGVGKSSLINALDPSVKQQVNDISSKLGLGKHTTTHVELFHF-HGGLIADTP  179 (245)
T ss_pred             EEecCCchhHHHHHhhhc-CCEEEEECCCCCCHHHHHHHHhhhhhccccceeccCCCCCCcCCceEEEEc-CCcEEEeCC
Confidence            45666553  33344332 5689999999999999  9999988888887775       8999999999 467999999


Q ss_pred             CCCCCCCCC
Q psy3587          72 GLVFPSKVP   80 (195)
Q Consensus        72 GIv~p~~~~   80 (195)
                      |+..+.+..
T Consensus       180 G~~~~~l~~  188 (245)
T TIGR00157       180 GFNEFGLWH  188 (245)
T ss_pred             CccccCCCC
Confidence            999888754

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=98.99  E-value=1.9e-10  Score=101.88  Aligned_cols=59  Identities=15%  Similarity=0.055  Sum_probs=53.1

Q ss_pred             cCceEeecCCCCccCC--CCCCCCcccccCCCCC-------CccceeEEEecCCeEEecCCCCCCCCC
Q psy3587          20 TDNIRLCDCPGLVFPS--KVPKPLQVVSVSRTPG-------HTKHFQTIFLTDNIRLCDCPGLVFPSK   78 (195)
Q Consensus        20 ~~~v~vvG~PNVGKSs--N~L~~kk~v~vg~~PG-------vTk~~Q~i~l~~~i~LlDtPGIv~p~~   78 (195)
                      .+.++++|.|||||||  |+|.++..++||..++       +|++.+++.++.+.+|+||||+---.+
T Consensus       205 ~ki~~~vG~sgVGKSTLiN~Ll~~~~~~t~~is~~~~rGrHTT~~~~l~~l~~~~~liDTPGir~~~l  272 (347)
T PRK12288        205 GRISIFVGQSGVGKSSLINALLPEAEILVGDVSDNSGLGQHTTTAARLYHFPHGGDLIDSPGVREFGL  272 (347)
T ss_pred             hCCEEEECCCCCCHHHHHHHhccccceeeccccCcCCCCcCceeeEEEEEecCCCEEEECCCCCcccC
Confidence            4468999999999999  9999999999999998       589999999988889999999986544

>COG1160 Predicted GTPases [General function prediction only]

Probab=98.97  E-value=2e-10  Score=103.72  Aligned_cols=57  Identities=19%  Similarity=0.098  Sum_probs=50.2

Q ss_pred             CceEeecCCCCccCC--CCCCCCcccccCCCCCCccceeEE--Ee-cCCeEEecCCCCCCCC
Q psy3587          21 DNIRLCDCPGLVFPS--KVPKPLQVVSVSRTPGHTKHFQTI--FL-TDNIRLCDCPGLVFPS   77 (195)
Q Consensus        21 ~~v~vvG~PNVGKSs--N~L~~kk~v~vg~~PGvTk~~Q~i--~l-~~~i~LlDtPGIv~p~   77 (195)
                      ..|.|||-|||||||  |.|.+++.|=|+.+||+||.-..-  .+ +..+.|+||+|+..-+
T Consensus         4 ~~VAIVGRPNVGKSTLFNRL~g~r~AIV~D~pGvTRDr~y~~~~~~~~~f~lIDTgGl~~~~   65 (444)
T COG1160           4 PVVAIVGRPNVGKSTLFNRLTGRRIAIVSDTPGVTRDRIYGDAEWLGREFILIDTGGLDDGD   65 (444)
T ss_pred             CEEEEECCCCCcHHHHHHHHhCCeeeEeecCCCCccCCccceeEEcCceEEEEECCCCCcCC
Confidence            469999999999999  999999999999999999987663  33 5679999999999654

>KOG1423|consensus

Probab=98.97  E-value=3.9e-10  Score=97.78  Aligned_cols=58  Identities=21%  Similarity=0.215  Sum_probs=50.3

Q ss_pred             ceEeecCCCCccCC--CCCCCCcccccCCCCCCccceeEEEe---cCCeEEecCCCCCCCCCC
Q psy3587          22 NIRLCDCPGLVFPS--KVPKPLQVVSVSRTPGHTKHFQTIFL---TDNIRLCDCPGLVFPSKV   79 (195)
Q Consensus        22 ~v~vvG~PNVGKSs--N~L~~kk~v~vg~~PGvTk~~Q~i~l---~~~i~LlDtPGIv~p~~~   79 (195)
                      +|+|||.|||||||  |.+.|.|++.|+.++-.||+--.=.+   +-.+.++||||++-++..
T Consensus        74 ~vavIG~PNvGKStLtN~mig~kv~~vS~K~~TTr~~ilgi~ts~eTQlvf~DTPGlvs~~~~  136 (379)
T KOG1423|consen   74 YVAVIGAPNVGKSTLTNQMIGQKVSAVSRKVHTTRHRILGIITSGETQLVFYDTPGLVSKKMH  136 (379)
T ss_pred             EEEEEcCCCcchhhhhhHhhCCccccccccccceeeeeeEEEecCceEEEEecCCcccccchh
Confidence            79999999999999  99999999999999999987655333   237999999999998754

>PRK12298 obgE GTPase CgtA; Reviewed

Probab=98.95  E-value=7.4e-10  Score=99.56  Aligned_cols=70  Identities=19%  Similarity=0.199  Sum_probs=54.2

Q ss_pred             CCCccceeEEEEe--cCceEeecCCCCccCC--CCCCCCcccccCCCCCCccceeEEEe--c--CCeEEecCCCCCCCCC
Q psy3587           7 TPGHTKHFQTIFL--TDNIRLCDCPGLVFPS--KVPKPLQVVSVSRTPGHTKHFQTIFL--T--DNIRLCDCPGLVFPSK   78 (195)
Q Consensus         7 ~~g~tk~~q~~~l--~~~v~vvG~PNVGKSs--N~L~~kk~v~vg~~PGvTk~~Q~i~l--~--~~i~LlDtPGIv~p~~   78 (195)
                      .||+.+ +-.+.|  --.|+|||.|||||||  |+|.+.+. +|++.|+.|+....-.+  +  ..+.++||||+..+..
T Consensus       145 ~~g~~~-~~~lelk~iadValVG~PNaGKSTLln~Lt~~k~-~vs~~p~TT~~p~~Giv~~~~~~~i~~vDtPGi~~~a~  222 (390)
T PRK12298        145 TPGEER-ELKLELKLLADVGLLGLPNAGKSTFIRAVSAAKP-KVADYPFTTLVPNLGVVRVDDERSFVVADIPGLIEGAS  222 (390)
T ss_pred             CCCceE-EEEEeeeccccEEEEcCCCCCHHHHHHHHhCCcc-cccCCCCCccCcEEEEEEeCCCcEEEEEeCCCcccccc
Confidence            466666 333333  2389999999999999  99998774 99999999988777444  3  2599999999987653

>TIGR00436 era GTP-binding protein Era

Probab=98.86  E-value=1.3e-09  Score=92.78  Aligned_cols=56  Identities=14%  Similarity=0.129  Sum_probs=46.9

Q ss_pred             ceEeecCCCCccCC--CCCCCCcccccCCCCCCcccee-EEEe--cCCeEEecCCCCCCCC
Q psy3587          22 NIRLCDCPGLVFPS--KVPKPLQVVSVSRTPGHTKHFQ-TIFL--TDNIRLCDCPGLVFPS   77 (195)
Q Consensus        22 ~v~vvG~PNVGKSs--N~L~~kk~v~vg~~PGvTk~~Q-~i~l--~~~i~LlDtPGIv~p~   77 (195)
                      +|+++|.|||||||  |+|.+.+.+.|++.|+.|++.. .+..  +..+.++||||+..+.
T Consensus         2 ~V~liG~pnvGKSTLln~L~~~~~~~vs~~~~TTr~~i~~i~~~~~~qii~vDTPG~~~~~   62 (270)
T TIGR00436         2 FVAILGRPNVGKSTLLNQLHGQKISITSPKAQTTRNRISGIHTTGASQIIFIDTPGFHEKK   62 (270)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCcEeecCCCCCcccCcEEEEEEcCCcEEEEEECcCCCCCc
Confidence            48999999999999  9999999999999999998743 3333  2358999999998663

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

>cd01852 AIG1 AIG1 (avrRpt2-induced gene 1)

Probab=98.84  E-value=2.3e-09  Score=86.88  Aligned_cols=57  Identities=19%  Similarity=0.114  Sum_probs=48.4

Q ss_pred             ceEeecCCCCccCC--CCCCCCcccccCC-CCCCccceeEEEe---cCCeEEecCCCCCCCCC
Q psy3587          22 NIRLCDCPGLVFPS--KVPKPLQVVSVSR-TPGHTKHFQTIFL---TDNIRLCDCPGLVFPSK   78 (195)
Q Consensus        22 ~v~vvG~PNVGKSs--N~L~~kk~v~vg~-~PGvTk~~Q~i~l---~~~i~LlDtPGIv~p~~   78 (195)
                      +|+++|-||+||||  |+|.+++.+.++. .+|+|+..|....   +..+.++||||+..+..
T Consensus         2 ~i~lvG~~g~GKSsl~N~ilg~~~~~~~~~~~~~T~~~~~~~~~~~~~~i~viDTPG~~d~~~   64 (196)
T cd01852           2 RLVLVGKTGAGKSATGNTILGREVFESKLSASSVTKTCQKESAVWDGRRVNVIDTPGLFDTSV   64 (196)
T ss_pred             EEEEECCCCCCHHHHHHHhhCCCccccccCCCCcccccceeeEEECCeEEEEEECcCCCCccC
Confidence            68999999999999  9999998877764 6799999887643   45799999999998764

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).

>COG1084 Predicted GTPase [General function prediction only]

Probab=98.81  E-value=2.1e-09  Score=93.84  Aligned_cols=67  Identities=21%  Similarity=0.164  Sum_probs=55.1

Q ss_pred             ceeEEEEecC-ceEeecCCCCccCC--CCCCCCcccccCCCCCCccceeEEEec---CCeEEecCCCCCCCCCC
Q psy3587          12 KHFQTIFLTD-NIRLCDCPGLVFPS--KVPKPLQVVSVSRTPGHTKHFQTIFLT---DNIRLCDCPGLVFPSKV   79 (195)
Q Consensus        12 k~~q~~~l~~-~v~vvG~PNVGKSs--N~L~~kk~v~vg~~PGvTk~~Q~i~l~---~~i~LlDtPGIv~p~~~   79 (195)
                      |.+..|.++- .+.|+|+|||||||  +++.+.+ ..|++.|=.||+++.=+.+   ..+.++||||++.-.++
T Consensus       159 ~~LP~Idp~~pTivVaG~PNVGKSSlv~~lT~Ak-pEvA~YPFTTK~i~vGhfe~~~~R~QvIDTPGlLDRPl~  231 (346)
T COG1084         159 KKLPAIDPDLPTIVVAGYPNVGKSSLVRKLTTAK-PEVAPYPFTTKGIHVGHFERGYLRIQVIDTPGLLDRPLE  231 (346)
T ss_pred             hcCCCCCCCCCeEEEecCCCCcHHHHHHHHhcCC-CccCCCCccccceeEeeeecCCceEEEecCCcccCCChH
Confidence            4455666554 89999999999999  8888776 8999999999999885553   36999999999987664

>KOG2423|consensus

Probab=98.81  E-value=4.4e-10  Score=100.28  Aligned_cols=92  Identities=27%  Similarity=0.351  Sum_probs=63.7

Q ss_pred             CccccCCCCccceeEEEEecCceEeecCCCCccCC--C--CCCCCcccccCCCCCCccceeEEEecCCeEEecCCCCCCC
Q psy3587           1 VVSVSRTPGHTKHFQTIFLTDNIRLCDCPGLVFPS--K--VPKPLQVVSVSRTPGHTKHFQTIFLTDNIRLCDCPGLVFP   76 (195)
Q Consensus         1 ~~~v~~~~g~tk~~q~~~l~~~v~vvG~PNVGKSs--N--~L~~kk~v~vg~~PGvTk~~Q~i~l~~~i~LlDtPGIv~p   76 (195)
                      ||.|+++||+||+||+|.|+++|.+|+||||...|  +  .+..+.+|+|.+.-.---+++.+              +- 
T Consensus       332 VCkvAPIpGETKVWQYItLmkrIfLIDcPGvVyps~dset~ivLkGvVRVenv~~pe~yi~~v--------------l~-  396 (572)
T KOG2423|consen  332 VCKVAPIPGETKVWQYITLMKRIFLIDCPGVVYPSSDSETDIVLKGVVRVENVKNPEDYIDGV--------------LE-  396 (572)
T ss_pred             cccccCCCCcchHHHHHHHHhceeEecCCCccCCCCCchHHHHhhceeeeeecCCHHHHHHHH--------------HH-
Confidence            89999999999999999999999999999999998  3  47778888887743222222111              10 


Q ss_pred             CCCChhhhhhhCCCCCccccCHHHHHHHHHHHcC
Q psy3587          77 SKVPKPLQVLMGSFPIAQLREPYSTVQYLAERMD  110 (195)
Q Consensus        77 ~~~~~~~l~l~g~~~~~~i~d~~~~~~~l~~~~~  110 (195)
                      ...   .-.|.-.+.++.+.|...+++.|+.+-.
T Consensus       397 R~k---~ehl~rtYkI~~w~d~~dfle~La~k~G  427 (572)
T KOG2423|consen  397 RCK---PEHLSRTYKISGWNDSTDFLEKLAIKQG  427 (572)
T ss_pred             hhh---HHHHHhhhCCCccccHHHHHHHHHHHhC
Confidence            000   0234455666667777667776666543

>PRK00098 GTPase RsgA; Reviewed

Probab=98.77  E-value=2e-09  Score=93.31  Aligned_cols=72  Identities=17%  Similarity=0.128  Sum_probs=58.0

Q ss_pred             cccCCCCc--cceeEEEEecCceEeecCCCCccCC--CCCCCCcccccCCCCC-------CccceeEEEecCCeEEecCC
Q psy3587           3 SVSRTPGH--TKHFQTIFLTDNIRLCDCPGLVFPS--KVPKPLQVVSVSRTPG-------HTKHFQTIFLTDNIRLCDCP   71 (195)
Q Consensus         3 ~v~~~~g~--tk~~q~~~l~~~v~vvG~PNVGKSs--N~L~~kk~v~vg~~PG-------vTk~~Q~i~l~~~i~LlDtP   71 (195)
                      .+|+..|.  ..-++.+. .+.++++|.|||||||  |+|.+.....+|..++       .|++.+++.++...+|+|||
T Consensus       146 ~vSA~~g~gi~~L~~~l~-gk~~~~~G~sgvGKStlin~l~~~~~~~~g~v~~~~~~G~htT~~~~~~~~~~~~~~~Dtp  224 (298)
T PRK00098        146 ELSAKEGEGLDELKPLLA-GKVTVLAGQSGVGKSTLLNALAPDLELKTGEISEALGRGKHTTTHVELYDLPGGGLLIDTP  224 (298)
T ss_pred             EEeCCCCccHHHHHhhcc-CceEEEECCCCCCHHHHHHHHhCCcCCCCcceeccCCCCCcccccEEEEEcCCCcEEEECC
Confidence            45555543  22333333 6689999999999999  9999998899998887       78999999998889999999


Q ss_pred             CCCC
Q psy3587          72 GLVF   75 (195)
Q Consensus        72 GIv~   75 (195)
                      |+-.
T Consensus       225 G~~~  228 (298)
T PRK00098        225 GFSS  228 (298)
T ss_pred             CcCc
Confidence            9974

>PRK09601 GTP-binding protein YchF; Reviewed

Probab=98.75  E-value=4.1e-09  Score=93.87  Aligned_cols=55  Identities=16%  Similarity=0.133  Sum_probs=45.9

Q ss_pred             CceEeecCCCCccCC--CCCCCCcccccCCCCCCccceeE--EEecC------------------CeEEecCCCCCCC
Q psy3587          21 DNIRLCDCPGLVFPS--KVPKPLQVVSVSRTPGHTKHFQT--IFLTD------------------NIRLCDCPGLVFP   76 (195)
Q Consensus        21 ~~v~vvG~PNVGKSs--N~L~~kk~v~vg~~PGvTk~~Q~--i~l~~------------------~i~LlDtPGIv~p   76 (195)
                      -+++|||.|||||||  |+|.+.+ +.+++.||.|+....  +.+..                  .+.|+|+||++..
T Consensus         3 ~~vgIVG~PNvGKSTLfnaLt~~~-~~v~nypftTi~p~~G~~~v~d~r~~~l~~~~~p~~~~~a~i~lvD~pGL~~~   79 (364)
T PRK09601          3 LKCGIVGLPNVGKSTLFNALTKAG-AEAANYPFCTIEPNVGVVPVPDPRLDKLAEIVKPKKIVPATIEFVDIAGLVKG   79 (364)
T ss_pred             cEEEEECCCCCCHHHHHHHHhCCC-CeecccccccccceEEEEEeccccchhhHHhcCCccccCceEEEEECCCCCCC
Confidence            369999999999999  9999988 799999999977653  33322                  4999999999954

>cd01900 YchF YchF subfamily

Probab=98.75  E-value=3.7e-09  Score=90.93  Aligned_cols=54  Identities=19%  Similarity=0.193  Sum_probs=44.8

Q ss_pred             eEeecCCCCccCC--CCCCCCcccccCCCCCCccceeE--EEecC------------------CeEEecCCCCCCCC
Q psy3587          23 IRLCDCPGLVFPS--KVPKPLQVVSVSRTPGHTKHFQT--IFLTD------------------NIRLCDCPGLVFPS   77 (195)
Q Consensus        23 v~vvG~PNVGKSs--N~L~~kk~v~vg~~PGvTk~~Q~--i~l~~------------------~i~LlDtPGIv~p~   77 (195)
                      ++|||.|||||||  |+|.+.+. .+++.|+.|+....  +.+..                  .+.++|+||++...
T Consensus         1 igivG~PN~GKSTLfn~Lt~~~~-~~~n~pftTi~p~~g~v~v~d~r~~~l~~~~~~~k~~~~~i~lvD~pGl~~~a   76 (274)
T cd01900           1 IGIVGLPNVGKSTLFNALTKAGA-EAANYPFCTIEPNVGIVPVPDERLDKLAEIVKPKKIVPATIEFVDIAGLVKGA   76 (274)
T ss_pred             CeEeCCCCCcHHHHHHHHhCCCC-ccccccccchhceeeeEEeccchhhhHHHHhCCceeeeeEEEEEECCCcCCCC
Confidence            5899999999999  99999987 99999999977665  23322                  39999999999543

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.

>PRK00454 engB GTP-binding protein YsxC; Reviewed

Probab=98.73  E-value=6e-09  Score=83.22  Aligned_cols=56  Identities=23%  Similarity=0.370  Sum_probs=50.3

Q ss_pred             ceEeecCCCCccCC--CCCCCCc-ccccCCCCCCccceeEEEecCCeEEecCCCCCCCC
Q psy3587          22 NIRLCDCPGLVFPS--KVPKPLQ-VVSVSRTPGHTKHFQTIFLTDNIRLCDCPGLVFPS   77 (195)
Q Consensus        22 ~v~vvG~PNVGKSs--N~L~~kk-~v~vg~~PGvTk~~Q~i~l~~~i~LlDtPGIv~p~   77 (195)
                      +|+++|-+|+||||  |+|.+++ .+.+++.||.|+.+++..++.++.|+||||+....
T Consensus        26 ~v~ivG~~~~GKSsli~~l~~~~~~~~~~~~~~~t~~~~~~~~~~~l~l~DtpG~~~~~   84 (196)
T PRK00454         26 EIAFAGRSNVGKSSLINALTNRKNLARTSKTPGRTQLINFFEVNDKLRLVDLPGYGYAK   84 (196)
T ss_pred             EEEEEcCCCCCHHHHHHHHhCCCCcccccCCCCceeEEEEEecCCeEEEeCCCCCCCcC
Confidence            79999999999999  9998875 88999999999999998888899999999976543

>COG0486 ThdF Predicted GTPase [General function prediction only]

Probab=98.73  E-value=5.2e-09  Score=94.89  Aligned_cols=54  Identities=17%  Similarity=0.142  Sum_probs=49.1

Q ss_pred             ceEeecCCCCccCC--CCCCCCcccccCCCCCCccceeEEEe--c-CCeEEecCCCCCC
Q psy3587          22 NIRLCDCPGLVFPS--KVPKPLQVVSVSRTPGHTKHFQTIFL--T-DNIRLCDCPGLVF   75 (195)
Q Consensus        22 ~v~vvG~PNVGKSs--N~L~~kk~v~vg~~PGvTk~~Q~i~l--~-~~i~LlDtPGIv~   75 (195)
                      ++.|+|.|||||||  |+|.++..|=|...||.||.+=...+  + -.+.|+||-||=.
T Consensus       219 kvvIiG~PNvGKSSLLNaL~~~d~AIVTdI~GTTRDviee~i~i~G~pv~l~DTAGiRe  277 (454)
T COG0486         219 KVVIIGRPNVGKSSLLNALLGRDRAIVTDIAGTTRDVIEEDINLNGIPVRLVDTAGIRE  277 (454)
T ss_pred             eEEEECCCCCcHHHHHHHHhcCCceEecCCCCCccceEEEEEEECCEEEEEEecCCccc
Confidence            89999999999999  99999999999999999999887554  3 4799999999984

>PRK12299 obgE GTPase CgtA; Reviewed

Probab=98.72  E-value=1e-08  Score=90.48  Aligned_cols=69  Identities=17%  Similarity=0.250  Sum_probs=53.6

Q ss_pred             CCCccceeE-EEEecCceEeecCCCCccCC--CCCCCCcccccCCCCCCccceeEE--Ee-c-CCeEEecCCCCCCC
Q psy3587           7 TPGHTKHFQ-TIFLTDNIRLCDCPGLVFPS--KVPKPLQVVSVSRTPGHTKHFQTI--FL-T-DNIRLCDCPGLVFP   76 (195)
Q Consensus         7 ~~g~tk~~q-~~~l~~~v~vvG~PNVGKSs--N~L~~kk~v~vg~~PGvTk~~Q~i--~l-~-~~i~LlDtPGIv~p   76 (195)
                      +||+.+.+. ++.+--.|+|||+||+||||  |+|.+.+ .++++.|+.|+..+.-  .+ + ..+.+.|+||++..
T Consensus       144 ~~g~~~~~~lelk~~adVglVG~PNaGKSTLln~ls~a~-~~va~ypfTT~~p~~G~v~~~~~~~~~i~D~PGli~g  219 (335)
T PRK12299        144 EPGEERWLRLELKLLADVGLVGLPNAGKSTLISAVSAAK-PKIADYPFTTLHPNLGVVRVDDYKSFVIADIPGLIEG  219 (335)
T ss_pred             CCCcEEEEEEEEcccCCEEEEcCCCCCHHHHHHHHHcCC-CccCCCCCceeCceEEEEEeCCCcEEEEEeCCCccCC
Confidence            577777433 33344489999999999999  9998866 5699999999988774  34 2 36999999999853

>PTZ00258 GTP-binding protein; Provisional

Probab=98.72  E-value=6.9e-09  Score=93.28  Aligned_cols=55  Identities=18%  Similarity=0.159  Sum_probs=45.1

Q ss_pred             ceEeecCCCCccCC--CCCCCCcccccCCCCCCccceeEE--Eec------------------CCeEEecCCCCCCCC
Q psy3587          22 NIRLCDCPGLVFPS--KVPKPLQVVSVSRTPGHTKHFQTI--FLT------------------DNIRLCDCPGLVFPS   77 (195)
Q Consensus        22 ~v~vvG~PNVGKSs--N~L~~kk~v~vg~~PGvTk~~Q~i--~l~------------------~~i~LlDtPGIv~p~   77 (195)
                      +++|||.|||||||  |+|.+.+ +.+++.||.|+....-  .+.                  -.+.++||||++...
T Consensus        23 kvgIVG~PNvGKSTLfnaLt~~~-~~v~n~pftTi~p~~g~v~~~d~r~~~l~~~~~~~~~~~aqi~lvDtpGLv~ga   99 (390)
T PTZ00258         23 KMGIVGLPNVGKSTTFNALCKQQ-VPAENFPFCTIDPNTARVNVPDERFDWLCKHFKPKSIVPAQLDITDIAGLVKGA   99 (390)
T ss_pred             EEEEECCCCCChHHHHHHHhcCc-ccccCCCCCcccceEEEEecccchhhHHHHHcCCcccCCCCeEEEECCCcCcCC
Confidence            79999999999999  9997776 6999999999775552  222                  248999999999654

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

Probab=98.71  E-value=8.2e-09  Score=82.18  Aligned_cols=56  Identities=23%  Similarity=0.357  Sum_probs=49.7

Q ss_pred             ceEeecCCCCccCC--CCCCCCc-ccccCCCCCCccceeEEEecCCeEEecCCCCCCCC
Q psy3587          22 NIRLCDCPGLVFPS--KVPKPLQ-VVSVSRTPGHTKHFQTIFLTDNIRLCDCPGLVFPS   77 (195)
Q Consensus        22 ~v~vvG~PNVGKSs--N~L~~kk-~v~vg~~PGvTk~~Q~i~l~~~i~LlDtPGIv~p~   77 (195)
                      +|+|+|.+|+||||  |.|.+.+ ...+++.||.|++.++...++++.++||||+-...
T Consensus        20 ~i~ivG~~~~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~liDtpG~~~~~   78 (179)
T TIGR03598        20 EIAFAGRSNVGKSSLINALTNRKKLARTSKTPGRTQLINFFEVNDGFRLVDLPGYGYAK   78 (179)
T ss_pred             EEEEEcCCCCCHHHHHHHHhCCCCcccccCCCCcceEEEEEEeCCcEEEEeCCCCcccc
Confidence            89999999999999  9998875 78899999999999988777889999999975543

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.

>TIGR03594 GTPase_EngA ribosome-associated GTPase EngA

Probab=98.70  E-value=7.9e-09  Score=92.94  Aligned_cols=54  Identities=19%  Similarity=0.094  Sum_probs=47.0

Q ss_pred             ceEeecCCCCccCC--CCCCCCcccccCCCCCCccceeEEEe---cCCeEEecCCCCCC
Q psy3587          22 NIRLCDCPGLVFPS--KVPKPLQVVSVSRTPGHTKHFQTIFL---TDNIRLCDCPGLVF   75 (195)
Q Consensus        22 ~v~vvG~PNVGKSs--N~L~~kk~v~vg~~PGvTk~~Q~i~l---~~~i~LlDtPGIv~   75 (195)
                      +|+++|-|||||||  |.|.+++.+.+++.||+|+..+...+   +..+.|+||||+..
T Consensus         1 ~i~ivG~~nvGKStL~n~l~~~~~~~v~~~~g~t~d~~~~~~~~~~~~~~liDTpG~~~   59 (429)
T TIGR03594         1 VVAIVGRPNVGKSTLFNRLTGKRDAIVSDTPGVTRDRKYGDAEWGGREFILIDTGGIEE   59 (429)
T ss_pred             CEEEECCCCCCHHHHHHHHhCCCcceecCCCCcccCceEEEEEECCeEEEEEECCCCCC
Confidence            48999999999999  99999998999999999998776543   45799999999853

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.

>PRK12297 obgE GTPase CgtA; Reviewed

Probab=98.68  E-value=1.6e-08  Score=91.95  Aligned_cols=67  Identities=16%  Similarity=0.198  Sum_probs=52.3

Q ss_pred             CCCccceeEEEEe--cCceEeecCCCCccCC--CCCCCCcccccCCCCCCccceeEEEe----cCCeEEecCCCCCC
Q psy3587           7 TPGHTKHFQTIFL--TDNIRLCDCPGLVFPS--KVPKPLQVVSVSRTPGHTKHFQTIFL----TDNIRLCDCPGLVF   75 (195)
Q Consensus         7 ~~g~tk~~q~~~l--~~~v~vvG~PNVGKSs--N~L~~kk~v~vg~~PGvTk~~Q~i~l----~~~i~LlDtPGIv~   75 (195)
                      +||+++. -.+.|  --.|++||.|||||||  |+|.+.+ .++++.|+.|...+.-.+    +..+.|.|+||+..
T Consensus       144 ~~ge~~~-~~lelk~~adVglVG~pNaGKSTLLn~Lt~ak-~kIa~ypfTTl~PnlG~v~~~~~~~~~laD~PGlie  218 (424)
T PRK12297        144 EPGEERE-LRLELKLLADVGLVGFPNVGKSTLLSVVSNAK-PKIANYHFTTLVPNLGVVETDDGRSFVMADIPGLIE  218 (424)
T ss_pred             CCCeEeE-EEEeecccCcEEEEcCCCCCHHHHHHHHHcCC-CccccCCcceeceEEEEEEEeCCceEEEEECCCCcc
Confidence            5677773 33333  3389999999999999  9998876 578999999998876433    35799999999975

>PRK12296 obgE GTPase CgtA; Reviewed

Probab=98.60  E-value=3.7e-08  Score=91.03  Aligned_cols=69  Identities=16%  Similarity=0.176  Sum_probs=51.9

Q ss_pred             CCCccceeE-EEEecCceEeecCCCCccCC--CCCCCCcccccCCCCCCccceeEE--Ee-cCCeEEecCCCCCCC
Q psy3587           7 TPGHTKHFQ-TIFLTDNIRLCDCPGLVFPS--KVPKPLQVVSVSRTPGHTKHFQTI--FL-TDNIRLCDCPGLVFP   76 (195)
Q Consensus         7 ~~g~tk~~q-~~~l~~~v~vvG~PNVGKSs--N~L~~kk~v~vg~~PGvTk~~Q~i--~l-~~~i~LlDtPGIv~p   76 (195)
                      .||+++.+. ++++--.|+|||+||+||||  |+|.+.+ .++++.|+.|+....-  .+ +..+.+.|+||++..
T Consensus       145 ~~Ge~~~~~leLk~~adV~LVG~PNAGKSTLln~Ls~ak-pkIadypfTTl~P~lGvv~~~~~~f~laDtPGlieg  219 (500)
T PRK12296        145 EPGEERDLVLELKSVADVGLVGFPSAGKSSLISALSAAK-PKIADYPFTTLVPNLGVVQAGDTRFTVADVPGLIPG  219 (500)
T ss_pred             CCCceEEEEEEecccceEEEEEcCCCCHHHHHHHHhcCC-ccccccCcccccceEEEEEECCeEEEEEECCCCccc
Confidence            577777321 23333489999999999999  9998865 4689999999876553  33 347999999999853

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

Probab=98.58  E-value=2.8e-08  Score=84.40  Aligned_cols=60  Identities=15%  Similarity=0.047  Sum_probs=51.3

Q ss_pred             EecCceEeecCCCCccCC--CCCCCCcccccCCCCCCccceeEEEe---cCCeEEecCCCCCCCC
Q psy3587          18 FLTDNIRLCDCPGLVFPS--KVPKPLQVVSVSRTPGHTKHFQTIFL---TDNIRLCDCPGLVFPS   77 (195)
Q Consensus        18 ~l~~~v~vvG~PNVGKSs--N~L~~kk~v~vg~~PGvTk~~Q~i~l---~~~i~LlDtPGIv~p~   77 (195)
                      .-..+|+|+|-+||||||  |+|.+...+.++..++.|+..+....   +..+.++||||+....
T Consensus        29 ~~~~~IllvG~tGvGKSSliNaLlg~~~~~v~~~~~~T~~~~~~~~~~~g~~i~vIDTPGl~~~~   93 (249)
T cd01853          29 DFSLTILVLGKTGVGKSSTINSIFGERKAATSAFQSETLRVREVSGTVDGFKLNIIDTPGLLESV   93 (249)
T ss_pred             cCCeEEEEECCCCCcHHHHHHHHhCCCCcccCCCCCceEEEEEEEEEECCeEEEEEECCCcCcch
Confidence            334589999999999999  99999999999999999998887654   3479999999988664

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.

>PRK00089 era GTPase Era; Reviewed

Probab=98.58  E-value=3.2e-08  Score=84.87  Aligned_cols=56  Identities=21%  Similarity=0.288  Sum_probs=47.3

Q ss_pred             ceEeecCCCCccCC--CCCCCCcccccCCCCCCccceeE-EEe-c-CCeEEecCCCCCCCC
Q psy3587          22 NIRLCDCPGLVFPS--KVPKPLQVVSVSRTPGHTKHFQT-IFL-T-DNIRLCDCPGLVFPS   77 (195)
Q Consensus        22 ~v~vvG~PNVGKSs--N~L~~kk~v~vg~~PGvTk~~Q~-i~l-~-~~i~LlDtPGIv~p~   77 (195)
                      .|+|+|-||+||||  |+|.+.+.+.+++.|+.|+.... +.. + .++.++||||+..+.
T Consensus         7 ~V~iiG~pn~GKSTLin~L~g~~~~~vs~~~~tt~~~i~~i~~~~~~qi~~iDTPG~~~~~   67 (292)
T PRK00089          7 FVAIVGRPNVGKSTLLNALVGQKISIVSPKPQTTRHRIRGIVTEDDAQIIFVDTPGIHKPK   67 (292)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCceeecCCCCCcccccEEEEEEcCCceEEEEECCCCCCch
Confidence            48999999999999  99999999999999999987543 322 2 379999999997665

>PRK04213 GTP-binding protein; Provisional

Probab=98.57  E-value=3e-08  Score=79.92  Aligned_cols=51  Identities=20%  Similarity=0.245  Sum_probs=45.1

Q ss_pred             CceEeecCCCCccCC--CCCCCCcccccCCCCCCccceeEEEecCCeEEecCCCC
Q psy3587          21 DNIRLCDCPGLVFPS--KVPKPLQVVSVSRTPGHTKHFQTIFLTDNIRLCDCPGL   73 (195)
Q Consensus        21 ~~v~vvG~PNVGKSs--N~L~~kk~v~vg~~PGvTk~~Q~i~l~~~i~LlDtPGI   73 (195)
                      .+|+++|.|||||||  |+|.+.+ ..++..||+|+....+.+. ++.++||||+
T Consensus        10 ~~i~i~G~~~~GKSsLin~l~~~~-~~~~~~~~~t~~~~~~~~~-~~~l~Dt~G~   62 (201)
T PRK04213         10 PEIVFVGRSNVGKSTLVRELTGKK-VRVGKRPGVTRKPNHYDWG-DFILTDLPGF   62 (201)
T ss_pred             CEEEEECCCCCCHHHHHHHHhCCC-CccCCCCceeeCceEEeec-ceEEEeCCcc
Confidence            379999999999999  9998876 6799999999988777665 7999999997

>PRK15494 era GTPase Era; Provisional

Probab=98.55  E-value=4.7e-08  Score=86.30  Aligned_cols=55  Identities=18%  Similarity=0.169  Sum_probs=47.1

Q ss_pred             ceEeecCCCCccCC--CCCCCCcccccCCCCCCccceeEE--Ee-cCCeEEecCCCCCCC
Q psy3587          22 NIRLCDCPGLVFPS--KVPKPLQVVSVSRTPGHTKHFQTI--FL-TDNIRLCDCPGLVFP   76 (195)
Q Consensus        22 ~v~vvG~PNVGKSs--N~L~~kk~v~vg~~PGvTk~~Q~i--~l-~~~i~LlDtPGIv~p   76 (195)
                      +|.++|.|||||||  |.|.+.+.+-++++|+.|++...-  .. +..+.++||||+..+
T Consensus        54 kV~ivG~~nvGKSTLin~l~~~k~~ivs~k~~tTr~~~~~~~~~~~~qi~~~DTpG~~~~  113 (339)
T PRK15494         54 SVCIIGRPNSGKSTLLNRIIGEKLSIVTPKVQTTRSIITGIITLKDTQVILYDTPGIFEP  113 (339)
T ss_pred             EEEEEcCCCCCHHHHHHHHhCCceeeccCCCCCccCcEEEEEEeCCeEEEEEECCCcCCC
Confidence            89999999999999  999999998999999999876542  33 347999999999754

>TIGR02729 Obg_CgtA Obg family GTPase CgtA

Probab=98.54  E-value=7.5e-08  Score=84.78  Aligned_cols=69  Identities=16%  Similarity=0.229  Sum_probs=51.7

Q ss_pred             CCCcccee-EEEEecCceEeecCCCCccCC--CCCCCCcccccCCCCCCccceeE--EEec--CCeEEecCCCCCCC
Q psy3587           7 TPGHTKHF-QTIFLTDNIRLCDCPGLVFPS--KVPKPLQVVSVSRTPGHTKHFQT--IFLT--DNIRLCDCPGLVFP   76 (195)
Q Consensus         7 ~~g~tk~~-q~~~l~~~v~vvG~PNVGKSs--N~L~~kk~v~vg~~PGvTk~~Q~--i~l~--~~i~LlDtPGIv~p   76 (195)
                      +||+++.+ -++.+--.|++||.||+||||  |+|.+.+ .++++.|+.|...+.  +.++  ..+.|+|+||++..
T Consensus       143 ~~g~~~~~~lelk~~adV~lvG~pnaGKSTLl~~lt~~~-~~va~y~fTT~~p~ig~v~~~~~~~~~i~D~PGli~~  218 (329)
T TIGR02729       143 EPGEERWLRLELKLLADVGLVGLPNAGKSTLISAVSAAK-PKIADYPFTTLVPNLGVVRVDDGRSFVIADIPGLIEG  218 (329)
T ss_pred             CCCcEEEEEEEeeccccEEEEcCCCCCHHHHHHHHhcCC-ccccCCCCCccCCEEEEEEeCCceEEEEEeCCCcccC
Confidence            56777632 222333389999999999999  9998765 469999999987665  3443  47999999999743

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=98.52  E-value=5.8e-08  Score=87.95  Aligned_cols=56  Identities=21%  Similarity=0.151  Sum_probs=49.7

Q ss_pred             ceEeecCCCCccCC--CCCCCCcccccCCCCCCccceeEEEe---cCCeEEecCCCCCCCC
Q psy3587          22 NIRLCDCPGLVFPS--KVPKPLQVVSVSRTPGHTKHFQTIFL---TDNIRLCDCPGLVFPS   77 (195)
Q Consensus        22 ~v~vvG~PNVGKSs--N~L~~kk~v~vg~~PGvTk~~Q~i~l---~~~i~LlDtPGIv~p~   77 (195)
                      +++|||-|||||||  |+|.+...+=|++.||.||..=.+.+   +..+.|+||=|+=-..
T Consensus       180 kiaiiGrPNvGKSsLiN~ilgeeR~Iv~~~aGTTRD~I~~~~e~~~~~~~liDTAGiRrk~  240 (444)
T COG1160         180 KIAIIGRPNVGKSSLINAILGEERVIVSDIAGTTRDSIDIEFERDGRKYVLIDTAGIRRKG  240 (444)
T ss_pred             EEEEEeCCCCCchHHHHHhccCceEEecCCCCccccceeeeEEECCeEEEEEECCCCCccc
Confidence            79999999999999  99999999999999999998766654   4689999999987543

>KOG1191|consensus

Probab=98.50  E-value=3.1e-08  Score=90.36  Aligned_cols=61  Identities=21%  Similarity=0.183  Sum_probs=53.1

Q ss_pred             EEEEecCceEeecCCCCccCC--CCCCCCcccccCCCCCCccceeEEEec---CCeEEecCCCCCC
Q psy3587          15 QTIFLTDNIRLCDCPGLVFPS--KVPKPLQVVSVSRTPGHTKHFQTIFLT---DNIRLCDCPGLVF   75 (195)
Q Consensus        15 q~~~l~~~v~vvG~PNVGKSs--N~L~~kk~v~vg~~PGvTk~~Q~i~l~---~~i~LlDtPGIv~   75 (195)
                      +.++..-++.|+|-|||||||  |+|.+.-.+=|++.||.||.-=...++   -.++|+||-||-.
T Consensus       263 e~lq~gl~iaIvGrPNvGKSSLlNaL~~~drsIVSpv~GTTRDaiea~v~~~G~~v~L~DTAGiRe  328 (531)
T KOG1191|consen  263 ERLQSGLQIAIVGRPNVGKSSLLNALSREDRSIVSPVPGTTRDAIEAQVTVNGVPVRLSDTAGIRE  328 (531)
T ss_pred             HHhhcCCeEEEEcCCCCCHHHHHHHHhcCCceEeCCCCCcchhhheeEeecCCeEEEEEecccccc
Confidence            344555689999999999999  999999999999999999988776553   4799999999998

>PRK03003 GTP-binding protein Der; Reviewed

Probab=98.49  E-value=7e-08  Score=88.60  Aligned_cols=54  Identities=13%  Similarity=0.083  Sum_probs=46.7

Q ss_pred             CceEeecCCCCccCC--CCCCCCcccccCCCCCCccceeEEEe---cCCeEEecCCCCC
Q psy3587          21 DNIRLCDCPGLVFPS--KVPKPLQVVSVSRTPGHTKHFQTIFL---TDNIRLCDCPGLV   74 (195)
Q Consensus        21 ~~v~vvG~PNVGKSs--N~L~~kk~v~vg~~PGvTk~~Q~i~l---~~~i~LlDtPGIv   74 (195)
                      .+|+|||.|||||||  |+|.+++.+.++..||+|+......+   +..+.|+||||.-
T Consensus        39 ~~V~IvG~~nvGKSSL~nrl~~~~~~~v~~~~gvT~d~~~~~~~~~~~~~~l~DT~G~~   97 (472)
T PRK03003         39 PVVAVVGRPNVGKSTLVNRILGRREAVVEDVPGVTRDRVSYDAEWNGRRFTVVDTGGWE   97 (472)
T ss_pred             CEEEEEcCCCCCHHHHHHHHhCcCcccccCCCCCCEeeEEEEEEECCcEEEEEeCCCcC
Confidence            369999999999999  99999888899999999988766543   3468999999976

>cd01854 YjeQ_engC YjeQ/EngC

Probab=98.48  E-value=6.3e-08  Score=83.60  Aligned_cols=58  Identities=17%  Similarity=0.084  Sum_probs=48.3

Q ss_pred             cCceEeecCCCCccCC--CCCCCCcccccCCCC-------CCccceeEEEecCCeEEecCCCCCCCC
Q psy3587          20 TDNIRLCDCPGLVFPS--KVPKPLQVVSVSRTP-------GHTKHFQTIFLTDNIRLCDCPGLVFPS   77 (195)
Q Consensus        20 ~~~v~vvG~PNVGKSs--N~L~~kk~v~vg~~P-------GvTk~~Q~i~l~~~i~LlDtPGIv~p~   77 (195)
                      .+.++++|.+||||||  |.|.+.....+|..+       ++|++.+++.++...+|+||||+-...
T Consensus       161 ~k~~~~~G~sg~GKSTlin~l~~~~~~~~g~v~~~~~~g~~tT~~~~~~~~~~~~~liDtPG~~~~~  227 (287)
T cd01854         161 GKTSVLVGQSGVGKSTLINALLPDLDLATGEISEKLGRGRHTTTHRELFPLPGGGLLIDTPGFREFG  227 (287)
T ss_pred             cceEEEECCCCCCHHHHHHHHhchhhccccceeccCCCCCcccceEEEEEcCCCCEEEECCCCCccC
Confidence            4689999999999999  999887666665443       489999999998788999999996544

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.

>PRK00093 GTP-binding protein Der; Reviewed

Probab=98.48  E-value=7.1e-08  Score=87.06  Aligned_cols=55  Identities=16%  Similarity=0.065  Sum_probs=47.8

Q ss_pred             CceEeecCCCCccCC--CCCCCCcccccCCCCCCccceeEEEe---cCCeEEecCCCCCC
Q psy3587          21 DNIRLCDCPGLVFPS--KVPKPLQVVSVSRTPGHTKHFQTIFL---TDNIRLCDCPGLVF   75 (195)
Q Consensus        21 ~~v~vvG~PNVGKSs--N~L~~kk~v~vg~~PGvTk~~Q~i~l---~~~i~LlDtPGIv~   75 (195)
                      .+|+++|.|||||||  |.|.+++.+.++..||+|+..+.-.+   +..+.|+||||+..
T Consensus         2 ~~I~ivG~~~vGKStL~n~l~~~~~~~v~~~~~~t~d~~~~~~~~~~~~~~liDT~G~~~   61 (435)
T PRK00093          2 PVVAIVGRPNVGKSTLFNRLTGKRDAIVADTPGVTRDRIYGEAEWLGREFILIDTGGIEP   61 (435)
T ss_pred             CEEEEECCCCCCHHHHHHHHhCCCceeeCCCCCCcccceEEEEEECCcEEEEEECCCCCC
Confidence            368999999999999  99999998899999999998776433   45799999999985

>cd01898 Obg Obg subfamily

Probab=98.44  E-value=9.3e-08  Score=74.25  Aligned_cols=52  Identities=15%  Similarity=0.155  Sum_probs=41.7

Q ss_pred             ceEeecCCCCccCC--CCCCCCcccccCCCCCCccceeEE--Ee-cC-CeEEecCCCCC
Q psy3587          22 NIRLCDCPGLVFPS--KVPKPLQVVSVSRTPGHTKHFQTI--FL-TD-NIRLCDCPGLV   74 (195)
Q Consensus        22 ~v~vvG~PNVGKSs--N~L~~kk~v~vg~~PGvTk~~Q~i--~l-~~-~i~LlDtPGIv   74 (195)
                      +|+++|.||+||||  |+|.+... .|+..||.|+..+.-  .+ +. .+.|+||||+.
T Consensus         2 ~v~ivG~~~~GKStl~~~l~~~~~-~v~~~~~~t~~~~~~~~~~~~~~~~~l~DtpG~~   59 (170)
T cd01898           2 DVGLVGLPNAGKSTLLSAISNAKP-KIADYPFTTLVPNLGVVRVDDGRSFVVADIPGLI   59 (170)
T ss_pred             CeEEECCCCCCHHHHHHHHhcCCc-cccCCCccccCCcceEEEcCCCCeEEEEecCccc
Confidence            58999999999999  99987654 788899988765543  22 33 78999999985

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.

>PRK05291 trmE tRNA modification GTPase TrmE; Reviewed

Probab=98.43  E-value=1.1e-07  Score=86.91  Aligned_cols=55  Identities=18%  Similarity=0.131  Sum_probs=46.9

Q ss_pred             CceEeecCCCCccCC--CCCCCCcccccCCCCCCccceeEE--Eec-CCeEEecCCCCCC
Q psy3587          21 DNIRLCDCPGLVFPS--KVPKPLQVVSVSRTPGHTKHFQTI--FLT-DNIRLCDCPGLVF   75 (195)
Q Consensus        21 ~~v~vvG~PNVGKSs--N~L~~kk~v~vg~~PGvTk~~Q~i--~l~-~~i~LlDtPGIv~   75 (195)
                      .+|.++|.|||||||  |+|.+.+.+-+++.||.|+.....  .++ ..+.|+||||+-.
T Consensus       216 ~kV~ivG~~nvGKSSLln~L~~~~~a~v~~~~gtT~d~~~~~i~~~g~~i~l~DT~G~~~  275 (449)
T PRK05291        216 LKVVIAGRPNVGKSSLLNALLGEERAIVTDIAGTTRDVIEEHINLDGIPLRLIDTAGIRE  275 (449)
T ss_pred             CEEEEECCCCCCHHHHHHHHhCCCCcccCCCCCcccccEEEEEEECCeEEEEEeCCCCCC
Confidence            379999999999999  999998888899999999987654  333 4699999999864

>PRK09518 bifunctional cytidylate kinase/GTPase Der; Reviewed

Probab=98.40  E-value=1.1e-07  Score=91.31  Aligned_cols=54  Identities=17%  Similarity=0.139  Sum_probs=47.3

Q ss_pred             ceEeecCCCCccCC--CCCCCCcccccCCCCCCccceeEEEe---cCCeEEecCCCCCC
Q psy3587          22 NIRLCDCPGLVFPS--KVPKPLQVVSVSRTPGHTKHFQTIFL---TDNIRLCDCPGLVF   75 (195)
Q Consensus        22 ~v~vvG~PNVGKSs--N~L~~kk~v~vg~~PGvTk~~Q~i~l---~~~i~LlDtPGIv~   75 (195)
                      +|+|+|.|||||||  |.|.+++.+.|+..||+|+.......   +..+.|+||||+..
T Consensus       277 ~V~IvG~~nvGKSSL~n~l~~~~~~iv~~~pGvT~d~~~~~~~~~~~~~~liDT~G~~~  335 (712)
T PRK09518        277 VVAIVGRPNVGKSTLVNRILGRREAVVEDTPGVTRDRVSYDAEWAGTDFKLVDTGGWEA  335 (712)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCCceeecCCCCeeEEEEEEEEEECCEEEEEEeCCCcCC
Confidence            69999999999999  99999998999999999998776543   34799999999764

>TIGR00450 mnmE_trmE_thdF tRNA modification GTPase TrmE

Probab=98.39  E-value=1.5e-07  Score=85.91  Aligned_cols=56  Identities=20%  Similarity=0.113  Sum_probs=47.2

Q ss_pred             cCceEeecCCCCccCC--CCCCCCcccccCCCCCCccceeEE--Eec-CCeEEecCCCCCC
Q psy3587          20 TDNIRLCDCPGLVFPS--KVPKPLQVVSVSRTPGHTKHFQTI--FLT-DNIRLCDCPGLVF   75 (195)
Q Consensus        20 ~~~v~vvG~PNVGKSs--N~L~~kk~v~vg~~PGvTk~~Q~i--~l~-~~i~LlDtPGIv~   75 (195)
                      ..++.++|.|||||||  |+|.+...+.|++.||.|+.....  .++ ..+.++||||+-.
T Consensus       203 g~kVvIvG~~nvGKSSLiN~L~~~~~aivs~~pgtTrd~~~~~i~~~g~~v~l~DTaG~~~  263 (442)
T TIGR00450       203 GFKLAIVGSPNVGKSSLLNALLKQDRAIVSDIKGTTRDVVEGDFELNGILIKLLDTAGIRE  263 (442)
T ss_pred             CCEEEEECCCCCcHHHHHHHHhCCCCcccCCCCCcEEEEEEEEEEECCEEEEEeeCCCccc
Confidence            3489999999999999  999998888899999999987654  343 3689999999853

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.

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

Probab=98.38  E-value=2.6e-07  Score=87.21  Aligned_cols=56  Identities=20%  Similarity=0.171  Sum_probs=47.1

Q ss_pred             CceEeecCCCCccCC--CCCCCCcccccCCCCCCccceeEEEe---cCCeEEecCCCCCCCC
Q psy3587          21 DNIRLCDCPGLVFPS--KVPKPLQVVSVSRTPGHTKHFQTIFL---TDNIRLCDCPGLVFPS   77 (195)
Q Consensus        21 ~~v~vvG~PNVGKSs--N~L~~kk~v~vg~~PGvTk~~Q~i~l---~~~i~LlDtPGIv~p~   77 (195)
                      ++++++|-|||||||  |+|.|.+ .+|||-||||-....=++   +..+.++|.||+---.
T Consensus         4 ~~valvGNPNvGKTtlFN~LTG~~-q~VgNwpGvTVEkkeg~~~~~~~~i~ivDLPG~YSL~   64 (653)
T COG0370           4 LTVALVGNPNVGKTTLFNALTGAN-QKVGNWPGVTVEKKEGKLKYKGHEIEIVDLPGTYSLT   64 (653)
T ss_pred             ceEEEecCCCccHHHHHHHHhccC-ceecCCCCeeEEEEEEEEEecCceEEEEeCCCcCCCC
Confidence            359999999999999  9999987 899999999976666444   4579999999997443

>TIGR03156 GTP_HflX GTP-binding protein HflX

Probab=98.38  E-value=1.8e-07  Score=83.03  Aligned_cols=53  Identities=15%  Similarity=0.083  Sum_probs=44.5

Q ss_pred             CceEeecCCCCccCC--CCCCCCcccccCCCCCCccceeE--EEec--CCeEEecCCCCC
Q psy3587          21 DNIRLCDCPGLVFPS--KVPKPLQVVSVSRTPGHTKHFQT--IFLT--DNIRLCDCPGLV   74 (195)
Q Consensus        21 ~~v~vvG~PNVGKSs--N~L~~kk~v~vg~~PGvTk~~Q~--i~l~--~~i~LlDtPGIv   74 (195)
                      .+|.++|+|||||||  |+|.+.+ +.+.+.||.|+....  +.++  ..+.|+||||++
T Consensus       190 ~~ValvG~~NvGKSSLln~L~~~~-~~v~~~~~tT~d~~~~~i~~~~~~~i~l~DT~G~~  248 (351)
T TIGR03156       190 PTVALVGYTNAGKSTLFNALTGAD-VYAADQLFATLDPTTRRLDLPDGGEVLLTDTVGFI  248 (351)
T ss_pred             cEEEEECCCCCCHHHHHHHHhCCc-eeeccCCccccCCEEEEEEeCCCceEEEEecCccc
Confidence            379999999999999  9999987 678899999987765  3442  479999999985

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).

>TIGR00991 3a0901s02IAP34 GTP-binding protein (Chloroplast Envelope Protein Translocase)

Probab=98.38  E-value=2.1e-07  Score=81.44  Aligned_cols=56  Identities=16%  Similarity=0.084  Sum_probs=46.6

Q ss_pred             ceEeecCCCCccCC--CCCCCCcccccCCCCCCccceeEEEe---cCCeEEecCCCCCCCC
Q psy3587          22 NIRLCDCPGLVFPS--KVPKPLQVVSVSRTPGHTKHFQTIFL---TDNIRLCDCPGLVFPS   77 (195)
Q Consensus        22 ~v~vvG~PNVGKSs--N~L~~kk~v~vg~~PGvTk~~Q~i~l---~~~i~LlDtPGIv~p~   77 (195)
                      +|+++|-+||||||  |+|.+++++.++..++.|...+.+..   +..+.++||||+....
T Consensus        40 rIllvGktGVGKSSliNsIlG~~v~~vs~f~s~t~~~~~~~~~~~G~~l~VIDTPGL~d~~  100 (313)
T TIGR00991        40 TILVMGKGGVGKSSTVNSIIGERIATVSAFQSEGLRPMMVSRTRAGFTLNIIDTPGLIEGG  100 (313)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCCcccccCCCCcceeEEEEEEEECCeEEEEEECCCCCchH
Confidence            79999999999999  99999999999998887766554322   3479999999998654

>PRK11058 GTPase HflX; Provisional

Probab=98.38  E-value=1.8e-07  Score=85.17  Aligned_cols=52  Identities=13%  Similarity=0.049  Sum_probs=43.5

Q ss_pred             ceEeecCCCCccCC--CCCCCCcccccCCCCCCccceeE--EEec--CCeEEecCCCCC
Q psy3587          22 NIRLCDCPGLVFPS--KVPKPLQVVSVSRTPGHTKHFQT--IFLT--DNIRLCDCPGLV   74 (195)
Q Consensus        22 ~v~vvG~PNVGKSs--N~L~~kk~v~vg~~PGvTk~~Q~--i~l~--~~i~LlDtPGIv   74 (195)
                      +|++||+||+||||  |+|.+.+.. +++.||.|.....  +.++  ..+.|+||||.+
T Consensus       199 ~ValVG~~NaGKSSLlN~Lt~~~~~-v~~~~~tTld~~~~~i~l~~~~~~~l~DTaG~~  256 (426)
T PRK11058        199 TVSLVGYTNAGKSTLFNRITEARVY-AADQLFATLDPTLRRIDVADVGETVLADTVGFI  256 (426)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCcee-eccCCCCCcCCceEEEEeCCCCeEEEEecCccc
Confidence            69999999999999  999988765 8999999987765  3343  268899999984

>PRK00093 GTP-binding protein Der; Reviewed

Probab=98.37  E-value=1.9e-07  Score=84.29  Aligned_cols=57  Identities=19%  Similarity=0.120  Sum_probs=48.7

Q ss_pred             CceEeecCCCCccCC--CCCCCCcccccCCCCCCccceeEEEe---cCCeEEecCCCCCCCC
Q psy3587          21 DNIRLCDCPGLVFPS--KVPKPLQVVSVSRTPGHTKHFQTIFL---TDNIRLCDCPGLVFPS   77 (195)
Q Consensus        21 ~~v~vvG~PNVGKSs--N~L~~kk~v~vg~~PGvTk~~Q~i~l---~~~i~LlDtPGIv~p~   77 (195)
                      .+++|+|.||+||||  |+|.+...+.++..||.|+......+   +..+.|+||||+-...
T Consensus       174 ~~v~ivG~~n~GKStlin~ll~~~~~~~~~~~gtt~~~~~~~~~~~~~~~~lvDT~G~~~~~  235 (435)
T PRK00093        174 IKIAIIGRPNVGKSSLINALLGEERVIVSDIAGTTRDSIDTPFERDGQKYTLIDTAGIRRKG  235 (435)
T ss_pred             eEEEEECCCCCCHHHHHHHHhCCCceeecCCCCceEEEEEEEEEECCeeEEEEECCCCCCCc
Confidence            379999999999999  99999999999999999998765443   4579999999986544

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

Probab=98.36  E-value=2.4e-07  Score=71.95  Aligned_cols=52  Identities=19%  Similarity=0.205  Sum_probs=42.4

Q ss_pred             ceEeecCCCCccCC--CCCCCCcccccCCCCCCccceeEEEec---CCeEEecCCCCC
Q psy3587          22 NIRLCDCPGLVFPS--KVPKPLQVVSVSRTPGHTKHFQTIFLT---DNIRLCDCPGLV   74 (195)
Q Consensus        22 ~v~vvG~PNVGKSs--N~L~~kk~v~vg~~PGvTk~~Q~i~l~---~~i~LlDtPGIv   74 (195)
                      +|+++|.|||||||  |+|.+.+. .++..|+.|+..+.-...   -.+.++||||..
T Consensus         2 ~i~~~G~~~~GKssli~~l~~~~~-~~~~~~~~t~~~~~~~~~~~~~~~~i~Dt~G~~   58 (168)
T cd01897           2 TLVIAGYPNVGKSSLVNKLTRAKP-EVAPYPFTTKSLFVGHFDYKYLRWQVIDTPGLL   58 (168)
T ss_pred             eEEEEcCCCCCHHHHHHHHhcCCC-ccCCCCCcccceeEEEEccCceEEEEEECCCcC
Confidence            68999999999999  99988664 567789989887764432   479999999985

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.

>PRK09554 feoB ferrous iron transport protein B; Reviewed

Probab=98.36  E-value=1.9e-07  Score=90.53  Aligned_cols=54  Identities=19%  Similarity=0.099  Sum_probs=45.1

Q ss_pred             CceEeecCCCCccCC--CCCCCCcccccCCCCCCccceeEEEe---cCCeEEecCCCCCC
Q psy3587          21 DNIRLCDCPGLVFPS--KVPKPLQVVSVSRTPGHTKHFQTIFL---TDNIRLCDCPGLVF   75 (195)
Q Consensus        21 ~~v~vvG~PNVGKSs--N~L~~kk~v~vg~~PGvTk~~Q~i~l---~~~i~LlDtPGIv~   75 (195)
                      .+|.++|.|||||||  |+|.+.+. +||+.||+|.......+   +..+.++||||+.-
T Consensus         4 ~~IaLvG~pNvGKSTLfN~Ltg~~~-~vgn~pGvTve~k~g~~~~~~~~i~lvDtPG~ys   62 (772)
T PRK09554          4 LTIGLIGNPNSGKTTLFNQLTGARQ-RVGNWAGVTVERKEGQFSTTDHQVTLVDLPGTYS   62 (772)
T ss_pred             eEEEEECCCCCCHHHHHHHHhCCCC-ccCCCCCceEeeEEEEEEcCceEEEEEECCCccc
Confidence            369999999999999  99998764 89999999987665443   34799999999863

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

Probab=98.34  E-value=1.6e-07  Score=71.74  Aligned_cols=50  Identities=22%  Similarity=0.209  Sum_probs=41.3

Q ss_pred             eecCCCCccCC--CCCCCCcccccCCCCCCccceeEE--Eec-CCeEEecCCCCCC
Q psy3587          25 LCDCPGLVFPS--KVPKPLQVVSVSRTPGHTKHFQTI--FLT-DNIRLCDCPGLVF   75 (195)
Q Consensus        25 vvG~PNVGKSs--N~L~~kk~v~vg~~PGvTk~~Q~i--~l~-~~i~LlDtPGIv~   75 (195)
                      |+|.+||||||  |++.+.. ..++..||.|+..+..  .++ .++.++||||...
T Consensus         1 l~G~~~~GKssl~~~~~~~~-~~~~~~~~~t~~~~~~~~~~~~~~~~liDtpG~~~   55 (158)
T cd01879           1 LVGNPNVGKTTLFNALTGAR-QKVGNWPGVTVEKKEGRFKLGGKEIEIVDLPGTYS   55 (158)
T ss_pred             CCCCCCCCHHHHHHHHhcCc-ccccCCCCcccccceEEEeeCCeEEEEEECCCccc
Confidence            58999999999  9998876 7889999999987653  343 4789999999853

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.

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

Probab=98.32  E-value=3e-07  Score=69.78  Aligned_cols=54  Identities=19%  Similarity=0.154  Sum_probs=45.9

Q ss_pred             ceEeecCCCCccCC--CCCCCCcccccCCCCCCccceeEEEe--c-CCeEEecCCCCCC
Q psy3587          22 NIRLCDCPGLVFPS--KVPKPLQVVSVSRTPGHTKHFQTIFL--T-DNIRLCDCPGLVF   75 (195)
Q Consensus        22 ~v~vvG~PNVGKSs--N~L~~kk~v~vg~~PGvTk~~Q~i~l--~-~~i~LlDtPGIv~   75 (195)
                      +++++|-||+||||  |++.++..+.+++.||.|+.......  + ..+.++||||...
T Consensus         3 ~i~l~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~DtpG~~~   61 (157)
T cd04164           3 KVVIVGKPNVGKSSLLNALAGRDRAIVSDIAGTTRDVIEESIDIGGIPVRLIDTAGIRE   61 (157)
T ss_pred             EEEEECCCCCCHHHHHHHHHCCceEeccCCCCCccceEEEEEEeCCEEEEEEECCCcCC
Confidence            58999999999999  99999988899999999988765433  3 3689999999753

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.

>cd04163 Era Era subfamily

Probab=98.30  E-value=4.6e-07  Score=68.85  Aligned_cols=56  Identities=18%  Similarity=0.222  Sum_probs=46.1

Q ss_pred             ceEeecCCCCccCC--CCCCCCcccccCCCCCCccceeEEEe-c--CCeEEecCCCCCCCC
Q psy3587          22 NIRLCDCPGLVFPS--KVPKPLQVVSVSRTPGHTKHFQTIFL-T--DNIRLCDCPGLVFPS   77 (195)
Q Consensus        22 ~v~vvG~PNVGKSs--N~L~~kk~v~vg~~PGvTk~~Q~i~l-~--~~i~LlDtPGIv~p~   77 (195)
                      +|+++|-||+||||  |.+.+++.+.+++.++.|+....... .  ..+.++||||+..+.
T Consensus         5 ~i~~~G~~g~GKttl~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtpG~~~~~   65 (168)
T cd04163           5 FVAIVGRPNVGKSTLLNALVGQKISIVSPKPQTTRNRIRGIYTDDDAQIIFVDTPGIHKPK   65 (168)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCceEeccCCCCceeceEEEEEEcCCeEEEEEECCCCCcch
Confidence            68999999999999  99999998888888888887655433 2  358899999987554

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.

>TIGR00993 3a0901s04IAP86 chloroplast protein import component Toc86/159, G and M domains

Probab=98.30  E-value=4.7e-07  Score=85.95  Aligned_cols=58  Identities=21%  Similarity=0.076  Sum_probs=46.0

Q ss_pred             ceEeecCCCCccCC--CCCCCCcccccCCC-CCCccceeEEE-e-cCCeEEecCCCCCCCCCC
Q psy3587          22 NIRLCDCPGLVFPS--KVPKPLQVVSVSRT-PGHTKHFQTIF-L-TDNIRLCDCPGLVFPSKV   79 (195)
Q Consensus        22 ~v~vvG~PNVGKSs--N~L~~kk~v~vg~~-PGvTk~~Q~i~-l-~~~i~LlDtPGIv~p~~~   79 (195)
                      +|+|+|-|||||||  |+|.+++++.++.. |+.|+..+... + +..+.++||||+..+...
T Consensus       120 rIvLVGKTGVGKSSLINSILGekvf~vss~~~~TTr~~ei~~~idG~~L~VIDTPGL~dt~~d  182 (763)
T TIGR00993       120 NILVLGKSGVGKSATINSIFGEVKFSTDAFGMGTTSVQEIEGLVQGVKIRVIDTPGLKSSASD  182 (763)
T ss_pred             EEEEECCCCCCHHHHHHHHhccccccccCCCCCceEEEEEEEEECCceEEEEECCCCCccccc
Confidence            79999999999999  99999998888876 66665433322 2 457999999999987543

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.

>cd01876 YihA_EngB The YihA (EngB) subfamily

Probab=98.30  E-value=4.1e-07  Score=69.41  Aligned_cols=55  Identities=24%  Similarity=0.370  Sum_probs=48.6

Q ss_pred             ceEeecCCCCccCC--CCCC-CCcccccCCCCCCccceeEEEecCCeEEecCCCCCCC
Q psy3587          22 NIRLCDCPGLVFPS--KVPK-PLQVVSVSRTPGHTKHFQTIFLTDNIRLCDCPGLVFP   76 (195)
Q Consensus        22 ~v~vvG~PNVGKSs--N~L~-~kk~v~vg~~PGvTk~~Q~i~l~~~i~LlDtPGIv~p   76 (195)
                      .|+++|-+|+||||  |.|. +.....++.++|.|+....+.++..+.++||||+-..
T Consensus         1 ~i~l~G~~g~GKTtL~~~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~D~~g~~~~   58 (170)
T cd01876           1 EIAFAGRSNVGKSSLINALTNRKKLARTSKTPGKTQLINFFNVNDKFRLVDLPGYGYA   58 (170)
T ss_pred             CEEEEcCCCCCHHHHHHHHhcCCceeeecCCCCcceeEEEEEccCeEEEecCCCcccc
Confidence            37899999999999  9988 4667789999999999988888889999999997654

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.

>cd01894 EngA1 EngA1 subfamily

Probab=98.27  E-value=2.8e-07  Score=70.14  Aligned_cols=52  Identities=17%  Similarity=0.061  Sum_probs=43.6

Q ss_pred             EeecCCCCccCC--CCCCCCcccccCCCCCCccceeEEEe---cCCeEEecCCCCCC
Q psy3587          24 RLCDCPGLVFPS--KVPKPLQVVSVSRTPGHTKHFQTIFL---TDNIRLCDCPGLVF   75 (195)
Q Consensus        24 ~vvG~PNVGKSs--N~L~~kk~v~vg~~PGvTk~~Q~i~l---~~~i~LlDtPGIv~   75 (195)
                      .++|-|||||||  |+|.+.+...++..|+.|+..+....   +..+.++||||.-.
T Consensus         1 ~l~G~~~~GKssl~~~l~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~i~DtpG~~~   57 (157)
T cd01894           1 AIVGRPNVGKSTLFNRLTGRRDAIVEDTPGVTRDRIYGEAEWGGREFILIDTGGIEP   57 (157)
T ss_pred             CccCCCCCCHHHHHHHHhCCcEEeecCCCCceeCceeEEEEECCeEEEEEECCCCCC
Confidence            378999999999  99999888888999999987766543   34689999999864

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.

>PRK03003 GTP-binding protein Der; Reviewed

Probab=98.27  E-value=3.7e-07  Score=83.85  Aligned_cols=54  Identities=22%  Similarity=0.171  Sum_probs=45.3

Q ss_pred             CceEeecCCCCccCC--CCCCCCcccccCCCCCCccceeE--EEe-cCCeEEecCCCCC
Q psy3587          21 DNIRLCDCPGLVFPS--KVPKPLQVVSVSRTPGHTKHFQT--IFL-TDNIRLCDCPGLV   74 (195)
Q Consensus        21 ~~v~vvG~PNVGKSs--N~L~~kk~v~vg~~PGvTk~~Q~--i~l-~~~i~LlDtPGIv   74 (195)
                      .+|+++|.|||||||  |+|.+...+.+++.||.|+....  +.+ +..+.|+||||+-
T Consensus       212 ~kI~iiG~~nvGKSSLin~l~~~~~~~~s~~~gtT~d~~~~~~~~~~~~~~l~DTaG~~  270 (472)
T PRK03003        212 RRVALVGKPNVGKSSLLNKLAGEERSVVDDVAGTTVDPVDSLIELGGKTWRFVDTAGLR  270 (472)
T ss_pred             eEEEEECCCCCCHHHHHHHHhCCCcccccCCCCccCCcceEEEEECCEEEEEEECCCcc
Confidence            389999999999999  99999888889999999987543  333 3468899999984

>PRK09602 translation-associated GTPase; Reviewed

Probab=98.25  E-value=4.7e-07  Score=81.70  Aligned_cols=54  Identities=20%  Similarity=0.210  Sum_probs=41.7

Q ss_pred             ceEeecCCCCccCC--CCCCCCcccccCCCCCCccceeE--EEe-------------------------cCCeEEecCCC
Q psy3587          22 NIRLCDCPGLVFPS--KVPKPLQVVSVSRTPGHTKHFQT--IFL-------------------------TDNIRLCDCPG   72 (195)
Q Consensus        22 ~v~vvG~PNVGKSs--N~L~~kk~v~vg~~PGvTk~~Q~--i~l-------------------------~~~i~LlDtPG   72 (195)
                      +|+|||.|||||||  |+|.+.+ +.+++.|+.|.....  +.+                         .-.+.++|+||
T Consensus         3 kigivG~pnvGKSTlfn~Lt~~~-~~~~~y~f~t~~p~~g~~~v~~~~~~~r~~~~~~~~~~~~~~~~~~~~i~i~D~aG   81 (396)
T PRK09602          3 TIGLVGKPNVGKSTFFNAATLAD-VEIANYPFTTIDPNVGVAYVRVECPCKELGVKCNPRNGKCIDGTRFIPVELIDVAG   81 (396)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCc-ccccCCCCcceeeeeeeeeeccCCchhhhhhhhccccccccCCcceeeEEEEEcCC
Confidence            68999999999999  9999876 478999999864433  111                         12378999999


Q ss_pred             CCCC
Q psy3587          73 LVFP   76 (195)
Q Consensus        73 Iv~p   76 (195)
                      ++.-
T Consensus        82 l~~g   85 (396)
T PRK09602         82 LVPG   85 (396)
T ss_pred             cCCC
Confidence            9853

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

Probab=98.22  E-value=4.1e-07  Score=70.77  Aligned_cols=49  Identities=20%  Similarity=0.261  Sum_probs=40.2

Q ss_pred             eecCCCCccCC--CCCCCCcccccCCCCCCccceeE--EEe--cCCeEEecCCCCC
Q psy3587          25 LCDCPGLVFPS--KVPKPLQVVSVSRTPGHTKHFQT--IFL--TDNIRLCDCPGLV   74 (195)
Q Consensus        25 vvG~PNVGKSs--N~L~~kk~v~vg~~PGvTk~~Q~--i~l--~~~i~LlDtPGIv   74 (195)
                      ++|.|||||||  |+|.+.+. .+++.|+.|+..+.  +..  +..+.++||||+.
T Consensus         1 iiG~~~~GKStll~~l~~~~~-~~~~~~~~t~~~~~~~~~~~~~~~~~i~DtpG~~   55 (176)
T cd01881           1 LVGLPNVGKSTLLNALTNAKP-KVANYPFTTLEPNLGVVEVPDGARIQVADIPGLI   55 (176)
T ss_pred             CCCCCCCcHHHHHHHHhcCCc-cccCCCceeecCcceEEEcCCCCeEEEEeccccc
Confidence            58999999999  99998876 78899999976654  333  3578999999985

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

>TIGR03594 GTPase_EngA ribosome-associated GTPase EngA

Probab=98.20  E-value=7.2e-07  Score=80.24  Aligned_cols=55  Identities=20%  Similarity=0.154  Sum_probs=47.1

Q ss_pred             ceEeecCCCCccCC--CCCCCCcccccCCCCCCccceeEEEe---cCCeEEecCCCCCCC
Q psy3587          22 NIRLCDCPGLVFPS--KVPKPLQVVSVSRTPGHTKHFQTIFL---TDNIRLCDCPGLVFP   76 (195)
Q Consensus        22 ~v~vvG~PNVGKSs--N~L~~kk~v~vg~~PGvTk~~Q~i~l---~~~i~LlDtPGIv~p   76 (195)
                      +++++|.|||||||  |+|.+...+.++..||.|+......+   +..+.|+||||+--.
T Consensus       174 ~v~ivG~~~~GKSsLin~l~~~~~~~~~~~~gtt~~~~~~~~~~~~~~~~liDT~G~~~~  233 (429)
T TIGR03594       174 KIAIIGRPNVGKSTLVNALLGEERVIVSDIAGTTRDSIDIPFERNGKKYLLIDTAGIRRK  233 (429)
T ss_pred             EEEEECCCCCCHHHHHHHHHCCCeeecCCCCCceECcEeEEEEECCcEEEEEECCCcccc
Confidence            79999999999999  99999888899999999987665443   347999999998643

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.

>PRK09518 bifunctional cytidylate kinase/GTPase Der; Reviewed

Probab=98.18  E-value=8.8e-07  Score=85.24  Aligned_cols=54  Identities=15%  Similarity=0.161  Sum_probs=46.1

Q ss_pred             CceEeecCCCCccCC--CCCCCCcccccCCCCCCccceeEEE--e-cCCeEEecCCCCC
Q psy3587          21 DNIRLCDCPGLVFPS--KVPKPLQVVSVSRTPGHTKHFQTIF--L-TDNIRLCDCPGLV   74 (195)
Q Consensus        21 ~~v~vvG~PNVGKSs--N~L~~kk~v~vg~~PGvTk~~Q~i~--l-~~~i~LlDtPGIv   74 (195)
                      .+|+++|.|||||||  |+|.+.+.+-++..||.|+......  + +..+.|+||||+.
T Consensus       451 ~kI~ivG~~nvGKSSLin~l~~~~~~~v~~~~gtT~d~~~~~~~~~~~~~~liDTaG~~  509 (712)
T PRK09518        451 RRVALVGRPNVGKSSLLNQLTHEERAVVNDLAGTTRDPVDEIVEIDGEDWLFIDTAGIK  509 (712)
T ss_pred             cEEEEECCCCCCHHHHHHHHhCccccccCCCCCCCcCcceeEEEECCCEEEEEECCCcc
Confidence            489999999999999  9999998888899999998875432  3 4578899999985

>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=98.17  E-value=3.8e-07  Score=72.77  Aligned_cols=60  Identities=18%  Similarity=0.067  Sum_probs=40.7

Q ss_pred             cCceEeecCCCCccCC--CCCCCCcccccCC-------CCCCccceeEEEecCCeEEecCCCCCCCCCC
Q psy3587          20 TDNIRLCDCPGLVFPS--KVPKPLQVVSVSR-------TPGHTKHFQTIFLTDNIRLCDCPGLVFPSKV   79 (195)
Q Consensus        20 ~~~v~vvG~PNVGKSs--N~L~~kk~v~vg~-------~PGvTk~~Q~i~l~~~i~LlDtPGIv~p~~~   79 (195)
                      .+.+.++|-.||||||  |+|.+....+++.       -=..|++-+.+.++.+.+|+||||+=-..+.
T Consensus        35 ~k~~vl~G~SGvGKSSLiN~L~~~~~~~t~~is~~~~rGkHTTt~~~l~~l~~g~~iIDTPGf~~~~l~  103 (161)
T PF03193_consen   35 GKTSVLLGQSGVGKSSLINALLPEAKQKTGEISEKTGRGKHTTTHRELFPLPDGGYIIDTPGFRSFGLW  103 (161)
T ss_dssp             TSEEEEECSTTSSHHHHHHHHHTSS----S--------------SEEEEEETTSEEEECSHHHHT--GC
T ss_pred             CCEEEEECCCCCCHHHHHHHHHhhcchhhhhhhcccCCCcccCCCeeEEecCCCcEEEECCCCCccccc
Confidence            4678999999999999  9887764444322       2245788999999999999999999765554

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.

>cd01895 EngA2 EngA2 subfamily

Probab=98.12  E-value=1.4e-06  Score=66.89  Aligned_cols=55  Identities=20%  Similarity=0.149  Sum_probs=45.4

Q ss_pred             ceEeecCCCCccCC--CCCCCCcccccCCCCCCccceeEEE--e-cCCeEEecCCCCCCC
Q psy3587          22 NIRLCDCPGLVFPS--KVPKPLQVVSVSRTPGHTKHFQTIF--L-TDNIRLCDCPGLVFP   76 (195)
Q Consensus        22 ~v~vvG~PNVGKSs--N~L~~kk~v~vg~~PGvTk~~Q~i~--l-~~~i~LlDtPGIv~p   76 (195)
                      +|+++|-||+||||  |+|.+.....++..||.|+......  . +.++.++||||..-.
T Consensus         4 ~i~i~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiDtpG~~~~   63 (174)
T cd01895           4 RIAIIGRPNVGKSSLVNALLGEERVIVSDIAGTTRDSIDVPFEYDGKKYTLIDTAGIRRK   63 (174)
T ss_pred             EEEEEcCCCCCHHHHHHHHhCccceeccCCCCCccCceeeEEEECCeeEEEEECCCCccc
Confidence            68999999999999  9999888788888999998775433  3 356899999998744

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.

>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=98.12  E-value=1.5e-06  Score=72.81  Aligned_cols=53  Identities=17%  Similarity=0.162  Sum_probs=41.8

Q ss_pred             ceEeecCCCCccCC--CCCCCCcccccCCCCCCccceeE--EEe-cCCeEEecCCCCCC
Q psy3587          22 NIRLCDCPGLVFPS--KVPKPLQVVSVSRTPGHTKHFQT--IFL-TDNIRLCDCPGLVF   75 (195)
Q Consensus        22 ~v~vvG~PNVGKSs--N~L~~kk~v~vg~~PGvTk~~Q~--i~l-~~~i~LlDtPGIv~   75 (195)
                      +++++|.||+||||  |.|.+.+ ..+++.|+.|...+.  +.. +-.+.++||||+..
T Consensus         2 ~v~lvG~~~~GKStLl~~Ltg~~-~~v~~~~~tT~~~~~g~~~~~~~~i~l~DtpG~~~   59 (233)
T cd01896           2 RVALVGFPSVGKSTLLSKLTNTK-SEVAAYEFTTLTCVPGVLEYKGAKIQLLDLPGIIE   59 (233)
T ss_pred             EEEEECCCCCCHHHHHHHHHCCC-ccccCCCCccccceEEEEEECCeEEEEEECCCccc
Confidence            57899999999999  9998866 568889999965543  223 34689999999864

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.

>cd01899 Ygr210 Ygr210 subfamily

Probab=98.07  E-value=1.6e-06  Score=76.14  Aligned_cols=53  Identities=21%  Similarity=0.189  Sum_probs=40.8

Q ss_pred             eEeecCCCCccCC--CCCCCCcccccCCCCCCccceeE--EEe---------------------c----CCeEEecCCCC
Q psy3587          23 IRLCDCPGLVFPS--KVPKPLQVVSVSRTPGHTKHFQT--IFL---------------------T----DNIRLCDCPGL   73 (195)
Q Consensus        23 v~vvG~PNVGKSs--N~L~~kk~v~vg~~PGvTk~~Q~--i~l---------------------~----~~i~LlDtPGI   73 (195)
                      +++||.|||||||  |+|.+.+ +.+++.|+.|.....  ..+                     +    -.+.|+||||+
T Consensus         1 i~ivG~pnvGKStLfn~lt~~~-~~~~~~pftT~~p~~g~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~v~i~l~D~aGl   79 (318)
T cd01899           1 IGLVGKPNAGKSTFFNAATLAD-VEIANYPFTTIDPNVGVGYVRVECPCKELGVSCNPRYGKCIDGKRYVPVELIDVAGL   79 (318)
T ss_pred             CEEECCCCCCHHHHHHHHhCCC-CcccCCCCccccceeEEEEEecCCCchhhhhhhcccccccccCcCcceEEEEECCCC
Confidence            5899999999999  9999876 589999998855432  111                     1    14899999999


Q ss_pred             CCC
Q psy3587          74 VFP   76 (195)
Q Consensus        74 v~p   76 (195)
                      +..
T Consensus        80 v~g   82 (318)
T cd01899          80 VPG   82 (318)
T ss_pred             CCC
Confidence            743

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.

>TIGR00231 small_GTP small GTP-binding protein domain

Probab=98.03  E-value=3.3e-06  Score=63.06  Aligned_cols=52  Identities=19%  Similarity=0.193  Sum_probs=42.5

Q ss_pred             CceEeecCCCCccCC--CCCCCCcccccCCCCCCccceeE--EEecC---CeEEecCCCC
Q psy3587          21 DNIRLCDCPGLVFPS--KVPKPLQVVSVSRTPGHTKHFQT--IFLTD---NIRLCDCPGL   73 (195)
Q Consensus        21 ~~v~vvG~PNVGKSs--N~L~~kk~v~vg~~PGvTk~~Q~--i~l~~---~i~LlDtPGI   73 (195)
                      .+|+++|.||+||||  |.+.+.. ...+..|++|+....  +..+.   .+.++||||.
T Consensus         2 ~ki~~~G~~~~GKstl~~~l~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~G~   60 (161)
T TIGR00231         2 IKIVIVGDPNVGKSTLLNRLLGNK-FITEYKPGTTRNYVTTVIEEDGKTYKFNLLDTAGQ   60 (161)
T ss_pred             eEEEEECCCCCCHHHHHHHHhCCC-CcCcCCCCceeeeeEEEEEECCEEEEEEEEECCCc
Confidence            479999999999999  9888887 888888999988766  34442   4788999993

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.

>PRK01889 GTPase RsgA; Reviewed

Probab=98.03  E-value=6.1e-07  Score=79.83  Aligned_cols=61  Identities=16%  Similarity=0.062  Sum_probs=49.3

Q ss_pred             cCceEeecCCCCccCC--CCCCCCcccccCCCC-------CCccceeEEEecCCeEEecCCCCCCCCCCC
Q psy3587          20 TDNIRLCDCPGLVFPS--KVPKPLQVVSVSRTP-------GHTKHFQTIFLTDNIRLCDCPGLVFPSKVP   80 (195)
Q Consensus        20 ~~~v~vvG~PNVGKSs--N~L~~kk~v~vg~~P-------GvTk~~Q~i~l~~~i~LlDtPGIv~p~~~~   80 (195)
                      ...++++|.|||||||  |.|.+.....+|..+       ..|++.+++.+..+.+|+||||+..+.+.+
T Consensus       195 g~~~~lvG~sgvGKStLin~L~g~~~~~~G~i~~~~~~g~~tt~~~~l~~l~~~~~l~DtpG~~~~~l~~  264 (356)
T PRK01889        195 GKTVALLGSSGVGKSTLVNALLGEEVQKTGAVREDDSKGRHTTTHRELHPLPSGGLLIDTPGMRELQLWD  264 (356)
T ss_pred             CCEEEEECCCCccHHHHHHHHHHhcccceeeEEECCCCCcchhhhccEEEecCCCeecCCCchhhhcccC
Confidence            4589999999999999  988876666666544       367788889998888999999997776654

>PLN03118 Rab family protein; Provisional

Probab=98.03  E-value=2.1e-06  Score=70.13  Aligned_cols=60  Identities=17%  Similarity=0.083  Sum_probs=47.2

Q ss_pred             EEEEecCceEeecCCCCccCC--CCCCCCcccccCCCCCCccceeEEEecC---CeEEecCCCCC
Q psy3587          15 QTIFLTDNIRLCDCPGLVFPS--KVPKPLQVVSVSRTPGHTKHFQTIFLTD---NIRLCDCPGLV   74 (195)
Q Consensus        15 q~~~l~~~v~vvG~PNVGKSs--N~L~~kk~v~vg~~PGvTk~~Q~i~l~~---~i~LlDtPGIv   74 (195)
                      |.+.+..+++|+|.|||||||  |+|.+.......++.|.+.....+.++.   .+.|+||||.-
T Consensus         9 ~~~~~~~kv~ivG~~~vGKTsli~~l~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~l~Dt~G~~   73 (211)
T PLN03118          9 SGYDLSFKILLIGDSGVGKSSLLVSFISSSVEDLAPTIGVDFKIKQLTVGGKRLKLTIWDTAGQE   73 (211)
T ss_pred             cccCcceEEEEECcCCCCHHHHHHHHHhCCCCCcCCCceeEEEEEEEEECCEEEEEEEEECCCch
Confidence            344566789999999999999  8888777667777888776666666654   57899999953

>KOG1490|consensus

Probab=97.95  E-value=4.4e-06  Score=76.86  Aligned_cols=60  Identities=17%  Similarity=0.139  Sum_probs=47.2

Q ss_pred             ceEeecCCCCccCC-CCCCCCcccccCCCCCCccceeEEEecC---CeEEecCCCCCCCCCCCh
Q psy3587          22 NIRLCDCPGLVFPS-KVPKPLQVVSVSRTPGHTKHFQTIFLTD---NIRLCDCPGLVFPSKVPK   81 (195)
Q Consensus        22 ~v~vvG~PNVGKSs-N~L~~kk~v~vg~~PGvTk~~Q~i~l~~---~i~LlDtPGIv~p~~~~~   81 (195)
                      .++||||||||||| +.-.-+.-+.|-+.|=.||++--=+++-   ....+|||||+-+.+++.
T Consensus       170 TlllcG~PNVGKSSf~~~vtradvevqpYaFTTksL~vGH~dykYlrwQViDTPGILD~plEdr  233 (620)
T KOG1490|consen  170 TLLVCGYPNVGKSSFNNKVTRADDEVQPYAFTTKLLLVGHLDYKYLRWQVIDTPGILDRPEEDR  233 (620)
T ss_pred             eEEEecCCCCCcHhhcccccccccccCCcccccchhhhhhhhhheeeeeecCCccccCcchhhh
Confidence            78999999999999 4444556688999998898875545543   366789999999988764

>cd04171 SelB SelB subfamily

Probab=97.95  E-value=4.4e-06  Score=64.05  Aligned_cols=52  Identities=15%  Similarity=0.126  Sum_probs=37.1

Q ss_pred             ceEeecCCCCccCC--CCCCCCccccc--CCCCCCccceeE--EEe--cCCeEEecCCCC
Q psy3587          22 NIRLCDCPGLVFPS--KVPKPLQVVSV--SRTPGHTKHFQT--IFL--TDNIRLCDCPGL   73 (195)
Q Consensus        22 ~v~vvG~PNVGKSs--N~L~~kk~v~v--g~~PGvTk~~Q~--i~l--~~~i~LlDtPGI   73 (195)
                      .|.++|.|||||||  |+|.+......  ...||.|.....  +.+  +..+.++||||.
T Consensus         2 ~i~i~G~~~~GKssl~~~l~~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~DtpG~   61 (164)
T cd04171           2 IIGTAGHIDHGKTTLIKALTGIETDRLPEEKKRGITIDLGFAYLDLPSGKRLGFIDVPGH   61 (164)
T ss_pred             EEEEEecCCCCHHHHHHHHhCcccccchhhhccCceEEeeeEEEEecCCcEEEEEECCCh
Confidence            47899999999999  99987543322  345677765543  333  346899999996

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

>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=97.93  E-value=2.8e-06  Score=70.04  Aligned_cols=59  Identities=19%  Similarity=0.083  Sum_probs=41.1

Q ss_pred             ceEeecCCCCccCC--CCCCCCcccccC-CCCCCccceeEEEe---cCCeEEecCCCCCCCCCCC
Q psy3587          22 NIRLCDCPGLVFPS--KVPKPLQVVSVS-RTPGHTKHFQTIFL---TDNIRLCDCPGLVFPSKVP   80 (195)
Q Consensus        22 ~v~vvG~PNVGKSs--N~L~~kk~v~vg-~~PGvTk~~Q~i~l---~~~i~LlDtPGIv~p~~~~   80 (195)
                      +|.|+|-.|+||||  |.|.|+....++ ....+|+..+...-   +..+.++||||+..+...+
T Consensus         2 ~IlllG~tGsGKSs~~N~ilg~~~f~~~~~~~~~t~~~~~~~~~~~g~~v~VIDTPGl~d~~~~~   66 (212)
T PF04548_consen    2 RILLLGKTGSGKSSLGNSILGKEVFKSGSSAKSVTQECQKYSGEVDGRQVTVIDTPGLFDSDGSD   66 (212)
T ss_dssp             EEEEECSTTSSHHHHHHHHHTSS-SS--TTTSS--SS-EEEEEEETTEEEEEEE--SSEETTEEH
T ss_pred             EEEEECCCCCCHHHHHHHHhcccceeeccccCCcccccceeeeeecceEEEEEeCCCCCCCcccH
Confidence            68999999999999  999999988877 35577887777543   4589999999997766543

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 ....

>cd00154 Rab Rab family

Probab=97.93  E-value=4.8e-06  Score=62.74  Aligned_cols=53  Identities=19%  Similarity=0.062  Sum_probs=41.6

Q ss_pred             ceEeecCCCCccCC--CCCCCCccccc-CCCCCCccceeEEEecC---CeEEecCCCCC
Q psy3587          22 NIRLCDCPGLVFPS--KVPKPLQVVSV-SRTPGHTKHFQTIFLTD---NIRLCDCPGLV   74 (195)
Q Consensus        22 ~v~vvG~PNVGKSs--N~L~~kk~v~v-g~~PGvTk~~Q~i~l~~---~i~LlDtPGIv   74 (195)
                      +|+++|.||+||||  |.+.+.+.... .++.|.+.....+..+.   .+.++|+||..
T Consensus         2 ~i~~~G~~~~GKStl~~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~D~~g~~   60 (159)
T cd00154           2 KIVLIGDSGVGKTSLLLRFVDGKFDENYKSTIGVDFKSKTIEIDGKTVKLQIWDTAGQE   60 (159)
T ss_pred             eEEEECCCCCCHHHHHHHHHhCcCCCccCCceeeeeEEEEEEECCEEEEEEEEecCChH
Confidence            68999999999999  88887776665 66777777766666533   57899999973

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

>TIGR00437 feoB ferrous iron transporter FeoB

Probab=97.92  E-value=4e-06  Score=79.27  Aligned_cols=48  Identities=21%  Similarity=0.249  Sum_probs=40.0

Q ss_pred             cCCCCccCC--CCCCCCcccccCCCCCCccceeEEEe---cCCeEEecCCCCCC
Q psy3587          27 DCPGLVFPS--KVPKPLQVVSVSRTPGHTKHFQTIFL---TDNIRLCDCPGLVF   75 (195)
Q Consensus        27 G~PNVGKSs--N~L~~kk~v~vg~~PGvTk~~Q~i~l---~~~i~LlDtPGIv~   75 (195)
                      |.|||||||  |+|.+.+ ..+++.||+|...+...+   +..+.++||||..-
T Consensus         1 G~pNvGKSSL~N~Ltg~~-~~v~n~pG~Tv~~~~~~i~~~~~~i~lvDtPG~~~   53 (591)
T TIGR00437         1 GNPNVGKSTLFNALTGAN-QTVGNWPGVTVEKKEGKLGFQGEDIEIVDLPGIYS   53 (591)
T ss_pred             CCCCCCHHHHHHHHhCCC-CeecCCCCeEEEEEEEEEEECCeEEEEEECCCccc
Confidence            789999999  9999876 589999999988765433   34689999999863

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.

>cd01863 Rab18 Rab18 subfamily

Probab=97.86  E-value=9.1e-06  Score=62.52  Aligned_cols=52  Identities=17%  Similarity=0.121  Sum_probs=41.3

Q ss_pred             ceEeecCCCCccCC--CCCCCCcc-cccCCCCCCccceeEEEecC---CeEEecCCCC
Q psy3587          22 NIRLCDCPGLVFPS--KVPKPLQV-VSVSRTPGHTKHFQTIFLTD---NIRLCDCPGL   73 (195)
Q Consensus        22 ~v~vvG~PNVGKSs--N~L~~kk~-v~vg~~PGvTk~~Q~i~l~~---~i~LlDtPGI   73 (195)
                      +++++|-||+||||  |+|.+.+. ....+++|.+.....+.++.   .+.++||||.
T Consensus         2 ki~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~D~~g~   59 (161)
T cd01863           2 KILLIGDSGVGKSSLLLRFTDDTFDPDLAATIGVDFKVKTLTVDGKKVKLAIWDTAGQ   59 (161)
T ss_pred             EEEEECCCCCCHHHHHHHHHcCCCCcccCCcccceEEEEEEEECCEEEEEEEEECCCc
Confidence            68999999999999  88876554 45788888887766666643   4789999995

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

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

Probab=97.86  E-value=6.2e-06  Score=63.67  Aligned_cols=52  Identities=15%  Similarity=0.164  Sum_probs=38.5

Q ss_pred             ceEeecCCCCccCC--CCCCCCcccccCCCCCCccceeEEEe------cCCeEEecCCCCC
Q psy3587          22 NIRLCDCPGLVFPS--KVPKPLQVVSVSRTPGHTKHFQTIFL------TDNIRLCDCPGLV   74 (195)
Q Consensus        22 ~v~vvG~PNVGKSs--N~L~~kk~v~vg~~PGvTk~~Q~i~l------~~~i~LlDtPGIv   74 (195)
                      .++|+|.||+||||  |+|.+.... ....+|.|.......+      +.++.++||||..
T Consensus         2 ~i~iiG~~~~GKtsli~~l~~~~~~-~~~~~~~t~~~~~~~~~~~~~~~~~~~iiDtpG~~   61 (168)
T cd01887           2 VVTVMGHVDHGKTTLLDKIRKTNVA-AGEAGGITQHIGAFEVPAEVLKIPGITFIDTPGHE   61 (168)
T ss_pred             EEEEEecCCCCHHHHHHHHHhcccc-cccCCCeEEeeccEEEecccCCcceEEEEeCCCcH
Confidence            38999999999999  998876543 3456778876653333      2378999999963

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.

>cd01851 GBP Guanylate-binding protein (GBP), N-terminal domain

Probab=97.84  E-value=1.2e-05  Score=66.99  Aligned_cols=59  Identities=10%  Similarity=-0.114  Sum_probs=44.6

Q ss_pred             ceEeecCCCCccCC--CCCCCC-cccccC-CCCCCccceeEEE--e----cCCeEEecCCCCCCCCCCC
Q psy3587          22 NIRLCDCPGLVFPS--KVPKPL-QVVSVS-RTPGHTKHFQTIF--L----TDNIRLCDCPGLVFPSKVP   80 (195)
Q Consensus        22 ~v~vvG~PNVGKSs--N~L~~k-k~v~vg-~~PGvTk~~Q~i~--l----~~~i~LlDtPGIv~p~~~~   80 (195)
                      -|.|+|.||+|||+  |.|.+. ...+++ ..+..||++..-.  .    +..+.++||||+.-+....
T Consensus         9 vvsv~G~~~sGKS~llN~l~~~~~~f~~~~~~~~~T~gi~~~~~~~~~~~~~~v~~lDteG~~~~~~~~   77 (224)
T cd01851           9 VVSVFGPQSSGKSFLLNHLFGTLSGFDVMDTSQQTTKGIWMWSVPFKLGKEHAVLLLDTEGTDGRERGE   77 (224)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCCCCeEecCCCCCCccceEEEeccccCCCcceEEEEecCCcCccccCc
Confidence            48899999999999  999887 244444 4478889876432  2    3579999999999876533

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

>TIGR00092 GTP-binding protein YchF

Probab=97.80  E-value=1.4e-05  Score=71.59  Aligned_cols=56  Identities=16%  Similarity=0.081  Sum_probs=44.7

Q ss_pred             CceEeecCCCCccCC--CCCCCCcccccCCCCCCccceeE--EEecC------------------CeEEecCCCCCCC
Q psy3587          21 DNIRLCDCPGLVFPS--KVPKPLQVVSVSRTPGHTKHFQT--IFLTD------------------NIRLCDCPGLVFP   76 (195)
Q Consensus        21 ~~v~vvG~PNVGKSs--N~L~~kk~v~vg~~PGvTk~~Q~--i~l~~------------------~i~LlDtPGIv~p   76 (195)
                      .+++|||+|||||||  |+|.+.+.+.+++.|-.|-....  +.+.+                  .+.+.|.||++.-
T Consensus         3 lk~GivGlPn~GKSTlfnaLT~~~~~~~a~ypftTi~p~~g~v~v~d~r~d~L~~~~~~~~~~~a~i~~~DiaGlv~g   80 (368)
T TIGR00092         3 LSGGIVGLPNVGKSTLFAATTNLLGNEAANPPFTTIEPNAGVVNPSDPRLDLLAIYIKPEKVPPTTTEFVDIAGLVGG   80 (368)
T ss_pred             ceEEEECCCCCChHHHHHHHhCCCccccCCCCCCCCCCceeEEEechhHHHHHHHHhCCcCcCCceEEEEeccccccc
Confidence            468999999999999  99999987689998888765444  33322                  4899999999963

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.

>cd01860 Rab5_related Rab5-related subfamily

Probab=97.80  E-value=1.2e-05  Score=61.79  Aligned_cols=52  Identities=19%  Similarity=0.080  Sum_probs=40.2

Q ss_pred             ceEeecCCCCccCC--CCCCCCcccc-cCCCCCCccceeEEEecC---CeEEecCCCC
Q psy3587          22 NIRLCDCPGLVFPS--KVPKPLQVVS-VSRTPGHTKHFQTIFLTD---NIRLCDCPGL   73 (195)
Q Consensus        22 ~v~vvG~PNVGKSs--N~L~~kk~v~-vg~~PGvTk~~Q~i~l~~---~i~LlDtPGI   73 (195)
                      +++++|-||+||||  |+|.+.+... ..+++|.+.....+.++.   .+.|+||||-
T Consensus         3 ki~v~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~v~~~~~~~~~~i~D~~G~   60 (163)
T cd01860           3 KLVLLGDSSVGKSSLVLRFVKNEFSENQESTIGAAFLTQTVNLDDTTVKFEIWDTAGQ   60 (163)
T ss_pred             EEEEECCCCCCHHHHHHHHHcCCCCCCCCCccceeEEEEEEEECCEEEEEEEEeCCch
Confidence            68999999999999  9888777554 777778655555555543   4778999994

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

>cd00880 Era_like Era (E

Probab=97.79  E-value=1.1e-05  Score=60.22  Aligned_cols=54  Identities=22%  Similarity=0.150  Sum_probs=45.9

Q ss_pred             eecCCCCccCC--CCCCCCcccccCCCCCCccceeEEEe----cCCeEEecCCCCCCCCC
Q psy3587          25 LCDCPGLVFPS--KVPKPLQVVSVSRTPGHTKHFQTIFL----TDNIRLCDCPGLVFPSK   78 (195)
Q Consensus        25 vvG~PNVGKSs--N~L~~kk~v~vg~~PGvTk~~Q~i~l----~~~i~LlDtPGIv~p~~   78 (195)
                      |+|.+|+||||  |+|.+......+..++.|...+....    ...+.++||||+.....
T Consensus         1 i~G~~gsGKstl~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Dt~g~~~~~~   60 (163)
T cd00880           1 LFGRTNAGKSSLLNALLGQEVAIVSPVPGTTTDPVEYVWELGPLGPVVLIDTPGIDEAGG   60 (163)
T ss_pred             CcCCCCCCHHHHHHHHhCccccccCCCCCcEECCeEEEEEecCCCcEEEEECCCCCcccc
Confidence            58999999999  99999888889999999988877655    34899999999886554

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

>COG1163 DRG Predicted GTPase [General function prediction only]

Probab=97.78  E-value=9.4e-06  Score=71.25  Aligned_cols=50  Identities=20%  Similarity=0.306  Sum_probs=37.4

Q ss_pred             ceEeecCCCCccCC--CCCCCCcccccCC--------CCCCccceeEEEecCCeEEecCCCCCCCC
Q psy3587          22 NIRLCDCPGLVFPS--KVPKPLQVVSVSR--------TPGHTKHFQTIFLTDNIRLCDCPGLVFPS   77 (195)
Q Consensus        22 ~v~vvG~PNVGKSs--N~L~~kk~v~vg~--------~PGvTk~~Q~i~l~~~i~LlDtPGIv~p~   77 (195)
                      +|.+||+|||||||  |.|.+.++ .++.        .||+-..     =+-.|.|+|.|||+.--
T Consensus        65 ~v~lVGfPsvGKStLL~~LTnt~s-eva~y~FTTl~~VPG~l~Y-----~ga~IQild~Pgii~ga  124 (365)
T COG1163          65 TVALVGFPSVGKSTLLNKLTNTKS-EVADYPFTTLEPVPGMLEY-----KGAQIQLLDLPGIIEGA  124 (365)
T ss_pred             EEEEEcCCCccHHHHHHHHhCCCc-cccccCceecccccceEee-----cCceEEEEcCcccccCc
Confidence            79999999999999  99988663 3444        4554321     14479999999999654

>KOG1489|consensus

Probab=97.78  E-value=2.1e-05  Score=68.96  Aligned_cols=56  Identities=18%  Similarity=0.205  Sum_probs=43.2

Q ss_pred             ceEeecCCCCccCC--CCCCCCcccccCCCCCCccce--eEEEecC--CeEEecCCCCCCCCC
Q psy3587          22 NIRLCDCPGLVFPS--KVPKPLQVVSVSRTPGHTKHF--QTIFLTD--NIRLCDCPGLVFPSK   78 (195)
Q Consensus        22 ~v~vvG~PNVGKSs--N~L~~kk~v~vg~~PGvTk~~--Q~i~l~~--~i~LlDtPGIv~p~~   78 (195)
                      .|++||+||.||||  |+|...|. +|+..|=.|=.-  -.+..++  .|.+-|-|||+.-.-
T Consensus       198 dvGLVG~PNAGKSTLL~als~AKp-kVa~YaFTTL~P~iG~v~yddf~q~tVADiPGiI~GAh  259 (366)
T KOG1489|consen  198 DVGLVGFPNAGKSTLLNALSRAKP-KVAHYAFTTLRPHIGTVNYDDFSQITVADIPGIIEGAH  259 (366)
T ss_pred             ccceecCCCCcHHHHHHHhhccCC-cccccceeeeccccceeeccccceeEeccCcccccccc
Confidence            89999999999999  99998887 888887666333  2344433  488999999996443

>cd01866 Rab2 Rab2 subfamily

Probab=97.78  E-value=1.4e-05  Score=62.46  Aligned_cols=53  Identities=13%  Similarity=0.038  Sum_probs=38.7

Q ss_pred             CceEeecCCCCccCC--CCCCCCccccc-CCCCCCccceeEEEecC---CeEEecCCCC
Q psy3587          21 DNIRLCDCPGLVFPS--KVPKPLQVVSV-SRTPGHTKHFQTIFLTD---NIRLCDCPGL   73 (195)
Q Consensus        21 ~~v~vvG~PNVGKSs--N~L~~kk~v~v-g~~PGvTk~~Q~i~l~~---~i~LlDtPGI   73 (195)
                      .++++||.|||||||  |.+.+.+.... ..+.|.+.....+.++.   .+.++||||.
T Consensus         5 ~ki~vvG~~~vGKSsLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~Dt~G~   63 (168)
T cd01866           5 FKYIIIGDTGVGKSCLLLQFTDKRFQPVHDLTIGVEFGARMITIDGKQIKLQIWDTAGQ   63 (168)
T ss_pred             eEEEEECCCCCCHHHHHHHHHcCCCCCCCCCccceeEEEEEEEECCEEEEEEEEECCCc
Confidence            479999999999999  88876654333 34557665555555543   5889999994

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

>cd01878 HflX HflX subfamily

Probab=97.76  E-value=1.3e-05  Score=64.65  Aligned_cols=54  Identities=15%  Similarity=0.064  Sum_probs=39.4

Q ss_pred             CceEeecCCCCccCC--CCCCCCcccccCCCCCCccceeE--EEec-C-CeEEecCCCCCC
Q psy3587          21 DNIRLCDCPGLVFPS--KVPKPLQVVSVSRTPGHTKHFQT--IFLT-D-NIRLCDCPGLVF   75 (195)
Q Consensus        21 ~~v~vvG~PNVGKSs--N~L~~kk~v~vg~~PGvTk~~Q~--i~l~-~-~i~LlDtPGIv~   75 (195)
                      .+|+|+|-|||||||  |.+.+.. +.++..++.|.....  +.++ . .+.++||||...
T Consensus        42 ~~I~iiG~~g~GKStLl~~l~~~~-~~~~~~~~~t~~~~~~~~~~~~~~~~~i~Dt~G~~~  101 (204)
T cd01878          42 PTVALVGYTNAGKSTLFNALTGAD-VYAEDQLFATLDPTTRRLRLPDGREVLLTDTVGFIR  101 (204)
T ss_pred             CeEEEECCCCCCHHHHHHHHhcch-hccCCccceeccceeEEEEecCCceEEEeCCCcccc
Confidence            389999999999999  9988865 345555666654433  3332 2 789999999864

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.

>cd04156 ARLTS1 ARLTS1 subfamily

Probab=97.75  E-value=1.5e-05  Score=61.18  Aligned_cols=51  Identities=16%  Similarity=0.098  Sum_probs=39.0

Q ss_pred             ceEeecCCCCccCC--CCCCCCcccccCCCCCCccceeEEEec--CCeEEecCCCCC
Q psy3587          22 NIRLCDCPGLVFPS--KVPKPLQVVSVSRTPGHTKHFQTIFLT--DNIRLCDCPGLV   74 (195)
Q Consensus        22 ~v~vvG~PNVGKSs--N~L~~kk~v~vg~~PGvTk~~Q~i~l~--~~i~LlDtPGIv   74 (195)
                      +|+++|-|||||||  |.+.++..+...++.|.+.  ..+..+  -.+.++||||.-
T Consensus         1 ~i~i~G~~~~GKTsl~~~~~~~~~~~~~~t~~~~~--~~~~~~~~~~l~i~D~~G~~   55 (160)
T cd04156           1 QVLLLGLDSAGKSTLLYKLKHAELVTTIPTVGFNV--EMLQLEKHLSLTVWDVGGQE   55 (160)
T ss_pred             CEEEEcCCCCCHHHHHHHHhcCCcccccCccCcce--EEEEeCCceEEEEEECCCCH
Confidence            58899999999999  9998888777777777653  334443  258999999963

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

>cd01868 Rab11_like Rab11-like

Probab=97.74  E-value=1.7e-05  Score=61.30  Aligned_cols=54  Identities=15%  Similarity=0.073  Sum_probs=37.5

Q ss_pred             CceEeecCCCCccCC--CCCCCCcc-cccCCCCCCccceeEEEecC---CeEEecCCCCC
Q psy3587          21 DNIRLCDCPGLVFPS--KVPKPLQV-VSVSRTPGHTKHFQTIFLTD---NIRLCDCPGLV   74 (195)
Q Consensus        21 ~~v~vvG~PNVGKSs--N~L~~kk~-v~vg~~PGvTk~~Q~i~l~~---~i~LlDtPGIv   74 (195)
                      .+++++|.|||||||  |++.+.+. ....++.|.+-....+.++.   .+.++||||.-
T Consensus         4 ~ki~vvG~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~D~~g~~   63 (165)
T cd01868           4 FKIVLIGDSGVGKSNLLSRFTRNEFNLDSKSTIGVEFATRSIQIDGKTIKAQIWDTAGQE   63 (165)
T ss_pred             eEEEEECCCCCCHHHHHHHHhcCCCCCCCCCccceEEEEEEEEECCEEEEEEEEeCCChH
Confidence            479999999999999  88876653 34445555443344444443   47899999964

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

>KOG2484|consensus

Probab=97.74  E-value=1.2e-05  Score=72.17  Aligned_cols=48  Identities=33%  Similarity=0.539  Sum_probs=42.1

Q ss_pred             CccccCCCCccceeEEEEecCceEeecCCCCccCC---CC-CCCCcccccCC
Q psy3587           1 VVSVSRTPGHTKHFQTIFLTDNIRLCDCPGLVFPS---KV-PKPLQVVSVSR   48 (195)
Q Consensus         1 ~~~v~~~~g~tk~~q~~~l~~~v~vvG~PNVGKSs---N~-L~~kk~v~vg~   48 (195)
                      +|+|+++||.||-||+++||++|-++|+||+...+   +. +..+++..++.
T Consensus       277 ~C~vg~~pGvT~smqeV~Ldk~i~llDsPgiv~~~~~~~~~~~Lrn~~~i~~  328 (435)
T KOG2484|consen  277 ACNVGNVPGVTRSMQEVKLDKKIRLLDSPGIVPPSIDEKDALALRNCIPIGK  328 (435)
T ss_pred             cccCCCCccchhhhhheeccCCceeccCCceeecCCCccchhhhhccccccc
Confidence            69999999999999999999999999999998887   44 66777776664

>cd01861 Rab6 Rab6 subfamily

Probab=97.74  E-value=1.7e-05  Score=60.81  Aligned_cols=51  Identities=16%  Similarity=0.116  Sum_probs=35.8

Q ss_pred             ceEeecCCCCccCC--CCCCCCcccccCCCCCCccce--eEEEecC---CeEEecCCCC
Q psy3587          22 NIRLCDCPGLVFPS--KVPKPLQVVSVSRTPGHTKHF--QTIFLTD---NIRLCDCPGL   73 (195)
Q Consensus        22 ~v~vvG~PNVGKSs--N~L~~kk~v~vg~~PGvTk~~--Q~i~l~~---~i~LlDtPGI   73 (195)
                      +++++|.|||||||  |++.+.+... +..|+.|...  ..+.++.   .+.++||||-
T Consensus         2 ki~liG~~~~GKSsli~~l~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~l~~~D~~G~   59 (161)
T cd01861           2 KLVFLGDQSVGKTSIITRFMYDTFDN-QYQATIGIDFLSKTMYLEDKTVRLQLWDTAGQ   59 (161)
T ss_pred             EEEEECCCCCCHHHHHHHHHcCCCCc-cCCCceeeeEEEEEEEECCEEEEEEEEECCCc
Confidence            68999999999999  8887766432 4556555433  3343432   3789999994

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

>COG0536 Obg Predicted GTPase [General function prediction only]

Probab=97.72  E-value=2.8e-05  Score=68.64  Aligned_cols=156  Identities=17%  Similarity=0.206  Sum_probs=83.8

Q ss_pred             CCCccceeE-EEEecCceEeecCCCCccCC--CCCCCCcccccCCCCCCccceeE--EEe--cCCeEEecCCCCCCCCCC
Q psy3587           7 TPGHTKHFQ-TIFLTDNIRLCDCPGLVFPS--KVPKPLQVVSVSRTPGHTKHFQT--IFL--TDNIRLCDCPGLVFPSKV   79 (195)
Q Consensus         7 ~~g~tk~~q-~~~l~~~v~vvG~PNVGKSs--N~L~~kk~v~vg~~PGvTk~~Q~--i~l--~~~i~LlDtPGIv~p~~~   79 (195)
                      .||+-|.++ ++++--.|++||+||+||||  |.+...| -++++.|=.|-+-..  +++  .+.+.+-|-||++.=-.+
T Consensus       145 ~~Ge~r~v~LELKllADVGLVG~PNaGKSTlls~vS~Ak-PKIadYpFTTL~PnLGvV~~~~~~sfv~ADIPGLIEGAs~  223 (369)
T COG0536         145 EPGEERDLRLELKLLADVGLVGLPNAGKSTLLSAVSAAK-PKIADYPFTTLVPNLGVVRVDGGESFVVADIPGLIEGASE  223 (369)
T ss_pred             CCCceEEEEEEEeeecccccccCCCCcHHHHHHHHhhcC-CcccCCccccccCcccEEEecCCCcEEEecCccccccccc
Confidence            345555322 33333379999999999999  7665544 678888876654433  554  456999999999964432


Q ss_pred             Ch----------h-hhhhhCCCCCcc--ccCHHHHHHHHHH---HcCHHHHhh------cCCCCC-CCcCCHHHHHHHHH
Q psy3587          80 PK----------P-LQVLMGSFPIAQ--LREPYSTVQYLAE---RMDLIKLLH------IKHPDD-DEYWCAMDICDGWA  136 (195)
Q Consensus        80 ~~----------~-~l~l~g~~~~~~--i~d~~~~~~~l~~---~~~~~~l~~------~~~~~~-~~~~~~~e~L~~iA  136 (195)
                      ..          | .-+|.-.+..+.  -+||...+..|..   .|+ ..|+.      +.+.+. ......+++-..++
T Consensus       224 G~GLG~~FLrHIERt~vL~hviD~s~~~~~dp~~~~~~i~~EL~~Y~-~~L~~K~~ivv~NKiD~~~~~e~~~~~~~~l~  302 (369)
T COG0536         224 GVGLGLRFLRHIERTRVLLHVIDLSPIDGRDPIEDYQTIRNELEKYS-PKLAEKPRIVVLNKIDLPLDEEELEELKKALA  302 (369)
T ss_pred             CCCccHHHHHHHHhhheeEEEEecCcccCCCHHHHHHHHHHHHHHhh-HHhccCceEEEEeccCCCcCHHHHHHHHHHHH
Confidence            11          1 112333333332  2566655554432   333 12221      122331 11112444555555


Q ss_pred             HHcCcc----c---ccCCcccHHHHHHHHHHHHHc
Q psy3587         137 QKRSYM----T---AKTGRYDSYRAANELLRMATE  164 (195)
Q Consensus       137 ~k~g~l----~---~kgG~~D~~rAa~~~L~d~~~  164 (195)
                      ...++.    .   ...|.-++-++...+|.....
T Consensus       303 ~~~~~~~~~~ISa~t~~g~~~L~~~~~~~l~~~~~  337 (369)
T COG0536         303 EALGWEVFYLISALTREGLDELLRALAELLEETKA  337 (369)
T ss_pred             HhcCCCcceeeehhcccCHHHHHHHHHHHHHHhhh
Confidence            555532    0   124555677777777777764

>PRK15467 ethanolamine utilization protein EutP; Provisional

Probab=97.70  E-value=1.9e-05  Score=61.98  Aligned_cols=48  Identities=17%  Similarity=0.202  Sum_probs=32.4

Q ss_pred             CceEeecCCCCccCC--CCCCCCcccccCCCCCCccceeEEEecCCeEEecCCCCCCCC
Q psy3587          21 DNIRLCDCPGLVFPS--KVPKPLQVVSVSRTPGHTKHFQTIFLTDNIRLCDCPGLVFPS   77 (195)
Q Consensus        21 ~~v~vvG~PNVGKSs--N~L~~kk~v~vg~~PGvTk~~Q~i~l~~~i~LlDtPGIv~p~   77 (195)
                      ++|+++|.|||||||  |.|.+....        ++..+.+..... -++||||.....
T Consensus         2 ~~i~~iG~~~~GKstl~~~l~~~~~~--------~~~~~~v~~~~~-~~iDtpG~~~~~   51 (158)
T PRK15467          2 KRIAFVGAVGAGKTTLFNALQGNYTL--------ARKTQAVEFNDK-GDIDTPGEYFSH   51 (158)
T ss_pred             cEEEEECCCCCCHHHHHHHHcCCCcc--------CccceEEEECCC-CcccCCccccCC
Confidence            479999999999999  998876532        122233333222 269999986544

>cd01867 Rab8_Rab10_Rab13_like Rab8/Sec4/Ypt2

Probab=97.69  E-value=2.3e-05  Score=61.09  Aligned_cols=54  Identities=19%  Similarity=0.071  Sum_probs=38.8

Q ss_pred             CceEeecCCCCccCC--CCCCCCcc-cccCCCCCCccceeEEEecC---CeEEecCCCCC
Q psy3587          21 DNIRLCDCPGLVFPS--KVPKPLQV-VSVSRTPGHTKHFQTIFLTD---NIRLCDCPGLV   74 (195)
Q Consensus        21 ~~v~vvG~PNVGKSs--N~L~~kk~-v~vg~~PGvTk~~Q~i~l~~---~i~LlDtPGIv   74 (195)
                      -+|+++|.|||||||  |.+.+.+. ....++.|++.....+.++.   .+.|.||||.-
T Consensus         4 ~ki~vvG~~~~GKSsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~~~~~l~l~D~~g~~   63 (167)
T cd01867           4 FKLLLIGDSGVGKSCLLLRFSEDSFNPSFISTIGIDFKIRTIELDGKKIKLQIWDTAGQE   63 (167)
T ss_pred             eEEEEECCCCCCHHHHHHHHhhCcCCcccccCccceEEEEEEEECCEEEEEEEEeCCchH
Confidence            479999999999999  88776553 33355556655555565544   47899999954

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

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

Probab=97.68  E-value=2.5e-05  Score=59.98  Aligned_cols=51  Identities=20%  Similarity=0.081  Sum_probs=39.2

Q ss_pred             ceEeecCCCCccCC--CCCCCCcccccCCCCCCccceeEEEe-cCCeEEecCCCCC
Q psy3587          22 NIRLCDCPGLVFPS--KVPKPLQVVSVSRTPGHTKHFQTIFL-TDNIRLCDCPGLV   74 (195)
Q Consensus        22 ~v~vvG~PNVGKSs--N~L~~kk~v~vg~~PGvTk~~Q~i~l-~~~i~LlDtPGIv   74 (195)
                      +++++|.|||||||  |++.+.+.....++.|.+..  .+.. +-.+.++||||-.
T Consensus         1 ki~iiG~~~~GKssli~~~~~~~~~~~~~t~~~~~~--~~~~~~~~~~i~D~~G~~   54 (158)
T cd00878           1 RILILGLDGAGKTTILYKLKLGEVVTTIPTIGFNVE--TVEYKNVSFTVWDVGGQD   54 (158)
T ss_pred             CEEEEcCCCCCHHHHHHHHhcCCCCCCCCCcCcceE--EEEECCEEEEEEECCCCh
Confidence            58999999999999  99988876667777776643  2333 3479999999964

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

>cd04157 Arl6 Arl6 subfamily

Probab=97.68  E-value=2.5e-05  Score=59.93  Aligned_cols=51  Identities=16%  Similarity=0.015  Sum_probs=36.6

Q ss_pred             ceEeecCCCCccCC--CCCCCCc--ccccCCCCCCccceeEEEe-cCCeEEecCCCCC
Q psy3587          22 NIRLCDCPGLVFPS--KVPKPLQ--VVSVSRTPGHTKHFQTIFL-TDNIRLCDCPGLV   74 (195)
Q Consensus        22 ~v~vvG~PNVGKSs--N~L~~kk--~v~vg~~PGvTk~~Q~i~l-~~~i~LlDtPGIv   74 (195)
                      +|.++|.|||||||  |.+.+..  .....++.|.+...  +.. +-.+.++||||..
T Consensus         1 ~i~~vG~~~~GKTsl~~~l~~~~~~~~~~~~t~g~~~~~--~~~~~~~~~l~Dt~G~~   56 (162)
T cd04157           1 NILVVGLDNSGKTTIINQLKPENAQSQIIVPTVGFNVES--FEKGNLSFTAFDMSGQG   56 (162)
T ss_pred             CEEEECCCCCCHHHHHHHHcccCCCcceecCccccceEE--EEECCEEEEEEECCCCH
Confidence            58899999999999  8888753  44567777765322  222 2358899999964

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

>cd00881 GTP_translation_factor GTP translation factor family

Probab=97.65  E-value=1.5e-05  Score=62.45  Aligned_cols=53  Identities=13%  Similarity=0.043  Sum_probs=37.0

Q ss_pred             ceEeecCCCCccCC--CCCCCCccccc---------------CCCCCCccceeEEEe---cCCeEEecCCCCC
Q psy3587          22 NIRLCDCPGLVFPS--KVPKPLQVVSV---------------SRTPGHTKHFQTIFL---TDNIRLCDCPGLV   74 (195)
Q Consensus        22 ~v~vvG~PNVGKSs--N~L~~kk~v~v---------------g~~PGvTk~~Q~i~l---~~~i~LlDtPGIv   74 (195)
                      +|+|+|.||+||||  |+|.+......               ....|+|.......+   ...+.++||||..
T Consensus         1 ~v~v~G~~~~GKStlln~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtpG~~   73 (189)
T cd00881           1 NVGIAGHVDHGKTTLTERLLYVTGDIERDGTVEETFLDVLKEERERGITIKSGVATFEWPDRRVNFIDTPGHE   73 (189)
T ss_pred             CEEEEeCCCCCHHHHHHHHHHhcCCCCcCCceecccccCCHHHHHcCCCeecceEEEeeCCEEEEEEeCCCcH
Confidence            58999999999999  88865443322               224566666555443   3468999999964

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.

>cd04119 RJL RJL (RabJ-Like) subfamily

Probab=97.62  E-value=3.2e-05  Score=59.28  Aligned_cols=52  Identities=12%  Similarity=0.010  Sum_probs=35.7

Q ss_pred             ceEeecCCCCccCC--CCCCCCcc-cccCCCCCCccceeEEEec---CCeEEecCCCC
Q psy3587          22 NIRLCDCPGLVFPS--KVPKPLQV-VSVSRTPGHTKHFQTIFLT---DNIRLCDCPGL   73 (195)
Q Consensus        22 ~v~vvG~PNVGKSs--N~L~~kk~-v~vg~~PGvTk~~Q~i~l~---~~i~LlDtPGI   73 (195)
                      +|.++|.|||||||  |++.+++. ....++.|.......+.++   -.+.++||||.
T Consensus         2 ki~~vG~~~vGKTsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~   59 (168)
T cd04119           2 KVISMGNSGVGKSCIIKRYCEGRFVSKYLPTIGIDYGVKKVSVRNKEVRVNFFDLSGH   59 (168)
T ss_pred             EEEEECCCCCCHHHHHHHHHhCCCCCCCCCccceeEEEEEEEECCeEEEEEEEECCcc
Confidence            58999999999999  88877653 3344444444333344443   25789999996

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.

>cd04166 CysN_ATPS CysN_ATPS subfamily

Probab=97.62  E-value=1.3e-05  Score=65.64  Aligned_cols=52  Identities=13%  Similarity=0.078  Sum_probs=37.1

Q ss_pred             ceEeecCCCCccCC--CCCCCCcccc------------------------------cCCCCCCccceeEEEe---cCCeE
Q psy3587          22 NIRLCDCPGLVFPS--KVPKPLQVVS------------------------------VSRTPGHTKHFQTIFL---TDNIR   66 (195)
Q Consensus        22 ~v~vvG~PNVGKSs--N~L~~kk~v~------------------------------vg~~PGvTk~~Q~i~l---~~~i~   66 (195)
                      +|+|||-||+||||  |+|.....+-                              ....+|+|+......+   +..+.
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            68999999999999  7764322111                              1223788887766554   44799


Q ss_pred             EecCCCC
Q psy3587          67 LCDCPGL   73 (195)
Q Consensus        67 LlDtPGI   73 (195)
                      |+||||.
T Consensus        81 liDTpG~   87 (208)
T cd04166          81 IADTPGH   87 (208)
T ss_pred             EEECCcH
Confidence            9999996

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.

>smart00175 RAB Rab subfamily of small GTPases

Probab=97.61  E-value=3.3e-05  Score=59.19  Aligned_cols=52  Identities=19%  Similarity=0.111  Sum_probs=36.1

Q ss_pred             ceEeecCCCCccCC--CCCCCCcc-cccCCCCCCccceeEEEecC---CeEEecCCCC
Q psy3587          22 NIRLCDCPGLVFPS--KVPKPLQV-VSVSRTPGHTKHFQTIFLTD---NIRLCDCPGL   73 (195)
Q Consensus        22 ~v~vvG~PNVGKSs--N~L~~kk~-v~vg~~PGvTk~~Q~i~l~~---~i~LlDtPGI   73 (195)
                      +|+++|-||+||||  |++.+.+. .....+.|.+...+.+.++.   .+.++||||.
T Consensus         2 kv~v~G~~~~GKTtli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~D~~G~   59 (164)
T smart00175        2 KIILIGDSGVGKSSLLSRFTDGKFSEQYKSTIGVDFKTKTIEVDGKRVKLQIWDTAGQ   59 (164)
T ss_pred             EEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeeEEEEEEEEECCEEEEEEEEECCCh
Confidence            68999999999999  88876653 23334444444444555543   5779999994

Rab GTPases are implicated in vesicle trafficking.

>cd04154 Arl2 Arl2 subfamily

Probab=97.60  E-value=3.6e-05  Score=60.40  Aligned_cols=52  Identities=15%  Similarity=0.059  Sum_probs=38.9

Q ss_pred             CceEeecCCCCccCC--CCCCCCcccccCCCCCCccceeEEEec-CCeEEecCCCCC
Q psy3587          21 DNIRLCDCPGLVFPS--KVPKPLQVVSVSRTPGHTKHFQTIFLT-DNIRLCDCPGLV   74 (195)
Q Consensus        21 ~~v~vvG~PNVGKSs--N~L~~kk~v~vg~~PGvTk~~Q~i~l~-~~i~LlDtPGIv   74 (195)
                      .++.++|-|||||||  |.+.++....+.++.|...  ..+.++ -.+.++||||.-
T Consensus        15 ~kv~ivG~~~~GKTsL~~~l~~~~~~~~~~t~g~~~--~~~~~~~~~l~l~D~~G~~   69 (173)
T cd04154          15 MRILILGLDNAGKTTILKKLLGEDIDTISPTLGFQI--KTLEYEGYKLNIWDVGGQK   69 (173)
T ss_pred             cEEEEECCCCCCHHHHHHHHccCCCCCcCCccccce--EEEEECCEEEEEEECCCCH
Confidence            379999999999999  8888877666777777543  233343 357899999963

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.

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

Probab=97.57  E-value=4.4e-05  Score=58.64  Aligned_cols=51  Identities=8%  Similarity=-0.036  Sum_probs=33.0

Q ss_pred             ceEeecCCCCccCC--CCCCCCcccccCCCCCCcc--ceeEEEecC---CeEEecCCCCC
Q psy3587          22 NIRLCDCPGLVFPS--KVPKPLQVVSVSRTPGHTK--HFQTIFLTD---NIRLCDCPGLV   74 (195)
Q Consensus        22 ~v~vvG~PNVGKSs--N~L~~kk~v~vg~~PGvTk--~~Q~i~l~~---~i~LlDtPGIv   74 (195)
                      +++++|.|||||||  |++.+...+  ...++.+.  ....+.++.   .+.++||||..
T Consensus         4 ki~i~G~~~~GKtsl~~~~~~~~~~--~~~~~t~~~~~~~~~~~~~~~~~~~i~Dt~G~~   61 (164)
T cd04145           4 KLVVVGGGGVGKSALTIQFIQSYFV--TDYDPTIEDSYTKQCEIDGQWAILDILDTAGQE   61 (164)
T ss_pred             EEEEECCCCCcHHHHHHHHHhCCCC--cccCCCccceEEEEEEECCEEEEEEEEECCCCc
Confidence            79999999999999  877665432  23233222  122334443   47789999954

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

>cd04153 Arl5_Arl8 Arl5/Arl8 subfamily

Probab=97.55  E-value=4.7e-05  Score=60.11  Aligned_cols=52  Identities=15%  Similarity=0.003  Sum_probs=39.7

Q ss_pred             CceEeecCCCCccCC--CCCCCCcccccCCCCCCccceeEEEec-CCeEEecCCCCC
Q psy3587          21 DNIRLCDCPGLVFPS--KVPKPLQVVSVSRTPGHTKHFQTIFLT-DNIRLCDCPGLV   74 (195)
Q Consensus        21 ~~v~vvG~PNVGKSs--N~L~~kk~v~vg~~PGvTk~~Q~i~l~-~~i~LlDtPGIv   74 (195)
                      .++.++|.|||||||  |.+...+.....++.|.+.  ..+..+ -.+.|+||||.-
T Consensus        16 ~kv~~~G~~~~GKTsl~~~l~~~~~~~~~~t~~~~~--~~~~~~~~~~~l~D~~G~~   70 (174)
T cd04153          16 YKVIIVGLDNAGKTTILYQFLLGEVVHTSPTIGSNV--EEIVYKNIRFLMWDIGGQE   70 (174)
T ss_pred             cEEEEECCCCCCHHHHHHHHccCCCCCcCCccccce--EEEEECCeEEEEEECCCCH
Confidence            479999999999999  8887766666777777654  344443 368999999963

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.

>COG3596 Predicted GTPase [General function prediction only]

Probab=97.53  E-value=2.4e-05  Score=67.31  Aligned_cols=59  Identities=24%  Similarity=0.106  Sum_probs=45.7

Q ss_pred             ceEeecCCCCccCC--CCCCC---CcccccC-CCCCCccceeEEEecCCeEEecCCCCCCCCCCCh
Q psy3587          22 NIRLCDCPGLVFPS--KVPKP---LQVVSVS-RTPGHTKHFQTIFLTDNIRLCDCPGLVFPSKVPK   81 (195)
Q Consensus        22 ~v~vvG~PNVGKSs--N~L~~---kk~v~vg-~~PGvTk~~Q~i~l~~~i~LlDtPGIv~p~~~~~   81 (195)
                      ++.+.|--|+||||  |+|..   +.+.+|+ -++=.|+..+.+.. +.+.|.||||+=.-+-.|.
T Consensus        41 nvLi~G~TG~GKSSliNALF~~~~~~v~~vg~~t~~~~~~~~~~~~-~~l~lwDtPG~gdg~~~D~  105 (296)
T COG3596          41 NVLLMGATGAGKSSLINALFQGEVKEVSKVGVGTDITTRLRLSYDG-ENLVLWDTPGLGDGKDKDA  105 (296)
T ss_pred             eEEEecCCCCcHHHHHHHHHhccCceeeecccCCCchhhHHhhccc-cceEEecCCCcccchhhhH
Confidence            78899999999999  99984   5555555 33445677777766 8999999999987665553

>cd04160 Arfrp1 Arfrp1 subfamily

Probab=97.53  E-value=5.9e-05  Score=58.27  Aligned_cols=53  Identities=13%  Similarity=0.003  Sum_probs=33.1

Q ss_pred             ceEeecCCCCccCC--CCCCCCccc---ccCCCCCCccc--eeEEEec-CCeEEecCCCCC
Q psy3587          22 NIRLCDCPGLVFPS--KVPKPLQVV---SVSRTPGHTKH--FQTIFLT-DNIRLCDCPGLV   74 (195)
Q Consensus        22 ~v~vvG~PNVGKSs--N~L~~kk~v---~vg~~PGvTk~--~Q~i~l~-~~i~LlDtPGIv   74 (195)
                      +|+++|.||+||||  |.|.+....   .....+..|.+  ...+..+ ..+.++||||.-
T Consensus         1 ~i~~vG~~~~GKstLi~~l~~~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~l~Dt~G~~   61 (167)
T cd04160           1 SVLILGLDNAGKTTFLEQLKTLFSKYKGLPPSKITPTVGLNIGTIEVGNARLKFWDLGGQE   61 (167)
T ss_pred             CEEEEecCCCCHHHHHHHHhhhcccccCCcccccCCccccceEEEEECCEEEEEEECCCCh
Confidence            58999999999999  887654321   11111222322  2334443 468999999974

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.

>cd04113 Rab4 Rab4 subfamily

Probab=97.52  E-value=5e-05  Score=58.44  Aligned_cols=52  Identities=12%  Similarity=0.031  Sum_probs=35.6

Q ss_pred             ceEeecCCCCccCC--CCCCCCc-ccccCCCCCCccceeEEEecC---CeEEecCCCC
Q psy3587          22 NIRLCDCPGLVFPS--KVPKPLQ-VVSVSRTPGHTKHFQTIFLTD---NIRLCDCPGL   73 (195)
Q Consensus        22 ~v~vvG~PNVGKSs--N~L~~kk-~v~vg~~PGvTk~~Q~i~l~~---~i~LlDtPGI   73 (195)
                      +++++|.|||||||  |.|.+.+ .....++.|..-....+.++.   .+.|+||||.
T Consensus         2 ki~v~G~~~vGKTsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~l~D~~G~   59 (161)
T cd04113           2 KFIIIGSSGTGKSCLLHRFVENKFKEDSQHTIGVEFGSKIIRVGGKRVKLQIWDTAGQ   59 (161)
T ss_pred             EEEEECCCCCCHHHHHHHHHhCCCCCCCCCceeeeEEEEEEEECCEEEEEEEEECcch
Confidence            68999999999999  8877655 334444555433333444433   4789999996

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

>cd04104 p47_IIGP_like p47 (47-kDa) family

Probab=97.50  E-value=9.3e-05  Score=60.04  Aligned_cols=57  Identities=19%  Similarity=0.113  Sum_probs=38.2

Q ss_pred             ceEeecCCCCccCC--CCCCCCcccc-cCCCCC---CccceeEEEe--cCCeEEecCCCCCCCCC
Q psy3587          22 NIRLCDCPGLVFPS--KVPKPLQVVS-VSRTPG---HTKHFQTIFL--TDNIRLCDCPGLVFPSK   78 (195)
Q Consensus        22 ~v~vvG~PNVGKSs--N~L~~kk~v~-vg~~PG---vTk~~Q~i~l--~~~i~LlDtPGIv~p~~   78 (195)
                      +++++|-+|+||||  |+|.+..... .....|   +|+..+.+..  ..++.++||||+-....
T Consensus         3 kI~i~G~~g~GKSSLin~L~g~~~~~~~~~~~~~~~~t~~~~~~~~~~~~~l~l~DtpG~~~~~~   67 (197)
T cd04104           3 NIAVTGESGAGKSSFINALRGVGHEEEGAAPTGVVETTMKRTPYPHPKFPNVTLWDLPGIGSTAF   67 (197)
T ss_pred             EEEEECCCCCCHHHHHHHHhccCCCCCCccccCccccccCceeeecCCCCCceEEeCCCCCcccC
Confidence            68999999999999  9988744322 222223   3554444433  24799999999875443

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

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

Probab=97.50  E-value=5e-05  Score=60.70  Aligned_cols=53  Identities=11%  Similarity=0.005  Sum_probs=39.1

Q ss_pred             cCceEeecCCCCccCC--CCCCCCcccccCCCCCCccceeEEEec-CCeEEecCCCCC
Q psy3587          20 TDNIRLCDCPGLVFPS--KVPKPLQVVSVSRTPGHTKHFQTIFLT-DNIRLCDCPGLV   74 (195)
Q Consensus        20 ~~~v~vvG~PNVGKSs--N~L~~kk~v~vg~~PGvTk~~Q~i~l~-~~i~LlDtPGIv   74 (195)
                      ..++.++|.|||||||  |.+.+.+...+.++.|.|.  ..+..+ -.+.++||||.-
T Consensus        17 ~~~i~ivG~~~~GKTsli~~l~~~~~~~~~~t~~~~~--~~~~~~~~~~~~~D~~G~~   72 (184)
T smart00178       17 HAKILFLGLDNAGKTTLLHMLKNDRLAQHQPTQHPTS--EELAIGNIKFTTFDLGGHQ   72 (184)
T ss_pred             cCEEEEECCCCCCHHHHHHHHhcCCCcccCCccccce--EEEEECCEEEEEEECCCCH
Confidence            4589999999999999  9998877666655555543  333333 368899999964

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

>cd04155 Arl3 Arl3 subfamily

Probab=97.49  E-value=5.8e-05  Score=58.77  Aligned_cols=52  Identities=13%  Similarity=0.083  Sum_probs=39.1

Q ss_pred             cCceEeecCCCCccCC--CCCCCCcccccCCCCCCccceeEEEe-cCCeEEecCCCC
Q psy3587          20 TDNIRLCDCPGLVFPS--KVPKPLQVVSVSRTPGHTKHFQTIFL-TDNIRLCDCPGL   73 (195)
Q Consensus        20 ~~~v~vvG~PNVGKSs--N~L~~kk~v~vg~~PGvTk~~Q~i~l-~~~i~LlDtPGI   73 (195)
                      ..+++++|-||+||||  |.+.+.......++.|.+..  .+.. +..+.++||||.
T Consensus        14 ~~~v~i~G~~g~GKStLl~~l~~~~~~~~~~t~g~~~~--~i~~~~~~~~~~D~~G~   68 (173)
T cd04155          14 EPRILILGLDNAGKTTILKQLASEDISHITPTQGFNIK--TVQSDGFKLNVWDIGGQ   68 (173)
T ss_pred             ccEEEEEccCCCCHHHHHHHHhcCCCcccCCCCCcceE--EEEECCEEEEEEECCCC
Confidence            3479999999999999  88888766666677776542  3333 346889999995

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.

>cd01864 Rab19 Rab19 subfamily

Probab=97.48  E-value=6.5e-05  Score=58.23  Aligned_cols=53  Identities=15%  Similarity=0.077  Sum_probs=36.1

Q ss_pred             CceEeecCCCCccCC--CCCCCCcccc-cCCCCCCccceeEEEecC---CeEEecCCCC
Q psy3587          21 DNIRLCDCPGLVFPS--KVPKPLQVVS-VSRTPGHTKHFQTIFLTD---NIRLCDCPGL   73 (195)
Q Consensus        21 ~~v~vvG~PNVGKSs--N~L~~kk~v~-vg~~PGvTk~~Q~i~l~~---~i~LlDtPGI   73 (195)
                      .+++++|.||+||||  |++...+... -..+.|..-....+.++.   .+.|+||||-
T Consensus         4 ~kv~vvG~~~~GKTsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~G~   62 (165)
T cd01864           4 FKIILIGDSNVGKTCVVQRFKSGTFSERQGNTIGVDFTMKTLEIEGKRVKLQIWDTAGQ   62 (165)
T ss_pred             eEEEEECCCCCCHHHHHHHHhhCCCcccCCCccceEEEEEEEEECCEEEEEEEEECCCh
Confidence            479999999999999  8876544332 234444433444555544   5789999994

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.

>cd01862 Rab7 Rab7 subfamily

Probab=97.48  E-value=6.8e-05  Score=58.01  Aligned_cols=52  Identities=13%  Similarity=0.118  Sum_probs=33.8

Q ss_pred             ceEeecCCCCccCC--CCCCCCccc-ccCCCCCCccceeEEEecC---CeEEecCCCC
Q psy3587          22 NIRLCDCPGLVFPS--KVPKPLQVV-SVSRTPGHTKHFQTIFLTD---NIRLCDCPGL   73 (195)
Q Consensus        22 ~v~vvG~PNVGKSs--N~L~~kk~v-~vg~~PGvTk~~Q~i~l~~---~i~LlDtPGI   73 (195)
                      +|+++|.|||||||  |++...... ....+.|.+-....+.++.   .+.++||||.
T Consensus         2 ki~viG~~~~GKSsl~~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~~D~~g~   59 (172)
T cd01862           2 KVIILGDSGVGKTSLMNQYVNKKFSNQYKATIGADFLTKEVTVDDKLVTLQIWDTAGQ   59 (172)
T ss_pred             EEEEECCCCCCHHHHHHHHhcCCCCcCcCCccceEEEEEEEEECCEEEEEEEEeCCCh
Confidence            68999999999999  888765532 2233444433333344433   2568999995

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-

>cd04151 Arl1 Arl1 subfamily

Probab=97.44  E-value=9.7e-05  Score=56.93  Aligned_cols=51  Identities=16%  Similarity=0.059  Sum_probs=34.8

Q ss_pred             ceEeecCCCCccCC--CCCCCCcccccCCCCCCccceeEEEe-cCCeEEecCCCCC
Q psy3587          22 NIRLCDCPGLVFPS--KVPKPLQVVSVSRTPGHTKHFQTIFL-TDNIRLCDCPGLV   74 (195)
Q Consensus        22 ~v~vvG~PNVGKSs--N~L~~kk~v~vg~~PGvTk~~Q~i~l-~~~i~LlDtPGIv   74 (195)
                      +|.++|.|||||||  |+|.....+...++-|.+.  ..+.. +-.+.++||||..
T Consensus         1 kv~lvG~~~~GKTsl~~~l~~~~~~~~~~t~~~~~--~~~~~~~~~~~i~Dt~G~~   54 (158)
T cd04151           1 RILILGLDNAGKTTILYRLQLGEVVTTIPTIGFNV--ETVTYKNLKFQVWDLGGQT   54 (158)
T ss_pred             CEEEECCCCCCHHHHHHHHccCCCcCcCCccCcCe--EEEEECCEEEEEEECCCCH
Confidence            58899999999999  8887666554444334332  22322 2368899999974

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.

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

Probab=97.44  E-value=4.1e-05  Score=60.22  Aligned_cols=53  Identities=15%  Similarity=0.028  Sum_probs=32.8

Q ss_pred             CceEeecCCCCccCC--CCCCCCcccccCCCCCCccc-eeEEEec---CCeEEecCCCCC
Q psy3587          21 DNIRLCDCPGLVFPS--KVPKPLQVVSVSRTPGHTKH-FQTIFLT---DNIRLCDCPGLV   74 (195)
Q Consensus        21 ~~v~vvG~PNVGKSs--N~L~~kk~v~vg~~PGvTk~-~Q~i~l~---~~i~LlDtPGIv   74 (195)
                      .+|+++|.|||||||  |.+.+.+.. ....|..... ...+.++   -.+.|+||||.-
T Consensus         2 ~kv~l~G~~g~GKTtl~~~~~~~~~~-~~~~~t~~~~~~~~~~~~~~~~~~~l~D~~g~~   60 (180)
T cd04137           2 RKIAVLGSRSVGKSSLTVQFVEGHFV-ESYYPTIENTFSKIIRYKGQDYHLEIVDTAGQD   60 (180)
T ss_pred             eEEEEECCCCCCHHHHHHHHHhCCCc-cccCcchhhhEEEEEEECCEEEEEEEEECCChH
Confidence            579999999999999  887765432 2233322111 1222332   247899999963

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

>KOG2486|consensus

Probab=97.43  E-value=0.0001  Score=63.69  Aligned_cols=56  Identities=13%  Similarity=0.124  Sum_probs=45.7

Q ss_pred             ceEeecCCCCccCC--CCCCC-CcccccCC-CCCCccceeEEEecCCeEEecCCCCCCCC
Q psy3587          22 NIRLCDCPGLVFPS--KVPKP-LQVVSVSR-TPGHTKHFQTIFLTDNIRLCDCPGLVFPS   77 (195)
Q Consensus        22 ~v~vvG~PNVGKSs--N~L~~-kk~v~vg~-~PGvTk~~Q~i~l~~~i~LlDtPGIv~p~   77 (195)
                      ++.+.|-.||||||  |.+.. +..+.++. +||.|+.++-.++.+..+++|.||.=+-.
T Consensus       138 e~~~~g~SNVGKSSLln~~~r~k~~~~t~k~K~g~Tq~in~f~v~~~~~~vDlPG~~~a~  197 (320)
T KOG2486|consen  138 ELAFYGRSNVGKSSLLNDLVRVKNIADTSKSKNGKTQAINHFHVGKSWYEVDLPGYGRAG  197 (320)
T ss_pred             eeeeecCCcccHHHHHhhhhhhhhhhhhcCCCCccceeeeeeeccceEEEEecCCccccc
Confidence            56677777999999  77665 44556666 99999999999999999999999955443

>cd04118 Rab24 Rab24 subfamily

Probab=97.43  E-value=7.2e-05  Score=59.65  Aligned_cols=53  Identities=9%  Similarity=0.063  Sum_probs=37.3

Q ss_pred             ceEeecCCCCccCC--CCCCCCccc--ccCCCCCCccceeEEEecC---CeEEecCCCCC
Q psy3587          22 NIRLCDCPGLVFPS--KVPKPLQVV--SVSRTPGHTKHFQTIFLTD---NIRLCDCPGLV   74 (195)
Q Consensus        22 ~v~vvG~PNVGKSs--N~L~~kk~v--~vg~~PGvTk~~Q~i~l~~---~i~LlDtPGIv   74 (195)
                      +|.++|-|||||||  |++...+..  ...++.|.+-....+.++.   .+.++||||.-
T Consensus         2 ki~vvG~~~vGKSsLi~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~G~~   61 (193)
T cd04118           2 KVVMLGKESVGKTSLVERYVHHRFLVGPYQNTIGAAFVAKRMVVGERVVTLGIWDTAGSE   61 (193)
T ss_pred             EEEEECCCCCCHHHHHHHHHhCCcCCcCcccceeeEEEEEEEEECCEEEEEEEEECCCch
Confidence            58999999999999  888765543  3555556554444555543   35689999963

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

>cd04161 Arl2l1_Arl13_like Arl2l1/Arl13 subfamily

Probab=97.43  E-value=0.00011  Score=57.73  Aligned_cols=50  Identities=14%  Similarity=0.043  Sum_probs=38.6

Q ss_pred             ceEeecCCCCccCC--CCCCCCcccccCCCCCCccceeEEEecC-CeEEecCCCC
Q psy3587          22 NIRLCDCPGLVFPS--KVPKPLQVVSVSRTPGHTKHFQTIFLTD-NIRLCDCPGL   73 (195)
Q Consensus        22 ~v~vvG~PNVGKSs--N~L~~kk~v~vg~~PGvTk~~Q~i~l~~-~i~LlDtPGI   73 (195)
                      +|.++|.+||||||  |.+.++......++.|.++  ..+..++ .+.++||||-
T Consensus         1 ~i~~~G~~~~GKTsl~~~l~~~~~~~~~~t~g~~~--~~~~~~~~~~~i~D~~G~   53 (167)
T cd04161           1 TLLTVGLDNAGKTTLVSALQGEIPKKVAPTVGFTP--TKLRLDKYEVCIFDLGGG   53 (167)
T ss_pred             CEEEECCCCCCHHHHHHHHhCCCCccccCcccceE--EEEEECCEEEEEEECCCc
Confidence            47899999999999  8888776666777778764  3444433 6889999995

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.

>cd01890 LepA LepA subfamily

Probab=97.43  E-value=2.9e-05  Score=60.79  Aligned_cols=54  Identities=24%  Similarity=0.175  Sum_probs=36.1

Q ss_pred             CceEeecCCCCccCC--CCCCCCccc--------------ccCCCCCCccceeEEEe--------cCCeEEecCCCCC
Q psy3587          21 DNIRLCDCPGLVFPS--KVPKPLQVV--------------SVSRTPGHTKHFQTIFL--------TDNIRLCDCPGLV   74 (195)
Q Consensus        21 ~~v~vvG~PNVGKSs--N~L~~kk~v--------------~vg~~PGvTk~~Q~i~l--------~~~i~LlDtPGIv   74 (195)
                      .+|++||-+||||||  |+|.+...+              .+....|+|...+.+.+        +-.+.|+||||.-
T Consensus         1 rni~~vG~~~~GKssL~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~g~t~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~   78 (179)
T cd01890           1 RNFSIIAHIDHGKSTLADRLLELTGTVSKREMKEQVLDSMDLERERGITIKAQTVRLNYKAKDGQEYLLNLIDTPGHV   78 (179)
T ss_pred             CcEEEEeecCCCHHHHHHHHHHHhCCCCcCCCceEeccCChhHHHCCCeEecceEEEEEecCCCCcEEEEEEECCCCh
Confidence            379999999999999  877643211              12234577766555443        1247799999985

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.

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

Probab=97.42  E-value=8.5e-05  Score=56.58  Aligned_cols=51  Identities=10%  Similarity=0.079  Sum_probs=32.1

Q ss_pred             ceEeecCCCCccCC--CCCCCCcccc-cCCCCCCccceeEEEecC---CeEEecCCCC
Q psy3587          22 NIRLCDCPGLVFPS--KVPKPLQVVS-VSRTPGHTKHFQTIFLTD---NIRLCDCPGL   73 (195)
Q Consensus        22 ~v~vvG~PNVGKSs--N~L~~kk~v~-vg~~PGvTk~~Q~i~l~~---~i~LlDtPGI   73 (195)
                      +|+++|.|||||||  |++.+.+... ..++.|.+- ...+.++.   .+.++||||-
T Consensus         3 ki~iiG~~~vGKTsl~~~~~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~~~i~Dt~G~   59 (162)
T cd04138           3 KLVVVGAGGVGKSALTIQLIQNHFVDEYDPTIEDSY-RKQVVIDGETCLLDILDTAGQ   59 (162)
T ss_pred             EEEEECCCCCCHHHHHHHHHhCCCcCCcCCcchheE-EEEEEECCEEEEEEEEECCCC
Confidence            68999999999999  8887665332 222222211 22233443   2668999995

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.

>cd01869 Rab1_Ypt1 Rab1/Ypt1 subfamily

Probab=97.42  E-value=9.3e-05  Score=57.30  Aligned_cols=52  Identities=15%  Similarity=0.029  Sum_probs=34.0

Q ss_pred             CceEeecCCCCccCC--CCCCCCcccccCCCCCCc--cceeEEEecC---CeEEecCCCC
Q psy3587          21 DNIRLCDCPGLVFPS--KVPKPLQVVSVSRTPGHT--KHFQTIFLTD---NIRLCDCPGL   73 (195)
Q Consensus        21 ~~v~vvG~PNVGKSs--N~L~~kk~v~vg~~PGvT--k~~Q~i~l~~---~i~LlDtPGI   73 (195)
                      .+++++|.|||||||  |.+...+... ...|..+  -....+.++.   .+.++||||.
T Consensus         3 ~ki~i~G~~~vGKSsli~~~~~~~~~~-~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~   61 (166)
T cd01869           3 FKLLLIGDSGVGKSCLLLRFADDTYTE-SYISTIGVDFKIRTIELDGKTIKLQIWDTAGQ   61 (166)
T ss_pred             EEEEEECCCCCCHHHHHHHHhcCCCCC-CCCCccceeEEEEEEEECCEEEEEEEEECCCc
Confidence            468999999999999  8887654322 3334333  2333344432   4789999994

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

>cd04177 RSR1 RSR1 subgroup

Probab=97.39  E-value=0.0001  Score=57.50  Aligned_cols=53  Identities=11%  Similarity=0.037  Sum_probs=33.7

Q ss_pred             CceEeecCCCCccCC--CCCCCCccc-ccCCCCCCccceeEEEecC---CeEEecCCCCC
Q psy3587          21 DNIRLCDCPGLVFPS--KVPKPLQVV-SVSRTPGHTKHFQTIFLTD---NIRLCDCPGLV   74 (195)
Q Consensus        21 ~~v~vvG~PNVGKSs--N~L~~kk~v-~vg~~PGvTk~~Q~i~l~~---~i~LlDtPGIv   74 (195)
                      -++.++|.||+||||  |++.+.... ...++.+. .-...+.++.   .+.|+||||..
T Consensus         2 ~ki~liG~~~~GKTsli~~~~~~~~~~~~~~t~~~-~~~~~~~~~~~~~~~~i~Dt~G~~   60 (168)
T cd04177           2 YKIVVLGAGGVGKSALTVQFVQNVFIESYDPTIED-SYRKQVEIDGRQCDLEILDTAGTE   60 (168)
T ss_pred             eEEEEECCCCCCHHHHHHHHHhCCCCcccCCcchh-eEEEEEEECCEEEEEEEEeCCCcc
Confidence            368999999999999  887655432 22333331 1123344443   56899999964

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

>COG0012 Predicted GTPase, probable translation factor [Translation, ribosomal structure and biogenesis]

Probab=97.37  E-value=4.7e-05  Score=67.88  Aligned_cols=54  Identities=15%  Similarity=0.158  Sum_probs=40.3

Q ss_pred             ceEeecCCCCccCC--CCCCCCcccccCCCCCCcccee----EE-----------------EecCCeEEecCCCCCCC
Q psy3587          22 NIRLCDCPGLVFPS--KVPKPLQVVSVSRTPGHTKHFQ----TI-----------------FLTDNIRLCDCPGLVFP   76 (195)
Q Consensus        22 ~v~vvG~PNVGKSs--N~L~~kk~v~vg~~PGvTk~~Q----~i-----------------~l~~~i~LlDtPGIv~p   76 (195)
                      +++|||.|||||||  |+|.+.. +..+|.|=.|=.--    .+                 .+.-.+.++|-.|++.=
T Consensus         4 ~~GIVGlPNVGKSTlFnAlT~~~-a~~aNYPF~TIePN~Giv~v~d~rl~~L~~~~~c~~k~~~~~ve~vDIAGLV~G   80 (372)
T COG0012           4 KIGIVGLPNVGKSTLFNALTKAG-AEIANYPFCTIEPNVGVVYVPDCRLDELAEIVKCPPKIRPAPVEFVDIAGLVKG   80 (372)
T ss_pred             eeEEecCCCCcHHHHHHHHHcCC-ccccCCCcccccCCeeEEecCchHHHHHHHhcCCCCcEEeeeeEEEEecccCCC
Confidence            68999999999999  9999988 99999995552211    11                 00124889999999953

>cd00876 Ras Ras family

Probab=97.35  E-value=0.00011  Score=55.86  Aligned_cols=52  Identities=10%  Similarity=-0.014  Sum_probs=34.8

Q ss_pred             ceEeecCCCCccCC--CCCCCCcccccCCCCCCccceeE--EEecC---CeEEecCCCCCC
Q psy3587          22 NIRLCDCPGLVFPS--KVPKPLQVVSVSRTPGHTKHFQT--IFLTD---NIRLCDCPGLVF   75 (195)
Q Consensus        22 ~v~vvG~PNVGKSs--N~L~~kk~v~vg~~PGvTk~~Q~--i~l~~---~i~LlDtPGIv~   75 (195)
                      +|+++|.||+||||  |++.+.+  .++..+..|...+.  +..+.   .+.++|+||...
T Consensus         1 ki~i~G~~~~GKTsli~~l~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~l~D~~g~~~   59 (160)
T cd00876           1 KVVVLGAGGVGKSAITIQFVKGT--FVEEYDPTIEDSYRKTIVVDGETYTLDILDTAGQEE   59 (160)
T ss_pred             CEEEECCCCCCHHHHHHHHHhCC--CCcCcCCChhHeEEEEEEECCEEEEEEEEECCChHH
Confidence            58999999999999  8877655  33444444443333  23332   477899999654

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

>cd01889 SelB_euk SelB subfamily

Probab=97.35  E-value=5.2e-05  Score=60.85  Aligned_cols=52  Identities=23%  Similarity=0.217  Sum_probs=37.0

Q ss_pred             ceEeecCCCCccCC--CCCCCC------cccccCCCCCCccceeEEE--e---------------cCCeEEecCCCC
Q psy3587          22 NIRLCDCPGLVFPS--KVPKPL------QVVSVSRTPGHTKHFQTIF--L---------------TDNIRLCDCPGL   73 (195)
Q Consensus        22 ~v~vvG~PNVGKSs--N~L~~k------k~v~vg~~PGvTk~~Q~i~--l---------------~~~i~LlDtPGI   73 (195)
                      +|+++|-+|+||||  |+|..+      .....+..+|.|.......  +               ...+.++||||.
T Consensus         2 ~i~i~G~~~~GKstLi~~l~~~~~~~~~~~~~~e~~~g~T~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~DtpG~   78 (192)
T cd01889           2 NVGVLGHVDSGKTSLAKALSEIASTAAFDKNPQSQERGITLDLGFSSFYVDKPKHLRELINPGEENLQITLVDCPGH   78 (192)
T ss_pred             eEEEEecCCCCHHHHHHHHHhccchhhhccCHHHHHcCCeeeecceEEEecccccccccccccccCceEEEEECCCc
Confidence            68999999999999  887653      1223345678877665432  2               236899999997

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

>cd01865 Rab3 Rab3 subfamily

Probab=97.35  E-value=0.00012  Score=56.90  Aligned_cols=53  Identities=17%  Similarity=0.139  Sum_probs=35.1

Q ss_pred             ceEeecCCCCccCC--CCCCCCcccc-cCCCCCCccceeEEEecC---CeEEecCCCCC
Q psy3587          22 NIRLCDCPGLVFPS--KVPKPLQVVS-VSRTPGHTKHFQTIFLTD---NIRLCDCPGLV   74 (195)
Q Consensus        22 ~v~vvG~PNVGKSs--N~L~~kk~v~-vg~~PGvTk~~Q~i~l~~---~i~LlDtPGIv   74 (195)
                      +++++|-|||||||  |.+.+.+-.. .-++-|++-....+..+.   .+.|+||||.-
T Consensus         3 ki~i~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~Dt~g~~   61 (165)
T cd01865           3 KLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRNDKRVKLQIWDTAGQE   61 (165)
T ss_pred             EEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeeEEEEEEEEECCEEEEEEEEECCChH
Confidence            68999999999999  8887766432 223334333333443332   48899999964

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

>cd04110 Rab35 Rab35 subfamily

Probab=97.33  E-value=0.00013  Score=58.95  Aligned_cols=54  Identities=15%  Similarity=0.066  Sum_probs=37.8

Q ss_pred             CceEeecCCCCccCC--CCCCCCccc-ccCCCCCCccceeEEEecC---CeEEecCCCCC
Q psy3587          21 DNIRLCDCPGLVFPS--KVPKPLQVV-SVSRTPGHTKHFQTIFLTD---NIRLCDCPGLV   74 (195)
Q Consensus        21 ~~v~vvG~PNVGKSs--N~L~~kk~v-~vg~~PGvTk~~Q~i~l~~---~i~LlDtPGIv   74 (195)
                      .+|+++|-+||||||  |.+.+.... ...++.|+.-....+.++.   .+.|+||||--
T Consensus         7 ~kivvvG~~~vGKTsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~l~D~~G~~   66 (199)
T cd04110           7 FKLLIIGDSGVGKSSLLLRFADNTFSGSYITTIGVDFKIRTVEINGERVKLQIWDTAGQE   66 (199)
T ss_pred             eEEEEECCCCCCHHHHHHHHhcCCCCCCcCccccceeEEEEEEECCEEEEEEEEeCCCch
Confidence            379999999999999  888766532 4455566544444454443   47799999953

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

>smart00173 RAS Ras subfamily of RAS small GTPases

Probab=97.30  E-value=0.00014  Score=55.99  Aligned_cols=52  Identities=12%  Similarity=0.033  Sum_probs=32.5

Q ss_pred             ceEeecCCCCccCC--CCCCCCcccccCCCCCCccc-eeEEEecC---CeEEecCCCCC
Q psy3587          22 NIRLCDCPGLVFPS--KVPKPLQVVSVSRTPGHTKH-FQTIFLTD---NIRLCDCPGLV   74 (195)
Q Consensus        22 ~v~vvG~PNVGKSs--N~L~~kk~v~vg~~PGvTk~-~Q~i~l~~---~i~LlDtPGIv   74 (195)
                      +|+|+|-|||||||  |++.+.+.... ..|..+.. ...+.++.   .+.++||||.-
T Consensus         2 ki~v~G~~~~GKTsli~~~~~~~~~~~-~~~t~~~~~~~~~~~~~~~~~l~i~Dt~g~~   59 (164)
T smart00173        2 KLVVLGSGGVGKSALTIQFVQGHFVDD-YDPTIEDSYRKQIEIDGEVCLLDILDTAGQE   59 (164)
T ss_pred             EEEEECCCCCCHHHHHHHHHhCcCCcc-cCCchhhhEEEEEEECCEEEEEEEEECCCcc
Confidence            68999999999999  88876554321 22222211 12233333   46789999964

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

>cd04122 Rab14 Rab14 subfamily

Probab=97.29  E-value=0.00016  Score=56.18  Aligned_cols=53  Identities=11%  Similarity=0.063  Sum_probs=35.6

Q ss_pred             ceEeecCCCCccCC--CCCCCCcccc-cCCCCCCccceeEEEecC---CeEEecCCCCC
Q psy3587          22 NIRLCDCPGLVFPS--KVPKPLQVVS-VSRTPGHTKHFQTIFLTD---NIRLCDCPGLV   74 (195)
Q Consensus        22 ~v~vvG~PNVGKSs--N~L~~kk~v~-vg~~PGvTk~~Q~i~l~~---~i~LlDtPGIv   74 (195)
                      ++.++|.+||||||  |.+..++-.. ...+.|..-....+.++.   .+.|+||||..
T Consensus         4 ki~iiG~~~vGKTsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~   62 (166)
T cd04122           4 KYIIIGDMGVGKSCLLHQFTEKKFMADCPHTIGVEFGTRIIEVNGQKIKLQIWDTAGQE   62 (166)
T ss_pred             EEEEECCCCCCHHHHHHHHhcCCCCCCCCcccceeEEEEEEEECCEEEEEEEEECCCcH
Confidence            68999999999999  8877654332 233444444344455543   47899999953

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

>cd04112 Rab26 Rab26 subfamily

Probab=97.29  E-value=0.00016  Score=57.88  Aligned_cols=52  Identities=13%  Similarity=0.098  Sum_probs=33.5

Q ss_pred             ceEeecCCCCccCC--CCCCCCcccc--cCCCCCCccceeEEEecC---CeEEecCCCC
Q psy3587          22 NIRLCDCPGLVFPS--KVPKPLQVVS--VSRTPGHTKHFQTIFLTD---NIRLCDCPGL   73 (195)
Q Consensus        22 ~v~vvG~PNVGKSs--N~L~~kk~v~--vg~~PGvTk~~Q~i~l~~---~i~LlDtPGI   73 (195)
                      ++.|+|-|||||||  |.+...+...  ..++-|.+-....+.++.   .+.|+||||-
T Consensus         2 Ki~vvG~~~vGKTSli~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~Dt~G~   60 (191)
T cd04112           2 KVMLLGDSGVGKTCLLVRFKDGAFLNGNFIATVGIDFRNKVVTVDGVKVKLQIWDTAGQ   60 (191)
T ss_pred             EEEEECCCCCCHHHHHHHHhcCCCCccCcCCcccceeEEEEEEECCEEEEEEEEeCCCc
Confidence            58999999999999  8777655432  222333332223344443   5789999994

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.

>COG1162 Predicted GTPases [General function prediction only]

Probab=97.29  E-value=0.00018  Score=62.64  Aligned_cols=59  Identities=15%  Similarity=0.067  Sum_probs=45.5

Q ss_pred             cCceEeecCCCCccCC--CCCCCCcccccCCCC-------CCccceeEEEecCCeEEecCCCCCCCCC
Q psy3587          20 TDNIRLCDCPGLVFPS--KVPKPLQVVSVSRTP-------GHTKHFQTIFLTDNIRLCDCPGLVFPSK   78 (195)
Q Consensus        20 ~~~v~vvG~PNVGKSs--N~L~~kk~v~vg~~P-------GvTk~~Q~i~l~~~i~LlDtPGIv~p~~   78 (195)
                      ++...++|-.||||||  |+|.+....+|+..-       -.|++-+.+.++.+=+|+||||+=-..+
T Consensus       164 ~~~svl~GqSGVGKSSLiN~L~p~~~~~t~eIS~~~~rGkHTTt~~~l~~l~~gG~iiDTPGf~~~~l  231 (301)
T COG1162         164 GKITVLLGQSGVGKSTLINALLPELNQKTGEISEKLGRGRHTTTHVELFPLPGGGWIIDTPGFRSLGL  231 (301)
T ss_pred             CCeEEEECCCCCcHHHHHHhhCchhhhhhhhhcccCCCCCCccceEEEEEcCCCCEEEeCCCCCccCc
Confidence            3456788999999999  999875555555443       3567777788888889999999986665

>cd04142 RRP22 RRP22 subfamily

Probab=97.28  E-value=0.00016  Score=58.86  Aligned_cols=52  Identities=12%  Similarity=0.298  Sum_probs=35.0

Q ss_pred             ceEeecCCCCccCC--CCCCCCcccccCCCCCCccce--eEEEecC---CeEEecCCCCC
Q psy3587          22 NIRLCDCPGLVFPS--KVPKPLQVVSVSRTPGHTKHF--QTIFLTD---NIRLCDCPGLV   74 (195)
Q Consensus        22 ~v~vvG~PNVGKSs--N~L~~kk~v~vg~~PGvTk~~--Q~i~l~~---~i~LlDtPGIv   74 (195)
                      +|.|+|-|||||||  |.+.+..-... ..|..+...  ..+.++.   .+.|+||||.-
T Consensus         2 kI~ivG~~~vGKTsLi~~~~~~~f~~~-~~pt~~~~~~~~~i~~~~~~~~l~i~Dt~G~~   60 (198)
T cd04142           2 RVAVLGAPGVGKTAIVRQFLAQEFPEE-YIPTEHRRLYRPAVVLSGRVYDLHILDVPNMQ   60 (198)
T ss_pred             EEEEECCCCCcHHHHHHHHHcCCCCcc-cCCccccccceeEEEECCEEEEEEEEeCCCcc
Confidence            58999999999999  88776554332 355554332  2344444   36799999974

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.

>TIGR02528 EutP ethanolamine utilization protein, EutP

Probab=97.27  E-value=0.00011  Score=55.60  Aligned_cols=42  Identities=17%  Similarity=0.196  Sum_probs=29.5

Q ss_pred             ceEeecCCCCccCC--CCCCCCcccccCCCCCCccceeEEEecCCeEEecCCCC
Q psy3587          22 NIRLCDCPGLVFPS--KVPKPLQVVSVSRTPGHTKHFQTIFLTDNIRLCDCPGL   73 (195)
Q Consensus        22 ~v~vvG~PNVGKSs--N~L~~kk~v~vg~~PGvTk~~Q~i~l~~~i~LlDtPGI   73 (195)
                      +|.++|-|||||||  |++.+....   ..  .|.+..+   ..  .++||||.
T Consensus         2 kv~liG~~~vGKSsL~~~l~~~~~~---~~--~t~~~~~---~~--~~iDt~G~   45 (142)
T TIGR02528         2 RIMFIGSVGCGKTTLTQALQGEEIL---YK--KTQAVEY---ND--GAIDTPGE   45 (142)
T ss_pred             eEEEECCCCCCHHHHHHHHcCCccc---cc--cceeEEE---cC--eeecCchh
Confidence            68999999999999  998876542   11  1333332   22  67899997

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.

>cd04136 Rap_like Rap-like subfamily

Probab=97.25  E-value=0.00018  Score=55.14  Aligned_cols=53  Identities=11%  Similarity=-0.021  Sum_probs=32.3

Q ss_pred             CceEeecCCCCccCC--CCCCCCcccc-cCCCCCCccceeEEEecC---CeEEecCCCCC
Q psy3587          21 DNIRLCDCPGLVFPS--KVPKPLQVVS-VSRTPGHTKHFQTIFLTD---NIRLCDCPGLV   74 (195)
Q Consensus        21 ~~v~vvG~PNVGKSs--N~L~~kk~v~-vg~~PGvTk~~Q~i~l~~---~i~LlDtPGIv   74 (195)
                      .+++++|.|||||||  |.+....... ..++-+- .....+.++.   .+.|+||||.-
T Consensus         2 ~ki~i~G~~~vGKTsl~~~~~~~~~~~~~~~t~~~-~~~~~~~~~~~~~~l~i~Dt~G~~   60 (163)
T cd04136           2 YKVVVLGSGGVGKSALTVQFVQGIFVEKYDPTIED-SYRKQIEVDGQQCMLEILDTAGTE   60 (163)
T ss_pred             eEEEEECCCCCCHHHHHHHHHhCCCCcccCCchhh-hEEEEEEECCEEEEEEEEECCCcc
Confidence            368999999999999  8776554332 1122111 1123344443   36679999963

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.

>cd04149 Arf6 Arf6 subfamily

Probab=97.25  E-value=0.0002  Score=56.39  Aligned_cols=52  Identities=17%  Similarity=0.035  Sum_probs=35.8

Q ss_pred             CceEeecCCCCccCC--CCCCCCcccccCCCCCCccceeEEEec-CCeEEecCCCCC
Q psy3587          21 DNIRLCDCPGLVFPS--KVPKPLQVVSVSRTPGHTKHFQTIFLT-DNIRLCDCPGLV   74 (195)
Q Consensus        21 ~~v~vvG~PNVGKSs--N~L~~kk~v~vg~~PGvTk~~Q~i~l~-~~i~LlDtPGIv   74 (195)
                      .+|.++|.|||||||  |+|.........++-|.+  ...+..+ -.+.|.||||.-
T Consensus        10 ~kv~i~G~~~~GKTsli~~l~~~~~~~~~~t~g~~--~~~~~~~~~~~~l~Dt~G~~   64 (168)
T cd04149          10 MRILMLGLDAAGKTTILYKLKLGQSVTTIPTVGFN--VETVTYKNVKFNVWDVGGQD   64 (168)
T ss_pred             cEEEEECcCCCCHHHHHHHHccCCCccccCCcccc--eEEEEECCEEEEEEECCCCH
Confidence            379999999999999  888765544443333433  3334333 358999999974

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

>cd04125 RabA_like RabA-like subfamily

Probab=97.24  E-value=0.00017  Score=57.40  Aligned_cols=52  Identities=15%  Similarity=0.199  Sum_probs=38.1

Q ss_pred             ceEeecCCCCccCC--CCCCCCcccc-cCCCCCCccceeEEEecC---CeEEecCCCC
Q psy3587          22 NIRLCDCPGLVFPS--KVPKPLQVVS-VSRTPGHTKHFQTIFLTD---NIRLCDCPGL   73 (195)
Q Consensus        22 ~v~vvG~PNVGKSs--N~L~~kk~v~-vg~~PGvTk~~Q~i~l~~---~i~LlDtPGI   73 (195)
                      +|+++|.+||||||  |.+.+..... ..++.|.+-....+.++.   .+.++||||.
T Consensus         2 ki~v~G~~~vGKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~Dt~g~   59 (188)
T cd04125           2 KVVIIGDYGVGKSSLLKRFTEDEFSESTKSTIGVDFKIKTVYIENKIIKLQIWDTNGQ   59 (188)
T ss_pred             EEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeeEEEEEEEEECCEEEEEEEEECCCc
Confidence            58999999999999  8887665432 556666655555566643   3678999995

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.

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

Probab=97.24  E-value=0.00011  Score=59.04  Aligned_cols=54  Identities=17%  Similarity=0.116  Sum_probs=37.0

Q ss_pred             CceEeecCCCCccCC--CCCCCCc-c-ccc-------------CCCCCCccceeEEEe---cCCeEEecCCCCC
Q psy3587          21 DNIRLCDCPGLVFPS--KVPKPLQ-V-VSV-------------SRTPGHTKHFQTIFL---TDNIRLCDCPGLV   74 (195)
Q Consensus        21 ~~v~vvG~PNVGKSs--N~L~~kk-~-v~v-------------g~~PGvTk~~Q~i~l---~~~i~LlDtPGIv   74 (195)
                      .+|+++|-+||||||  |+|.... . ...             ....|+|...+.+.+   ...+.++||||.-
T Consensus         3 r~i~ivG~~~~GKTsL~~~l~~~~~~~~~~~~~~~~~~~~~~~e~~~g~t~~~~~~~~~~~~~~~~l~DtpG~~   76 (194)
T cd01891           3 RNIAIIAHVDHGKTTLVDALLKQSGTFRENEEVEERVMDSNDLERERGITILAKNTAVTYKDTKINIVDTPGHA   76 (194)
T ss_pred             cEEEEEecCCCCHHHHHHHHHHHcCCCCccCcccccccccchhHHhcccccccceeEEEECCEEEEEEECCCcH
Confidence            379999999999999  8776421 1 111             234677766665544   2368899999974

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

>cd04152 Arl4_Arl7 Arl4/Arl7 subfamily

Probab=97.22  E-value=0.00022  Score=56.85  Aligned_cols=52  Identities=15%  Similarity=0.039  Sum_probs=34.8

Q ss_pred             ceEeecCCCCccCC--CCCCCCcccccCCCCCCccceeEEEec----CCeEEecCCCC
Q psy3587          22 NIRLCDCPGLVFPS--KVPKPLQVVSVSRTPGHTKHFQTIFLT----DNIRLCDCPGL   73 (195)
Q Consensus        22 ~v~vvG~PNVGKSs--N~L~~kk~v~vg~~PGvTk~~Q~i~l~----~~i~LlDtPGI   73 (195)
                      +|.++|.|||||||  |++........-++.|.+.....+...    -.+.++||||.
T Consensus         5 kv~~vG~~~~GKTsli~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~l~Dt~G~   62 (183)
T cd04152           5 HIVMLGLDSAGKTTVLYRLKFNEFVNTVPTKGFNTEKIKVSLGNSKGITFHFWDVGGQ   62 (183)
T ss_pred             EEEEECCCCCCHHHHHHHHhcCCcCCcCCccccceeEEEeeccCCCceEEEEEECCCc
Confidence            58899999999999  888766554443444544333233221    14889999996

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.

>cd04139 RalA_RalB RalA/RalB subfamily

Probab=97.21  E-value=0.0002  Score=54.74  Aligned_cols=52  Identities=12%  Similarity=0.184  Sum_probs=31.7

Q ss_pred             ceEeecCCCCccCC--CCCCCCcccccCCCCCCccce-eEEEecC---CeEEecCCCCC
Q psy3587          22 NIRLCDCPGLVFPS--KVPKPLQVVSVSRTPGHTKHF-QTIFLTD---NIRLCDCPGLV   74 (195)
Q Consensus        22 ~v~vvG~PNVGKSs--N~L~~kk~v~vg~~PGvTk~~-Q~i~l~~---~i~LlDtPGIv   74 (195)
                      +++++|.|||||||  |.+.....++ ...|...... ..+.++.   .+.++||||..
T Consensus         2 ki~~~G~~~~GKTsl~~~l~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~   59 (164)
T cd04139           2 KVIVVGAGGVGKSALTLQFMYDEFVE-DYEPTKADSYRKKVVLDGEDVQLNILDTAGQE   59 (164)
T ss_pred             EEEEECCCCCCHHHHHHHHHhCCCcc-ccCCcchhhEEEEEEECCEEEEEEEEECCChh
Confidence            68999999999999  8776544332 1122222111 1223332   48889999954

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

>cd04106 Rab23_lke Rab23-like subfamily

Probab=97.21  E-value=0.00015  Score=55.64  Aligned_cols=52  Identities=17%  Similarity=0.068  Sum_probs=33.1

Q ss_pred             ceEeecCCCCccCC--CCCCCCccc-ccCCCCCCccceeEEEec-----CCeEEecCCCC
Q psy3587          22 NIRLCDCPGLVFPS--KVPKPLQVV-SVSRTPGHTKHFQTIFLT-----DNIRLCDCPGL   73 (195)
Q Consensus        22 ~v~vvG~PNVGKSs--N~L~~kk~v-~vg~~PGvTk~~Q~i~l~-----~~i~LlDtPGI   73 (195)
                      +|+++|.|||||||  |.+.+.... ...++.|..-....+.+.     -.+.|+||||.
T Consensus         2 kv~~vG~~~~GKTsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~~i~D~~G~   61 (162)
T cd04106           2 KVIVVGNGNVGKSSMIQRFVKGIFTKDYKKTIGVDFLEKQIFLRQSDEDVRLMLWDTAGQ   61 (162)
T ss_pred             EEEEECCCCCCHHHHHHHHhcCCCCCCCCCcEEEEEEEEEEEEcCCCCEEEEEEeeCCch
Confidence            58999999999999  887765432 223333332222334443     14889999994

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

>cd00879 Sar1 Sar1 subfamily

Probab=97.20  E-value=0.00025  Score=56.32  Aligned_cols=53  Identities=11%  Similarity=0.003  Sum_probs=37.8

Q ss_pred             cCceEeecCCCCccCC--CCCCCCcccccCCCCCCccceeEEEec-CCeEEecCCCCC
Q psy3587          20 TDNIRLCDCPGLVFPS--KVPKPLQVVSVSRTPGHTKHFQTIFLT-DNIRLCDCPGLV   74 (195)
Q Consensus        20 ~~~v~vvG~PNVGKSs--N~L~~kk~v~vg~~PGvTk~~Q~i~l~-~~i~LlDtPGIv   74 (195)
                      ..+++++|-+|+||||  |.+.+.+.....++.|.+.  ..+.++ -.+.++|+||-.
T Consensus        19 ~~ki~ilG~~~~GKStLi~~l~~~~~~~~~~T~~~~~--~~i~~~~~~~~l~D~~G~~   74 (190)
T cd00879          19 EAKILFLGLDNAGKTTLLHMLKDDRLAQHVPTLHPTS--EELTIGNIKFKTFDLGGHE   74 (190)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhcCCCcccCCccCcce--EEEEECCEEEEEEECCCCH
Confidence            3479999999999999  8888766555555555442  334443 368899999953

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.

>cd01850 CDC_Septin CDC/Septin

Probab=97.19  E-value=0.00021  Score=61.43  Aligned_cols=55  Identities=16%  Similarity=0.198  Sum_probs=36.8

Q ss_pred             CceEeecCCCCccCC--CCCCCCcccccCCCC-------CCccceeEE--Ee--cC---CeEEecCCCCCC
Q psy3587          21 DNIRLCDCPGLVFPS--KVPKPLQVVSVSRTP-------GHTKHFQTI--FL--TD---NIRLCDCPGLVF   75 (195)
Q Consensus        21 ~~v~vvG~PNVGKSs--N~L~~kk~v~vg~~P-------GvTk~~Q~i--~l--~~---~i~LlDtPGIv~   75 (195)
                      .+|||+|-+|+||||  |+|.+......+..+       .-|-.++..  .+  +.   .+.++||||.-.
T Consensus         5 f~I~vvG~sg~GKSTliN~L~~~~~~~~~~~~~~~~~~~~~T~~i~~~~~~i~~~g~~~~l~iiDTpGfgd   75 (276)
T cd01850           5 FNIMVVGESGLGKSTFINTLFNTKLIPSDYPPDPAEEHIDKTVEIKSSKAEIEENGVKLKLTVIDTPGFGD   75 (276)
T ss_pred             EEEEEEcCCCCCHHHHHHHHHcCCCccccCCCCccccccCCceEEEEEEEEEEECCEEEEEEEEecCCccc
Confidence            379999999999999  999887766554321       122223222  22  22   489999999963

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.

>cd04144 Ras2 Ras2 subfamily

Probab=97.16  E-value=0.00023  Score=56.95  Aligned_cols=51  Identities=10%  Similarity=0.039  Sum_probs=31.2

Q ss_pred             ceEeecCCCCccCC--CCCCCCcccccCCCCCCc-cceeEEEecC---CeEEecCCCC
Q psy3587          22 NIRLCDCPGLVFPS--KVPKPLQVVSVSRTPGHT-KHFQTIFLTD---NIRLCDCPGL   73 (195)
Q Consensus        22 ~v~vvG~PNVGKSs--N~L~~kk~v~vg~~PGvT-k~~Q~i~l~~---~i~LlDtPGI   73 (195)
                      +|+++|.|||||||  |.+...+-... ..|-+. .....+.++.   .+.|+||||.
T Consensus         1 ki~ivG~~~vGKTsli~~l~~~~f~~~-~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~   57 (190)
T cd04144           1 KLVVLGDGGVGKTALTIQLCLNHFVET-YDPTIEDSYRKQVVVDGQPCMLEVLDTAGQ   57 (190)
T ss_pred             CEEEECCCCCCHHHHHHHHHhCCCCcc-CCCchHhhEEEEEEECCEEEEEEEEECCCc
Confidence            48899999999999  88765443221 112111 1122334443   3788999995

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.

>cd04159 Arl10_like Arl10-like subfamily

Probab=97.15  E-value=0.00038  Score=52.32  Aligned_cols=50  Identities=14%  Similarity=0.049  Sum_probs=32.4

Q ss_pred             eEeecCCCCccCC--CCCCCCcccccCCCCCCccceeEEEec-CCeEEecCCCC
Q psy3587          23 IRLCDCPGLVFPS--KVPKPLQVVSVSRTPGHTKHFQTIFLT-DNIRLCDCPGL   73 (195)
Q Consensus        23 v~vvG~PNVGKSs--N~L~~kk~v~vg~~PGvTk~~Q~i~l~-~~i~LlDtPGI   73 (195)
                      |+++|-||+||||  |.|.+.... ..-.|.+.-....+..+ -.+.+.|+||.
T Consensus         2 i~i~G~~~~GKssl~~~l~~~~~~-~~~~~t~~~~~~~~~~~~~~~~~~D~~g~   54 (159)
T cd04159           2 ITLVGLQNSGKTTLVNVIAGGQFS-EDTIPTVGFNMRKVTKGNVTLKVWDLGGQ   54 (159)
T ss_pred             EEEEcCCCCCHHHHHHHHccCCCC-cCccCCCCcceEEEEECCEEEEEEECCCC
Confidence            7899999999999  888876432 22234333222222222 25889999995

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.

>cd04116 Rab9 Rab9 subfamily

Probab=97.13  E-value=0.00026  Score=54.99  Aligned_cols=53  Identities=13%  Similarity=0.034  Sum_probs=33.7

Q ss_pred             CceEeecCCCCccCC--CCCCCCcccc-cCCCCCCccceeEEEecC---CeEEecCCCC
Q psy3587          21 DNIRLCDCPGLVFPS--KVPKPLQVVS-VSRTPGHTKHFQTIFLTD---NIRLCDCPGL   73 (195)
Q Consensus        21 ~~v~vvG~PNVGKSs--N~L~~kk~v~-vg~~PGvTk~~Q~i~l~~---~i~LlDtPGI   73 (195)
                      .+++++|.|||||||  |.+...+... ...+.|+.-....+.++.   .+.|+||||-
T Consensus         6 ~ki~vvG~~~~GKTsli~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~i~D~~G~   64 (170)
T cd04116           6 LKVILLGDGGVGKSSLMNRYVTNKFDTQLFHTIGVEFLNKDLEVDGHFVTLQIWDTAGQ   64 (170)
T ss_pred             EEEEEECCCCCCHHHHHHHHHcCCCCcCcCCceeeEEEEEEEEECCeEEEEEEEeCCCh
Confidence            369999999999999  8776544322 233444432223344433   4678899995

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

>cd04135 Tc10 TC10 subfamily

Probab=97.12  E-value=0.00031  Score=54.68  Aligned_cols=52  Identities=10%  Similarity=-0.045  Sum_probs=31.5

Q ss_pred             ceEeecCCCCccCC--CCCCCCcccccCCCCCCccc-eeEEEecC---CeEEecCCCCC
Q psy3587          22 NIRLCDCPGLVFPS--KVPKPLQVVSVSRTPGHTKH-FQTIFLTD---NIRLCDCPGLV   74 (195)
Q Consensus        22 ~v~vvG~PNVGKSs--N~L~~kk~v~vg~~PGvTk~-~Q~i~l~~---~i~LlDtPGIv   74 (195)
                      +++++|.||+||||  |.+...+-.... .|-..-. ...+.++.   .+.++||||--
T Consensus         2 ki~i~G~~~~GKTsl~~~~~~~~~~~~~-~~t~~~~~~~~~~~~~~~~~~~i~Dt~G~~   59 (174)
T cd04135           2 KCVVVGDGAVGKTCLLMSYANDAFPEEY-VPTVFDHYAVSVTVGGKQYLLGLYDTAGQE   59 (174)
T ss_pred             EEEEECCCCCCHHHHHHHHHhCCCCCCC-CCceeeeeEEEEEECCEEEEEEEEeCCCcc
Confidence            58999999999999  877665543221 1211111 11234443   26789999964

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

>cd04123 Rab21 Rab21 subfamily

Probab=97.11  E-value=0.00032  Score=53.36  Aligned_cols=52  Identities=12%  Similarity=0.061  Sum_probs=33.3

Q ss_pred             ceEeecCCCCccCC--CCCCCCcccccCCCCCCccce--eEEEecC---CeEEecCCCCC
Q psy3587          22 NIRLCDCPGLVFPS--KVPKPLQVVSVSRTPGHTKHF--QTIFLTD---NIRLCDCPGLV   74 (195)
Q Consensus        22 ~v~vvG~PNVGKSs--N~L~~kk~v~vg~~PGvTk~~--Q~i~l~~---~i~LlDtPGIv   74 (195)
                      +++++|.+||||||  |++...+... ...|..+...  +.+.+..   .+.++||||--
T Consensus         2 ki~i~G~~~~GKStli~~l~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~   60 (162)
T cd04123           2 KVVLLGEGRVGKTSLVLRYVENKFNE-KHESTTQASFFQKTVNIGGKRIDLAIWDTAGQE   60 (162)
T ss_pred             EEEEECCCCCCHHHHHHHHHhCCCCC-CcCCccceeEEEEEEEECCEEEEEEEEECCchH
Confidence            68999999999999  8887655433 2223332222  2233322   47899999953

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

>COG1161 Predicted GTPases [General function prediction only]

Probab=97.11  E-value=0.00038  Score=61.24  Aligned_cols=35  Identities=46%  Similarity=0.638  Sum_probs=33.3

Q ss_pred             CccccCCCCccceeEEEEecCceEeecCCCCccCC
Q psy3587           1 VVSVSRTPGHTKHFQTIFLTDNIRLCDCPGLVFPS   35 (195)
Q Consensus         1 ~~~v~~~~g~tk~~q~~~l~~~v~vvG~PNVGKSs   35 (195)
                      +|.||+.||.||.+|.|.+++.++++|+||+....
T Consensus       157 ~~~~s~~PG~Tk~~q~i~~~~~i~LlDtPGii~~~  191 (322)
T COG1161         157 VAKTSNRPGTTKGIQWIKLDDGIYLLDTPGIIPPK  191 (322)
T ss_pred             ceeeCCCCceecceEEEEcCCCeEEecCCCcCCCC
Confidence            37899999999999999999999999999999887

>PLN03110 Rab GTPase; Provisional

Probab=97.09  E-value=0.00025  Score=58.36  Aligned_cols=54  Identities=15%  Similarity=0.063  Sum_probs=40.0

Q ss_pred             CceEeecCCCCccCC--CCCCCCcc-cccCCCCCCccceeEEEecC---CeEEecCCCCC
Q psy3587          21 DNIRLCDCPGLVFPS--KVPKPLQV-VSVSRTPGHTKHFQTIFLTD---NIRLCDCPGLV   74 (195)
Q Consensus        21 ~~v~vvG~PNVGKSs--N~L~~kk~-v~vg~~PGvTk~~Q~i~l~~---~i~LlDtPGIv   74 (195)
                      .++++||-+||||||  +.|.+... .....+.|+......+.++.   .+.|+||||-.
T Consensus        13 ~Ki~ivG~~~vGKStLi~~l~~~~~~~~~~~t~g~~~~~~~v~~~~~~~~l~l~Dt~G~~   72 (216)
T PLN03110         13 FKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQE   72 (216)
T ss_pred             eEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeEEEEEEEEEECCEEEEEEEEECCCcH
Confidence            489999999999999  77766553 34556667665556666654   68889999953

>cd04114 Rab30 Rab30 subfamily

Probab=97.09  E-value=0.00022  Score=55.15  Aligned_cols=55  Identities=15%  Similarity=0.086  Sum_probs=32.9

Q ss_pred             ecCceEeecCCCCccCC--CCCCCCccc-ccCCCCCCccceeEEEecC---CeEEecCCCC
Q psy3587          19 LTDNIRLCDCPGLVFPS--KVPKPLQVV-SVSRTPGHTKHFQTIFLTD---NIRLCDCPGL   73 (195)
Q Consensus        19 l~~~v~vvG~PNVGKSs--N~L~~kk~v-~vg~~PGvTk~~Q~i~l~~---~i~LlDtPGI   73 (195)
                      ..-+++++|-|||||||  |.+...... ..+.+.|..-....+.++.   .+.++||||.
T Consensus         6 ~~~~v~v~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~~D~~g~   66 (169)
T cd04114           6 FLFKIVLIGNAGVGKTCLVRRFTQGLFPPGQGATIGVDFMIKTVEIKGEKIKLQIWDTAGQ   66 (169)
T ss_pred             ceeEEEEECCCCCCHHHHHHHHHhCCCCCCCCCceeeEEEEEEEEECCEEEEEEEEECCCc
Confidence            34579999999999999  877654322 1222222211122234433   3678899996

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.

>cd04158 ARD1 ARD1 subfamily

Probab=97.08  E-value=0.00046  Score=54.05  Aligned_cols=49  Identities=14%  Similarity=0.022  Sum_probs=33.4

Q ss_pred             ceEeecCCCCccCC--CCCCCCcccccCCCCCCccceeEEEe--c-CCeEEecCCCCC
Q psy3587          22 NIRLCDCPGLVFPS--KVPKPLQVVSVSRTPGHTKHFQTIFL--T-DNIRLCDCPGLV   74 (195)
Q Consensus        22 ~v~vvG~PNVGKSs--N~L~~kk~v~vg~~PGvTk~~Q~i~l--~-~~i~LlDtPGIv   74 (195)
                      +|.++|.+||||||  |++.+.....    +..|.+.+...+  + -.+.++||||.-
T Consensus         1 ~vvlvG~~~~GKTsl~~~l~~~~~~~----~~~T~~~~~~~~~~~~~~i~l~Dt~G~~   54 (169)
T cd04158           1 RVVTLGLDGAGKTTILFKLKQDEFMQ----PIPTIGFNVETVEYKNLKFTIWDVGGKH   54 (169)
T ss_pred             CEEEECCCCCCHHHHHHHHhcCCCCC----cCCcCceeEEEEEECCEEEEEEECCCCh
Confidence            58899999999999  8887764322    223444433322  2 258899999974

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

>PRK12317 elongation factor 1-alpha; Reviewed

Probab=97.08  E-value=0.00019  Score=64.94  Aligned_cols=52  Identities=15%  Similarity=0.093  Sum_probs=38.9

Q ss_pred             ceEeecCCCCccCC--CCCCCCccc------------------------------ccCCCCCCccceeEEEe---cCCeE
Q psy3587          22 NIRLCDCPGLVFPS--KVPKPLQVV------------------------------SVSRTPGHTKHFQTIFL---TDNIR   66 (195)
Q Consensus        22 ~v~vvG~PNVGKSs--N~L~~kk~v------------------------------~vg~~PGvTk~~Q~i~l---~~~i~   66 (195)
                      +|.++|-||+||||  |.|.....+                              .-...+|+|+......+   +..+.
T Consensus         8 ~v~iiGh~d~GKSTL~~~Ll~~~g~i~~~~~~~~~~~~~~~g~~~~~~~~~~D~~~~Er~rG~T~d~~~~~~~~~~~~i~   87 (425)
T PRK12317          8 NLAVIGHVDHGKSTLVGRLLYETGAIDEHIIEELREEAKEKGKESFKFAWVMDRLKEERERGVTIDLAHKKFETDKYYFT   87 (425)
T ss_pred             EEEEECCCCCChHHHHHHHHHHcCCcCHHHHHHHHHHHHhcCCcccchhhhhccCHhHhhcCccceeeeEEEecCCeEEE
Confidence            69999999999999  776522111                              11227999999988766   34799


Q ss_pred             EecCCCC
Q psy3587          67 LCDCPGL   73 (195)
Q Consensus        67 LlDtPGI   73 (195)
                      |+||||.
T Consensus        88 liDtpG~   94 (425)
T PRK12317         88 IVDCPGH   94 (425)
T ss_pred             EEECCCc
Confidence            9999995

>cd04176 Rap2 Rap2 subgroup

Probab=97.07  E-value=0.00035  Score=53.81  Aligned_cols=51  Identities=10%  Similarity=-0.004  Sum_probs=30.9

Q ss_pred             ceEeecCCCCccCC--CCCCCCccccc-CCCCCCccceeEEEecC---CeEEecCCCC
Q psy3587          22 NIRLCDCPGLVFPS--KVPKPLQVVSV-SRTPGHTKHFQTIFLTD---NIRLCDCPGL   73 (195)
Q Consensus        22 ~v~vvG~PNVGKSs--N~L~~kk~v~v-g~~PGvTk~~Q~i~l~~---~i~LlDtPGI   73 (195)
                      +++++|.|||||||  |.+...+.... .++-+ ......+.++.   .+.|+||||.
T Consensus         3 ki~i~G~~~vGKTsl~~~~~~~~~~~~~~~t~~-~~~~~~~~~~~~~~~l~i~Dt~G~   59 (163)
T cd04176           3 KVVVLGSGGVGKSALTVQFVSGTFIEKYDPTIE-DFYRKEIEVDSSPSVLEILDTAGT   59 (163)
T ss_pred             EEEEECCCCCCHHHHHHHHHcCCCCCCCCCchh-heEEEEEEECCEEEEEEEEECCCc
Confidence            68999999999999  66654433221 12111 11123344433   4778999995

The Rap2 subgroup is part of the Rap subfamily of the Ras family. It consists of Rap2a, Rap2b, and Rap2c. Both isoform 3 of the human mitogen-activated protein kinase kinase kinase kinase 4 (MAP4K4) and Traf2- and Nck-interacting kinase (TNIK) are putative effectors of Rap2 in mediating the activation of c-Jun N-terminal kinase (JNK) to regulate the actin cytoskeleton. In human platelets, Rap2 was shown to interact with the cytoskeleton by binding the actin filaments. In embryonic Xenopus development, Rap2 is necessary for the Wnt/beta-catenin signaling pathway. The Rap2 interacting protein 9 (RPIP9) is highly expressed in human breast carcinomas and correlates with a poor prognosis, suggesting a role for Rap2 in breast cancer oncogenesis. Rap2b, but not Rap2a, Rap2c, Rap1a, or Rap1b, is expressed in human red blood cells, where it is believed to be involved in vesiculation. A number of additional effector proteins for Rap2 have been identified, incl

>cd00157 Rho Rho (Ras homology) family

Probab=97.07  E-value=0.00035  Score=53.90  Aligned_cols=53  Identities=13%  Similarity=0.047  Sum_probs=33.0

Q ss_pred             ceEeecCCCCccCC--CCCCCCcccccCCCCCCccce-eEEEec---CCeEEecCCCCCC
Q psy3587          22 NIRLCDCPGLVFPS--KVPKPLQVVSVSRTPGHTKHF-QTIFLT---DNIRLCDCPGLVF   75 (195)
Q Consensus        22 ~v~vvG~PNVGKSs--N~L~~kk~v~vg~~PGvTk~~-Q~i~l~---~~i~LlDtPGIv~   75 (195)
                      +++++|.||+||||  |+|.+.+.. .+..|...... ..+..+   -.+.++||||...
T Consensus         2 ki~i~G~~~~GKSsli~~l~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~l~~~D~~g~~~   60 (171)
T cd00157           2 KIVVVGDGAVGKTCLLISYTTGKFP-TEYVPTVFDNYSATVTVDGKQVNLGLWDTAGQEE   60 (171)
T ss_pred             EEEEECCCCCCHHHHHHHHHhCCCC-CCCCCceeeeeEEEEEECCEEEEEEEEeCCCccc
Confidence            58999999999999  888776642 22223222111 111222   1488999999763

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

>CHL00071 tufA elongation factor Tu

Probab=97.05  E-value=0.00015  Score=65.50  Aligned_cols=53  Identities=15%  Similarity=0.078  Sum_probs=38.2

Q ss_pred             CceEeecCCCCccCC--CCCCCCc-------ccc--------cCCCCCCccceeEEEe---cCCeEEecCCCC
Q psy3587          21 DNIRLCDCPGLVFPS--KVPKPLQ-------VVS--------VSRTPGHTKHFQTIFL---TDNIRLCDCPGL   73 (195)
Q Consensus        21 ~~v~vvG~PNVGKSs--N~L~~kk-------~v~--------vg~~PGvTk~~Q~i~l---~~~i~LlDtPGI   73 (195)
                      -+++++|-||+||||  |+|.+..       ...        ....+|+|.....+..   +..+.|+||||.
T Consensus        13 ~~i~i~Gh~d~GKSTL~~~Ll~~~~~~~~~~~~~~~~~d~~~~e~~rg~T~~~~~~~~~~~~~~~~~iDtPGh   85 (409)
T CHL00071         13 VNIGTIGHVDHGKTTLTAAITMTLAAKGGAKAKKYDEIDSAPEEKARGITINTAHVEYETENRHYAHVDCPGH   85 (409)
T ss_pred             EEEEEECCCCCCHHHHHHHHHHHhCccccccccccccccCChhhhcCCEeEEccEEEEccCCeEEEEEECCCh
Confidence            379999999999999  8776431       111        2233899988766655   246899999994

>cd04140 ARHI_like ARHI subfamily

Probab=97.03  E-value=0.00041  Score=53.89  Aligned_cols=53  Identities=15%  Similarity=-0.034  Sum_probs=32.0

Q ss_pred             CceEeecCCCCccCC--CCCCCCccccc-CCCCCCccceeEEEec---CCeEEecCCCCC
Q psy3587          21 DNIRLCDCPGLVFPS--KVPKPLQVVSV-SRTPGHTKHFQTIFLT---DNIRLCDCPGLV   74 (195)
Q Consensus        21 ~~v~vvG~PNVGKSs--N~L~~kk~v~v-g~~PGvTk~~Q~i~l~---~~i~LlDtPGIv   74 (195)
                      .+|.++|.|||||||  |.+.+.+-... -++-+.+ ..+.+..+   -.+.++||||.-
T Consensus         2 ~kv~~vG~~~vGKTsli~~~~~~~f~~~~~~t~~~~-~~~~~~~~~~~~~l~i~Dt~G~~   60 (165)
T cd04140           2 YRVVVFGAGGVGKSSLVLRFVKGTFRESYIPTIEDT-YRQVISCSKNICTLQITDTTGSH   60 (165)
T ss_pred             eEEEEECCCCCCHHHHHHHHHhCCCCCCcCCcchhe-EEEEEEECCEEEEEEEEECCCCC
Confidence            468999999999999  88776543211 1111211 12223332   247899999974

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

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

Probab=97.02  E-value=0.00038  Score=54.19  Aligned_cols=51  Identities=8%  Similarity=-0.033  Sum_probs=31.9

Q ss_pred             eEeecCCCCccCC--CCCCCCcccccCCCCCCcc-ceeEEEecC---CeEEecCCCCC
Q psy3587          23 IRLCDCPGLVFPS--KVPKPLQVVSVSRTPGHTK-HFQTIFLTD---NIRLCDCPGLV   74 (195)
Q Consensus        23 v~vvG~PNVGKSs--N~L~~kk~v~vg~~PGvTk-~~Q~i~l~~---~i~LlDtPGIv   74 (195)
                      ++|+|-|||||||  |.+.+.+... .-.|.+.. ....+.++.   .+.++||||.-
T Consensus         1 i~i~G~~~vGKTsli~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~i~Dt~G~~   57 (174)
T smart00174        1 LVVVGDGAVGKTCLLISYTTNAFPE-DYVPTVFENYSADVEVDGKPVELGLWDTAGQE   57 (174)
T ss_pred             CEEECCCCCCHHHHHHHHHhCCCCC-CCCCcEEeeeeEEEEECCEEEEEEEEECCCCc
Confidence            5799999999999  8777655422 12232222 222344433   47899999964

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

>PTZ00133 ADP-ribosylation factor; Provisional

Probab=97.00  E-value=0.00048  Score=55.03  Aligned_cols=51  Identities=18%  Similarity=0.055  Sum_probs=35.0

Q ss_pred             CceEeecCCCCccCC--CCCCCCcccccCCCCCCccceeEEEec-CCeEEecCCCC
Q psy3587          21 DNIRLCDCPGLVFPS--KVPKPLQVVSVSRTPGHTKHFQTIFLT-DNIRLCDCPGL   73 (195)
Q Consensus        21 ~~v~vvG~PNVGKSs--N~L~~kk~v~vg~~PGvTk~~Q~i~l~-~~i~LlDtPGI   73 (195)
                      .+|.++|-+||||||  +.+.........++.|...  ..+..+ -.+.|+||||.
T Consensus        18 ~kv~lvG~~~vGKTsli~~~~~~~~~~~~~T~~~~~--~~~~~~~~~~~l~D~~G~   71 (182)
T PTZ00133         18 VRILMVGLDAAGKTTILYKLKLGEVVTTIPTIGFNV--ETVEYKNLKFTMWDVGGQ   71 (182)
T ss_pred             cEEEEEcCCCCCHHHHHHHHhcCCccccCCccccce--EEEEECCEEEEEEECCCC
Confidence            479999999999999  7775544444444445432  233333 25889999997

>cd04124 RabL2 RabL2 subfamily

Probab=96.98  E-value=0.0005  Score=53.34  Aligned_cols=52  Identities=12%  Similarity=-0.122  Sum_probs=31.7

Q ss_pred             ceEeecCCCCccCC--CCCCCCccc-ccCCCCCCccceeEEEecC---CeEEecCCCC
Q psy3587          22 NIRLCDCPGLVFPS--KVPKPLQVV-SVSRTPGHTKHFQTIFLTD---NIRLCDCPGL   73 (195)
Q Consensus        22 ~v~vvG~PNVGKSs--N~L~~kk~v-~vg~~PGvTk~~Q~i~l~~---~i~LlDtPGI   73 (195)
                      +|+++|.|||||||  |.+...+.. ...++.|.+-....+.++.   .+.++||||-
T Consensus         2 ki~vvG~~~vGKTsli~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~Dt~G~   59 (161)
T cd04124           2 KIILLGDSAVGKSKLVERFLMDGYEPQQLSTYALTLYKHNAKFEGKTILVDFWDTAGQ   59 (161)
T ss_pred             EEEEECCCCCCHHHHHHHHHhCCCCCCcCCceeeEEEEEEEEECCEEEEEEEEeCCCc
Confidence            58999999999999  766543322 2222333332222233432   4779999995

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

>cd01893 Miro1 Miro1 subfamily

Probab=96.97  E-value=0.00025  Score=55.19  Aligned_cols=53  Identities=13%  Similarity=-0.090  Sum_probs=31.9

Q ss_pred             ceEeecCCCCccCC--CCCCCCcccccC--CCCCCccceeEEEecCCeEEecCCCCC
Q psy3587          22 NIRLCDCPGLVFPS--KVPKPLQVVSVS--RTPGHTKHFQTIFLTDNIRLCDCPGLV   74 (195)
Q Consensus        22 ~v~vvG~PNVGKSs--N~L~~kk~v~vg--~~PGvTk~~Q~i~l~~~i~LlDtPGIv   74 (195)
                      +++++|-+||||||  |.+...+....-  ..+.+|.....-...-.+.++||||.-
T Consensus         2 kv~ivG~~~vGKTsl~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~Dt~G~~   58 (166)
T cd01893           2 RIVLIGDEGVGKSSLIMSLVSEEFPENVPRVLPEITIPADVTPERVPTTIVDTSSRP   58 (166)
T ss_pred             EEEEECCCCCCHHHHHHHHHhCcCCccCCCcccceEeeeeecCCeEEEEEEeCCCch
Confidence            68999999999999  887765543221  112223222110011247899999974

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.

>cd04117 Rab15 Rab15 subfamily

Probab=96.96  E-value=0.00048  Score=53.52  Aligned_cols=52  Identities=19%  Similarity=0.101  Sum_probs=34.4

Q ss_pred             ceEeecCCCCccCC--CCCCCCcccc-cCCCCCCccceeEEEecC---CeEEecCCCC
Q psy3587          22 NIRLCDCPGLVFPS--KVPKPLQVVS-VSRTPGHTKHFQTIFLTD---NIRLCDCPGL   73 (195)
Q Consensus        22 ~v~vvG~PNVGKSs--N~L~~kk~v~-vg~~PGvTk~~Q~i~l~~---~i~LlDtPGI   73 (195)
                      +++++|-|||||||  +.+..+.... -.++.|.......+.++.   .+.+.||||-
T Consensus         2 ki~vvG~~~~GKTsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~   59 (161)
T cd04117           2 RLLLIGDSGVGKTCLLCRFTDNEFHSSHISTIGVDFKMKTIEVDGIKVRIQIWDTAGQ   59 (161)
T ss_pred             EEEEECcCCCCHHHHHHHHhcCCCCCCCCCceeeEEEEEEEEECCEEEEEEEEeCCCc
Confidence            58999999999999  7776554432 234444333334455543   4778999995

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

>cd04115 Rab33B_Rab33A Rab33B/Rab33A subfamily

Probab=96.94  E-value=0.00046  Score=53.93  Aligned_cols=54  Identities=13%  Similarity=-0.034  Sum_probs=34.9

Q ss_pred             CceEeecCCCCccCC--CCCCCCc-ccccCCCCCCccceeEEEecC---CeEEecCCCCC
Q psy3587          21 DNIRLCDCPGLVFPS--KVPKPLQ-VVSVSRTPGHTKHFQTIFLTD---NIRLCDCPGLV   74 (195)
Q Consensus        21 ~~v~vvG~PNVGKSs--N~L~~kk-~v~vg~~PGvTk~~Q~i~l~~---~i~LlDtPGIv   74 (195)
                      .+|+++|-|||||||  |.+.... .....++.|..-....+.++.   .+.++||||..
T Consensus         3 ~ki~vvG~~~vGKTsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~Dt~G~~   62 (170)
T cd04115           3 FKIIVIGDSNVGKTCLTYRFCAGRFPERTEATIGVDFRERTVEIDGERIKVQLWDTAGQE   62 (170)
T ss_pred             eEEEEECCCCCCHHHHHHHHHhCCCCCccccceeEEEEEEEEEECCeEEEEEEEeCCChH
Confidence            368999999999999  7765433 223334444333333344543   58899999954

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

>TIGR00487 IF-2 translation initiation factor IF-2

Probab=96.94  E-value=0.00042  Score=65.62  Aligned_cols=53  Identities=17%  Similarity=0.169  Sum_probs=41.9

Q ss_pred             CceEeecCCCCccCC--CCCCCCcccccCCCCCCccceeEEEe---cC-CeEEecCCCCC
Q psy3587          21 DNIRLCDCPGLVFPS--KVPKPLQVVSVSRTPGHTKHFQTIFL---TD-NIRLCDCPGLV   74 (195)
Q Consensus        21 ~~v~vvG~PNVGKSs--N~L~~kk~v~vg~~PGvTk~~Q~i~l---~~-~i~LlDtPGIv   74 (195)
                      ..|+++|-+|+||||  |+|++.+.+ .+..+|+|.++....+   +. .+.++||||-.
T Consensus        88 p~V~I~Ghvd~GKTSLl~~l~~~~v~-~~e~~GIT~~ig~~~v~~~~~~~i~~iDTPGhe  146 (587)
T TIGR00487        88 PVVTIMGHVDHGKTSLLDSIRKTKVA-QGEAGGITQHIGAYHVENEDGKMITFLDTPGHE  146 (587)
T ss_pred             CEEEEECCCCCCHHHHHHHHHhCCcc-cccCCceeecceEEEEEECCCcEEEEEECCCCc
Confidence            379999999999999  988876544 4567899988766543   23 79999999964

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.

>KOG1491|consensus

Probab=96.94  E-value=0.00024  Score=62.86  Aligned_cols=54  Identities=15%  Similarity=0.089  Sum_probs=41.9

Q ss_pred             ceEeecCCCCccCC--CCCCCCcccccCCCCCCccceeEEEe--------------------cCCeEEecCCCCCCC
Q psy3587          22 NIRLCDCPGLVFPS--KVPKPLQVVSVSRTPGHTKHFQTIFL--------------------TDNIRLCDCPGLVFP   76 (195)
Q Consensus        22 ~v~vvG~PNVGKSs--N~L~~kk~v~vg~~PGvTk~~Q~i~l--------------------~~~i~LlDtPGIv~p   76 (195)
                      .++|||+|||||||  |+|.+.++. ++|.|=.|-.-..-++                    .-.|.++|.-|++.=
T Consensus        22 kiGIVGlPNvGKST~fnalT~~~a~-~~NfPF~TIdPn~a~V~v~d~Rfd~l~~~Y~~~~~vpa~l~v~DIAGLvkG   97 (391)
T KOG1491|consen   22 KIGIVGLPNVGKSTFFNALTKSKAG-AANFPFCTIDPNEARVEVPDSRFDLLCPIYGPKSKVPAFLTVYDIAGLVKG   97 (391)
T ss_pred             eeeEeeCCCCchHHHHHHHhcCCCC-ccCCCcceeccccceeecCchHHHHHHHhcCCcceeeeeEEEEeecccccC
Confidence            69999999999999  999988866 9999977744332111                    124899999999854

>cd04127 Rab27A Rab27a subfamily

Probab=96.93  E-value=0.00056  Score=53.58  Aligned_cols=53  Identities=13%  Similarity=-0.001  Sum_probs=32.1

Q ss_pred             CceEeecCCCCccCC--CCCCCCccc-ccCCCCCCccceeEEEec-------------CCeEEecCCCC
Q psy3587          21 DNIRLCDCPGLVFPS--KVPKPLQVV-SVSRTPGHTKHFQTIFLT-------------DNIRLCDCPGL   73 (195)
Q Consensus        21 ~~v~vvG~PNVGKSs--N~L~~kk~v-~vg~~PGvTk~~Q~i~l~-------------~~i~LlDtPGI   73 (195)
                      -+++++|-|||||||  |.+...+.. +..++.|+.-....+.+.             -.+.|+||||.
T Consensus         5 ~ki~ivG~~~vGKTsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~Dt~G~   73 (180)
T cd04127           5 IKFLALGDSGVGKTSFLYQYTDNKFNPKFITTVGIDFREKRVVYNSSGPGGTLGRGQRIHLQLWDTAGQ   73 (180)
T ss_pred             EEEEEECCCCCCHHHHHHHHhcCCCCccCCCccceEEEEEEEEEcCccccccccCCCEEEEEEEeCCCh
Confidence            368999999999999  777654321 223333332222222221             14789999994

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

>cd04150 Arf1_5_like Arf1-Arf5-like subfamily

Probab=96.90  E-value=0.00082  Score=52.24  Aligned_cols=50  Identities=14%  Similarity=0.096  Sum_probs=33.1

Q ss_pred             ceEeecCCCCccCC--CCCCCCcccccCCCCCCccceeEEEecC-CeEEecCCCC
Q psy3587          22 NIRLCDCPGLVFPS--KVPKPLQVVSVSRTPGHTKHFQTIFLTD-NIRLCDCPGL   73 (195)
Q Consensus        22 ~v~vvG~PNVGKSs--N~L~~kk~v~vg~~PGvTk~~Q~i~l~~-~i~LlDtPGI   73 (195)
                      +|.++|.+||||||  +.+........  .|.+.-....+...+ .+.|.||||.
T Consensus         2 kv~~~G~~~~GKTsli~~l~~~~~~~~--~pt~g~~~~~~~~~~~~~~l~D~~G~   54 (159)
T cd04150           2 RILMVGLDAAGKTTILYKLKLGEIVTT--IPTIGFNVETVEYKNISFTVWDVGGQ   54 (159)
T ss_pred             EEEEECCCCCCHHHHHHHHhcCCCccc--CCCCCcceEEEEECCEEEEEEECCCC
Confidence            58899999999999  88754444333  443222233344432 5899999997

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

>cd04101 RabL4 RabL4 (Rab-like4) subfamily

Probab=96.86  E-value=0.00059  Score=52.45  Aligned_cols=52  Identities=10%  Similarity=0.050  Sum_probs=31.7

Q ss_pred             ceEeecCCCCccCC--CCCCCCcc---cccCCCCCCccceeEEEec----CCeEEecCCCC
Q psy3587          22 NIRLCDCPGLVFPS--KVPKPLQV---VSVSRTPGHTKHFQTIFLT----DNIRLCDCPGL   73 (195)
Q Consensus        22 ~v~vvG~PNVGKSs--N~L~~kk~---v~vg~~PGvTk~~Q~i~l~----~~i~LlDtPGI   73 (195)
                      +++++|.|||||||  |++.....   -...++.|..-....+.++    -.+.++||||.
T Consensus         2 ki~vvG~~~~GKtsl~~~l~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~G~   62 (164)
T cd04101           2 RCAVVGDPAVGKTAFVQMFHSNGAVFPKNYLMTTGCDFVVKEVPVDTDNTVELFIFDSAGQ   62 (164)
T ss_pred             EEEEECCCCCCHHHHHHHHhcCCCCcCccCCCceEEEEEEEEEEeCCCCEEEEEEEECCCH
Confidence            58999999999999  77764321   1222223333222223332    15889999995

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.

>cd04107 Rab32_Rab38 Rab38/Rab32 subfamily

Probab=96.85  E-value=0.00062  Score=54.94  Aligned_cols=52  Identities=17%  Similarity=0.063  Sum_probs=34.7

Q ss_pred             ceEeecCCCCccCC--CCCCCCccc-ccCCCCCCccceeEEEec-C---CeEEecCCCC
Q psy3587          22 NIRLCDCPGLVFPS--KVPKPLQVV-SVSRTPGHTKHFQTIFLT-D---NIRLCDCPGL   73 (195)
Q Consensus        22 ~v~vvG~PNVGKSs--N~L~~kk~v-~vg~~PGvTk~~Q~i~l~-~---~i~LlDtPGI   73 (195)
                      +|.++|-|||||||  |.+.+.... ...++.|..-....+.++ .   .+.|+||||.
T Consensus         2 KivivG~~~vGKTsli~~l~~~~~~~~~~~t~~~d~~~~~v~~~~~~~~~l~l~Dt~G~   60 (201)
T cd04107           2 KVLVIGDLGVGKTSIIKRYVHGIFSQHYKATIGVDFALKVIEWDPNTVVRLQLWDIAGQ   60 (201)
T ss_pred             EEEEECCCCCCHHHHHHHHHcCCCCCCCCCceeEEEEEEEEEECCCCEEEEEEEECCCc
Confidence            58899999999999  877765432 233433433334445554 2   4789999997

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.

>PF05049 IIGP: Interferon-inducible GTPase (IIGP); InterPro: IPR007743 Interferon-inducible GTPase (IIGP) is thought to play a role in in intracellular defence

Probab=96.83  E-value=0.00038  Score=62.50  Aligned_cols=59  Identities=20%  Similarity=0.147  Sum_probs=38.4

Q ss_pred             ceEeecCCCCccCC--CCCCC-----CcccccCCCCCCccceeEEEe--cCCeEEecCCCCCCCCCCCh
Q psy3587          22 NIRLCDCPGLVFPS--KVPKP-----LQVVSVSRTPGHTKHFQTIFL--TDNIRLCDCPGLVFPSKVPK   81 (195)
Q Consensus        22 ~v~vvG~PNVGKSs--N~L~~-----kk~v~vg~~PGvTk~~Q~i~l--~~~i~LlDtPGIv~p~~~~~   81 (195)
                      +|+|+|=+|.||||  |+|+|     ..+|.||..- .|....-..-  -+++.|.|-||+--|++...
T Consensus        37 ~IaV~G~sGsGKSSfINalrGl~~~d~~aA~tGv~e-tT~~~~~Y~~p~~pnv~lWDlPG~gt~~f~~~  104 (376)
T PF05049_consen   37 NIAVTGESGSGKSSFINALRGLGHEDEGAAPTGVVE-TTMEPTPYPHPKFPNVTLWDLPGIGTPNFPPE  104 (376)
T ss_dssp             EEEEEESTTSSHHHHHHHHTT--TTSTTS--SSSHS-CCTS-EEEE-SS-TTEEEEEE--GGGSS--HH
T ss_pred             EEEEECCCCCCHHHHHHHHhCCCCCCcCcCCCCCCc-CCCCCeeCCCCCCCCCeEEeCCCCCCCCCCHH
Confidence            79999999999999  99987     5567777653 3333333322  26899999999988887543

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.

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

Probab=96.83  E-value=0.001  Score=52.51  Aligned_cols=51  Identities=14%  Similarity=0.020  Sum_probs=34.0

Q ss_pred             CceEeecCCCCccCC--CCCCCCcccccCCCCCCccceeEEEec-CCeEEecCCCC
Q psy3587          21 DNIRLCDCPGLVFPS--KVPKPLQVVSVSRTPGHTKHFQTIFLT-DNIRLCDCPGL   73 (195)
Q Consensus        21 ~~v~vvG~PNVGKSs--N~L~~kk~v~vg~~PGvTk~~Q~i~l~-~~i~LlDtPGI   73 (195)
                      .++.++|-+||||||  +.+...+....  .|.+......+... -.+.++||||.
T Consensus        14 ~ki~l~G~~~~GKTsL~~~~~~~~~~~~--~~t~~~~~~~~~~~~~~l~l~D~~G~   67 (175)
T smart00177       14 MRILMVGLDAAGKTTILYKLKLGESVTT--IPTIGFNVETVTYKNISFTVWDVGGQ   67 (175)
T ss_pred             cEEEEEcCCCCCHHHHHHHHhcCCCCCc--CCccccceEEEEECCEEEEEEECCCC
Confidence            479999999999999  88754443333  34333333344433 25889999996

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).

>cd04148 RGK RGK subfamily

Probab=96.83  E-value=0.00085  Score=55.46  Aligned_cols=53  Identities=11%  Similarity=0.040  Sum_probs=34.8

Q ss_pred             ceEeecCCCCccCC--CCCCCCccc-ccCCCCC-CccceeEEEec---CCeEEecCCCCC
Q psy3587          22 NIRLCDCPGLVFPS--KVPKPLQVV-SVSRTPG-HTKHFQTIFLT---DNIRLCDCPGLV   74 (195)
Q Consensus        22 ~v~vvG~PNVGKSs--N~L~~kk~v-~vg~~PG-vTk~~Q~i~l~---~~i~LlDtPGIv   74 (195)
                      +|.++|-|||||||  |.+...... .....++ ..-....+.++   ..+.++||||.-
T Consensus         2 KI~lvG~~gvGKTsLi~~~~~~~~~~~~~~~t~~~~~~~~~i~~~~~~~~l~i~Dt~G~~   61 (221)
T cd04148           2 RVVMLGSPGVGKSSLASQFTSGEYDDHAYDASGDDDTYERTVSVDGEESTLVVIDHWEQE   61 (221)
T ss_pred             EEEEECCCCCcHHHHHHHHhcCCcCccCcCCCccccceEEEEEECCEEEEEEEEeCCCcc
Confidence            68999999999999  887654432 2222222 23334445542   358899999986

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

>cd01870 RhoA_like RhoA-like subfamily

Probab=96.82  E-value=0.00099  Score=51.84  Aligned_cols=52  Identities=13%  Similarity=-0.032  Sum_probs=32.5

Q ss_pred             CceEeecCCCCccCC--CCCCCCccc-ccCCCCCCccceeEEEecC---CeEEecCCCC
Q psy3587          21 DNIRLCDCPGLVFPS--KVPKPLQVV-SVSRTPGHTKHFQTIFLTD---NIRLCDCPGL   73 (195)
Q Consensus        21 ~~v~vvG~PNVGKSs--N~L~~kk~v-~vg~~PGvTk~~Q~i~l~~---~i~LlDtPGI   73 (195)
                      ++++++|-+||||||  +.+.+..-. ...++.+..- ...+.++.   .+.++||||.
T Consensus         2 ~ki~iiG~~~~GKTsl~~~~~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~l~i~Dt~G~   59 (175)
T cd01870           2 KKLVIVGDGACGKTCLLIVFSKDQFPEVYVPTVFENY-VADIEVDGKQVELALWDTAGQ   59 (175)
T ss_pred             cEEEEECCCCCCHHHHHHHHhcCCCCCCCCCccccce-EEEEEECCEEEEEEEEeCCCc
Confidence            579999999999999  777654422 2222222221 12234432   4789999996

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

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

Probab=96.76  E-value=0.00099  Score=57.14  Aligned_cols=53  Identities=21%  Similarity=0.150  Sum_probs=36.6

Q ss_pred             ceEeecCCCCccCC--CCCC---C--CcccccC------------CCCCCccceeEEEe---cCCeEEecCCCCC
Q psy3587          22 NIRLCDCPGLVFPS--KVPK---P--LQVVSVS------------RTPGHTKHFQTIFL---TDNIRLCDCPGLV   74 (195)
Q Consensus        22 ~v~vvG~PNVGKSs--N~L~---~--kk~v~vg------------~~PGvTk~~Q~i~l---~~~i~LlDtPGIv   74 (195)
                      ||+++|-||+||||  |+|.   |  ++..+|.            ...|+|.......+   +..+.|+||||..
T Consensus         1 nv~ivGh~~~GKTtL~~~Ll~~~g~~~~~g~v~~~~~~~D~~~~E~~rgiti~~~~~~~~~~~~~i~liDTPG~~   75 (270)
T cd01886           1 NIGIIAHIDAGKTTTTERILYYTGRIHKIGEVHGGGATMDFMEQERERGITIQSAATTCFWKDHRINIIDTPGHV   75 (270)
T ss_pred             CEEEEcCCCCCHHHHHHHHHHHcCCCcccccccCCccccCCCccccCCCcCeeccEEEEEECCEEEEEEECCCcH
Confidence            68999999999999  7763   2  1211222            35588876655544   3478999999975

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

>PLN00223 ADP-ribosylation factor; Provisional

Probab=96.75  E-value=0.0012  Score=52.74  Aligned_cols=50  Identities=16%  Similarity=0.081  Sum_probs=35.9

Q ss_pred             ceEeecCCCCccCC--CCCCCCcccccCCCCCCccceeEEEec-CCeEEecCCCC
Q psy3587          22 NIRLCDCPGLVFPS--KVPKPLQVVSVSRTPGHTKHFQTIFLT-DNIRLCDCPGL   73 (195)
Q Consensus        22 ~v~vvG~PNVGKSs--N~L~~kk~v~vg~~PGvTk~~Q~i~l~-~~i~LlDtPGI   73 (195)
                      +|.++|-+||||||  +.+.........++.|.+  ...+... -.+.|+||||-
T Consensus        19 ki~ivG~~~~GKTsl~~~l~~~~~~~~~pt~g~~--~~~~~~~~~~~~i~D~~Gq   71 (181)
T PLN00223         19 RILMVGLDAAGKTTILYKLKLGEIVTTIPTIGFN--VETVEYKNISFTVWDVGGQ   71 (181)
T ss_pred             EEEEECCCCCCHHHHHHHHccCCCccccCCccee--EEEEEECCEEEEEEECCCC
Confidence            79999999999999  887755555555555543  3334433 25889999995

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

Probab=96.75  E-value=0.00081  Score=52.65  Aligned_cols=53  Identities=15%  Similarity=0.004  Sum_probs=34.7

Q ss_pred             ceEeecCCCCccCC--CCCCCCc-ccccCCCCCCccceeEEEec---CCeEEecCCCCC
Q psy3587          22 NIRLCDCPGLVFPS--KVPKPLQ-VVSVSRTPGHTKHFQTIFLT---DNIRLCDCPGLV   74 (195)
Q Consensus        22 ~v~vvG~PNVGKSs--N~L~~kk-~v~vg~~PGvTk~~Q~i~l~---~~i~LlDtPGIv   74 (195)
                      +++++|-+||||||  |++.... ..+..++.|.......+..+   -.+.++||||.-
T Consensus         2 ki~vvG~~~vGKTsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~   60 (166)
T cd00877           2 KLVLVGDGGTGKTTFVKRHLTGEFEKKYVATLGVEVHPLDFHTNRGKIRFNVWDTAGQE   60 (166)
T ss_pred             EEEEECCCCCCHHHHHHHHHhCCCCCCCCCceeeEEEEEEEEECCEEEEEEEEECCCCh
Confidence            68999999999999  8765433 33455555554332222222   257899999974

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

>PTZ00369 Ras-like protein; Provisional

Probab=96.74  E-value=0.00093  Score=53.41  Aligned_cols=53  Identities=8%  Similarity=0.008  Sum_probs=33.9

Q ss_pred             CceEeecCCCCccCC--CCCCCCccc-ccCCCCCCccceeEEEecC---CeEEecCCCCC
Q psy3587          21 DNIRLCDCPGLVFPS--KVPKPLQVV-SVSRTPGHTKHFQTIFLTD---NIRLCDCPGLV   74 (195)
Q Consensus        21 ~~v~vvG~PNVGKSs--N~L~~kk~v-~vg~~PGvTk~~Q~i~l~~---~i~LlDtPGIv   74 (195)
                      .+++++|.|||||||  |.+...+.. ...++.|.+. ...+.++.   .+.++||||.-
T Consensus         6 ~Ki~iiG~~~~GKTsLi~~~~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~l~i~Dt~G~~   64 (189)
T PTZ00369          6 YKLVVVGGGGVGKSALTIQFIQNHFIDEYDPTIEDSY-RKQCVIDEETCLLDILDTAGQE   64 (189)
T ss_pred             eEEEEECCCCCCHHHHHHHHhcCCCCcCcCCchhhEE-EEEEEECCEEEEEEEEeCCCCc
Confidence            379999999999999  777655432 3334334332 22334443   36689999964

>cd04146 RERG_RasL11_like RERG/RasL11-like subfamily

Probab=96.72  E-value=0.00088  Score=51.82  Aligned_cols=52  Identities=8%  Similarity=0.050  Sum_probs=32.9

Q ss_pred             ceEeecCCCCccCC--CCCCCCcccccCCCCCCc--cceeEEEecC---CeEEecCCCCCC
Q psy3587          22 NIRLCDCPGLVFPS--KVPKPLQVVSVSRTPGHT--KHFQTIFLTD---NIRLCDCPGLVF   75 (195)
Q Consensus        22 ~v~vvG~PNVGKSs--N~L~~kk~v~vg~~PGvT--k~~Q~i~l~~---~i~LlDtPGIv~   75 (195)
                      ++++||-|||||||  +++..++.  ++..+..+  .....+.++.   .+.++||||.-.
T Consensus         1 ki~vvG~~~~GKtsli~~~~~~~~--~~~~~~t~~~~~~~~~~~~~~~~~~~i~D~~g~~~   59 (165)
T cd04146           1 KIAVLGASGVGKSALVVRFLTKRF--IGEYDPNLESLYSRQVTIDGEQVSLEILDTAGQQQ   59 (165)
T ss_pred             CEEEECCCCCcHHHHHHHHHhCcc--ccccCCChHHhceEEEEECCEEEEEEEEECCCCcc
Confidence            48899999999999  77654433  22333332  2222334443   377999999873

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

>cd04108 Rab36_Rab34 Rab34/Rab36 subfamily

Probab=96.72  E-value=0.001  Score=52.47  Aligned_cols=53  Identities=9%  Similarity=-0.026  Sum_probs=33.7

Q ss_pred             ceEeecCCCCccCC--CCCCCCccc-ccCCCCCCccceeEEEecC---CeEEecCCCCC
Q psy3587          22 NIRLCDCPGLVFPS--KVPKPLQVV-SVSRTPGHTKHFQTIFLTD---NIRLCDCPGLV   74 (195)
Q Consensus        22 ~v~vvG~PNVGKSs--N~L~~kk~v-~vg~~PGvTk~~Q~i~l~~---~i~LlDtPGIv   74 (195)
                      +|++||-+||||||  |.+..++-. ...++-|..-....+.++.   .+.++||||.-
T Consensus         2 ki~ivG~~~vGKTsli~~~~~~~f~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~   60 (170)
T cd04108           2 KVIVVGDLSVGKTCLINRFCKDVFDKNYKATIGVDFEMERFEILGVPFSLQLWDTAGQE   60 (170)
T ss_pred             EEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeeEEEEEEEEECCEEEEEEEEeCCChH
Confidence            58899999999999  877765432 2333333332222333332   58899999964

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

>cd04111 Rab39 Rab39 subfamily

Probab=96.69  E-value=0.0011  Score=54.36  Aligned_cols=52  Identities=19%  Similarity=0.130  Sum_probs=33.9

Q ss_pred             CceEeecCCCCccCC--CCCCCCcccccCCCCCCccce--eEEEecC----CeEEecCCCC
Q psy3587          21 DNIRLCDCPGLVFPS--KVPKPLQVVSVSRTPGHTKHF--QTIFLTD----NIRLCDCPGL   73 (195)
Q Consensus        21 ~~v~vvG~PNVGKSs--N~L~~kk~v~vg~~PGvTk~~--Q~i~l~~----~i~LlDtPGI   73 (195)
                      .+|+++|-+||||||  |.+.+.+..... .|.++...  ..+.+.+    .+.++||||.
T Consensus         3 ~KIvvvG~~~vGKTsLi~~l~~~~~~~~~-~~ti~~d~~~~~i~~~~~~~~~l~i~Dt~G~   62 (211)
T cd04111           3 FRLIVIGDSTVGKSSLLKRFTEGRFAEVS-DPTVGVDFFSRLIEIEPGVRIKLQLWDTAGQ   62 (211)
T ss_pred             eEEEEECCCCCCHHHHHHHHHcCCCCCCC-CceeceEEEEEEEEECCCCEEEEEEEeCCcc
Confidence            469999999999999  888776654432 23332222  2233321    4789999995

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.

>cd04175 Rap1 Rap1 subgroup

Probab=96.68  E-value=0.00087  Score=51.71  Aligned_cols=52  Identities=10%  Similarity=-0.003  Sum_probs=32.3

Q ss_pred             ceEeecCCCCccCC--CCCCCCccc-ccCCCCCCccceeEEEecC---CeEEecCCCCC
Q psy3587          22 NIRLCDCPGLVFPS--KVPKPLQVV-SVSRTPGHTKHFQTIFLTD---NIRLCDCPGLV   74 (195)
Q Consensus        22 ~v~vvG~PNVGKSs--N~L~~kk~v-~vg~~PGvTk~~Q~i~l~~---~i~LlDtPGIv   74 (195)
                      ++.++|-|||||||  |.+...... ...++.|.+- ...+.++.   .+.++||||.-
T Consensus         3 ki~~~G~~~~GKTsli~~~~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~l~i~Dt~G~~   60 (164)
T cd04175           3 KLVVLGSGGVGKSALTVQFVQGIFVEKYDPTIEDSY-RKQVEVDGQQCMLEILDTAGTE   60 (164)
T ss_pred             EEEEECCCCCCHHHHHHHHHhCCCCcccCCcchheE-EEEEEECCEEEEEEEEECCCcc
Confidence            68999999999999  877644332 2223333221 12344443   35689999974

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

>cd00882 Ras_like_GTPase Ras-like GTPase superfamily

Probab=96.68  E-value=0.00056  Score=49.92  Aligned_cols=51  Identities=16%  Similarity=-0.026  Sum_probs=31.3

Q ss_pred             eecCCCCccCC--CCCCCCccc-ccCCCCCCccceeEEEe---cCCeEEecCCCCCC
Q psy3587          25 LCDCPGLVFPS--KVPKPLQVV-SVSRTPGHTKHFQTIFL---TDNIRLCDCPGLVF   75 (195)
Q Consensus        25 vvG~PNVGKSs--N~L~~kk~v-~vg~~PGvTk~~Q~i~l---~~~i~LlDtPGIv~   75 (195)
                      |+|-||+||||  |++.+.... ......+.....-.+..   ...+.++|+||...
T Consensus         1 iiG~~~~GKStl~~~l~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~D~~g~~~   57 (157)
T cd00882           1 VVGDSGVGKTSLLNRLLGGEFVPEEYETTIIDFYSKTIEVDGKKVKLQIWDTAGQER   57 (157)
T ss_pred             CCCcCCCcHHHHHHHHHhCCcCCcccccchhheeeEEEEECCEEEEEEEEecCChHH
Confidence            58999999999  888876652 22222221111111222   34689999999764

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

>cd04147 Ras_dva Ras-dva subfamily

Probab=96.67  E-value=0.0011  Score=53.46  Aligned_cols=52  Identities=12%  Similarity=0.047  Sum_probs=31.2

Q ss_pred             ceEeecCCCCccCC--CCCCCCcccc-cCCCCCCccceeEEEecC---CeEEecCCCCC
Q psy3587          22 NIRLCDCPGLVFPS--KVPKPLQVVS-VSRTPGHTKHFQTIFLTD---NIRLCDCPGLV   74 (195)
Q Consensus        22 ~v~vvG~PNVGKSs--N~L~~kk~v~-vg~~PGvTk~~Q~i~l~~---~i~LlDtPGIv   74 (195)
                      +|++||.+||||||  |.+...+... ..++-+-. ....+.+..   .+.|+||||..
T Consensus         1 kv~vvG~~~vGKTsll~~~~~~~~~~~~~~t~~~~-~~~~~~~~~~~~~l~i~D~~G~~   58 (198)
T cd04147           1 RLVFMGAAGVGKTALIQRFLYDTFEPKYRRTVEEM-HRKEYEVGGVSLTLDILDTSGSY   58 (198)
T ss_pred             CEEEECCCCCCHHHHHHHHHhCCCCccCCCchhhh-eeEEEEECCEEEEEEEEECCCch
Confidence            58999999999999  7776544322 11211111 111233333   57899999964

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.

>cd04132 Rho4_like Rho4-like subfamily

Probab=96.66  E-value=0.0011  Score=52.40  Aligned_cols=51  Identities=16%  Similarity=0.060  Sum_probs=31.8

Q ss_pred             ceEeecCCCCccCC--CCCCCCcccccCCCCCCccc-eeEEEec-C---CeEEecCCCC
Q psy3587          22 NIRLCDCPGLVFPS--KVPKPLQVVSVSRTPGHTKH-FQTIFLT-D---NIRLCDCPGL   73 (195)
Q Consensus        22 ~v~vvG~PNVGKSs--N~L~~kk~v~vg~~PGvTk~-~Q~i~l~-~---~i~LlDtPGI   73 (195)
                      +|+|+|-+||||||  |.+.+..... .-.|.+... ...+..+ .   .+.++||||.
T Consensus         2 ki~vvG~~~vGKTsli~~l~~~~~~~-~~~~t~~~~~~~~i~~~~~~~~~l~i~Dt~G~   59 (187)
T cd04132           2 KIVVVGDGGCGKTCLLIVYSQGKFPE-EYVPTVFENYVTNIQGPNGKIIELALWDTAGQ   59 (187)
T ss_pred             eEEEECCCCCCHHHHHHHHHhCcCCC-CCCCeeeeeeEEEEEecCCcEEEEEEEECCCc
Confidence            68999999999999  8877655321 122322222 2223332 1   4788999994

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.

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

Probab=96.66  E-value=0.0009  Score=63.47  Aligned_cols=50  Identities=16%  Similarity=0.170  Sum_probs=35.9

Q ss_pred             ceEeecCCCCccCC--CCCCCCcccccCCCC-CCccceeEEEec---------------------CCeEEecCCCC
Q psy3587          22 NIRLCDCPGLVFPS--KVPKPLQVVSVSRTP-GHTKHFQTIFLT---------------------DNIRLCDCPGL   73 (195)
Q Consensus        22 ~v~vvG~PNVGKSs--N~L~~kk~v~vg~~P-GvTk~~Q~i~l~---------------------~~i~LlDtPGI   73 (195)
                      -|+++|-||+||||  |+|.+.+.+.  ..| |+|+++....++                     +.+.++||||.
T Consensus         6 iV~IiG~~d~GKTSLln~l~~~~v~~--~e~ggiTq~iG~~~v~~~~~~~~~~~~~~~~~v~~~~~~l~~iDTpG~   79 (590)
T TIGR00491         6 IVSVLGHVDHGKTTLLDKIRGSAVAK--REAGGITQHIGATEIPMDVIEGICGDLLKKFKIRLKIPGLLFIDTPGH   79 (590)
T ss_pred             EEEEECCCCCCHHHHHHHHhcccccc--ccCCceecccCeeEeeeccccccccccccccccccccCcEEEEECCCc
Confidence            58999999999999  9998875433  444 477764433221                     23889999995

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.

>PLN03108 Rab family protein; Provisional

Probab=96.66  E-value=0.0012  Score=53.98  Aligned_cols=54  Identities=11%  Similarity=0.006  Sum_probs=36.5

Q ss_pred             CceEeecCCCCccCC--CCCCCCcccc-cCCCCCCccceeEEEecC---CeEEecCCCCC
Q psy3587          21 DNIRLCDCPGLVFPS--KVPKPLQVVS-VSRTPGHTKHFQTIFLTD---NIRLCDCPGLV   74 (195)
Q Consensus        21 ~~v~vvG~PNVGKSs--N~L~~kk~v~-vg~~PGvTk~~Q~i~l~~---~i~LlDtPGIv   74 (195)
                      .+++|+|-|||||||  |.+.+.+... -.++.|++.....+.++.   .+.|+||||..
T Consensus         7 ~kivivG~~gvGKStLi~~l~~~~~~~~~~~ti~~~~~~~~i~~~~~~i~l~l~Dt~G~~   66 (210)
T PLN03108          7 FKYIIIGDTGVGKSCLLLQFTDKRFQPVHDLTIGVEFGARMITIDNKPIKLQIWDTAGQE   66 (210)
T ss_pred             eEEEEECCCCCCHHHHHHHHHhCCCCCCCCCCccceEEEEEEEECCEEEEEEEEeCCCcH
Confidence            479999999999999  8877654332 233445554444455543   47799999964

>cd01884 EF_Tu EF-Tu subfamily

Probab=96.63  E-value=0.00071  Score=55.22  Aligned_cols=53  Identities=13%  Similarity=0.132  Sum_probs=37.7

Q ss_pred             ceEeecCCCCccCC--CCCCCC------ccc---------ccCCCCCCccceeEEEe---cCCeEEecCCCCC
Q psy3587          22 NIRLCDCPGLVFPS--KVPKPL------QVV---------SVSRTPGHTKHFQTIFL---TDNIRLCDCPGLV   74 (195)
Q Consensus        22 ~v~vvG~PNVGKSs--N~L~~k------k~v---------~vg~~PGvTk~~Q~i~l---~~~i~LlDtPGIv   74 (195)
                      +|+++|-+|.||||  |+|...      ...         ......|+|.....+.+   +..+.++||||..
T Consensus         4 ni~iiGh~~~GKTTL~~~Ll~~~~~~g~~~~~~~~~~d~~~~E~~rg~Ti~~~~~~~~~~~~~i~~iDtPG~~   76 (195)
T cd01884           4 NVGTIGHVDHGKTTLTAAITKVLAKKGGAKFKKYDEIDKAPEEKARGITINTAHVEYETANRHYAHVDCPGHA   76 (195)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHHhcccccccccccccCChhhhhcCccEEeeeeEecCCCeEEEEEECcCHH
Confidence            68999999999999  776432      110         12236788877766655   3468999999974

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.

>PRK05306 infB translation initiation factor IF-2; Validated

Probab=96.62  E-value=0.00086  Score=65.48  Aligned_cols=53  Identities=17%  Similarity=0.184  Sum_probs=42.5

Q ss_pred             CceEeecCCCCccCC--CCCCCCcccccCCCCCCccceeEEEe---cCCeEEecCCCCC
Q psy3587          21 DNIRLCDCPGLVFPS--KVPKPLQVVSVSRTPGHTKHFQTIFL---TDNIRLCDCPGLV   74 (195)
Q Consensus        21 ~~v~vvG~PNVGKSs--N~L~~kk~v~vg~~PGvTk~~Q~i~l---~~~i~LlDtPGIv   74 (195)
                      ..|+|+|-+|+||||  |+|.+.+. ..+..+|+|.++....+   +..|.|+||||.-
T Consensus       291 pvV~ImGhvd~GKTSLl~~Lr~~~v-~~~e~~GIT~~iga~~v~~~~~~ItfiDTPGhe  348 (787)
T PRK05306        291 PVVTIMGHVDHGKTSLLDAIRKTNV-AAGEAGGITQHIGAYQVETNGGKITFLDTPGHE  348 (787)
T ss_pred             CEEEEECCCCCCHHHHHHHHHhCCc-cccccCceeeeccEEEEEECCEEEEEEECCCCc
Confidence            389999999999999  88877554 35677899988876544   3579999999964

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

Probab=96.62  E-value=0.0012  Score=55.98  Aligned_cols=19  Identities=21%  Similarity=0.067  Sum_probs=16.4

Q ss_pred             ceEeecCCCCccCC--CCCCC
Q psy3587          22 NIRLCDCPGLVFPS--KVPKP   40 (195)
Q Consensus        22 ~v~vvG~PNVGKSs--N~L~~   40 (195)
                      +|+++|-+|+||||  |+|..
T Consensus         1 ni~ivG~~gsGKStL~~~Ll~   21 (268)
T cd04170           1 NIALVGHSGSGKTTLAEALLY   21 (268)
T ss_pred             CEEEECCCCCCHHHHHHHHHH
Confidence            68999999999999  77653

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

>PLN03071 GTP-binding nuclear protein Ran; Provisional

Probab=96.62  E-value=0.0016  Score=53.79  Aligned_cols=53  Identities=15%  Similarity=-0.013  Sum_probs=38.1

Q ss_pred             ceEeecCCCCccCC--CCCC-CCcccccCCCCCCccceeEEEecC---CeEEecCCCCC
Q psy3587          22 NIRLCDCPGLVFPS--KVPK-PLQVVSVSRTPGHTKHFQTIFLTD---NIRLCDCPGLV   74 (195)
Q Consensus        22 ~v~vvG~PNVGKSs--N~L~-~kk~v~vg~~PGvTk~~Q~i~l~~---~i~LlDtPGIv   74 (195)
                      +|++||.+||||||  +.+. ++-.....++.|++.....+..+.   .+.++||||.-
T Consensus        15 Ki~vvG~~gvGKTsli~~~~~~~f~~~~~~tig~~~~~~~~~~~~~~~~l~i~Dt~G~~   73 (219)
T PLN03071         15 KLVIVGDGGTGKTTFVKRHLTGEFEKKYEPTIGVEVHPLDFFTNCGKIRFYCWDTAGQE   73 (219)
T ss_pred             EEEEECcCCCCHHHHHHHHhhCCCCCccCCccceeEEEEEEEECCeEEEEEEEECCCch
Confidence            79999999999999  7654 444455677777765544443332   68899999964

>cd04109 Rab28 Rab28 subfamily

Probab=96.54  E-value=0.0013  Score=53.76  Aligned_cols=51  Identities=12%  Similarity=-0.037  Sum_probs=31.7

Q ss_pred             ceEeecCCCCccCC--CCCCCCcccccCCCCCCccc--eeEEEecC----CeEEecCCCC
Q psy3587          22 NIRLCDCPGLVFPS--KVPKPLQVVSVSRTPGHTKH--FQTIFLTD----NIRLCDCPGL   73 (195)
Q Consensus        22 ~v~vvG~PNVGKSs--N~L~~kk~v~vg~~PGvTk~--~Q~i~l~~----~i~LlDtPGI   73 (195)
                      ++.++|.|||||||  |.+.+.... ..-.|-++-.  ...+.++.    .+.|+||||-
T Consensus         2 Ki~ivG~~~vGKSsLi~~l~~~~~~-~~~~~T~~~d~~~~~i~~~~~~~~~~~i~Dt~G~   60 (215)
T cd04109           2 KIVVLGDGAVGKTSLCRRFAKEGFG-KSYKQTIGLDFFSKRVTLPGNLNVTLQVWDIGGQ   60 (215)
T ss_pred             EEEEECcCCCCHHHHHHHHhcCCCC-CCCCCceeEEEEEEEEEeCCCCEEEEEEEECCCc
Confidence            58999999999999  888765421 1222322111  22344432    4789999995

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

>PRK12735 elongation factor Tu; Reviewed

Probab=96.47  E-value=0.0012  Score=59.52  Aligned_cols=52  Identities=13%  Similarity=0.089  Sum_probs=38.3

Q ss_pred             ceEeecCCCCccCC--CCCCC------Ccccc---------cCCCCCCccceeEEEe---cCCeEEecCCCC
Q psy3587          22 NIRLCDCPGLVFPS--KVPKP------LQVVS---------VSRTPGHTKHFQTIFL---TDNIRLCDCPGL   73 (195)
Q Consensus        22 ~v~vvG~PNVGKSs--N~L~~------kk~v~---------vg~~PGvTk~~Q~i~l---~~~i~LlDtPGI   73 (195)
                      +++++|-+|.||||  |+|.+      +..+.         -....|+|.....+..   +..+.|+||||.
T Consensus        14 ~i~iiGhvd~GKSTL~~~L~~~~~~~g~~~~~~~~~~d~~~~E~~rGiT~~~~~~~~~~~~~~i~~iDtPGh   85 (396)
T PRK12735         14 NVGTIGHVDHGKTTLTAAITKVLAKKGGGEAKAYDQIDNAPEEKARGITINTSHVEYETANRHYAHVDCPGH   85 (396)
T ss_pred             EEEEECcCCCCHHHHHHHHHHhhhhcCCcccchhhhccCChhHHhcCceEEEeeeEEcCCCcEEEEEECCCH
Confidence            69999999999999  87753      22211         1236799988776665   346899999996

>CHL00189 infB translation initiation factor 2; Provisional

Probab=96.43  E-value=0.0014  Score=63.70  Aligned_cols=51  Identities=14%  Similarity=0.137  Sum_probs=38.9

Q ss_pred             ceEeecCCCCccCC--CCCCCCcccccCCCCCCccceeEEE--e-----cCCeEEecCCCC
Q psy3587          22 NIRLCDCPGLVFPS--KVPKPLQVVSVSRTPGHTKHFQTIF--L-----TDNIRLCDCPGL   73 (195)
Q Consensus        22 ~v~vvG~PNVGKSs--N~L~~kk~v~vg~~PGvTk~~Q~i~--l-----~~~i~LlDtPGI   73 (195)
                      .|+|+|.+|+||||  |+|.+...+ .+..+|+|.++....  +     +..+.|+||||.
T Consensus       246 ~V~IvGhvdvGKTSLld~L~~~~~~-~~e~~GiTq~i~~~~v~~~~~~~~~kItfiDTPGh  305 (742)
T CHL00189        246 IVTILGHVDHGKTTLLDKIRKTQIA-QKEAGGITQKIGAYEVEFEYKDENQKIVFLDTPGH  305 (742)
T ss_pred             EEEEECCCCCCHHHHHHHHHhccCc-cccCCccccccceEEEEEEecCCceEEEEEECCcH
Confidence            89999999999999  888765543 355688987765432  2     246999999995

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

Probab=96.43  E-value=0.002  Score=52.13  Aligned_cols=54  Identities=9%  Similarity=-0.121  Sum_probs=37.5

Q ss_pred             CceEeecCCCCccCC--CCCCCCcccccCCCCCCccceeEEEecCC----eEEecCCCCC
Q psy3587          21 DNIRLCDCPGLVFPS--KVPKPLQVVSVSRTPGHTKHFQTIFLTDN----IRLCDCPGLV   74 (195)
Q Consensus        21 ~~v~vvG~PNVGKSs--N~L~~kk~v~vg~~PGvTk~~Q~i~l~~~----i~LlDtPGIv   74 (195)
                      .++.++|.+||||||  |++.+...........++...........    +.++||+|..
T Consensus         6 ~kivv~G~~g~GKTtl~~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~~Dt~gq~   65 (219)
T COG1100           6 FKIVVLGDGGVGKTTLLNRLVGDEFPEGYPPTIGNLDPAKTIEPYRRNIKLQLWDTAGQE   65 (219)
T ss_pred             EEEEEEcCCCccHHHHHHHHhcCcCcccCCCceeeeeEEEEEEeCCCEEEEEeecCCCHH
Confidence            579999999999999  88887766654443333343444444332    8888999975

>cd04141 Rit_Rin_Ric Rit/Rin/Ric subfamily

Probab=96.39  E-value=0.0022  Score=50.60  Aligned_cols=52  Identities=12%  Similarity=0.005  Sum_probs=32.1

Q ss_pred             ceEeecCCCCccCC--CCCCCCcccc-cCCCCCCccceeEEEecC---CeEEecCCCCC
Q psy3587          22 NIRLCDCPGLVFPS--KVPKPLQVVS-VSRTPGHTKHFQTIFLTD---NIRLCDCPGLV   74 (195)
Q Consensus        22 ~v~vvG~PNVGKSs--N~L~~kk~v~-vg~~PGvTk~~Q~i~l~~---~i~LlDtPGIv   74 (195)
                      ++.++|-+||||||  +.+...+... ..++-|. .....+.++.   .+.|+||||..
T Consensus         4 ki~vvG~~~vGKTsL~~~~~~~~f~~~~~~t~~~-~~~~~~~~~~~~~~l~i~Dt~G~~   61 (172)
T cd04141           4 KIVMLGAGGVGKSAVTMQFISHSFPDYHDPTIED-AYKQQARIDNEPALLDILDTAGQA   61 (172)
T ss_pred             EEEEECCCCCcHHHHHHHHHhCCCCCCcCCcccc-eEEEEEEECCEEEEEEEEeCCCch
Confidence            68999999999999  7766544321 1222221 1112344433   47889999964

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

>cd04134 Rho3 Rho3 subfamily

Probab=96.37  E-value=0.0027  Score=50.76  Aligned_cols=53  Identities=17%  Similarity=0.059  Sum_probs=33.1

Q ss_pred             CceEeecCCCCccCC--CCCCCCccccc-CCCCCCccceeEEEecC---CeEEecCCCCC
Q psy3587          21 DNIRLCDCPGLVFPS--KVPKPLQVVSV-SRTPGHTKHFQTIFLTD---NIRLCDCPGLV   74 (195)
Q Consensus        21 ~~v~vvG~PNVGKSs--N~L~~kk~v~v-g~~PGvTk~~Q~i~l~~---~i~LlDtPGIv   74 (195)
                      ++|.++|-+||||||  +.+....-... .++.|.. ....+.++.   .+.|+||||.-
T Consensus         1 ~kivivG~~~vGKTsli~~~~~~~~~~~~~~t~~~~-~~~~i~~~~~~~~l~i~Dt~G~~   59 (189)
T cd04134           1 RKVVVLGDGACGKTSLLNVFTRGYFPQVYEPTVFEN-YVHDIFVDGLHIELSLWDTAGQE   59 (189)
T ss_pred             CEEEEECCCCCCHHHHHHHHhcCCCCCccCCcceee-eEEEEEECCEEEEEEEEECCCCh
Confidence            368999999999999  77766543322 2222221 222344432   57899999963

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.

>COG0218 Predicted GTPase [General function prediction only]

Probab=96.35  E-value=0.0037  Score=51.55  Aligned_cols=34  Identities=32%  Similarity=0.582  Sum_probs=32.1

Q ss_pred             ccccCCCCccceeEEEEecCceEeecCCCCccCC
Q psy3587           2 VSVSRTPGHTKHFQTIFLTDNIRLCDCPGLVFPS   35 (195)
Q Consensus         2 ~~v~~~~g~tk~~q~~~l~~~v~vvG~PNVGKSs   35 (195)
                      +.||.|||+|+...+..++....+||+||-|+..
T Consensus        51 ArtSktPGrTq~iNff~~~~~~~lVDlPGYGyAk   84 (200)
T COG0218          51 ARTSKTPGRTQLINFFEVDDELRLVDLPGYGYAK   84 (200)
T ss_pred             eecCCCCCccceeEEEEecCcEEEEeCCCccccc
Confidence            5799999999999999999999999999999876

>cd04126 Rab20 Rab20 subfamily

Probab=96.26  E-value=0.0021  Score=53.53  Aligned_cols=51  Identities=18%  Similarity=0.043  Sum_probs=32.7

Q ss_pred             ceEeecCCCCccCC--CCCCCCcccccCCCCCCccceeEEEe-cCCeEEecCCCCC
Q psy3587          22 NIRLCDCPGLVFPS--KVPKPLQVVSVSRTPGHTKHFQTIFL-TDNIRLCDCPGLV   74 (195)
Q Consensus        22 ~v~vvG~PNVGKSs--N~L~~kk~v~vg~~PGvTk~~Q~i~l-~~~i~LlDtPGIv   74 (195)
                      +|.++|.|||||||  |.+...+.....++-|..  .....+ .-++.|+||||--
T Consensus         2 KIvivG~~~vGKTSLi~r~~~~~f~~~~~Tig~~--~~~~~~~~~~l~iwDt~G~e   55 (220)
T cd04126           2 KVVLLGDMNVGKTSLLHRYMERRFKDTVSTVGGA--FYLKQWGPYNISIWDTAGRE   55 (220)
T ss_pred             EEEEECCCCCcHHHHHHHHhcCCCCCCCCccceE--EEEEEeeEEEEEEEeCCCcc
Confidence            58899999999999  887766654433333321  111112 2258899999963

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

>KOG1486|consensus

Probab=96.25  E-value=0.0019  Score=55.46  Aligned_cols=51  Identities=20%  Similarity=0.319  Sum_probs=35.1

Q ss_pred             ceEeecCCCCccCC--CCCCCCcccc-------cCCCCCCccceeEEEecCCeEEecCCCCCCCC
Q psy3587          22 NIRLCDCPGLVFPS--KVPKPLQVVS-------VSRTPGHTKHFQTIFLTDNIRLCDCPGLVFPS   77 (195)
Q Consensus        22 ~v~vvG~PNVGKSs--N~L~~kk~v~-------vg~~PGvTk~~Q~i~l~~~i~LlDtPGIv~p~   77 (195)
                      +|.+||+|-|||||  -.+...++..       ....||+-.     .-+-+|.|+|-|||+.-.
T Consensus        64 RValIGfPSVGKStlLs~iT~T~SeaA~yeFTTLtcIpGvi~-----y~ga~IQllDLPGIieGA  123 (364)
T KOG1486|consen   64 RVALIGFPSVGKSTLLSKITSTHSEAASYEFTTLTCIPGVIH-----YNGANIQLLDLPGIIEGA  123 (364)
T ss_pred             EEEEecCCCccHHHHHHHhhcchhhhhceeeeEEEeecceEE-----ecCceEEEecCccccccc
Confidence            89999999999999  4455433222       234566532     115589999999999654

>TIGR00475 selB selenocysteine-specific elongation factor SelB

Probab=96.25  E-value=0.002  Score=60.99  Aligned_cols=52  Identities=15%  Similarity=0.133  Sum_probs=38.2

Q ss_pred             ceEeecCCCCccCC--CCCCCCccc--ccCCCCCCccceeEEE--ec-CCeEEecCCCC
Q psy3587          22 NIRLCDCPGLVFPS--KVPKPLQVV--SVSRTPGHTKHFQTIF--LT-DNIRLCDCPGL   73 (195)
Q Consensus        22 ~v~vvG~PNVGKSs--N~L~~kk~v--~vg~~PGvTk~~Q~i~--l~-~~i~LlDtPGI   73 (195)
                      +|+++|-+|+||||  |+|.+...-  .....+|+|.......  ++ ..+.++||||-
T Consensus         2 ~I~iiG~~d~GKTTLi~aLtg~~~d~~~eE~~rGiTid~~~~~~~~~~~~v~~iDtPGh   60 (581)
T TIGR00475         2 IIATAGHVDHGKTTLLKALTGIAADRLPEEKKRGMTIDLGFAYFPLPDYRLGFIDVPGH   60 (581)
T ss_pred             EEEEECCCCCCHHHHHHHHhCccCcCChhHhcCCceEEeEEEEEEeCCEEEEEEECCCH
Confidence            58999999999999  999875422  2334678887766533  33 36889999994

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.

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

Probab=96.23  E-value=0.003  Score=51.60  Aligned_cols=51  Identities=18%  Similarity=0.124  Sum_probs=33.8

Q ss_pred             ceEeecCCCCccCC--CCCCCCcccccCCCCCCccceeEEEe-----cCCeEEecCCCCC
Q psy3587          22 NIRLCDCPGLVFPS--KVPKPLQVVSVSRTPGHTKHFQTIFL-----TDNIRLCDCPGLV   74 (195)
Q Consensus        22 ~v~vvG~PNVGKSs--N~L~~kk~v~vg~~PGvTk~~Q~i~l-----~~~i~LlDtPGIv   74 (195)
                      +|.++|-+|+||++  |.|...+...+  .+..+.....+.+     +..+.|+||||-.
T Consensus         2 ~vll~G~~~sGKTsL~~~l~~~~~~~t--~~s~~~~~~~~~~~~~~~~~~~~l~D~pG~~   59 (203)
T cd04105           2 TVLLLGPSDSGKTALFTKLTTGKYRST--VTSIEPNVATFILNSEGKGKKFRLVDVPGHP   59 (203)
T ss_pred             eEEEEcCCCCCHHHHHHHHhcCCCCCc--cCcEeecceEEEeecCCCCceEEEEECCCCH
Confidence            58999999999999  88876554332  1222333333333     3468999999964

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

>PRK12739 elongation factor G; Reviewed

Probab=96.22  E-value=0.0018  Score=62.32  Aligned_cols=53  Identities=19%  Similarity=0.105  Sum_probs=39.2

Q ss_pred             ceEeecCCCCccCC--CCCCC-----CcccccC------------CCCCCccceeEEEe---cCCeEEecCCCCC
Q psy3587          22 NIRLCDCPGLVFPS--KVPKP-----LQVVSVS------------RTPGHTKHFQTIFL---TDNIRLCDCPGLV   74 (195)
Q Consensus        22 ~v~vvG~PNVGKSs--N~L~~-----kk~v~vg------------~~PGvTk~~Q~i~l---~~~i~LlDtPGIv   74 (195)
                      +|+|+|-+|+||||  |+|..     ++..++.            ...|+|.....+.+   +..+.|+||||..
T Consensus        10 ni~iiGh~~~GKsTL~~~ll~~~g~~~~~~~v~~~~~~~D~~~~E~~rgiti~~~~~~~~~~~~~i~liDTPG~~   84 (691)
T PRK12739         10 NIGIMAHIDAGKTTTTERILYYTGKSHKIGEVHDGAATMDWMEQEQERGITITSAATTCFWKGHRINIIDTPGHV   84 (691)
T ss_pred             EEEEECCCCCCHHHHHHHHHHhCCCccccccccCCccccCCChhHhhcCCCccceeEEEEECCEEEEEEcCCCHH
Confidence            79999999999999  87642     1222333            37789987776655   4479999999974

>cd04162 Arl9_Arfrp2_like Arl9/Arfrp2-like subfamily

Probab=96.10  E-value=0.0045  Score=48.36  Aligned_cols=50  Identities=20%  Similarity=0.097  Sum_probs=32.6

Q ss_pred             eEeecCCCCccCC--CCCCCCc-ccccCCCCCCccceeEEEe-cCCeEEecCCCCC
Q psy3587          23 IRLCDCPGLVFPS--KVPKPLQ-VVSVSRTPGHTKHFQTIFL-TDNIRLCDCPGLV   74 (195)
Q Consensus        23 v~vvG~PNVGKSs--N~L~~kk-~v~vg~~PGvTk~~Q~i~l-~~~i~LlDtPGIv   74 (195)
                      |.++|-+||||||  |.+.+.+ .....++.|...  ..+.. +-.+.++||||--
T Consensus         2 i~ivG~~~vGKTsli~~~~~~~~~~~~~pt~g~~~--~~i~~~~~~l~i~Dt~G~~   55 (164)
T cd04162           2 ILVLGLDGAGKTSLLHSLSSERSLESVVPTTGFNS--VAIPTQDAIMELLEIGGSQ   55 (164)
T ss_pred             EEEECCCCCCHHHHHHHHhcCCCcccccccCCcce--EEEeeCCeEEEEEECCCCc
Confidence            7899999999999  7777543 233445555431  12222 2358899999964

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.

>TIGR00484 EF-G translation elongation factor EF-G

Probab=96.06  E-value=0.0028  Score=60.98  Aligned_cols=54  Identities=19%  Similarity=0.099  Sum_probs=37.7

Q ss_pred             ceEeecCCCCccCC--CCCCCC-----cccccCC------------CCCCccceeEEEe---cCCeEEecCCCCCC
Q psy3587          22 NIRLCDCPGLVFPS--KVPKPL-----QVVSVSR------------TPGHTKHFQTIFL---TDNIRLCDCPGLVF   75 (195)
Q Consensus        22 ~v~vvG~PNVGKSs--N~L~~k-----k~v~vg~------------~PGvTk~~Q~i~l---~~~i~LlDtPGIv~   75 (195)
                      ||+|+|-||+||||  |+|...     +..++.+            ..|+|.......+   +..+.|+||||...
T Consensus        12 ni~iiG~~~~GKsTL~~~ll~~~g~~~~~~~~~~g~~~~D~~~~e~~rgiti~~~~~~~~~~~~~i~liDTPG~~~   87 (689)
T TIGR00484        12 NIGISAHIDAGKTTTTERILFYTGRIHKIGEVHDGAATMDWMEQEKERGITITSAATTVFWKGHRINIIDTPGHVD   87 (689)
T ss_pred             EEEEECCCCCCHHHHHHHHHHhCCCccccccccCCccccCCCHHHHhcCCCEecceEEEEECCeEEEEEECCCCcc
Confidence            89999999999999  877421     1112222            4678876555544   45799999999963

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.

>PRK09563 rbgA GTPase YlqF; Reviewed

Probab=96.04  E-value=0.0071  Score=52.14  Aligned_cols=35  Identities=34%  Similarity=0.591  Sum_probs=32.1

Q ss_pred             CccccCCCCccceeEEEEecCceEeecCCCCccCC
Q psy3587           1 VVSVSRTPGHTKHFQTIFLTDNIRLCDCPGLVFPS   35 (195)
Q Consensus         1 ~~~v~~~~g~tk~~q~~~l~~~v~vvG~PNVGKSs   35 (195)
                      +|.||++||.||++|.+.++..+.++|+||+-.+.
T Consensus       146 ~~~~~~~~g~T~~~~~~~~~~~~~l~DtPGi~~~~  180 (287)
T PRK09563        146 IAKTGNRPGVTKAQQWIKLGKGLELLDTPGILWPK  180 (287)
T ss_pred             ccccCCCCCeEEEEEEEEeCCcEEEEECCCcCCCC
Confidence            46899999999999999999999999999997665

>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=96.01  E-value=0.0018  Score=47.28  Aligned_cols=53  Identities=15%  Similarity=0.066  Sum_probs=33.8

Q ss_pred             ceEeecCCCCccCC--CCCCCCccc---ccCCCCCCccceeEEEec---CCeEEecCCCCC
Q psy3587          22 NIRLCDCPGLVFPS--KVPKPLQVV---SVSRTPGHTKHFQTIFLT---DNIRLCDCPGLV   74 (195)
Q Consensus        22 ~v~vvG~PNVGKSs--N~L~~kk~v---~vg~~PGvTk~~Q~i~l~---~~i~LlDtPGIv   74 (195)
                      +|.|+|-+||||||  ++|.+....   ......+.|-......+.   ..+.+.|++|--
T Consensus         1 kI~V~G~~g~GKTsLi~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~d~~g~~   61 (119)
T PF08477_consen    1 KIVVLGDSGVGKTSLIRRLCGGEFPDNSVPEETSEITIGVDVIVVDGDRQSLQFWDFGGQE   61 (119)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHSS--------SSTTSCEEEEEEEETTEEEEEEEEEESSSH
T ss_pred             CEEEECcCCCCHHHHHHHHhcCCCcccccccccCCCcEEEEEEEecCCceEEEEEecCccc
Confidence            58999999999999  888766655   233344555444444332   247788999884

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.

>PF00735 Septin: Septin; InterPro: IPR000038 Septins constitute a eukaryotic family of guanine nucleotide-binding proteins, most of which polymerise to form filaments []

Probab=95.99  E-value=0.002  Score=55.67  Aligned_cols=54  Identities=20%  Similarity=0.302  Sum_probs=29.1

Q ss_pred             CceEeecCCCCccCC--CCCCCCcccccC-CCC----CCccc--eeE--EEec-C----CeEEecCCCCC
Q psy3587          21 DNIRLCDCPGLVFPS--KVPKPLQVVSVS-RTP----GHTKH--FQT--IFLT-D----NIRLCDCPGLV   74 (195)
Q Consensus        21 ~~v~vvG~PNVGKSs--N~L~~kk~v~vg-~~P----GvTk~--~Q~--i~l~-~----~i~LlDtPGIv   74 (195)
                      .++||+|-.|+||||  |+|.+....... ..+    ...+.  ++.  +.+. .    ++.++||||.-
T Consensus         5 fnImVvG~sG~GKTTFIntL~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~l~e~~~~l~LtiiDTpGfG   74 (281)
T PF00735_consen    5 FNIMVVGESGLGKTTFINTLFNSDIISEDSSIPPPSASISRTLEIEERTVELEENGVKLNLTIIDTPGFG   74 (281)
T ss_dssp             EEEEEEECTTSSHHHHHHHHHTSS---------S------SCEEEEEEEEEEEETCEEEEEEEEEEC-CS
T ss_pred             EEEEEECCCCCCHHHHHHHHHhcccccccccccccccccccccceeeEEEEeccCCcceEEEEEeCCCcc
Confidence            369999999999999  887665444432 111    11111  222  2221 1    58899999974

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.

>PRK00049 elongation factor Tu; Reviewed

Probab=95.98  E-value=0.0025  Score=57.48  Aligned_cols=52  Identities=13%  Similarity=0.141  Sum_probs=38.9

Q ss_pred             ceEeecCCCCccCC--CCCCCC------ccccc---------CCCCCCccceeEEEe---cCCeEEecCCCC
Q psy3587          22 NIRLCDCPGLVFPS--KVPKPL------QVVSV---------SRTPGHTKHFQTIFL---TDNIRLCDCPGL   73 (195)
Q Consensus        22 ~v~vvG~PNVGKSs--N~L~~k------k~v~v---------g~~PGvTk~~Q~i~l---~~~i~LlDtPGI   73 (195)
                      +++++|=+|.||||  ++|.+.      ..+..         ....|+|.....+.+   +..+.++||||.
T Consensus        14 ni~iiGhvd~GKSTL~~~L~~~~~~~g~~~~~~~~~~d~~~~E~~rg~Ti~~~~~~~~~~~~~i~~iDtPG~   85 (396)
T PRK00049         14 NVGTIGHVDHGKTTLTAAITKVLAKKGGAEAKAYDQIDKAPEEKARGITINTAHVEYETEKRHYAHVDCPGH   85 (396)
T ss_pred             EEEEEeECCCCHHHHHHHHHHhhhhccCCcccchhhccCChHHHhcCeEEeeeEEEEcCCCeEEEEEECCCH
Confidence            79999999999999  776541      12122         227899988887776   346899999997

>PLN03127 Elongation factor Tu; Provisional

Probab=95.98  E-value=0.0036  Score=57.50  Aligned_cols=53  Identities=13%  Similarity=0.092  Sum_probs=39.2

Q ss_pred             ceEeecCCCCccCC--CCCCC------Cccc---------ccCCCCCCccceeEEEec---CCeEEecCCCCC
Q psy3587          22 NIRLCDCPGLVFPS--KVPKP------LQVV---------SVSRTPGHTKHFQTIFLT---DNIRLCDCPGLV   74 (195)
Q Consensus        22 ~v~vvG~PNVGKSs--N~L~~------kk~v---------~vg~~PGvTk~~Q~i~l~---~~i~LlDtPGIv   74 (195)
                      +|+++|=+|.||||  |+|.+      +...         .....+|+|...-.+.+.   ..+.++||||.-
T Consensus        63 ni~iiGhvd~GKSTL~~~L~~~~~~~g~~~~~~~~~~D~~~~E~~rGiTi~~~~~~~~~~~~~i~~iDtPGh~  135 (447)
T PLN03127         63 NVGTIGHVDHGKTTLTAAITKVLAEEGKAKAVAFDEIDKAPEEKARGITIATAHVEYETAKRHYAHVDCPGHA  135 (447)
T ss_pred             EEEEECcCCCCHHHHHHHHHhHHHHhhcccceeeccccCChhHhhcCceeeeeEEEEcCCCeEEEEEECCCcc
Confidence            79999999999999  87752      2111         123448999888777663   368999999973

>PRK00007 elongation factor G; Reviewed

Probab=95.94  E-value=0.0045  Score=59.69  Aligned_cols=53  Identities=19%  Similarity=0.145  Sum_probs=38.4

Q ss_pred             ceEeecCCCCccCC--CCCC---CC--cccccC------------CCCCCccceeEEEe---cCCeEEecCCCCC
Q psy3587          22 NIRLCDCPGLVFPS--KVPK---PL--QVVSVS------------RTPGHTKHFQTIFL---TDNIRLCDCPGLV   74 (195)
Q Consensus        22 ~v~vvG~PNVGKSs--N~L~---~k--k~v~vg------------~~PGvTk~~Q~i~l---~~~i~LlDtPGIv   74 (195)
                      ||+|+|-||+||||  |+|.   +.  +.-++.            ...|+|.....+.+   +..+.|+||||..
T Consensus        12 ni~iiG~~~~GKsTL~~~ll~~~g~~~~~g~v~~~~~~~D~~~~E~~rg~ti~~~~~~~~~~~~~~~liDTPG~~   86 (693)
T PRK00007         12 NIGIMAHIDAGKTTTTERILFYTGVNHKIGEVHDGAATMDWMEQEQERGITITSAATTCFWKDHRINIIDTPGHV   86 (693)
T ss_pred             EEEEECCCCCCHHHHHHHHHHhcCCccccccccCCcccCCCCHHHHhCCCCEeccEEEEEECCeEEEEEeCCCcH
Confidence            89999999999999  8764   21  111233            36788876655544   4579999999975

>cd04130 Wrch_1 Wrch-1 subfamily

Probab=95.88  E-value=0.0055  Score=47.89  Aligned_cols=51  Identities=12%  Similarity=0.039  Sum_probs=29.5

Q ss_pred             ceEeecCCCCccCC--CCCCCCcccccCCCCCCccce--eEEEecC---CeEEecCCCCC
Q psy3587          22 NIRLCDCPGLVFPS--KVPKPLQVVSVSRTPGHTKHF--QTIFLTD---NIRLCDCPGLV   74 (195)
Q Consensus        22 ~v~vvG~PNVGKSs--N~L~~kk~v~vg~~PGvTk~~--Q~i~l~~---~i~LlDtPGIv   74 (195)
                      +++++|-|||||||  +++....-.  ...+..+...  ..+.++.   .+.++||||.-
T Consensus         2 k~~i~G~~~~GKtsl~~~~~~~~~~--~~~~~t~~~~~~~~~~~~~~~~~~~i~Dt~G~~   59 (173)
T cd04130           2 KCVLVGDGAVGKTSLIVSYTTNGYP--TEYVPTAFDNFSVVVLVDGKPVRLQLCDTAGQD   59 (173)
T ss_pred             EEEEECCCCCCHHHHHHHHHhCCCC--CCCCCceeeeeeEEEEECCEEEEEEEEECCCCh
Confidence            57899999999999  665433221  1122111111  1233332   47889999973

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,

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

Probab=95.87  E-value=0.0045  Score=48.51  Aligned_cols=47  Identities=21%  Similarity=0.169  Sum_probs=32.5

Q ss_pred             cCceEeecCCCCccCC--CCCCCCcccccCCCCCCccceeEEEecCCeEEecCCCCCCC
Q psy3587          20 TDNIRLCDCPGLVFPS--KVPKPLQVVSVSRTPGHTKHFQTIFLTDNIRLCDCPGLVFP   76 (195)
Q Consensus        20 ~~~v~vvG~PNVGKSs--N~L~~kk~v~vg~~PGvTk~~Q~i~l~~~i~LlDtPGIv~p   76 (195)
                      .|++|+||-.++||+|  ++|.+...     ....|.   .+...+++  +||||=..-
T Consensus         1 MkrimliG~~g~GKTTL~q~L~~~~~-----~~~KTq---~i~~~~~~--IDTPGEyiE   49 (143)
T PF10662_consen    1 MKRIMLIGPSGSGKTTLAQALNGEEI-----RYKKTQ---AIEYYDNT--IDTPGEYIE   49 (143)
T ss_pred             CceEEEECCCCCCHHHHHHHHcCCCC-----CcCccc---eeEecccE--EECChhhee
Confidence            4789999999999999  88887442     233343   34333344  899997653

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

>cd04168 TetM_like Tet(M)-like subfamily

Probab=95.84  E-value=0.0034  Score=52.74  Aligned_cols=53  Identities=17%  Similarity=0.145  Sum_probs=32.2

Q ss_pred             ceEeecCCCCccCC--CCCCCCc--ccccC---------------CCCCCccceeEEEe---cCCeEEecCCCCC
Q psy3587          22 NIRLCDCPGLVFPS--KVPKPLQ--VVSVS---------------RTPGHTKHFQTIFL---TDNIRLCDCPGLV   74 (195)
Q Consensus        22 ~v~vvG~PNVGKSs--N~L~~kk--~v~vg---------------~~PGvTk~~Q~i~l---~~~i~LlDtPGIv   74 (195)
                      ||+++|-+|+||||  |+|..+.  ..+.|               ..-|+|-......+   +..+.++||||..
T Consensus         1 ni~i~G~~~~GKTtL~~~ll~~~g~i~~~g~v~~~~~~~D~~~~e~~rg~ti~~~~~~~~~~~~~i~liDTPG~~   75 (237)
T cd04168           1 NIGILAHVDAGKTTLTESLLYTSGAIRKLGSVDKGTTRTDTMELERQRGITIFSAVASFQWEDTKVNLIDTPGHM   75 (237)
T ss_pred             CEEEEcCCCCCHHHHHHHHHHHcCCccccccccCCcccCCCchhHhhCCCceeeeeEEEEECCEEEEEEeCCCcc
Confidence            68999999999999  7664321  11111               12233433333322   3479999999985

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.

>PRK04004 translation initiation factor IF-2; Validated

Probab=95.83  E-value=0.0051  Score=58.35  Aligned_cols=51  Identities=14%  Similarity=0.130  Sum_probs=34.2

Q ss_pred             ceEeecCCCCccCC--CCCCCCcccccCCCC-CCccceeEEEe---------------------cCCeEEecCCCCC
Q psy3587          22 NIRLCDCPGLVFPS--KVPKPLQVVSVSRTP-GHTKHFQTIFL---------------------TDNIRLCDCPGLV   74 (195)
Q Consensus        22 ~v~vvG~PNVGKSs--N~L~~kk~v~vg~~P-GvTk~~Q~i~l---------------------~~~i~LlDtPGIv   74 (195)
                      .|.++|-+|+||||  |+|.+...+  ...| |+|+++..-..                     -+.+.++||||.-
T Consensus         8 ~V~i~Gh~~~GKTSLl~~l~~~~v~--~~~~g~itq~ig~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~iDTPG~e   82 (586)
T PRK04004          8 IVVVLGHVDHGKTTLLDKIRGTAVA--AKEAGGITQHIGATEVPIDVIEKIAGPLKKPLPIKLKIPGLLFIDTPGHE   82 (586)
T ss_pred             EEEEECCCCCCHHHHHHHHhCcccc--cCCCCceEEeeceeeccccccccccceeccccccccccCCEEEEECCChH
Confidence            68999999999999  999766433  3333 45655422111                     0137899999974

>TIGR00485 EF-Tu translation elongation factor TU

Probab=95.80  E-value=0.0047  Score=55.53  Aligned_cols=53  Identities=15%  Similarity=0.120  Sum_probs=39.1

Q ss_pred             ceEeecCCCCccCC--CCCCC------Cccccc---------CCCCCCccceeEEEec---CCeEEecCCCCC
Q psy3587          22 NIRLCDCPGLVFPS--KVPKP------LQVVSV---------SRTPGHTKHFQTIFLT---DNIRLCDCPGLV   74 (195)
Q Consensus        22 ~v~vvG~PNVGKSs--N~L~~------kk~v~v---------g~~PGvTk~~Q~i~l~---~~i~LlDtPGIv   74 (195)
                      +|+++|-+|.||||  ++|.+      +.....         ....|+|.....+.+.   ..+.|+||||.-
T Consensus        14 ~i~i~Ghvd~GKStL~~~L~~~~~~~g~~~~~~~~~~d~~~~E~~rG~Ti~~~~~~~~~~~~~~~liDtpGh~   86 (394)
T TIGR00485        14 NIGTIGHVDHGKTTLTAAITTVLAKEGGAAARAYDQIDNAPEEKARGITINTAHVEYETENRHYAHVDCPGHA   86 (394)
T ss_pred             EEEEEeecCCCHHHHHHHHHhhHHHhhcccccccccccCCHHHHhcCcceeeEEEEEcCCCEEEEEEECCchH
Confidence            79999999999999  77752      222221         2248999888777773   358999999973

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.

>cd01892 Miro2 Miro2 subfamily

Probab=95.68  E-value=0.0087  Score=46.95  Aligned_cols=53  Identities=9%  Similarity=-0.133  Sum_probs=33.5

Q ss_pred             ceEeecCCCCccCC--CCCCCCccc--ccCCCCCCccceeEEEecC---CeEEecCCCCC
Q psy3587          22 NIRLCDCPGLVFPS--KVPKPLQVV--SVSRTPGHTKHFQTIFLTD---NIRLCDCPGLV   74 (195)
Q Consensus        22 ~v~vvG~PNVGKSs--N~L~~kk~v--~vg~~PGvTk~~Q~i~l~~---~i~LlDtPGIv   74 (195)
                      ++.++|-+||||||  |.+.+..-.  ...++-|..-....+.++.   .+.+.|++|--
T Consensus         6 kv~~vG~~~vGKTsli~~~~~~~f~~~~~~~T~~~~~~~~~~~~~~~~~~l~~~d~~g~~   65 (169)
T cd01892           6 LCFVLGAKGSGKSALLRAFLGRSFSLNAYSPTIKPRYAVNTVEVYGQEKYLILREVGEDE   65 (169)
T ss_pred             EEEEECCCCCcHHHHHHHHhCCCCCcccCCCccCcceEEEEEEECCeEEEEEEEecCCcc
Confidence            68999999999999  887765532  2222223322234455543   46678999854

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.

>TIGR02836 spore_IV_A stage IV sporulation protein A

Probab=95.61  E-value=0.0071  Score=55.38  Aligned_cols=57  Identities=19%  Similarity=0.164  Sum_probs=44.9

Q ss_pred             ceEeecCCCCccCC--CCCCCC----ccc-----------ccCCCCC---CccceeE-------EEec----CCeEEecC
Q psy3587          22 NIRLCDCPGLVFPS--KVPKPL----QVV-----------SVSRTPG---HTKHFQT-------IFLT----DNIRLCDC   70 (195)
Q Consensus        22 ~v~vvG~PNVGKSs--N~L~~k----k~v-----------~vg~~PG---vTk~~Q~-------i~l~----~~i~LlDt   70 (195)
                      .++|+|-=|+||||  |++.+.    +.+           =+++.||   .|..-..       +.+.    -.+.|+||
T Consensus        19 yIGvvGpvrtGKSTfIn~fm~q~VlP~i~~~~~k~Ra~DELpqs~~GktItTTePkfvP~kAvEI~~~~~~~~~VrlIDc   98 (492)
T TIGR02836        19 YIGVVGPVRTGKSTFIKKFMELLVLPNISNEYDKERAQDELPQSAAGKTIMTTEPKFVPNEAVEININEGTKFKVRLVDC   98 (492)
T ss_pred             EEEEEcCCCCChHHHHHHHHhhhccccccchhHHhHHHhccCcCCCCCCcccCCCccccCcceEEeccCCCcccEEEEEC
Confidence            69999999999999  887766    666           6889999   6655544       3333    57999999


Q ss_pred             CCCCCCCC
Q psy3587          71 PGLVFPSK   78 (195)
Q Consensus        71 PGIv~p~~   78 (195)
                      +|...+..
T Consensus        99 vG~~v~Ga  106 (492)
T TIGR02836        99 VGYTVKGA  106 (492)
T ss_pred             CCcccCCC
Confidence            99997753

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.

>cd01882 BMS1 Bms1

Probab=95.53  E-value=0.0055  Score=50.95  Aligned_cols=53  Identities=13%  Similarity=0.153  Sum_probs=34.5

Q ss_pred             cCceEeecCCCCccCC--CCCCCC-cccccCCCCCCccceeEEEecCCeEEecCCCCC
Q psy3587          20 TDNIRLCDCPGLVFPS--KVPKPL-QVVSVSRTPGHTKHFQTIFLTDNIRLCDCPGLV   74 (195)
Q Consensus        20 ~~~v~vvG~PNVGKSs--N~L~~k-k~v~vg~~PGvTk~~Q~i~l~~~i~LlDtPGIv   74 (195)
                      ...|+|+|.||+||||  |.|.+. ....++...|.. .+ +..-+..+.++||||-+
T Consensus        39 ~~~i~ivG~~~~GKstl~~~l~~~~~~~~~~~~~g~i-~i-~~~~~~~i~~vDtPg~~   94 (225)
T cd01882          39 PLVVAVVGPPGVGKTTLIKSLVKNYTKQNISDIKGPI-TV-VTGKKRRLTFIECPNDI   94 (225)
T ss_pred             CCEEEEECCCCCCHHHHHHHHHhhcccCccccccccE-EE-EecCCceEEEEeCCchH
Confidence            3459999999999999  777654 333444555631 01 11124578999999854

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.

>KOG1547|consensus

Probab=95.49  E-value=0.007  Score=51.74  Aligned_cols=56  Identities=18%  Similarity=0.133  Sum_probs=37.0

Q ss_pred             cCceEeecCCCCccCC--CCCCCCcccccCCCCCCc----cceeEE----Ee-----cCCeEEecCCCCCC
Q psy3587          20 TDNIRLCDCPGLVFPS--KVPKPLQVVSVSRTPGHT----KHFQTI----FL-----TDNIRLCDCPGLVF   75 (195)
Q Consensus        20 ~~~v~vvG~PNVGKSs--N~L~~kk~v~vg~~PGvT----k~~Q~i----~l-----~~~i~LlDtPGIv~   75 (195)
                      +.+|||||-.|.||||  |.|...+..+-++.|+-.    |..+.-    .+     .-++.++||||.=.
T Consensus        46 ~FNIMVVgqSglgkstlinTlf~s~v~~~s~~~~~~~p~pkT~eik~~thvieE~gVklkltviDTPGfGD  116 (336)
T KOG1547|consen   46 DFNIMVVGQSGLGKSTLINTLFKSHVSDSSSSDNSAEPIPKTTEIKSITHVIEEKGVKLKLTVIDTPGFGD  116 (336)
T ss_pred             ceEEEEEecCCCCchhhHHHHHHHHHhhccCCCcccCcccceEEEEeeeeeeeecceEEEEEEecCCCccc
Confidence            4489999999999999  988766655545444322    222221    11     12588999999763

>cd01874 Cdc42 Cdc42 subfamily

Probab=95.44  E-value=0.012  Score=46.63  Aligned_cols=52  Identities=10%  Similarity=-0.038  Sum_probs=32.1

Q ss_pred             ceEeecCCCCccCC--CCCCCCcc-cccCCCCCCccceeEEEecC---CeEEecCCCCC
Q psy3587          22 NIRLCDCPGLVFPS--KVPKPLQV-VSVSRTPGHTKHFQTIFLTD---NIRLCDCPGLV   74 (195)
Q Consensus        22 ~v~vvG~PNVGKSs--N~L~~kk~-v~vg~~PGvTk~~Q~i~l~~---~i~LlDtPGIv   74 (195)
                      ++.++|-+||||||  +.+...+- ....++-|.... ..+.++.   .+.|+||||--
T Consensus         3 ki~vvG~~~vGKTsl~~~~~~~~f~~~~~pt~~~~~~-~~~~~~~~~~~l~i~Dt~G~~   60 (175)
T cd01874           3 KCVVVGDGAVGKTCLLISYTTNKFPSEYVPTVFDNYA-VTVMIGGEPYTLGLFDTAGQE   60 (175)
T ss_pred             EEEEECCCCCCHHHHHHHHHcCCCCCCCCCceeeeeE-EEEEECCEEEEEEEEECCCcc
Confidence            58999999999999  77665443 222233222221 1233433   47799999974

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

>cd04169 RF3 RF3 subfamily

Probab=95.43  E-value=0.0091  Score=51.11  Aligned_cols=19  Identities=5%  Similarity=-0.031  Sum_probs=16.9

Q ss_pred             CceEeecCCCCccCC--CCCC
Q psy3587          21 DNIRLCDCPGLVFPS--KVPK   39 (195)
Q Consensus        21 ~~v~vvG~PNVGKSs--N~L~   39 (195)
                      .+|+|+|-+|+||||  |+|.
T Consensus         3 Rni~ivGh~~~GKTTL~e~ll   23 (267)
T cd04169           3 RTFAIISHPDAGKTTLTEKLL   23 (267)
T ss_pred             cEEEEEcCCCCCHHHHHHHHH
Confidence            579999999999999  7765

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.

>cd04128 Spg1 Spg1p

Probab=95.41  E-value=0.01  Score=47.37  Aligned_cols=53  Identities=17%  Similarity=-0.008  Sum_probs=34.5

Q ss_pred             ceEeecCCCCccCC--CCCCCCccc-ccCCCCCCccceeEEEecC---CeEEecCCCCC
Q psy3587          22 NIRLCDCPGLVFPS--KVPKPLQVV-SVSRTPGHTKHFQTIFLTD---NIRLCDCPGLV   74 (195)
Q Consensus        22 ~v~vvG~PNVGKSs--N~L~~kk~v-~vg~~PGvTk~~Q~i~l~~---~i~LlDtPGIv   74 (195)
                      +++++|.+||||||  +.+...+-. ...++-|..-....+.++.   .+.+.||+|--
T Consensus         2 Ki~vlG~~~vGKTsLi~~~~~~~f~~~~~~T~g~~~~~~~i~~~~~~~~l~iwDt~G~~   60 (182)
T cd04128           2 KIGLLGDAQIGKTSLMVKYVEGEFDEDYIQTLGVNFMEKTISIRGTEITFSIWDLGGQR   60 (182)
T ss_pred             EEEEECCCCCCHHHHHHHHHhCCCCCCCCCccceEEEEEEEEECCEEEEEEEEeCCCch
Confidence            58999999999999  776654432 2334444333333455543   47899999963

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

>TIGR03596 GTPase_YlqF ribosome biogenesis GTP-binding protein YlqF

Probab=95.35  E-value=0.018  Score=49.38  Aligned_cols=35  Identities=43%  Similarity=0.685  Sum_probs=32.0

Q ss_pred             CccccCCCCccceeEEEEecCceEeecCCCCccCC
Q psy3587           1 VVSVSRTPGHTKHFQTIFLTDNIRLCDCPGLVFPS   35 (195)
Q Consensus         1 ~~~v~~~~g~tk~~q~~~l~~~v~vvG~PNVGKSs   35 (195)
                      +|.||++||.||.+|.+.++.++.++|+||+..+.
T Consensus       143 ~~~~~~~~g~T~~~~~~~~~~~~~l~DtPG~~~~~  177 (276)
T TIGR03596       143 VAKVGNRPGVTKGQQWIKLSDGLELLDTPGILWPK  177 (276)
T ss_pred             ccccCCCCCeecceEEEEeCCCEEEEECCCcccCC
Confidence            47899999999999999999999999999997665

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.

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

Probab=95.27  E-value=0.0057  Score=46.80  Aligned_cols=52  Identities=15%  Similarity=0.095  Sum_probs=34.5

Q ss_pred             ceEeecCCCCccCC--CCCCCCcc-cccCCCCCCccceeEEEecC---CeEEecCCCC
Q psy3587          22 NIRLCDCPGLVFPS--KVPKPLQV-VSVSRTPGHTKHFQTIFLTD---NIRLCDCPGL   73 (195)
Q Consensus        22 ~v~vvG~PNVGKSs--N~L~~kk~-v~vg~~PGvTk~~Q~i~l~~---~i~LlDtPGI   73 (195)
                      +|++||-++|||||  +.+.+..- -...++.|.......+..+.   .+.|.|++|-
T Consensus         1 Ki~vvG~~~vGKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~   58 (162)
T PF00071_consen    1 KIVVVGDSGVGKTSLINRLINGEFPENYIPTIGIDSYSKEVSIDGKPVNLEIWDTSGQ   58 (162)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHSSTTSSSETTSSEEEEEEEEEETTEEEEEEEEEETTS
T ss_pred             CEEEECCCCCCHHHHHHHHHhhcccccccccccccccccccccccccccccccccccc
Confidence            58999999999999  66654432 22333445554444455533   5899999995

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 ....

>cd04129 Rho2 Rho2 subfamily

Probab=95.26  E-value=0.014  Score=46.46  Aligned_cols=53  Identities=11%  Similarity=0.011  Sum_probs=31.0

Q ss_pred             CceEeecCCCCccCC--CCCCCCcccccCCCCCCccc-eeEEEecC---CeEEecCCCCC
Q psy3587          21 DNIRLCDCPGLVFPS--KVPKPLQVVSVSRTPGHTKH-FQTIFLTD---NIRLCDCPGLV   74 (195)
Q Consensus        21 ~~v~vvG~PNVGKSs--N~L~~kk~v~vg~~PGvTk~-~Q~i~l~~---~i~LlDtPGIv   74 (195)
                      .+++|+|-+|+||||  |.+....... ...|.+... ...+.++.   .+.++||||.-
T Consensus         2 ~Ki~ivG~~g~GKStLl~~l~~~~~~~-~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~g~~   60 (187)
T cd04129           2 RKLVIVGDGACGKTSLLSVFTLGEFPE-EYHPTVFENYVTDCRVDGKPVQLALWDTAGQE   60 (187)
T ss_pred             eEEEEECCCCCCHHHHHHHHHhCCCCc-ccCCcccceEEEEEEECCEEEEEEEEECCCCh
Confidence            479999999999999  7775333221 112211111 11233332   47789999964

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).

>PTZ00132 GTP-binding nuclear protein Ran; Provisional

Probab=95.25  E-value=0.015  Score=47.35  Aligned_cols=53  Identities=15%  Similarity=0.001  Sum_probs=33.9

Q ss_pred             CceEeecCCCCccCC--CC-CCCCcccccCCCCCCccceeEEEecC---CeEEecCCCC
Q psy3587          21 DNIRLCDCPGLVFPS--KV-PKPLQVVSVSRTPGHTKHFQTIFLTD---NIRLCDCPGL   73 (195)
Q Consensus        21 ~~v~vvG~PNVGKSs--N~-L~~kk~v~vg~~PGvTk~~Q~i~l~~---~i~LlDtPGI   73 (195)
                      -+++++|-+||||||  |. +.+.-.-...++.|+....-.+..+.   .+.+.||||-
T Consensus        10 ~kv~liG~~g~GKTtLi~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~i~i~~~Dt~g~   68 (215)
T PTZ00132         10 FKLILVGDGGVGKTTFVKRHLTGEFEKKYIPTLGVEVHPLKFYTNCGPICFNVWDTAGQ   68 (215)
T ss_pred             ceEEEECCCCCCHHHHHHHHHhCCCCCCCCCccceEEEEEEEEECCeEEEEEEEECCCc
Confidence            379999999999999  54 44433334445555544333333332   5788999995

>cd04143 Rhes_like Rhes_like subfamily

Probab=95.23  E-value=0.012  Score=49.74  Aligned_cols=52  Identities=10%  Similarity=-0.009  Sum_probs=31.9

Q ss_pred             ceEeecCCCCccCC--CCCCCCcccccCCCCCCc-cceeEEEecC---CeEEecCCCCC
Q psy3587          22 NIRLCDCPGLVFPS--KVPKPLQVVSVSRTPGHT-KHFQTIFLTD---NIRLCDCPGLV   74 (195)
Q Consensus        22 ~v~vvG~PNVGKSs--N~L~~kk~v~vg~~PGvT-k~~Q~i~l~~---~i~LlDtPGIv   74 (195)
                      +|.++|-+||||||  |.+....-.. ...|.+. -....+.++.   .+.|+||+|.-
T Consensus         2 KVvvlG~~gvGKTSLi~r~~~~~f~~-~y~pTi~d~~~k~~~i~~~~~~l~I~Dt~G~~   59 (247)
T cd04143           2 RMVVLGASKVGKTAIVSRFLGGRFEE-QYTPTIEDFHRKLYSIRGEVYQLDILDTSGNH   59 (247)
T ss_pred             EEEEECcCCCCHHHHHHHHHcCCCCC-CCCCChhHhEEEEEEECCEEEEEEEEECCCCh
Confidence            58999999999999  8776543322 2223221 1122344443   47799999963

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

>cd04167 Snu114p Snu114p subfamily

Probab=95.14  E-value=0.0055  Score=50.11  Aligned_cols=18  Identities=11%  Similarity=-0.068  Sum_probs=15.5

Q ss_pred             ceEeecCCCCccCC--CCCC
Q psy3587          22 NIRLCDCPGLVFPS--KVPK   39 (195)
Q Consensus        22 ~v~vvG~PNVGKSs--N~L~   39 (195)
                      +|+|+|-+|+||||  ++|.
T Consensus         2 nv~iiG~~~~GKTtL~~~l~   21 (213)
T cd04167           2 NVAIAGHLHHGKTSLLDMLI   21 (213)
T ss_pred             cEEEEcCCCCCHHHHHHHHH
Confidence            68999999999999  6554

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.

>PRK12736 elongation factor Tu; Reviewed

Probab=95.13  E-value=0.0098  Score=53.56  Aligned_cols=52  Identities=15%  Similarity=0.118  Sum_probs=38.1

Q ss_pred             ceEeecCCCCccCC--CCCCCC------cccccC---------CCCCCccceeEEEe---cCCeEEecCCCC
Q psy3587          22 NIRLCDCPGLVFPS--KVPKPL------QVVSVS---------RTPGHTKHFQTIFL---TDNIRLCDCPGL   73 (195)
Q Consensus        22 ~v~vvG~PNVGKSs--N~L~~k------k~v~vg---------~~PGvTk~~Q~i~l---~~~i~LlDtPGI   73 (195)
                      +++++|=+|.||||  ++|.+.      ......         ...|+|.....+.+   +..+.|+||||.
T Consensus        14 ni~i~Ghvd~GKSTL~~~L~~~~~~~g~~~~~~~~~~d~~~~E~~rg~T~~~~~~~~~~~~~~i~~iDtPGh   85 (394)
T PRK12736         14 NIGTIGHVDHGKTTLTAAITKVLAERGLNQAKDYDSIDAAPEEKERGITINTAHVEYETEKRHYAHVDCPGH   85 (394)
T ss_pred             EEEEEccCCCcHHHHHHHHHhhhhhhccccccchhhhcCCHHHHhcCccEEEEeeEecCCCcEEEEEECCCH
Confidence            79999999999999  776531      111112         27799988877666   346899999994

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

Probab=95.09  E-value=0.013  Score=55.88  Aligned_cols=19  Identities=5%  Similarity=-0.202  Sum_probs=16.6

Q ss_pred             ceEeecCCCCccCC--CCCCC
Q psy3587          22 NIRLCDCPGLVFPS--KVPKP   40 (195)
Q Consensus        22 ~v~vvG~PNVGKSs--N~L~~   40 (195)
                      +|.+||=||+||||  |.|..
T Consensus        26 ~i~iiGh~~~GKSTL~~~Ll~   46 (632)
T PRK05506         26 RFITCGSVDDGKSTLIGRLLY   46 (632)
T ss_pred             EEEEECCCCCChHHHHHHHHH
Confidence            68999999999999  87654

>PRK10512 selenocysteinyl-tRNA-specific translation factor; Provisional

Probab=95.08  E-value=0.014  Score=55.73  Aligned_cols=51  Identities=12%  Similarity=0.104  Sum_probs=38.1

Q ss_pred             eEeecCCCCccCC--CCCCCCccc--ccCCCCCCccceeEEEe----cCCeEEecCCCC
Q psy3587          23 IRLCDCPGLVFPS--KVPKPLQVV--SVSRTPGHTKHFQTIFL----TDNIRLCDCPGL   73 (195)
Q Consensus        23 v~vvG~PNVGKSs--N~L~~kk~v--~vg~~PGvTk~~Q~i~l----~~~i~LlDtPGI   73 (195)
                      |+++|-+|+||||  |+|.+....  ......|+|-.+....+    +..+.++||||.
T Consensus         3 i~~~GhvdhGKTtLi~aLtg~~~dr~~eE~~rGiTI~l~~~~~~~~~g~~i~~IDtPGh   61 (614)
T PRK10512          3 IATAGHVDHGKTTLLQAITGVNADRLPEEKKRGMTIDLGYAYWPQPDGRVLGFIDVPGH   61 (614)
T ss_pred             EEEECCCCCCHHHHHHHHhCCCCccchhcccCCceEEeeeEEEecCCCcEEEEEECCCH
Confidence            7899999999999  999875433  33455799977765443    235789999996

>cd01871 Rac1_like Rac1-like subfamily

Probab=95.05  E-value=0.016  Score=45.84  Aligned_cols=51  Identities=10%  Similarity=-0.052  Sum_probs=28.9

Q ss_pred             ceEeecCCCCccCC--CCCCCCcc-cccCCCCCCccceeEEEecC---CeEEecCCCC
Q psy3587          22 NIRLCDCPGLVFPS--KVPKPLQV-VSVSRTPGHTKHFQTIFLTD---NIRLCDCPGL   73 (195)
Q Consensus        22 ~v~vvG~PNVGKSs--N~L~~kk~-v~vg~~PGvTk~~Q~i~l~~---~i~LlDtPGI   73 (195)
                      +++++|-+||||||  ..+....- -.-.++.+.+... .+.++.   .+.++||||-
T Consensus         3 ki~iiG~~~vGKSsli~~~~~~~f~~~~~~t~~~~~~~-~~~~~~~~~~l~i~Dt~G~   59 (174)
T cd01871           3 KCVVVGDGAVGKTCLLISYTTNAFPGEYIPTVFDNYSA-NVMVDGKPVNLGLWDTAGQ   59 (174)
T ss_pred             EEEEECCCCCCHHHHHHHHhcCCCCCcCCCcceeeeEE-EEEECCEEEEEEEEECCCc
Confidence            58999999999999  54443221 1112222222111 123332   4789999995

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

>KOG1487|consensus

Probab=95.00  E-value=0.026  Score=48.81  Aligned_cols=63  Identities=17%  Similarity=0.142  Sum_probs=41.3

Q ss_pred             eeEEEEecC-ceEeecCCCCccCC--CCCCCCcccccCCCCCCc-cceeE-EEe-cCCeEEecCCCCCCC
Q psy3587          13 HFQTIFLTD-NIRLCDCPGLVFPS--KVPKPLQVVSVSRTPGHT-KHFQT-IFL-TDNIRLCDCPGLVFP   76 (195)
Q Consensus        13 ~~q~~~l~~-~v~vvG~PNVGKSs--N~L~~kk~v~vg~~PGvT-k~~Q~-i~l-~~~i~LlDtPGIv~p   76 (195)
                      -|--++..+ +++++|+|-|||||  +.|.+.- ..|.+.-|.| -.+|. ++. ...|.|+|-|||+.-
T Consensus        51 gfDV~ktg~a~vg~vgFPSvGksTl~~~l~g~~-s~vasyefttl~~vpG~~~y~gaKiqlldlpgiieg  119 (358)
T KOG1487|consen   51 GFDVAKTGDARVGFVGFPSVGKSTLLSKLTGTF-SEVAAYEFTTLTTVPGVIRYKGAKIQLLDLPGIIEG  119 (358)
T ss_pred             CccceeecceeeeEEecCccchhhhhhhhcCCC-CccccccceeEEEecceEeccccceeeecCcchhcc
Confidence            455566666 89999999999999  5666533 3334433333 12222 222 568999999999964

>COG2262 HflX GTPases [General function prediction only]

Probab=94.83  E-value=0.016  Score=52.51  Aligned_cols=52  Identities=12%  Similarity=0.067  Sum_probs=36.1

Q ss_pred             ceEeecCCCCccCC--CCCCCCcccccCC----CCCCccceeEEEecCCeEEecCCCCC
Q psy3587          22 NIRLCDCPGLVFPS--KVPKPLQVVSVSR----TPGHTKHFQTIFLTDNIRLCDCPGLV   74 (195)
Q Consensus        22 ~v~vvG~PNVGKSs--N~L~~kk~v~vg~----~PGvTk~~Q~i~l~~~i~LlDtPGIv   74 (195)
                      .|.++||-|.||||  |+|.+..+..--.    .=..||.+.+-. +..+.|-||=|.+
T Consensus       194 ~vaLvGYTNAGKSTL~N~LT~~~~~~~d~LFATLdpttR~~~l~~-g~~vlLtDTVGFI  251 (411)
T COG2262         194 LVALVGYTNAGKSTLFNALTGADVYVADQLFATLDPTTRRIELGD-GRKVLLTDTVGFI  251 (411)
T ss_pred             eEEEEeeccccHHHHHHHHhccCeeccccccccccCceeEEEeCC-CceEEEecCccCc
Confidence            59999999999999  9998655432111    113455443332 3579999999998

>PLN03126 Elongation factor Tu; Provisional

Probab=94.75  E-value=0.01  Score=54.99  Aligned_cols=52  Identities=19%  Similarity=0.144  Sum_probs=36.5

Q ss_pred             ceEeecCCCCccCC--CCCCCCcc---------------cccCCCCCCccceeEEEe---cCCeEEecCCCC
Q psy3587          22 NIRLCDCPGLVFPS--KVPKPLQV---------------VSVSRTPGHTKHFQTIFL---TDNIRLCDCPGL   73 (195)
Q Consensus        22 ~v~vvG~PNVGKSs--N~L~~kk~---------------v~vg~~PGvTk~~Q~i~l---~~~i~LlDtPGI   73 (195)
                      +++++|=+|+||||  |+|.....               ..-....|+|.......+   +..+.|+||||.
T Consensus        83 ni~iiGhvd~GKSTLi~~Ll~~~~~i~~~~~~~~~~~D~~~~Er~rGiTi~~~~~~~~~~~~~i~liDtPGh  154 (478)
T PLN03126         83 NIGTIGHVDHGKTTLTAALTMALASMGGSAPKKYDEIDAAPEERARGITINTATVEYETENRHYAHVDCPGH  154 (478)
T ss_pred             EEEEECCCCCCHHHHHHHHHHhhhhhccccccccccccCChhHHhCCeeEEEEEEEEecCCcEEEEEECCCH
Confidence            69999999999999  77653111               122445688766555444   457999999995

>cd04121 Rab40 Rab40 subfamily

Probab=94.69  E-value=0.027  Score=45.51  Aligned_cols=54  Identities=15%  Similarity=0.042  Sum_probs=33.9

Q ss_pred             CceEeecCCCCccCC--CCCCCCcc-cccCCCCCCccceeEEEecC---CeEEecCCCCC
Q psy3587          21 DNIRLCDCPGLVFPS--KVPKPLQV-VSVSRTPGHTKHFQTIFLTD---NIRLCDCPGLV   74 (195)
Q Consensus        21 ~~v~vvG~PNVGKSs--N~L~~kk~-v~vg~~PGvTk~~Q~i~l~~---~i~LlDtPGIv   74 (195)
                      .+|+++|-+||||||  +.+...+- -....++|..-....+.++.   .+.|+||||--
T Consensus         7 ~KivviG~~~vGKTsll~~~~~~~~~~~~~~t~~~~~~~~~i~~~~~~~~l~iwDt~G~~   66 (189)
T cd04121           7 LKFLLVGDSDVGKGEILASLQDGSTESPYGYNMGIDYKTTTILLDGRRVKLQLWDTSGQG   66 (189)
T ss_pred             eEEEEECCCCCCHHHHHHHHHcCCCCCCCCCcceeEEEEEEEEECCEEEEEEEEeCCCcH
Confidence            479999999999999  66654332 22223444432223344443   47789999974

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

>cd04131 Rnd Rnd subfamily

Probab=94.51  E-value=0.026  Score=44.95  Aligned_cols=51  Identities=12%  Similarity=-0.033  Sum_probs=30.8

Q ss_pred             ceEeecCCCCccCC--CCCCCCccc-ccCCCCCCccceeEEEecC---CeEEecCCCC
Q psy3587          22 NIRLCDCPGLVFPS--KVPKPLQVV-SVSRTPGHTKHFQTIFLTD---NIRLCDCPGL   73 (195)
Q Consensus        22 ~v~vvG~PNVGKSs--N~L~~kk~v-~vg~~PGvTk~~Q~i~l~~---~i~LlDtPGI   73 (195)
                      +|.++|-+||||||  +.+.+..-. ...++-|.... ..+.++.   .+.|.||+|-
T Consensus         3 Kiv~vG~~~vGKTsli~~~~~~~f~~~~~~t~~~~~~-~~~~~~~~~~~l~iwDt~G~   59 (178)
T cd04131           3 KIVVVGDVQCGKTALLQVFAKDCYPETYVPTVFENYT-ASFEIDEQRIELSLWDTSGS   59 (178)
T ss_pred             EEEEECCCCCCHHHHHHHHHhCcCCCCcCCceEEEEE-EEEEECCEEEEEEEEECCCc
Confidence            68999999999999  776554321 12222222211 1234433   4789999995

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.

>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=94.42  E-value=0.006  Score=48.76  Aligned_cols=53  Identities=21%  Similarity=0.108  Sum_probs=37.3

Q ss_pred             ceEeecCCCCccCC--CCCCCCcc-----------------cccCCCCCCccceeEEEec-----CCeEEecCCCCC
Q psy3587          22 NIRLCDCPGLVFPS--KVPKPLQV-----------------VSVSRTPGHTKHFQTIFLT-----DNIRLCDCPGLV   74 (195)
Q Consensus        22 ~v~vvG~PNVGKSs--N~L~~kk~-----------------v~vg~~PGvTk~~Q~i~l~-----~~i~LlDtPGIv   74 (195)
                      +|+++|-.+.||||  ++|..+..                 .......|.|-...+..+.     ..+.++||||-.
T Consensus         5 ~I~i~G~~~sGKTTL~~~L~~~~~~~~~~~~~~~~~~~~~~~~~e~~~~~ti~~~~~~~~~~~~~~~i~~iDtPG~~   81 (188)
T PF00009_consen    5 NIAIIGHVDSGKTTLLGALLGKAGAIDKRGIEETKNAFLDKHPEERERGITIDLSFISFEKNENNRKITLIDTPGHE   81 (188)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHHHTSSSSHHHHHHHHCHHHSSHHHHHCTSSSSSEEEEEEBTESSEEEEEEEESSSH
T ss_pred             EEEEECCCCCCcEeechhhhhhccccccccccccccccccccchhhhcccccccccccccccccccceeeccccccc
Confidence            68999999999999  65542211                 1223345888777776654     479999999953

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 ....

>COG5019 CDC3 Septin family protein [Cell division and chromosome partitioning / Cytoskeleton]

Probab=94.23  E-value=0.042  Score=49.23  Aligned_cols=56  Identities=18%  Similarity=0.135  Sum_probs=36.8

Q ss_pred             cCceEeecCCCCccCC--CCCCCCccccc----CCCCCCccc-ee----EEEecC-----CeEEecCCCCCC
Q psy3587          20 TDNIRLCDCPGLVFPS--KVPKPLQVVSV----SRTPGHTKH-FQ----TIFLTD-----NIRLCDCPGLVF   75 (195)
Q Consensus        20 ~~~v~vvG~PNVGKSs--N~L~~kk~v~v----g~~PGvTk~-~Q----~i~l~~-----~i~LlDtPGIv~   75 (195)
                      +.+||+||=-|.||||  |+|.++..+..    +..|..++. +.    ...|..     ++.++||||.-.
T Consensus        23 ~f~im~~G~sG~GKttfiNtL~~~~l~~~~~~~~~~~~~~~~~~~i~~~~~~l~e~~~~~~l~vIDtpGfGD   94 (373)
T COG5019          23 DFTIMVVGESGLGKTTFINTLFGTSLVDETEIDDIRAEGTSPTLEIKITKAELEEDGFHLNLTVIDTPGFGD   94 (373)
T ss_pred             ceEEEEecCCCCchhHHHHhhhHhhccCCCCccCcccccCCcceEEEeeeeeeecCCeEEEEEEeccCCccc
Confidence            3479999999999999  99887754443    233432222 22    222322     488999999874

>cd04120 Rab12 Rab12 subfamily

Probab=94.14  E-value=0.039  Score=45.13  Aligned_cols=53  Identities=13%  Similarity=0.134  Sum_probs=34.2

Q ss_pred             ceEeecCCCCccCC--CCCCCCccc-ccCCCCCCccceeEEEecC---CeEEecCCCCC
Q psy3587          22 NIRLCDCPGLVFPS--KVPKPLQVV-SVSRTPGHTKHFQTIFLTD---NIRLCDCPGLV   74 (195)
Q Consensus        22 ~v~vvG~PNVGKSs--N~L~~kk~v-~vg~~PGvTk~~Q~i~l~~---~i~LlDtPGIv   74 (195)
                      .|.++|-+||||||  +.+....-. ...++.|..-....+.++.   .+.+.||+|--
T Consensus         2 ~vvvlG~~gVGKTSli~r~~~~~f~~~~~~Ti~~~~~~~~i~~~~~~v~l~iwDtaGqe   60 (202)
T cd04120           2 QVIIIGSRGVGKTSLMRRFTDDTFCEACKSGVGVDFKIKTVELRGKKIRLQIWDTAGQE   60 (202)
T ss_pred             EEEEECcCCCCHHHHHHHHHhCCCCCcCCCcceeEEEEEEEEECCEEEEEEEEeCCCch
Confidence            47899999999999  666543322 2234445443344455543   47899999963

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

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

Probab=94.01  E-value=0.033  Score=45.83  Aligned_cols=52  Identities=13%  Similarity=0.050  Sum_probs=36.7

Q ss_pred             ceEeecCCCCccCC--CCCC---C---C-c-----------------------ccccCCCCCCccceeEEEe---cCCeE
Q psy3587          22 NIRLCDCPGLVFPS--KVPK---P---L-Q-----------------------VVSVSRTPGHTKHFQTIFL---TDNIR   66 (195)
Q Consensus        22 ~v~vvG~PNVGKSs--N~L~---~---k-k-----------------------~v~vg~~PGvTk~~Q~i~l---~~~i~   66 (195)
                      +|+++|-++.||||  .+|.   +   + .                       ...-....|+|+......+   +..+.
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            68999999999999  5442   1   1 0                       1122335699988877665   45799


Q ss_pred             EecCCCC
Q psy3587          67 LCDCPGL   73 (195)
Q Consensus        67 LlDtPGI   73 (195)
                      ++||||.
T Consensus        81 liDtpG~   87 (219)
T cd01883          81 ILDAPGH   87 (219)
T ss_pred             EEECCCh
Confidence            9999996

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

>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=93.95  E-value=0.013  Score=46.48  Aligned_cols=50  Identities=16%  Similarity=0.131  Sum_probs=37.3

Q ss_pred             ceEeecCCCCccCC--CCCCCCcccccCCCCCCccceeEEEecC-CeEEecCCCC
Q psy3587          22 NIRLCDCPGLVFPS--KVPKPLQVVSVSRTPGHTKHFQTIFLTD-NIRLCDCPGL   73 (195)
Q Consensus        22 ~v~vvG~PNVGKSs--N~L~~kk~v~vg~~PGvTk~~Q~i~l~~-~i~LlDtPGI   73 (195)
                      +|.++|.+|+||+|  |.|...+...+.++-|..  +..+...+ .+.+.|.+|=
T Consensus        16 ~ililGl~~sGKTtll~~l~~~~~~~~~pT~g~~--~~~i~~~~~~~~~~d~gG~   68 (175)
T PF00025_consen   16 KILILGLDGSGKTTLLNRLKNGEISETIPTIGFN--IEEIKYKGYSLTIWDLGGQ   68 (175)
T ss_dssp             EEEEEESTTSSHHHHHHHHHSSSEEEEEEESSEE--EEEEEETTEEEEEEEESSS
T ss_pred             EEEEECCCccchHHHHHHhhhccccccCcccccc--cceeeeCcEEEEEEecccc
Confidence            79999999999999  888776666655544433  34455544 7999999986

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 ....

>TIGR01393 lepA GTP-binding protein LepA

Probab=93.86  E-value=0.025  Score=53.77  Aligned_cols=54  Identities=22%  Similarity=0.135  Sum_probs=36.8

Q ss_pred             ceEeecCCCCccCC--CCCCCCc-c-------ccc------CCCCCCccceeEEEe-----c---CCeEEecCCCCCC
Q psy3587          22 NIRLCDCPGLVFPS--KVPKPLQ-V-------VSV------SRTPGHTKHFQTIFL-----T---DNIRLCDCPGLVF   75 (195)
Q Consensus        22 ~v~vvG~PNVGKSs--N~L~~kk-~-------v~v------g~~PGvTk~~Q~i~l-----~---~~i~LlDtPGIv~   75 (195)
                      |++|+|=+|+||||  ++|.... .       ..+      ...-|+|-..+.+.+     +   -.+.|+||||...
T Consensus         5 Ni~IIGh~d~GKTTL~~rLl~~~g~i~~~~~~~~~~D~~~~ErerGiTi~~~~v~~~~~~~~g~~~~l~liDTPG~~d   82 (595)
T TIGR01393         5 NFSIIAHIDHGKSTLADRLLEYTGAISEREMREQVLDSMDLERERGITIKAQAVRLNYKAKDGETYVLNLIDTPGHVD   82 (595)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHcCCCccccccccccCCChHHHhcCCCeeeeEEEEEEEcCCCCEEEEEEEECCCcHH
Confidence            79999999999999  6654321 1       111      234588877666544     2   2578999999974

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.

>cd04102 RabL3 RabL3 (Rab-like3) subfamily

Probab=93.52  E-value=0.049  Score=44.67  Aligned_cols=52  Identities=19%  Similarity=0.126  Sum_probs=33.7

Q ss_pred             ceEeecCCCCccCC--CCCCCCccc-ccCCCCCCccceeEEEec------C--CeEEecCCCC
Q psy3587          22 NIRLCDCPGLVFPS--KVPKPLQVV-SVSRTPGHTKHFQTIFLT------D--NIRLCDCPGL   73 (195)
Q Consensus        22 ~v~vvG~PNVGKSs--N~L~~kk~v-~vg~~PGvTk~~Q~i~l~------~--~i~LlDtPGI   73 (195)
                      +|.++|-++|||||  |.+....-. ...++-|.+-....+.++      .  .+.|.||+|-
T Consensus         2 KIvlvGd~gVGKTSLi~~~~~~~f~~~~~~Tig~~~~~k~~~~~~~~~~~~~~~l~IwDtaG~   64 (202)
T cd04102           2 RVLVVGDSGVGKSSLVHLICKNQVLGRPSWTVGCSVDVKHHTYKEGTPEEKTFFVELWDVGGS   64 (202)
T ss_pred             EEEEECCCCCCHHHHHHHHHcCCCCCCCCcceeeeEEEEEEEEcCCCCCCcEEEEEEEecCCc
Confidence            58899999999999  777654432 233444543333334432      1  3789999996

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.

>cd01885 EF2 EF2 (for archaea and eukarya)

Probab=93.22  E-value=0.038  Score=46.08  Aligned_cols=18  Identities=11%  Similarity=-0.141  Sum_probs=15.6

Q ss_pred             ceEeecCCCCccCC--CCCC
Q psy3587          22 NIRLCDCPGLVFPS--KVPK   39 (195)
Q Consensus        22 ~v~vvG~PNVGKSs--N~L~   39 (195)
                      +|+|||=++.||||  +.|.
T Consensus         2 NvaiiGhvd~GKTTL~d~Ll   21 (222)
T cd01885           2 NICIIAHVDHGKTTLSDSLL   21 (222)
T ss_pred             eEEEECCCCCCHHHHHHHHH
Confidence            79999999999999  6553

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

>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=93.02  E-value=0.036  Score=42.89  Aligned_cols=39  Identities=8%  Similarity=-0.101  Sum_probs=32.1

Q ss_pred             eEeecCCCCccCC--CCCCCCcccccCCCCCCccceeEEEec
Q psy3587          23 IRLCDCPGLVFPS--KVPKPLQVVSVSRTPGHTKHFQTIFLT   62 (195)
Q Consensus        23 v~vvG~PNVGKSs--N~L~~kk~v~vg~~PGvTk~~Q~i~l~   62 (195)
                      |+|+|--+.||||  |+|.|.....++..|. |....+++.+
T Consensus         1 V~v~G~~ssGKSTliNaLlG~~ilp~~~~~~-T~~~~~i~~~   41 (168)
T PF00350_consen    1 VAVVGQFSSGKSTLINALLGRPILPSGVGPC-TAVPTEISYG   41 (168)
T ss_dssp             EEEEEBTTSSHHHHHHHHHTSS-SSSSSSST-TSSEEEEEEE
T ss_pred             CEEEcCCCCCHHHHHHHHHhcccCccccccc-ccceeEEEec
Confidence            6899999999999  9999999888888864 7777777654

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 ....

>cd04173 Rnd2_Rho7 Rnd2/Rho7 subfamily

Probab=92.97  E-value=0.078  Score=44.16  Aligned_cols=51  Identities=12%  Similarity=-0.018  Sum_probs=30.9

Q ss_pred             ceEeecCCCCccCC--CCCCCCccc-ccCCCCCCccceeEEEecC---CeEEecCCCC
Q psy3587          22 NIRLCDCPGLVFPS--KVPKPLQVV-SVSRTPGHTKHFQTIFLTD---NIRLCDCPGL   73 (195)
Q Consensus        22 ~v~vvG~PNVGKSs--N~L~~kk~v-~vg~~PGvTk~~Q~i~l~~---~i~LlDtPGI   73 (195)
                      +|+|||-+||||+|  +.+....-. .-.++-|..-. ..+.++.   .+.|.||+|-
T Consensus         3 KIvvvGd~~vGKTsLi~~~~~~~f~~~y~pTi~~~~~-~~~~~~~~~v~L~iwDt~G~   59 (222)
T cd04173           3 KIVVVGDAECGKTALLQVFAKDAYPGSYVPTVFENYT-ASFEIDKRRIELNMWDTSGS   59 (222)
T ss_pred             EEEEECCCCCCHHHHHHHHHcCCCCCccCCccccceE-EEEEECCEEEEEEEEeCCCc
Confidence            68999999999999  766654322 12222222221 1234433   4778999996

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

>cd04133 Rop_like Rop subfamily

Probab=92.85  E-value=0.1  Score=41.62  Aligned_cols=52  Identities=10%  Similarity=-0.063  Sum_probs=31.8

Q ss_pred             ceEeecCCCCccCC--CCCCCCcc-cccCCCCCCccceeEEEecC---CeEEecCCCCC
Q psy3587          22 NIRLCDCPGLVFPS--KVPKPLQV-VSVSRTPGHTKHFQTIFLTD---NIRLCDCPGLV   74 (195)
Q Consensus        22 ~v~vvG~PNVGKSs--N~L~~kk~-v~vg~~PGvTk~~Q~i~l~~---~i~LlDtPGIv   74 (195)
                      ++.++|-++|||||  +.+...+- -.-.++-|.+-. ..+.++.   ++.++||+|--
T Consensus         3 kivv~G~~~vGKTsli~~~~~~~f~~~~~~Ti~~~~~-~~~~~~~~~v~l~i~Dt~G~~   60 (176)
T cd04133           3 KCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFS-ANVSVDGNTVNLGLWDTAGQE   60 (176)
T ss_pred             EEEEECCCCCcHHHHHHHHhcCCCCCCCCCcceeeeE-EEEEECCEEEEEEEEECCCCc
Confidence            58999999999999  55554332 223333343321 2234432   47899999964

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,

>PLN00023 GTP-binding protein; Provisional

Probab=92.68  E-value=0.098  Score=46.45  Aligned_cols=52  Identities=17%  Similarity=0.113  Sum_probs=36.9

Q ss_pred             ceEeecCCCCccCC--CCCCCCcc-cccCCCCCCccceeEEEecC----------------CeEEecCCCC
Q psy3587          22 NIRLCDCPGLVFPS--KVPKPLQV-VSVSRTPGHTKHFQTIFLTD----------------NIRLCDCPGL   73 (195)
Q Consensus        22 ~v~vvG~PNVGKSs--N~L~~kk~-v~vg~~PGvTk~~Q~i~l~~----------------~i~LlDtPGI   73 (195)
                      +|.++|-.||||||  +.+.+..- -...++-|.+-....+.++.                .+.|.||.|-
T Consensus        23 KIVLLGdsGVGKTSLI~rf~~g~F~~~~~pTIG~d~~ik~I~~~~~~~~~~~ik~d~~k~v~LqIWDTAGq   93 (334)
T PLN00023         23 RVLVVGDSGVGKSSLVHLIVKGSSIARPPQTIGCTVGVKHITYGSPGSSSNSIKGDSERDFFVELWDVSGH   93 (334)
T ss_pred             EEEEECCCCCcHHHHHHHHhcCCcccccCCceeeeEEEEEEEECCcccccccccccCCceEEEEEEECCCC
Confidence            69999999999999  77765443 23455666665555555532                2889999995

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

Probab=92.44  E-value=0.046  Score=49.59  Aligned_cols=52  Identities=15%  Similarity=0.114  Sum_probs=36.5

Q ss_pred             ceEeecCCCCccCC--CCCCCCc-c-------------c----------------ccCCCCCCccceeEEEec---CCeE
Q psy3587          22 NIRLCDCPGLVFPS--KVPKPLQ-V-------------V----------------SVSRTPGHTKHFQTIFLT---DNIR   66 (195)
Q Consensus        22 ~v~vvG~PNVGKSs--N~L~~kk-~-------------v----------------~vg~~PGvTk~~Q~i~l~---~~i~   66 (195)
                      +|.++|=+|.||||  +.|.... .             .                ......|+|.......+.   ..+.
T Consensus         9 ~v~i~Ghvd~GKSTL~~~ll~~~g~i~~~~~~~~~~~~~~~g~~~~~~~~~~d~~~~e~~rg~Tid~~~~~~~~~~~~i~   88 (426)
T TIGR00483         9 NVAFIGHVDHGKSTTVGHLLYKCGAIDEQTIEKFEKEAQEKGKASFEFAWVMDRLKEERERGVTIDVAHWKFETDKYEVT   88 (426)
T ss_pred             EEEEEeccCCcHHHHHHHHHHHhCCcCHHHHHHHHhHHHhcCCcccchhhhhccCHHHhhcCceEEEEEEEEccCCeEEE
Confidence            79999999999999  6553210 0             0                122356999888776653   3689


Q ss_pred             EecCCCC
Q psy3587          67 LCDCPGL   73 (195)
Q Consensus        67 LlDtPGI   73 (195)
                      |+||||-
T Consensus        89 iiDtpGh   95 (426)
T TIGR00483        89 IVDCPGH   95 (426)
T ss_pred             EEECCCH
Confidence            9999994

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.

>TIGR00503 prfC peptide chain release factor 3

Probab=92.40  E-value=0.074  Score=49.92  Aligned_cols=23  Identities=4%  Similarity=-0.042  Sum_probs=18.5

Q ss_pred             EEEecCceEeecCCCCccCC--CCC
Q psy3587          16 TIFLTDNIRLCDCPGLVFPS--KVP   38 (195)
Q Consensus        16 ~~~l~~~v~vvG~PNVGKSs--N~L   38 (195)
                      ++.-..+++|||-+|.||||  ++|
T Consensus         7 ~~~~~RniaiiGh~~aGKTTL~e~L   31 (527)
T TIGR00503         7 EVDKRRTFAIISHPDAGKTTITEKV   31 (527)
T ss_pred             hhccCCEEEEEcCCCCCHHHHHHHH
Confidence            44445699999999999999  654

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.

>PRK10218 GTP-binding protein; Provisional

Probab=92.30  E-value=0.066  Score=51.13  Aligned_cols=53  Identities=15%  Similarity=0.125  Sum_probs=36.3

Q ss_pred             ceEeecCCCCccCC--CCCCCCc-c----c----------ccCCCCCCccceeEEEe---cCCeEEecCCCCC
Q psy3587          22 NIRLCDCPGLVFPS--KVPKPLQ-V----V----------SVSRTPGHTKHFQTIFL---TDNIRLCDCPGLV   74 (195)
Q Consensus        22 ~v~vvG~PNVGKSs--N~L~~kk-~----v----------~vg~~PGvTk~~Q~i~l---~~~i~LlDtPGIv   74 (195)
                      +|+|+|-+++||||  ++|.... .    .          ......|+|-......+   +-.+.|+||||.-
T Consensus         7 nIaIiGh~d~GKTTLv~~Ll~~~g~~~~~~~~~~~v~D~~~~E~erGiTi~~~~~~i~~~~~~inliDTPG~~   79 (607)
T PRK10218          7 NIAIIAHVDHGKTTLVDKLLQQSGTFDSRAETQERVMDSNDLEKERGITILAKNTAIKWNDYRINIVDTPGHA   79 (607)
T ss_pred             EEEEECCCCCcHHHHHHHHHHhcCCcccccccceeeeccccccccCceEEEEEEEEEecCCEEEEEEECCCcc
Confidence            79999999999999  6665311 1    1          12345677766555544   2368999999975

>cd01875 RhoG RhoG subfamily

Probab=92.11  E-value=0.089  Score=42.09  Aligned_cols=51  Identities=8%  Similarity=-0.084  Sum_probs=31.0

Q ss_pred             ceEeecCCCCccCC--CCCCCCcc-cccCCCCCCccceeEEEecC---CeEEecCCCC
Q psy3587          22 NIRLCDCPGLVFPS--KVPKPLQV-VSVSRTPGHTKHFQTIFLTD---NIRLCDCPGL   73 (195)
Q Consensus        22 ~v~vvG~PNVGKSs--N~L~~kk~-v~vg~~PGvTk~~Q~i~l~~---~i~LlDtPGI   73 (195)
                      ++.++|-+||||||  +.+...+- -...++-|..-. ..+.++.   .+.++||||-
T Consensus         5 ki~~vG~~~vGKTsli~~~~~~~f~~~~~~t~~~~~~-~~~~~~~~~~~l~i~Dt~G~   61 (191)
T cd01875           5 KCVVVGDGAVGKTCLLICYTTNAFPKEYIPTVFDNYS-AQTAVDGRTVSLNLWDTAGQ   61 (191)
T ss_pred             EEEEECCCCCCHHHHHHHHHhCCCCcCCCCceEeeeE-EEEEECCEEEEEEEEECCCc
Confidence            69999999999999  55443321 222333333221 1233443   4789999996

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

>TIGR03680 eif2g_arch translation initiation factor 2 subunit gamma

Probab=92.08  E-value=0.054  Score=48.98  Aligned_cols=19  Identities=16%  Similarity=-0.010  Sum_probs=16.6

Q ss_pred             ceEeecCCCCccCC--CCCCC
Q psy3587          22 NIRLCDCPGLVFPS--KVPKP   40 (195)
Q Consensus        22 ~v~vvG~PNVGKSs--N~L~~   40 (195)
                      +|.++|-+|+||||  ++|.+
T Consensus         6 ~i~iiG~~~~GKSTL~~~Lt~   26 (406)
T TIGR03680         6 NIGMVGHVDHGKTTLTKALTG   26 (406)
T ss_pred             EEEEEccCCCCHHHHHHHHhC
Confidence            79999999999999  77754

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

>cd04172 Rnd3_RhoE_Rho8 Rnd3/RhoE/Rho8 subfamily

Probab=91.76  E-value=0.14  Score=40.95  Aligned_cols=51  Identities=12%  Similarity=-0.039  Sum_probs=32.4

Q ss_pred             ceEeecCCCCccCC--CCCCCCcc-cccCCCCCCccceeEEEecC---CeEEecCCCC
Q psy3587          22 NIRLCDCPGLVFPS--KVPKPLQV-VSVSRTPGHTKHFQTIFLTD---NIRLCDCPGL   73 (195)
Q Consensus        22 ~v~vvG~PNVGKSs--N~L~~kk~-v~vg~~PGvTk~~Q~i~l~~---~i~LlDtPGI   73 (195)
                      +|.++|-+||||||  +.+....- -...++-|..-. ..+.++.   .+.|.||+|-
T Consensus         7 KivvvGd~~vGKTsli~~~~~~~f~~~~~pT~~~~~~-~~~~~~~~~~~l~iwDtaG~   63 (182)
T cd04172           7 KIVVVGDSQCGKTALLHVFAKDCFPENYVPTVFENYT-ASFEIDTQRIELSLWDTSGS   63 (182)
T ss_pred             EEEEECCCCCCHHHHHHHHHhCCCCCccCCceeeeeE-EEEEECCEEEEEEEEECCCc
Confidence            69999999999999  66654332 222333333221 2344544   4889999996

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

>PRK05124 cysN sulfate adenylyltransferase subunit 1; Provisional

Probab=91.65  E-value=0.082  Score=48.93  Aligned_cols=19  Identities=5%  Similarity=-0.214  Sum_probs=16.1

Q ss_pred             CceEeecCCCCccCC--CCCC
Q psy3587          21 DNIRLCDCPGLVFPS--KVPK   39 (195)
Q Consensus        21 ~~v~vvG~PNVGKSs--N~L~   39 (195)
                      -++.+||=+|.||||  +.|.
T Consensus        28 ~~i~iiGhvdaGKSTL~~~LL   48 (474)
T PRK05124         28 LRFLTCGSVDDGKSTLIGRLL   48 (474)
T ss_pred             eEEEEECCCCCChHHHHHHHH
Confidence            389999999999999  6543

>KOG2655|consensus

Probab=91.58  E-value=0.1  Score=46.75  Aligned_cols=56  Identities=14%  Similarity=0.144  Sum_probs=34.8

Q ss_pred             cCceEeecCCCCccCC--CCCCCCcccc------cCCCCCCccceeE--EEecC-----CeEEecCCCCCC
Q psy3587          20 TDNIRLCDCPGLVFPS--KVPKPLQVVS------VSRTPGHTKHFQT--IFLTD-----NIRLCDCPGLVF   75 (195)
Q Consensus        20 ~~~v~vvG~PNVGKSs--N~L~~kk~v~------vg~~PGvTk~~Q~--i~l~~-----~i~LlDtPGIv~   75 (195)
                      +.++|+||=-|.||||  |+|..+....      ....|--|..+..  +.+.+     ++.++||||.-.
T Consensus        21 ~ftlmvvG~sGlGKsTfiNsLf~~~l~~~~~~~~~~~~~~~t~~i~~~~~~iee~g~~l~LtvidtPGfGD   91 (366)
T KOG2655|consen   21 DFTLMVVGESGLGKSTFINSLFLTDLSGNREVPGASERIKETVEIESTKVEIEENGVKLNLTVIDTPGFGD   91 (366)
T ss_pred             ceEEEEecCCCccHHHHHHHHHhhhccCCcccCCcccCccccceeeeeeeeecCCCeEEeeEEeccCCCcc
Confidence            3479999999999999  9876653222      2222322333333  22333     488899999763

>PRK00741 prfC peptide chain release factor 3; Provisional

Probab=91.51  E-value=0.11  Score=48.83  Aligned_cols=23  Identities=4%  Similarity=-0.018  Sum_probs=18.5

Q ss_pred             EEEecCceEeecCCCCccCC--CCC
Q psy3587          16 TIFLTDNIRLCDCPGLVFPS--KVP   38 (195)
Q Consensus        16 ~~~l~~~v~vvG~PNVGKSs--N~L   38 (195)
                      ++.-..+|+|+|-+|+||||  ++|
T Consensus         6 ~~~~~Rni~IiGh~daGKTTL~e~L   30 (526)
T PRK00741          6 EVAKRRTFAIISHPDAGKTTLTEKL   30 (526)
T ss_pred             hhhcCCEEEEECCCCCCHHHHHHHH
Confidence            34445699999999999999  665

>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=91.49  E-value=0.062  Score=45.29  Aligned_cols=55  Identities=16%  Similarity=-0.014  Sum_probs=30.2

Q ss_pred             ceEeecCCCCccCC--CCCCCCcccccCCCCCCccceeEEEe---cC-CeEEecCCCCCCC
Q psy3587          22 NIRLCDCPGLVFPS--KVPKPLQVVSVSRTPGHTKHFQTIFL---TD-NIRLCDCPGLVFP   76 (195)
Q Consensus        22 ~v~vvG~PNVGKSs--N~L~~kk~v~vg~~PGvTk~~Q~i~l---~~-~i~LlDtPGIv~p   76 (195)
                      +|.++|-.+.||||  +.+-.+-..+--..=|.|..++..++   +. .+.|.||||-.-.
T Consensus         1 KiLLmG~~~SGKTSi~~vIF~~~~p~dT~~L~~T~~ve~~~v~~~~~~~l~iwD~pGq~~~   61 (232)
T PF04670_consen    1 KILLMGPRRSGKTSIRSVIFHKYSPRDTLRLEPTIDVEKSHVRFLSFLPLNIWDCPGQDDF   61 (232)
T ss_dssp             EEEEEESTTSSHHHHHHHHHS---GGGGGG-----SEEEEEEECTTSCEEEEEEE-SSCST
T ss_pred             CEEEEcCCCCChhhHHHHHHcCCCchhccccCCcCCceEEEEecCCCcEEEEEEcCCcccc
Confidence            58899999999999  33333322222223344555555444   23 6899999998643

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.

>PTZ00416 elongation factor 2; Provisional

Probab=91.19  E-value=0.094  Score=51.83  Aligned_cols=33  Identities=9%  Similarity=0.003  Sum_probs=21.8

Q ss_pred             ceEeecCCCCccCC--CCCCCCcccccCCCCCCcc
Q psy3587          22 NIRLCDCPGLVFPS--KVPKPLQVVSVSRTPGHTK   54 (195)
Q Consensus        22 ~v~vvG~PNVGKSs--N~L~~kk~v~vg~~PGvTk   54 (195)
                      ||+|+|=++.||||  ++|.....+-.....|.|+
T Consensus        21 ni~iiGh~d~GKTTL~~~Ll~~~g~i~~~~~g~~~   55 (836)
T PTZ00416         21 NMSVIAHVDHGKSTLTDSLVCKAGIISSKNAGDAR   55 (836)
T ss_pred             EEEEECCCCCCHHHHHHHHHHhcCCcccccCCcee
Confidence            89999999999999  7665433222223444444

>cd04103 Centaurin_gamma Centaurin gamma

Probab=90.99  E-value=0.18  Score=39.23  Aligned_cols=51  Identities=10%  Similarity=0.006  Sum_probs=30.5

Q ss_pred             ceEeecCCCCccCC--CCCCCCccccc-CCCCCCccceeEEEecC---CeEEecCCCCC
Q psy3587          22 NIRLCDCPGLVFPS--KVPKPLQVVSV-SRTPGHTKHFQTIFLTD---NIRLCDCPGLV   74 (195)
Q Consensus        22 ~v~vvG~PNVGKSs--N~L~~kk~v~v-g~~PGvTk~~Q~i~l~~---~i~LlDtPGIv   74 (195)
                      +|.++|-+||||||  +.+....-... .++-|.  ....+.++.   .+.+.||+|--
T Consensus         2 ki~vvG~~gvGKTsli~~~~~~~f~~~~~~~~~~--~~~~i~~~~~~~~l~i~D~~g~~   58 (158)
T cd04103           2 KLGIVGNLQSGKSALVHRYLTGSYVQLESPEGGR--FKKEVLVDGQSHLLLIRDEGGAP   58 (158)
T ss_pred             EEEEECCCCCcHHHHHHHHHhCCCCCCCCCCccc--eEEEEEECCEEEEEEEEECCCCC
Confidence            58999999999999  55443322211 111121  123455543   37789999984

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.

>TIGR02034 CysN sulfate adenylyltransferase, large subunit

Probab=90.92  E-value=0.11  Score=46.96  Aligned_cols=17  Identities=6%  Similarity=-0.121  Sum_probs=15.0

Q ss_pred             ceEeecCCCCccCC--CCC
Q psy3587          22 NIRLCDCPGLVFPS--KVP   38 (195)
Q Consensus        22 ~v~vvG~PNVGKSs--N~L   38 (195)
                      ++.++|-+|.||||  +.|
T Consensus         2 ~~~~vGhvd~GKSTL~~~l   20 (406)
T TIGR02034         2 RFLTCGSVDDGKSTLIGRL   20 (406)
T ss_pred             eEEEECCCCCCchhhhHHH
Confidence            68999999999999  655

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).

>PRK13351 elongation factor G; Reviewed

Probab=90.77  E-value=0.14  Score=49.31  Aligned_cols=54  Identities=17%  Similarity=0.102  Sum_probs=32.8

Q ss_pred             CceEeecCCCCccCC--CCCCCCc--ccccC-----C----------CCCCccceeEEEe---cCCeEEecCCCCC
Q psy3587          21 DNIRLCDCPGLVFPS--KVPKPLQ--VVSVS-----R----------TPGHTKHFQTIFL---TDNIRLCDCPGLV   74 (195)
Q Consensus        21 ~~v~vvG~PNVGKSs--N~L~~kk--~v~vg-----~----------~PGvTk~~Q~i~l---~~~i~LlDtPGIv   74 (195)
                      .+|+|+|-+|+||||  +.|....  ..+.+     .          .-|.|-......+   +..+.|+||||..
T Consensus         9 rni~iiG~~~~GKTtL~~~ll~~~g~~~~~~~v~~~~~~~d~~~~e~~r~~ti~~~~~~~~~~~~~i~liDtPG~~   84 (687)
T PRK13351          9 RNIGILAHIDAGKTTLTERILFYTGKIHKMGEVEDGTTVTDWMPQEQERGITIESAATSCDWDNHRINLIDTPGHI   84 (687)
T ss_pred             cEEEEECCCCCcchhHHHHHHHhcCCccccccccCCcccCCCCHHHHhcCCCcccceEEEEECCEEEEEEECCCcH
Confidence            589999999999999  6654211  11111     1          1344433222222   3479999999985

>TIGR01425 SRP54_euk signal recognition particle protein SRP54

Probab=90.23  E-value=0.19  Score=46.16  Aligned_cols=14  Identities=14%  Similarity=0.002  Sum_probs=13.3

Q ss_pred             ceEeecCCCCccCC
Q psy3587          22 NIRLCDCPGLVFPS   35 (195)
Q Consensus        22 ~v~vvG~PNVGKSs   35 (195)
                      -|+++|.|||||+|
T Consensus       102 vi~lvG~~GvGKTT  115 (429)
T TIGR01425       102 VIMFVGLQGSGKTT  115 (429)
T ss_pred             EEEEECCCCCCHHH
Confidence            58999999999998

This model represents examples from the eukaryotic cytosol of the signal recognition particle protein component, SRP54. This GTP-binding protein is a component of the eukaryotic signal recognition particle, along with several other protein subunits and a 7S RNA. Some species, including Arabidopsis, have several closely related forms. The extreme C-terminal region is glycine-rich and lower in complexity, poorly conserved between species, and excluded from this model.

>cd04174 Rnd1_Rho6 Rnd1/Rho6 subfamily

Probab=89.91  E-value=0.27  Score=41.28  Aligned_cols=52  Identities=12%  Similarity=-0.083  Sum_probs=30.3

Q ss_pred             CceEeecCCCCccCC--CCCCCCcc-cccCCCCCCccceeEEEecC---CeEEecCCCC
Q psy3587          21 DNIRLCDCPGLVFPS--KVPKPLQV-VSVSRTPGHTKHFQTIFLTD---NIRLCDCPGL   73 (195)
Q Consensus        21 ~~v~vvG~PNVGKSs--N~L~~kk~-v~vg~~PGvTk~~Q~i~l~~---~i~LlDtPGI   73 (195)
                      .+|.+||-+||||||  +.+....- ....++-|..-.. .+.++.   .+.|.||+|-
T Consensus        14 ~KIvvvGd~~VGKTsLi~r~~~~~F~~~y~pTi~~~~~~-~i~~~~~~v~l~iwDTaG~   71 (232)
T cd04174          14 CKLVLVGDVQCGKTAMLQVLAKDCYPETYVPTVFENYTA-GLETEEQRVELSLWDTSGS   71 (232)
T ss_pred             EEEEEECCCCCcHHHHHHHHhcCCCCCCcCCceeeeeEE-EEEECCEEEEEEEEeCCCc
Confidence            368999999999999  66554321 1122222222111 133332   4889999995

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.

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

Probab=89.88  E-value=0.21  Score=40.75  Aligned_cols=49  Identities=14%  Similarity=0.004  Sum_probs=31.0

Q ss_pred             ecCCCCccCC--CCCCCCcc-cccCCCCCCccceeEEEecC---CeEEecCCCCC
Q psy3587          26 CDCPGLVFPS--KVPKPLQV-VSVSRTPGHTKHFQTIFLTD---NIRLCDCPGLV   74 (195)
Q Consensus        26 vG~PNVGKSs--N~L~~kk~-v~vg~~PGvTk~~Q~i~l~~---~i~LlDtPGIv   74 (195)
                      ||-+||||||  +.+....- -...++-|.+-....+.++.   .+.|+||||--
T Consensus         1 vG~~~vGKTsLi~r~~~~~f~~~~~~Tig~~~~~~~~~~~~~~~~l~iwDt~G~e   55 (200)
T smart00176        1 VGDGGTGKTTFVKRHLTGEFEKKYVATLGVEVHPLVFHTNRGPIRFNVWDTAGQE   55 (200)
T ss_pred             CCCCCCCHHHHHHHHhcCCCCCCCCCceeEEEEEEEEEECCEEEEEEEEECCCch
Confidence            6899999999  76654332 23445555544333344432   58899999963

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

>TIGR01526 nadR_NMN_Atrans nicotinamide-nucleotide adenylyltransferase, NadR type

Probab=89.83  E-value=0.024  Score=49.92  Aligned_cols=40  Identities=18%  Similarity=0.220  Sum_probs=29.5

Q ss_pred             ccccCCCCcc---ceeEEE------EecCceEeecCCCCccCC--CCCCCC
Q psy3587           2 VSVSRTPGHT---KHFQTI------FLTDNIRLCDCPGLVFPS--KVPKPL   41 (195)
Q Consensus         2 ~~v~~~~g~t---k~~q~~------~l~~~v~vvG~PNVGKSs--N~L~~k   41 (195)
                      ..||+|-++-   .+|+.|      .+.++++|+|.|++||||  |.|...
T Consensus       135 ~~ISat~ir~~p~~~w~~i~~~~~~~~~~~~~~~G~~~~gkstl~~~l~~~  185 (325)
T TIGR01526       135 FSVSATQIRENPFQHWKHIPREVRPFFVKTVAILGGESTGKSTLVNKLAAV  185 (325)
T ss_pred             CCCCHHHHHHCHHHHHHhCCHHHHhhcCcEEEEECCCCCCHHHHHHHHHHh
Confidence            4577777774   556665      235689999999999999  766653

E. coli NadR has also been found to regulate the import of its substrate, nicotinamide ribonucleotide, but it is not known if the other members of this model share that activity.

>TIGR00490 aEF-2 translation elongation factor aEF-2

Probab=89.74  E-value=0.082  Score=51.36  Aligned_cols=55  Identities=20%  Similarity=0.109  Sum_probs=33.5

Q ss_pred             CceEeecCCCCccCC--CCCCC-----------Ccc-c---ccCCCCCCccceeEEE----e---cCCeEEecCCCCCC
Q psy3587          21 DNIRLCDCPGLVFPS--KVPKP-----------LQV-V---SVSRTPGHTKHFQTIF----L---TDNIRLCDCPGLVF   75 (195)
Q Consensus        21 ~~v~vvG~PNVGKSs--N~L~~-----------kk~-v---~vg~~PGvTk~~Q~i~----l---~~~i~LlDtPGIv~   75 (195)
                      .+|+++|-.++||||  +.|..           +.. .   .-....|.|-....+.    .   +-.+.|+||||..-
T Consensus        20 rnI~ivGh~~~GKTTL~~~ll~~~g~i~~~~~~~~~~~d~~~~e~~rg~Ti~~~~~~~~~~~~~~~~~i~liDTPG~~~   98 (720)
T TIGR00490        20 RNIGIVAHIDHGKTTLSDNLLAGAGMISEELAGQQLYLDFDEQEQERGITINAANVSMVHEYEGNEYLINLIDTPGHVD   98 (720)
T ss_pred             cEEEEEEeCCCCHHHHHHHHHHHcCCCchhcCCceeecCCCHHHHhhcchhhcccceeEEeecCCceEEEEEeCCCccc
Confidence            489999999999999  55431           110 0   1111256665433221    2   23689999999963

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.

>TIGR03597 GTPase_YqeH ribosome biogenesis GTPase YqeH

Probab=89.66  E-value=0.51  Score=42.06  Aligned_cols=34  Identities=32%  Similarity=0.493  Sum_probs=31.4

Q ss_pred             ccccCCCCccceeEEEEecCceEeecCCCCccCC
Q psy3587           2 VSVSRTPGHTKHFQTIFLTDNIRLCDCPGLVFPS   35 (195)
Q Consensus         2 ~~v~~~~g~tk~~q~~~l~~~v~vvG~PNVGKSs   35 (195)
                      +.||+.||-|+.++.+.++..+.++|.||+..+.
T Consensus       185 ~~~s~~pgtT~~~~~~~~~~~~~l~DtPG~~~~~  218 (360)
T TIGR03597       185 ITTSPFPGTTLDLIEIPLDDGHSLYDTPGIINSH  218 (360)
T ss_pred             eeecCCCCeEeeEEEEEeCCCCEEEECCCCCChh
Confidence            5799999999999999998889999999999775

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.

>PRK05433 GTP-binding protein LepA; Provisional

Probab=89.60  E-value=0.12  Score=49.22  Aligned_cols=55  Identities=24%  Similarity=0.164  Sum_probs=36.3

Q ss_pred             CceEeecCCCCccCC--CCCCCC-cc-------c------ccCCCCCCccceeEEEe--------cCCeEEecCCCCCC
Q psy3587          21 DNIRLCDCPGLVFPS--KVPKPL-QV-------V------SVSRTPGHTKHFQTIFL--------TDNIRLCDCPGLVF   75 (195)
Q Consensus        21 ~~v~vvG~PNVGKSs--N~L~~k-k~-------v------~vg~~PGvTk~~Q~i~l--------~~~i~LlDtPGIv~   75 (195)
                      .|++|||=.++||||  ++|... ..       .      .....-|+|-..+.+.+        +-.+.|+||||...
T Consensus         8 RNi~IiGhvd~GKTTL~~rLl~~tg~i~~~~~~~~~lD~~~~ErerGiTi~~~~v~~~~~~~dg~~~~lnLiDTPGh~d   86 (600)
T PRK05433          8 RNFSIIAHIDHGKSTLADRLIELTGTLSEREMKAQVLDSMDLERERGITIKAQAVRLNYKAKDGETYILNLIDTPGHVD   86 (600)
T ss_pred             CEEEEECCCCCCHHHHHHHHHHhcCCCcccccccccccCchHHhhcCCcccccEEEEEEEccCCCcEEEEEEECCCcHH
Confidence            389999999999999  554321 11       0      11234588876666544        12488999999974

>PRK08118 topology modulation protein; Reviewed

Probab=89.11  E-value=0.15  Score=40.41  Aligned_cols=15  Identities=20%  Similarity=0.096  Sum_probs=14.1

Q ss_pred             CceEeecCCCCccCC
Q psy3587          21 DNIRLCDCPGLVFPS   35 (195)
Q Consensus        21 ~~v~vvG~PNVGKSs   35 (195)
                      ++|+|+|+||+||||
T Consensus         2 ~rI~I~G~~GsGKST   16 (167)
T PRK08118          2 KKIILIGSGGSGKST   16 (167)
T ss_pred             cEEEEECCCCCCHHH
Confidence            579999999999999

>TIGR01394 TypA_BipA GTP-binding protein TypA/BipA

Probab=88.52  E-value=0.22  Score=47.45  Aligned_cols=54  Identities=19%  Similarity=0.149  Sum_probs=33.8

Q ss_pred             CceEeecCCCCccCC--CCCCCC-cc----ccc----------CCCCCCccceeEEEe---cCCeEEecCCCCC
Q psy3587          21 DNIRLCDCPGLVFPS--KVPKPL-QV----VSV----------SRTPGHTKHFQTIFL---TDNIRLCDCPGLV   74 (195)
Q Consensus        21 ~~v~vvG~PNVGKSs--N~L~~k-k~----v~v----------g~~PGvTk~~Q~i~l---~~~i~LlDtPGIv   74 (195)
                      .||+|||-.++||||  ++|... ..    -.+          ...-|+|-......+   +..|.|+||||..
T Consensus         2 RNIaIiGHvd~GKTTLv~~LL~~sg~~~~~~~v~~~~~D~~~~ErerGiTI~~~~~~v~~~~~kinlIDTPGh~   75 (594)
T TIGR01394         2 RNIAIIAHVDHGKTTLVDALLKQSGTFRANEAVAERVMDSNDLERERGITILAKNTAIRYNGTKINIVDTPGHA   75 (594)
T ss_pred             cEEEEEcCCCCCHHHHHHHHHHhcCCCcccccceeecccCchHHHhCCccEEeeeEEEEECCEEEEEEECCCHH
Confidence            379999999999999  665421 11    111          223466654433322   3479999999973

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.

>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=88.37  E-value=0.16  Score=37.07  Aligned_cols=19  Identities=21%  Similarity=0.086  Sum_probs=15.7

Q ss_pred             eEeecCCCCccCC--CCCCCC
Q psy3587          23 IRLCDCPGLVFPS--KVPKPL   41 (195)
Q Consensus        23 v~vvG~PNVGKSs--N~L~~k   41 (195)
                      |+|+|.|++||||  +.|..+
T Consensus         2 I~I~G~~gsGKST~a~~La~~   22 (121)
T PF13207_consen    2 IIISGPPGSGKSTLAKELAER   22 (121)
T ss_dssp             EEEEESTTSSHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHH
Confidence            7899999999999  666543

...

>cd04165 GTPBP1_like GTPBP1-like

Probab=88.35  E-value=0.14  Score=42.64  Aligned_cols=14  Identities=0%  Similarity=-0.109  Sum_probs=12.8

Q ss_pred             ceEeecCCCCccCC
Q psy3587          22 NIRLCDCPGLVFPS   35 (195)
Q Consensus        22 ~v~vvG~PNVGKSs   35 (195)
                      ++.++|-+++||||
T Consensus         1 ~v~~~G~~~~GKtt   14 (224)
T cd04165           1 RVAVVGNVDAGKST   14 (224)
T ss_pred             CEEEECCCCCCHHH
Confidence            57899999999999

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

>KOG0395|consensus

Probab=88.32  E-value=0.9  Score=37.10  Aligned_cols=51  Identities=10%  Similarity=0.009  Sum_probs=30.7

Q ss_pred             CceEeecCCCCccCC--CCCCCCc-ccccCCCCCCccceeEEEecC---CeEEecCCC
Q psy3587          21 DNIRLCDCPGLVFPS--KVPKPLQ-VVSVSRTPGHTKHFQTIFLTD---NIRLCDCPG   72 (195)
Q Consensus        21 ~~v~vvG~PNVGKSs--N~L~~kk-~v~vg~~PGvTk~~Q~i~l~~---~i~LlDtPG   72 (195)
                      .++.++|-+|||||+  ....... .-.--++.. +..-+.+.++.   .+.++||.|
T Consensus         4 ~kvvvlG~~gVGKSal~~qf~~~~f~~~y~ptie-d~y~k~~~v~~~~~~l~ilDt~g   60 (196)
T KOG0395|consen    4 YKVVVLGAGGVGKSALTIQFLTGRFVEDYDPTIE-DSYRKELTVDGEVCMLEILDTAG   60 (196)
T ss_pred             eEEEEECCCCCCcchheeeecccccccccCCCcc-ccceEEEEECCEEEEEEEEcCCC
Confidence            478999999999998  3222222 112233333 33344455543   477999999

>PRK00625 shikimate kinase; Provisional

Probab=88.18  E-value=0.17  Score=40.50  Aligned_cols=14  Identities=36%  Similarity=0.467  Sum_probs=13.3

Q ss_pred             ceEeecCCCCccCC
Q psy3587          22 NIRLCDCPGLVFPS   35 (195)
Q Consensus        22 ~v~vvG~PNVGKSs   35 (195)
                      +|.++|+||+||||
T Consensus         2 ~I~LiG~pGsGKTT   15 (173)
T PRK00625          2 QIFLCGLPTVGKTS   15 (173)
T ss_pred             EEEEECCCCCCHHH
Confidence            68999999999999

>PRK07261 topology modulation protein; Provisional

Probab=87.89  E-value=0.2  Score=39.77  Aligned_cols=17  Identities=12%  Similarity=0.089  Sum_probs=14.8

Q ss_pred             ceEeecCCCCccCC--CCC
Q psy3587          22 NIRLCDCPGLVFPS--KVP   38 (195)
Q Consensus        22 ~v~vvG~PNVGKSs--N~L   38 (195)
                      +|+|+|+||+||||  ..|
T Consensus         2 ri~i~G~~GsGKSTla~~l   20 (171)
T PRK07261          2 KIAIIGYSGSGKSTLARKL   20 (171)
T ss_pred             EEEEEcCCCCCHHHHHHHH
Confidence            68999999999999  444

>PLN00116 translation elongation factor EF-2 subunit; Provisional

Probab=87.89  E-value=0.27  Score=48.70  Aligned_cols=18  Identities=6%  Similarity=-0.138  Sum_probs=15.8

Q ss_pred             ceEeecCCCCccCC--CCCC
Q psy3587          22 NIRLCDCPGLVFPS--KVPK   39 (195)
Q Consensus        22 ~v~vvG~PNVGKSs--N~L~   39 (195)
                      ||+|+|=++.||||  ++|.
T Consensus        21 ni~iiGhvd~GKTTL~~~Ll   40 (843)
T PLN00116         21 NMSVIAHVDHGKSTLTDSLV   40 (843)
T ss_pred             EEEEEcCCCCCHHHHHHHHH
Confidence            89999999999999  5553

>PRK09866 hypothetical protein; Provisional

Probab=87.31  E-value=0.34  Score=46.87  Aligned_cols=38  Identities=8%  Similarity=-0.088  Sum_probs=30.8

Q ss_pred             ceEeecCCCCccCC--CCCCCCcccccCCCCCCccceeEEE
Q psy3587          22 NIRLCDCPGLVFPS--KVPKPLQVVSVSRTPGHTKHFQTIF   60 (195)
Q Consensus        22 ~v~vvG~PNVGKSs--N~L~~kk~v~vg~~PGvTk~~Q~i~   60 (195)
                      .+.|+|..|.||||  |+|.|..+..+++.|=.|- ..+++
T Consensus        71 ~valvG~sgaGKSTLiNaL~G~~Vlpt~~~~~t~l-pT~i~  110 (741)
T PRK09866         71 VLAIVGTMKAGKSTTINAIVGTEVLPNRNRPMTAL-PTLIR  110 (741)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCccccCCCcccccc-cEEEE
Confidence            47999999999999  9999999999987775554 33444

>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=86.93  E-value=0.22  Score=36.24  Aligned_cols=19  Identities=21%  Similarity=0.141  Sum_probs=15.5

Q ss_pred             eEeecCCCCccCC--CCCCCC
Q psy3587          23 IRLCDCPGLVFPS--KVPKPL   41 (195)
Q Consensus        23 v~vvG~PNVGKSs--N~L~~k   41 (195)
                      |+|.|.||+||||  +.|..+
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            6899999999999  555544

...

>PRK03839 putative kinase; Provisional

Probab=86.89  E-value=0.23  Score=39.27  Aligned_cols=14  Identities=21%  Similarity=0.323  Sum_probs=13.1

Q ss_pred             ceEeecCCCCccCC
Q psy3587          22 NIRLCDCPGLVFPS   35 (195)
Q Consensus        22 ~v~vvG~PNVGKSs   35 (195)
                      +|.|+|+||+||||
T Consensus         2 ~I~l~G~pGsGKsT   15 (180)
T PRK03839          2 IIAITGTPGVGKTT   15 (180)
T ss_pred             EEEEECCCCCCHHH
Confidence            58999999999999

>COG0563 Adk Adenylate kinase and related kinases [Nucleotide transport and metabolism]

Probab=86.74  E-value=0.27  Score=39.61  Aligned_cols=14  Identities=21%  Similarity=0.209  Sum_probs=13.4

Q ss_pred             ceEeecCCCCccCC
Q psy3587          22 NIRLCDCPGLVFPS   35 (195)
Q Consensus        22 ~v~vvG~PNVGKSs   35 (195)
                      +|+|+|.||.||||
T Consensus         2 riiilG~pGaGK~T   15 (178)
T COG0563           2 RILILGPPGAGKST   15 (178)
T ss_pred             eEEEECCCCCCHHH
Confidence            68999999999999

>PRK13796 GTPase YqeH; Provisional

Probab=86.18  E-value=1.4  Score=39.40  Aligned_cols=34  Identities=35%  Similarity=0.487  Sum_probs=30.5

Q ss_pred             ccccCCCCccceeEEEEecCceEeecCCCCccCC
Q psy3587           2 VSVSRTPGHTKHFQTIFLTDNIRLCDCPGLVFPS   35 (195)
Q Consensus         2 ~~v~~~~g~tk~~q~~~l~~~v~vvG~PNVGKSs   35 (195)
                      +.||+.||-|+.++.+.++....++|.||+-...
T Consensus       191 ~~~s~~pGTT~~~~~~~l~~~~~l~DTPGi~~~~  224 (365)
T PRK13796        191 ITTSRFPGTTLDKIEIPLDDGSFLYDTPGIIHRH  224 (365)
T ss_pred             EEecCCCCccceeEEEEcCCCcEEEECCCccccc
Confidence            4589999999999999999988999999997554

>KOG0410|consensus

Probab=86.15  E-value=0.19  Score=44.78  Aligned_cols=53  Identities=15%  Similarity=0.071  Sum_probs=38.0

Q ss_pred             ceEeecCCCCccCC--CCCCCCccc---ccCCCCCCccceeEEEecCCeEEecCCCCC
Q psy3587          22 NIRLCDCPGLVFPS--KVPKPLQVV---SVSRTPGHTKHFQTIFLTDNIRLCDCPGLV   74 (195)
Q Consensus        22 ~v~vvG~PNVGKSs--N~L~~kk~v---~vg~~PGvTk~~Q~i~l~~~i~LlDtPGIv   74 (195)
                      -|.||||-|.||||  |+|.+...-   +.=++=..|.|.-.+.-.+.+.|.||=|.+
T Consensus       180 viavVGYTNaGKsTLikaLT~Aal~p~drLFATLDpT~h~a~Lpsg~~vlltDTvGFi  237 (410)
T KOG0410|consen  180 VIAVVGYTNAGKSTLIKALTKAALYPNDRLFATLDPTLHSAHLPSGNFVLLTDTVGFI  237 (410)
T ss_pred             eEEEEeecCccHHHHHHHHHhhhcCccchhheeccchhhhccCCCCcEEEEeechhhh
Confidence            58999999999999  888732211   222344667666555556779999999987

>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=86.09  E-value=0.26  Score=36.91  Aligned_cols=13  Identities=38%  Similarity=0.552  Sum_probs=12.2

Q ss_pred             eEeecCCCCccCC
Q psy3587          23 IRLCDCPGLVFPS   35 (195)
Q Consensus        23 v~vvG~PNVGKSs   35 (195)
                      |+++|.||+||||
T Consensus         2 ii~~G~pgsGKSt   14 (143)
T PF13671_consen    2 IILCGPPGSGKST   14 (143)
T ss_dssp             EEEEESTTSSHHH
T ss_pred             EEEECCCCCCHHH
Confidence            6799999999999

...

>COG0466 Lon ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]

Probab=85.95  E-value=0.27  Score=47.74  Aligned_cols=48  Identities=19%  Similarity=0.217  Sum_probs=35.6

Q ss_pred             ceEeecCCCCccCC--CC----------------------CCCCcccccCCCCCCc-cceeEEEecCCeEEec
Q psy3587          22 NIRLCDCPGLVFPS--KV----------------------PKPLQVVSVSRTPGHT-KHFQTIFLTDNIRLCD   69 (195)
Q Consensus        22 ~v~vvG~PNVGKSs--N~----------------------L~~kk~v~vg~~PGvT-k~~Q~i~l~~~i~LlD   69 (195)
                      -+++||=|||||.|  .+                      ++|....=+|++||.- .++......+.++|+|
T Consensus       352 ILcLVGPPGVGKTSLgkSIA~al~RkfvR~sLGGvrDEAEIRGHRRTYIGamPGrIiQ~mkka~~~NPv~LLD  424 (782)
T COG0466         352 ILCLVGPPGVGKTSLGKSIAKALGRKFVRISLGGVRDEAEIRGHRRTYIGAMPGKIIQGMKKAGVKNPVFLLD  424 (782)
T ss_pred             EEEEECCCCCCchhHHHHHHHHhCCCEEEEecCccccHHHhccccccccccCChHHHHHHHHhCCcCCeEEee
Confidence            58999999999998  32                      3567778899999843 3333345567788888

>PRK13949 shikimate kinase; Provisional

Probab=85.65  E-value=0.32  Score=38.60  Aligned_cols=15  Identities=20%  Similarity=0.056  Sum_probs=14.0

Q ss_pred             CceEeecCCCCccCC
Q psy3587          21 DNIRLCDCPGLVFPS   35 (195)
Q Consensus        21 ~~v~vvG~PNVGKSs   35 (195)
                      ++|.|||+||+||||
T Consensus         2 ~~I~liG~~GsGKst   16 (169)
T PRK13949          2 ARIFLVGYMGAGKTT   16 (169)
T ss_pred             cEEEEECCCCCCHHH
Confidence            479999999999999

>cd01873 RhoBTB RhoBTB subfamily

Probab=85.20  E-value=1.3  Score=35.83  Aligned_cols=14  Identities=0%  Similarity=-0.209  Sum_probs=13.3

Q ss_pred             ceEeecCCCCccCC
Q psy3587          22 NIRLCDCPGLVFPS   35 (195)
Q Consensus        22 ~v~vvG~PNVGKSs   35 (195)
                      +|.++|-+||||||
T Consensus         4 Kiv~vG~~~vGKTs   17 (195)
T cd01873           4 KCVVVGDNAVGKTR   17 (195)
T ss_pred             EEEEECCCCcCHHH
Confidence            68999999999999

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.

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

Probab=84.88  E-value=0.55  Score=38.01  Aligned_cols=14  Identities=14%  Similarity=-0.109  Sum_probs=13.2

Q ss_pred             ceEeecCCCCccCC
Q psy3587          22 NIRLCDCPGLVFPS   35 (195)
Q Consensus        22 ~v~vvG~PNVGKSs   35 (195)
                      +|+++|-.+.||+|
T Consensus         2 ~i~~~g~~~~GKtt   15 (203)
T cd01888           2 NIGTIGHVAHGKST   15 (203)
T ss_pred             EEEEECCCCCCHHH
Confidence            68999999999999

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

>PRK12740 elongation factor G; Reviewed

Probab=84.82  E-value=0.42  Score=45.83  Aligned_cols=49  Identities=18%  Similarity=0.125  Sum_probs=30.1

Q ss_pred             ecCCCCccCC--CCCCCCcc--cccC---------------CCCCCccceeEEEe---cCCeEEecCCCCC
Q psy3587          26 CDCPGLVFPS--KVPKPLQV--VSVS---------------RTPGHTKHFQTIFL---TDNIRLCDCPGLV   74 (195)
Q Consensus        26 vG~PNVGKSs--N~L~~kk~--v~vg---------------~~PGvTk~~Q~i~l---~~~i~LlDtPGIv   74 (195)
                      ||=+|+||||  |+|.....  .+.+               ...|+|-......+   +-.+.|+||||..
T Consensus         1 ig~~~~GKTTL~~~Ll~~~g~i~~~~~~~~~~~~~d~~~~e~~rgiTi~~~~~~~~~~~~~i~liDtPG~~   71 (668)
T PRK12740          1 VGHSGAGKTTLTEAILFYTGAIHRIGEVEDGTTTMDFMPEERERGISITSAATTCEWKGHKINLIDTPGHV   71 (668)
T ss_pred             CCCCCCcHHHHHHHHHHhcCCCccCccccCCcccCCCChHHHhcCCCeeeceEEEEECCEEEEEEECCCcH
Confidence            5889999999  77632111  1111               13566654443333   3479999999985

>PRK13947 shikimate kinase; Provisional

Probab=84.09  E-value=0.42  Score=37.14  Aligned_cols=15  Identities=27%  Similarity=0.144  Sum_probs=13.9

Q ss_pred             CceEeecCCCCccCC
Q psy3587          21 DNIRLCDCPGLVFPS   35 (195)
Q Consensus        21 ~~v~vvG~PNVGKSs   35 (195)
                      ++|.++|+||+|||+
T Consensus         2 ~~I~l~G~~GsGKst   16 (171)
T PRK13947          2 KNIVLIGFMGTGKTT   16 (171)
T ss_pred             CeEEEEcCCCCCHHH
Confidence            479999999999999

>cd01983 Fer4_NifH The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain

Probab=82.86  E-value=0.52  Score=32.05  Aligned_cols=45  Identities=11%  Similarity=0.019  Sum_probs=26.7

Q ss_pred             eEeecCCCCccCC--CCCCCCcccccCCCCCCccceeEEEecCCeEEecCCCCCCCC
Q psy3587          23 IRLCDCPGLVFPS--KVPKPLQVVSVSRTPGHTKHFQTIFLTDNIRLCDCPGLVFPS   77 (195)
Q Consensus        23 v~vvG~PNVGKSs--N~L~~kk~v~vg~~PGvTk~~Q~i~l~~~i~LlDtPGIv~p~   77 (195)
                      +.+.|.+|+|||+  +.|...- ++        .+.+...++ ++.++|+||-+...
T Consensus         2 ~~~~g~~G~Gktt~~~~l~~~l-~~--------~g~~v~~~~-d~iivD~~~~~~~~   48 (99)
T cd01983           2 IVVTGKGGVGKTTLAANLAAAL-AK--------RGKRVLLID-DYVLIDTPPGLGLL   48 (99)
T ss_pred             EEEECCCCCCHHHHHHHHHHHH-HH--------CCCeEEEEC-CEEEEeCCCCccch
Confidence            5788999999999  3221100 00        112223333 88999999887544

Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion.

>KOG1249|consensus

Probab=82.58  E-value=0.75  Score=43.28  Aligned_cols=57  Identities=16%  Similarity=0.158  Sum_probs=42.5

Q ss_pred             ceEeecCCCCccCC--CCCCCCc-----ccccCCCCCCccceeEEE--ecCCeEEecCCCCCCCCC
Q psy3587          22 NIRLCDCPGLVFPS--KVPKPLQ-----VVSVSRTPGHTKHFQTIF--LTDNIRLCDCPGLVFPSK   78 (195)
Q Consensus        22 ~v~vvG~PNVGKSs--N~L~~kk-----~v~vg~~PGvTk~~Q~i~--l~~~i~LlDtPGIv~p~~   78 (195)
                      .+..||--|-|+++  |.+...-     .-.-++.||.|=+...+.  +...=.++||||++-|+.
T Consensus       311 ~v~~vg~t~a~~e~~~~~~~~~~~a~~~~~~e~~vPgtTLg~~ri~~i~~~~~w~YDTPG~~~~~q  376 (572)
T KOG1249|consen  311 PVAAVGRTFAGSEELINAMAKELHADVEALAEEPVPGTTLGIRRIEGIFKRGAWLYDTPGVLNPNQ  376 (572)
T ss_pred             chHHhhhhhhccchhhhhhhhhhccchhccccCCCCcccccceeeeccccccceeecCCCccChhh
Confidence            47778888899888  7765322     224688999987666665  566778999999999875

>KOG3347|consensus

Probab=82.43  E-value=0.71  Score=36.94  Aligned_cols=17  Identities=24%  Similarity=0.218  Sum_probs=15.2

Q ss_pred             ecCceEeecCCCCccCC
Q psy3587          19 LTDNIRLCDCPGLVFPS   35 (195)
Q Consensus        19 l~~~v~vvG~PNVGKSs   35 (195)
                      ...||.|.|-||+||||
T Consensus         6 ~~PNILvtGTPG~GKst   22 (176)
T KOG3347|consen    6 ERPNILVTGTPGTGKST   22 (176)
T ss_pred             cCCCEEEeCCCCCCchh
Confidence            34589999999999999

>PRK14530 adenylate kinase; Provisional

Probab=82.37  E-value=0.52  Score=38.51  Aligned_cols=15  Identities=27%  Similarity=0.242  Sum_probs=14.0

Q ss_pred             CceEeecCCCCccCC
Q psy3587          21 DNIRLCDCPGLVFPS   35 (195)
Q Consensus        21 ~~v~vvG~PNVGKSs   35 (195)
                      ++|+|+|.||+||||
T Consensus         4 ~~I~i~G~pGsGKsT   18 (215)
T PRK14530          4 PRILLLGAPGAGKGT   18 (215)
T ss_pred             CEEEEECCCCCCHHH
Confidence            479999999999999

>TIGR01359 UMP_CMP_kin_fam UMP-CMP kinase family

Probab=82.34  E-value=0.51  Score=37.08  Aligned_cols=13  Identities=15%  Similarity=0.097  Sum_probs=12.3

Q ss_pred             eEeecCCCCccCC
Q psy3587          23 IRLCDCPGLVFPS   35 (195)
Q Consensus        23 v~vvG~PNVGKSs   35 (195)
                      |+++|.||+||||
T Consensus         2 i~i~G~pGsGKst   14 (183)
T TIGR01359         2 VFVLGGPGSGKGT   14 (183)
T ss_pred             EEEECCCCCCHHH
Confidence            6899999999999

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.

>PRK07560 elongation factor EF-2; Reviewed

Probab=81.27  E-value=0.66  Score=45.20  Aligned_cols=17  Identities=12%  Similarity=-0.124  Sum_probs=15.1

Q ss_pred             ceEeecCCCCccCC--CCC
Q psy3587          22 NIRLCDCPGLVFPS--KVP   38 (195)
Q Consensus        22 ~v~vvG~PNVGKSs--N~L   38 (195)
                      +|+|+|=++.||||  .+|
T Consensus        22 ni~iigh~d~GKTTL~e~l   40 (731)
T PRK07560         22 NIGIIAHIDHGKTTLSDNL   40 (731)
T ss_pred             EEEEEEeCCCCHHHHHHHH
Confidence            89999999999999  544

>PTZ00141 elongation factor 1- alpha; Provisional

Probab=80.93  E-value=0.46  Score=43.65  Aligned_cols=52  Identities=13%  Similarity=0.029  Sum_probs=34.0

Q ss_pred             ceEeecCCCCccCC--CCCC---C------------------Cccc---------ccCCCCCCccceeEEEe---cCCeE
Q psy3587          22 NIRLCDCPGLVFPS--KVPK---P------------------LQVV---------SVSRTPGHTKHFQTIFL---TDNIR   66 (195)
Q Consensus        22 ~v~vvG~PNVGKSs--N~L~---~------------------kk~v---------~vg~~PGvTk~~Q~i~l---~~~i~   66 (195)
                      +++++|-.+.||||  ..|.   +                  +...         ......|+|-......+   +..+.
T Consensus         9 nv~i~Ghvd~GKSTL~~~Ll~~~g~i~~~~~~~~~~~~~~~~~~s~~~a~~~D~~~~Er~rGiTid~~~~~~~~~~~~i~   88 (446)
T PTZ00141          9 NLVVIGHVDSGKSTTTGHLIYKCGGIDKRTIEKFEKEAAEMGKGSFKYAWVLDKLKAERERGITIDIALWKFETPKYYFT   88 (446)
T ss_pred             EEEEEecCCCCHHHHHHHHHHHcCCcChHHHHHHhhHHHhhCCcchhhhhhhcCChHHHhcCEeEEeeeEEEccCCeEEE
Confidence            79999999999999  3221   1                  1111         11234588877666555   23689


Q ss_pred             EecCCCC
Q psy3587          67 LCDCPGL   73 (195)
Q Consensus        67 LlDtPGI   73 (195)
                      |+||||-
T Consensus        89 lIDtPGh   95 (446)
T PTZ00141         89 IIDAPGH   95 (446)
T ss_pred             EEECCCh
Confidence            9999993

>COG0703 AroK Shikimate kinase [Amino acid transport and metabolism]

Probab=80.78  E-value=0.76  Score=37.14  Aligned_cols=15  Identities=27%  Similarity=0.076  Sum_probs=13.7

Q ss_pred             CceEeecCCCCccCC
Q psy3587          21 DNIRLCDCPGLVFPS   35 (195)
Q Consensus        21 ~~v~vvG~PNVGKSs   35 (195)
                      .+|.+||+||+||||
T Consensus         3 ~~IvLiG~mGaGKST   17 (172)
T COG0703           3 MNIVLIGFMGAGKST   17 (172)
T ss_pred             ccEEEEcCCCCCHhH
Confidence            468999999999999

>PRK06217 hypothetical protein; Validated

Probab=80.45  E-value=0.63  Score=37.03  Aligned_cols=19  Identities=11%  Similarity=0.052  Sum_probs=15.7

Q ss_pred             CceEeecCCCCccCC--CCCC
Q psy3587          21 DNIRLCDCPGLVFPS--KVPK   39 (195)
Q Consensus        21 ~~v~vvG~PNVGKSs--N~L~   39 (195)
                      .+|+|+|.||.||||  ..|.
T Consensus         2 ~~I~i~G~~GsGKSTla~~L~   22 (183)
T PRK06217          2 MRIHITGASGSGTTTLGAALA   22 (183)
T ss_pred             eEEEEECCCCCCHHHHHHHHH
Confidence            469999999999999  4444

>COG2019 AdkA Archaeal adenylate kinase [Nucleotide transport and metabolism]

Probab=80.17  E-value=0.79  Score=37.25  Aligned_cols=16  Identities=13%  Similarity=0.264  Sum_probs=14.1

Q ss_pred             cCceEeecCCCCccCC
Q psy3587          20 TDNIRLCDCPGLVFPS   35 (195)
Q Consensus        20 ~~~v~vvG~PNVGKSs   35 (195)
                      .+.+.++|.|||||+|
T Consensus         4 ~kvvvitGVpGvGKTT   19 (189)
T COG2019           4 RKVVVITGVPGVGKTT   19 (189)
T ss_pred             ceEEEEEcCCCCChHH
Confidence            3568899999999999

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

No homologous structure with e-value below 0.005

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	195
1puj_A	282	YLQF, conserved hypothetical protein YLQF; structu	7e-11
3cnl_A	262	YLQF, putative uncharacterized protein; circular p	7e-10
3h2y_A	368	GTPase family protein; GTP-binding protein YQEH, p	9e-04

>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 Length = 282

 Score = 58.9 bits (143), Expect = 7e-11
 Identities = 23/141 (16%), Positives = 46/141 (32%), Gaps = 22/141 (15%)

Query: 43  VVSVSRTPGHTKHFQTIFLTDNIRLCDCPGLVFPSKVPKPLQ----VLMGSFPIAQLREP 98
           +      PG T   Q + +   + L D PG+++P K    L      + G+  I      
Sbjct: 145 IAKTGDRPGITTSQQWVKVGKELELLDTPGILWP-KFEDELVGLRLAVTGA--IKDSIIN 201

Query: 99  YSTV-QYLAERM------DLIKLLHIKHPDDDEYWCAMDICDGWAQKRSYMTAKTGRYDS 151
              V  +    +       L +   +    +D      ++ D   +KR  +    G  + 
Sbjct: 202 LQDVAVFGLRFLEEHYPERLKERYGLDEIPED----IAELFDAIGEKRGCLM-SGGLINY 256

Query: 152 YRAANELL---RMATEGRICL 169
            +    ++   R    GR+  
Sbjct: 257 DKTTEVIIRDIRTEKFGRLSF 277

>3cnl_A YLQF, putative uncharacterized protein; circular permutation, GNP, signaling protein; HET: GNP; 2.00A {Thermotoga maritima} PDB: 3cnn_A* 3cno_A* Length = 262

 Score = 55.7 bits (135), Expect = 7e-10
 Identities = 27/134 (20%), Positives = 51/134 (38%), Gaps = 19/134 (14%)

Query: 43  VVSVSRTPGHTKHFQTIFLTDNIRLCDCPGLVFPSKVPKPLQ----VLMGSFPIAQLREP 98
             SV   PG TK  Q   L + +++ D PG+++   +         +L+GS P+ ++ + 
Sbjct: 124 ASSVGAQPGITKGIQWFSLENGVKILDTPGILYK-NIFSEDLAAKLLLVGSLPVERIEDQ 182

Query: 99  YSTVQYLAERMDLIKLLHIKHPDDDEYWCAMDICDGWAQKRSYMTAKTGRYDSYRAANEL 158
                 + ER    ++       +       +  + +A+KR  +  K G  D  RA    
Sbjct: 183 -----RIFER--AFEIFARSIGIESS---FSEFFEDFARKRGLLK-KGGVPDIERALMLF 231

Query: 159 L---RMATEGRICL 169
                    GR+  
Sbjct: 232 FTEVAQGKAGRVSF 245

>3h2y_A GTPase family protein; GTP-binding protein YQEH, possibly involved in replication initiation, csgid, IDP90222; HET: DGI; 1.80A {Bacillus anthracis str} Length = 368

 Score = 38.4 bits (89), Expect = 9e-04
 Identities = 11/49 (22%), Positives = 20/49 (40%)

Query: 35  SKVPKPLQVVSVSRTPGHTKHFQTIFLTDNIRLCDCPGLVFPSKVPKPL 83
               +   V++ S  PG T     I L +   L D PG++   ++   +
Sbjct: 183 EFSDETENVITTSHFPGTTLDLIDIPLDEESSLYDTPGIINHHQMAHYV 231

---

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	195
d1puja_	273	c.37.1.8 (A:) Probable GTPase YlqF {Bacillus subti	5e-10

>d1puja_ c.37.1.8 (A:) Probable GTPase YlqF {Bacillus subtilis [TaxId: 1423]} Length = 273

class: 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]

 Score = 55.2 bits (132), Expect = 5e-10
 Identities = 22/138 (15%), Positives = 50/138 (36%), Gaps = 16/138 (11%)

Query: 43  VVSVSRTPGHTKHFQTIFLTDNIRLCDCPGLVFPSKVPKPLQVLMGSFPIAQLREPYSTV 102
           +      PG T   Q + +   + L D PG+++P    +   V +       +++    +
Sbjct: 137 IAKTGDRPGITTSQQWVKVGKELELLDTPGILWPKFEDE--LVGLRLAVTGAIKDSIINL 194

Query: 103 QYLAERMDLIKLLHIKHPD--------DDEYWCAMDICDGWAQKRSYMTAKTGRYDSYRA 154
           Q +A     ++ L   +P+        D+      ++ D   +KR  +    G  +  + 
Sbjct: 195 QDVAVF--GLRFLEEHYPERLKERYGLDEIPEDIAELFDAIGEKRGCLM-SGGLINYDKT 251

Query: 155 ANELL---RMATEGRICL 169
              ++   R    GR+  
Sbjct: 252 TEVIIRDIRTEKFGRLSF 269

Homologous Domains Detected by HHsearch

Original result of HHsearch against SCOP70(version1.75) database

ID	Length	Definition	Probability
Query	195
d1puja_	273	Probable GTPase YlqF {Bacillus subtilis [TaxId: 14	100.0
d2cxxa1	184	GTP-binding protein engB {Pyrococcus horikoshii [T	99.13
d1h65a_	257	Chloroplast protein translocon GTPase Toc34 {Garde	98.93
d1xzpa2	160	TrmE GTPase domain {Thermotoga maritima [TaxId: 23	98.89
d1lnza2	185	Obg GTP-binding protein middle domain {Bacillus su	98.76
d1wf3a1	178	GTPase Era, N-terminal domain {Thermus thermophilu	98.69
d2gj8a1	161	Probable tRNA modification GTPase TrmE (MnmE), G d	98.64
d1ni3a1	296	YchF GTP-binding protein N-terminal domain {Fissio	98.63
d1wxqa1	319	GTP-binding protein PH0525 {Pyrococcus horikoshii	98.61
d1udxa2	180	Obg GTP-binding protein middle domain {Thermus the	98.6
d1u0la2	225	Probable GTPase EngC (YjeQ), C-terminal domain {Th	98.52
d1svia_	195	Probable GTPase EngB {Bacillus subtilis [TaxId: 14	98.46
d1mkya2	186	Probable GTPase Der, N-terminal and middle domains	98.46
d1mkya1	171	Probable GTPase Der, N-terminal and middle domains	98.42
d1jala1	278	YchF GTP-binding protein N-terminal domain {Haemop	98.42
d1tq4a_	400	Interferon-inducible GTPase {Mouse (Mus musculus)	98.41
d1egaa1	179	GTPase Era, N-terminal domain {Escherichia coli [T	98.33
d1nrjb_	209	Signal recognition particle receptor beta-subunit	98.11
d1puia_	188	Probable GTPase EngB {Escherichia coli [TaxId: 562	98.0
d1t9ha2	231	Probable GTPase EngC (YjeQ), C-terminal domain {Ba	97.88
d2qtvb1	166	SAR1 {Baker's yeast (Saccharomyces cerevisiae) [Ta	97.85
d1wb1a4	179	Elongation factor SelB, N-terminal domain {Methano	97.84
d1ksha_	165	ADP-ribosylation factor {Mouse (Mus musculus), ARL	97.66
d1fzqa_	176	ADP-ribosylation factor {Mouse (Mus musculus), ARL	97.61
d3raba_	169	Rab3a {Rat (Rattus norvegicus) [TaxId: 10116]}	97.58
d2fh5b1	207	Signal recognition particle receptor beta-subunit	97.57
d1g16a_	166	Rab-related protein Sec4 {Baker's yeast (Saccharom	97.52
d1g7sa4	227	Initiation factor IF2/eIF5b, N-terminal (G) domain	97.51
d1x3sa1	177	Rab18 {Human (Homo sapiens) [TaxId: 9606]}	97.37
d2bcgy1	194	GTPase Ytp1 {Baker's yeast (Saccharomyces cerevisi	97.36
d1zj6a1	177	ADP-ribosylation factor {Human (Homo sapiens), ARL	97.31
d1upta_	169	ADP-ribosylation factor {Human (Homo sapiens), ARL	97.3
d1e0sa_	173	ADP-ribosylation factor {Human (Homo sapiens), ARF	97.29
d2fu5c1	173	Rab8a {Mouse (Mus musculus) [TaxId: 10090]}	97.27
d2ew1a1	171	Rab30 {Human (Homo sapiens) [TaxId: 9606]}	97.27
d1r8sa_	160	ADP-ribosylation factor {Human (Homo sapiens), ARF	97.27
d1vg8a_	184	Rab7 {Rat (Rattus norvegicus) [TaxId: 10116]}	97.24
d1puja_	273	Probable GTPase YlqF {Bacillus subtilis [TaxId: 14	97.24
d2f9la1	175	Rab11b {Human (Homo sapiens) [TaxId: 9606]}	97.2
d1moza_	182	ADP-ribosylation factor {Baker's yeast (Saccharomy	97.17
d1z2aa1	164	Rab23 {Mouse (Mus musculus) [TaxId: 10090]}	97.13
d1i2ma_	170	Ran {Human (Homo sapiens) [TaxId: 9606]}	97.11
d2bmea1	174	Rab4a {Human (Homo sapiens) [TaxId: 9606]}	97.08
d2g6ba1	170	Rab26 {Human (Homo sapiens) [TaxId: 9606]}	97.07
d1kk1a3	195	Initiation factor eIF2 gamma subunit, N-terminal (	96.93
d1z0fa1	166	Rab14 {Human (Homo sapiens) [TaxId: 9606]}	96.93
d2c78a3	204	Elongation factor Tu (EF-Tu), N-terminal (G) domai	96.92
d1wmsa_	174	Rab9a {Human (Homo sapiens) [TaxId: 9606]}	96.85
d1ky3a_	175	Rab-related protein ypt7p {Baker's yeast (Saccharo	96.84
d2gjsa1	168	Rad {Human (Homo sapiens) [TaxId: 9606]}	96.83
d1f6ba_	186	SAR1 {Chinese hamster (Cricetulus griseus) [TaxId:	96.77
d1jwyb_	306	Dynamin G domain {Dictyostelium discoideum [TaxId:	96.68
d1ek0a_	170	Ypt51 {Baker's yeast (Saccharomyces cerevisiae) [T	96.68
d2fn4a1	173	r-Ras {Human (Homo sapiens) [TaxId: 9606]}	96.67
d1kmqa_	177	RhoA {Human (Homo sapiens) [TaxId: 9606]}	96.61
d1zd9a1	164	ADP-ribosylation factor {Human (Homo sapiens), ARL	96.53
d2a5ja1	173	Rab2b {Human (Homo sapiens) [TaxId: 9606]}	96.52
d1yzqa1	164	Rab6 {Human (Homo sapiens) [TaxId: 9606]}	96.51
d1r2qa_	170	Rab5a {Human (Homo sapiens) [TaxId: 9606]}	96.4
d1z0ja1	167	Rab-22a {Mouse (Mus musculus) [TaxId: 10090]}	96.34
d1ctqa_	166	cH-p21 Ras protein {Human (Homo sapiens) [TaxId: 9	96.33
d1kaoa_	167	Rap2a {Human (Homo sapiens) [TaxId: 9606]}	96.31
d1z08a1	167	Rab21 {Human (Homo sapiens) [TaxId: 9606]}	96.29
d1d2ea3	196	Elongation factor Tu (EF-Tu), N-terminal (G) domai	96.22
d1xtqa1	167	GTP-binding protein RheB {Human (Homo sapiens) [Ta	96.15
d1z06a1	165	Rab-33b {Mouse (Mus musculus) [TaxId: 10090]}	96.14
d1u8za_	168	Ras-related protein RalA {Cotton-top tamarin (Sagu	96.12
d2ngra_	191	CDC42 {Human (Homo sapiens) [TaxId: 9606]}	96.05
d2akab1	299	Dynamin G domain {Rat (Rattus norvegicus) [TaxId:	96.02
d2erxa1	171	di-Ras2 {Human (Homo sapiens) [TaxId: 9606]}	96.0
d2atxa1	185	RhoQ {Human (Homo sapiens) [TaxId: 9606]}	95.97
d2atva1	168	Ras-like estrogen-regulated growth inhibitor, RERG	95.87
d2erya1	171	r-Ras2 {Human (Homo sapiens) [TaxId: 9606]}	95.79
d2f7sa1	186	Rab27b {Human (Homo sapiens) [TaxId: 9606]}	95.77
d2bmja1	175	Centaurin gamma 1, G domain {Human (Homo sapiens)	95.7
d2g3ya1	172	GTP-binding protein GEM {Human (Homo sapiens) [Tax	95.38
d1mh1a_	183	Rac {Human (Homo sapiens) [TaxId: 9606]}	95.22
d1c1ya_	167	Rap1A {Human (Homo sapiens) [TaxId: 9606]}	95.1
d1x1ra1	169	Ras-related protein M-Ras (XRas) {Mouse (Mus muscu	94.53
d1zcba2	200	Transducin (alpha subunit) {Mouse (Mus musculus) [	94.26
d1m7ba_	179	RhoE (RND3) {Mouse (Mus musculus) [TaxId: 10090]}	94.06
d1f5na2	277	Interferon-induced guanylate-binding protein 1 (GB	93.83
d2qn6a3	205	Initiation factor eIF2 gamma subunit, N-terminal (	93.6
d1bifa1	213	6-phosphofructo-2-kinase/fructose-2,6-bisphosphata	93.46
d2p67a1	327	LAO/AO transport system kinase ArgK {Escherichia c	92.95
d1viaa_	161	Shikimate kinase (AroK) {Campylobacter jejuni [Tax	92.08
d1zunb3	222	Sulfate adenylate transferase subunit cysN/C, EF-T	91.79
d1kaga_	169	Shikimate kinase (AroK) {Escherichia coli [TaxId:	91.64
d2iyva1	165	Shikimate kinase (AroK) {Mycobacterium tuberculosi	91.18
d1rkba_	173	Adenylate kinase {Human (Homo sapiens), isoenzyme	91.15
d1lw7a2	192	Transcriptional regulator NadR, ribosylnicotinamid	90.02
d2dy1a2	267	Elongation factor G (EF-G), N-terminal (G) domain	89.49
d2bcjq2	200	Transducin (alpha subunit) {Mouse (Mus musculus) [	88.51
d1e6ca_	170	Shikimate kinase (AroK) {Erwinia chrysanthemi [Tax	87.83
d1m8pa3	183	ATP sulfurylase C-terminal domain {Fungus (Penicil	87.57
d1yrba1	244	ATP(GTP)-binding protein PAB0955 {Pyrococcus abyss	87.18
d1y63a_	174	Probable kinase LmjF30.1890 {Leishmania major [Tax	87.05
d2bv3a2	276	Elongation factor G (EF-G), N-terminal (G) domain	86.94
d2qm8a1	323	Metallochaperone MeaB {Methylobacterium extorquens	86.12
d1zina1	182	Adenylate kinase {Bacillus stearothermophilus [Tax	85.24
d1svsa1	195	Transducin (alpha subunit) {Rat (Rattus norvegicus	84.97
d1yj5a2	172	5' polynucleotide kinase-3' phosphatase, C-termina	84.94
d1ly1a_	152	Polynucleotide kinase, kinase domain {Bacteriophag	84.73
d1azta2	221	Transducin (alpha subunit) {Cow (Bos taurus) [TaxI	84.3
d2ak3a1	189	Adenylate kinase {Cow (Bos taurus), mitochondrial	83.94
d2cdna1	181	Adenylate kinase {Mycobacterium tuberculosis [TaxI	83.44
d2bdta1	176	Hypothetical protein BH3686 {Bacillus halodurans [	83.3
d1zp6a1	176	Hypothetical protein Atu3015 {Agrobacterium tumefa	82.92
d1s3ga1	182	Adenylate kinase {Bacillus globisporus [TaxId: 145	82.15
d1khta_	190	Adenylate kinase {Archaeon Methanococcus voltae [T	82.1
d1np6a_	170	Molybdopterin-guanine dinucleotide biosynthesis pr	80.84
d1ak2a1	190	Adenylate kinase {Cow (Bos taurus), mitochondrial	80.77
d1e4va1	179	Adenylate kinase {Escherichia coli [TaxId: 562]}	80.28

>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=100.00  E-value=4.7e-39  Score=270.92  Aligned_cols=148  Identities=12%  Similarity=0.131  Sum_probs=116.8

Q ss_pred             ceEeecCCCCccCC--CCCCCCcccccCCCCCCccceeEEEecCCeEEecCCCCCCCCCCChh---hhhhhCCCCCcccc
Q psy3587          22 NIRLCDCPGLVFPS--KVPKPLQVVSVSRTPGHTKHFQTIFLTDNIRLCDCPGLVFPSKVPKP---LQVLMGSFPIAQLR   96 (195)
Q Consensus        22 ~v~vvG~PNVGKSs--N~L~~kk~v~vg~~PGvTk~~Q~i~l~~~i~LlDtPGIv~p~~~~~~---~l~l~g~~~~~~i~   96 (195)
                      +++|||+|||||||  |+|.++++++||+.||+||++||++++++++|+|||||++|++.+++   .++++|+++.. +.
T Consensus       114 ~v~vvG~PNvGKSsliN~L~~~~~~~~~~~pG~Tr~~~~i~~~~~~~l~DTPGi~~p~~~~~~~~~~la~~~~i~~~-~~  192 (273)
T d1puja_         114 RALIIGIPNVGKSTLINRLAKKNIAKTGDRPGITTSQQWVKVGKELELLDTPGILWPKFEDELVGLRLAVTGAIKDS-II  192 (273)
T ss_dssp             EEEEEESTTSSHHHHHHHHHTSCCC------------CCEEETTTEEEEECCCCCCSCCCCHHHHHHHHHHTSSCTT-SS
T ss_pred             EEEEEecCccchhhhhhhhhccceEEECCcccccccceEEECCCCeEEecCCCccccCCccHHHHhhhhhcCCcchh-hc
Confidence            69999999999999  99999999999999999999999999999999999999999998864   47899998855 55


Q ss_pred             CHHHHHHHHHHHcC---HHHHhhcCCCCCCCcCCHHHHHHHHHHHcCcccccCCcccHHHHHHHHHHHHHcCCcceEeC
Q psy3587          97 EPYSTVQYLAERMD---LIKLLHIKHPDDDEYWCAMDICDGWAQKRSYMTAKTGRYDSYRAANELLRMATEGRICLCLM  172 (195)
Q Consensus        97 d~~~~~~~l~~~~~---~~~l~~~~~~~~~~~~~~~e~L~~iA~k~g~l~~kgG~~D~~rAa~~~L~d~~~Gkl~~~~~  172 (195)
                      +....+.++++.+.   .+.+...|+.+.. ..+.++||+++|+++|++ .|||+||+++||+.||+|||+|+|+++++
T Consensus       193 ~~~~~~~~ll~~l~~~~~~~l~~~~~~~~~-~~d~~~~l~~ia~~~g~~-~kgg~~D~~~aa~~~l~d~r~G~lg~~~l  269 (273)
T d1puja_         193 NLQDVAVFGLRFLEEHYPERLKERYGLDEI-PEDIAELFDAIGEKRGCL-MSGGLINYDKTTEVIIRDIRTEKFGRLSF  269 (273)
T ss_dssp             CHHHHHHHHHHHHHHHCHHHHHHHTTCSSC-CSSHHHHHHHHHHHHTCB-CSTTCBCHHHHHHHHHHHHHTTTTCSCCS
T ss_pred             chhhHHHHHHHHHHHhChHhhhHhcCCCCC-CCCHHHHHHHHHHHhCCc-ccCCccCHHHHHHHHHHHHHcCCCceeec
Confidence            56666777766554   3456666665532 358999999999999999 69999999999999999999999999975

>d2cxxa1 c.37.1.8 (A:2-185) GTP-binding protein engB {Pyrococcus horikoshii [TaxId: 53953]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: GTP-binding protein engB
species: Pyrococcus horikoshii [TaxId: 53953]

Probab=99.13  E-value=5.8e-12  Score=96.31  Aligned_cols=57  Identities=21%  Similarity=0.277  Sum_probs=48.2

Q ss_pred             ceEeecCCCCccCC--CCCCCCcccccCCCCCCccceeEEEecCCeEEecCCCCCCCCCCC
Q psy3587          22 NIRLCDCPGLVFPS--KVPKPLQVVSVSRTPGHTKHFQTIFLTDNIRLCDCPGLVFPSKVP   80 (195)
Q Consensus        22 ~v~vvG~PNVGKSs--N~L~~kk~v~vg~~PGvTk~~Q~i~l~~~i~LlDtPGIv~p~~~~   80 (195)
                      .|++||.|||||||  |+|.++++ .++++||.|+.+..+.. .++.++||||+-+-...+
T Consensus         2 ~I~lvG~~nvGKSsLin~l~~~~~-~~~~~~g~T~~~~~~~~-~~~~ivDtpG~~~~~~~~   60 (184)
T d2cxxa1           2 TIIFAGRSNVGKSTLIYRLTGKKV-RRGKRPGVTRKIIEIEW-KNHKIIDMPGFGFMMGLP   60 (184)
T ss_dssp             EEEEEEBTTSSHHHHHHHHHSCCC-SSSSSTTCTTSCEEEEE-TTEEEEECCCBSCCTTSC
T ss_pred             EEEEECCCCCCHHHHHHHHhCCCc-eeeCCCCEeeccccccc-ccceecccCCceeccccc
Confidence            48999999999999  99998875 79999999999887765 468899999986655443

>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=98.93  E-value=9.4e-11  Score=96.00  Aligned_cols=60  Identities=18%  Similarity=0.108  Sum_probs=52.1

Q ss_pred             ceEeecCCCCccCC--CCCCCCcccccCCCCCCccceeEEEe---cCCeEEecCCCCCCCCCCCh
Q psy3587          22 NIRLCDCPGLVFPS--KVPKPLQVVSVSRTPGHTKHFQTIFL---TDNIRLCDCPGLVFPSKVPK   81 (195)
Q Consensus        22 ~v~vvG~PNVGKSs--N~L~~kk~v~vg~~PGvTk~~Q~i~l---~~~i~LlDtPGIv~p~~~~~   81 (195)
                      +|+|+|.|||||||  |+|.|++.+.|+..+|.|+..+....   +..+.++||||+..+...+.
T Consensus        34 ~I~LvG~tg~GKSSliN~ilg~~~~~vs~~~~~T~~~~~~~~~~~g~~i~viDTPGl~~~~~~~~   98 (257)
T d1h65a_          34 TILVMGKGGVGKSSTVNSIIGERVVSISPFQSEGPRPVMVSRSRAGFTLNIIDTPGLIEGGYIND   98 (257)
T ss_dssp             EEEEEESTTSSHHHHHHHHHTSCCSCCCSSSCCCSSCEEEEEEETTEEEEEEECCCSEETTEECH
T ss_pred             EEEEECCCCCcHHHHHHHHhCCCceeecCCCCcceeEEEEEEEeccEEEEEEeeecccCCcchHH
Confidence            79999999999999  99999999999999999999887643   34699999999987665443

>d1xzpa2 c.37.1.8 (A:212-371) TrmE GTPase domain {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: TrmE GTPase domain
species: Thermotoga maritima [TaxId: 2336]

Probab=98.89  E-value=5e-11  Score=89.10  Aligned_cols=57  Identities=14%  Similarity=0.141  Sum_probs=49.5

Q ss_pred             ceEeecCCCCccCC--CCCCCCcccccCCCCCCccceeEEEe---cCCeEEecCCCCCCCCC
Q psy3587          22 NIRLCDCPGLVFPS--KVPKPLQVVSVSRTPGHTKHFQTIFL---TDNIRLCDCPGLVFPSK   78 (195)
Q Consensus        22 ~v~vvG~PNVGKSs--N~L~~kk~v~vg~~PGvTk~~Q~i~l---~~~i~LlDtPGIv~p~~   78 (195)
                      +|+++|.|||||||  |+|.+++.+.+++.||.|+..+....   +..+.+.||||+..+..
T Consensus         2 kI~liG~~n~GKSSLin~l~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Dt~G~~~~~~   63 (160)
T d1xzpa2           2 RMVIVGKPNVGKSTLLNRLLNEDRAIVTDIPGTTRDVISEEIVIRGILFRIVDTAGVRSETN   63 (160)
T ss_dssp             EEEEECCHHHHTCHHHHHHHHHTBCCCCCSSCCSSCSCCEEEEETTEEEEEEESSCCCSSCC
T ss_pred             EEEEECCCCCCHHHHHHHHhCCCceeeeccccccccceeEEEEeCCeeEEeccccccccCCc
Confidence            58999999999999  99999999999999999999888655   34688899999876543

>d1lnza2 c.37.1.8 (A:158-342) Obg GTP-binding protein middle domain {Bacillus subtilis [TaxId: 1423]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Obg GTP-binding protein middle domain
species: Bacillus subtilis [TaxId: 1423]

Probab=98.76  E-value=3.4e-10  Score=86.74  Aligned_cols=53  Identities=15%  Similarity=0.155  Sum_probs=42.8

Q ss_pred             ceEeecCCCCccCC--CCCCCCcccccCCCCCCccceeE--EEec--CCeEEecCCCCCC
Q psy3587          22 NIRLCDCPGLVFPS--KVPKPLQVVSVSRTPGHTKHFQT--IFLT--DNIRLCDCPGLVF   75 (195)
Q Consensus        22 ~v~vvG~PNVGKSs--N~L~~kk~v~vg~~PGvTk~~Q~--i~l~--~~i~LlDtPGIv~   75 (195)
                      +|+|+|.|||||||  |+|.+++. .+++.||.|+....  ..+.  ..+.++||||+..
T Consensus         3 ~VaiiG~~nvGKSSLin~L~~~~~-~~~~~~~~T~~~~~~~~~~~~~~~~~~~DtpG~~~   61 (185)
T d1lnza2           3 DVGLVGFPSVGKSTLLSVVSSAKP-KIADYHFTTLVPNLGMVETDDGRSFVMADLPGLIE   61 (185)
T ss_dssp             CEEEESSTTSSHHHHHHHSEEECC-EESSTTSSCCCCCEEEEECSSSCEEEEEEHHHHHH
T ss_pred             eEEEECCCCCCHHHHHHHHhCCCC-ceecCCCceEeeeeceeEecCCcEEEEecCCCccc
Confidence            68999999999999  99998875 78888998877554  3333  3589999999853

>d1wf3a1 c.37.1.8 (A:3-180) GTPase Era, N-terminal domain {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: GTPase Era, N-terminal domain
species: Thermus thermophilus [TaxId: 274]

Probab=98.69  E-value=2.5e-09  Score=81.53  Aligned_cols=57  Identities=21%  Similarity=0.260  Sum_probs=48.8

Q ss_pred             ceEeecCCCCccCC--CCCCCCcccccCCCCCCccceeEEEe---cCCeEEecCCCCCCCCC
Q psy3587          22 NIRLCDCPGLVFPS--KVPKPLQVVSVSRTPGHTKHFQTIFL---TDNIRLCDCPGLVFPSK   78 (195)
Q Consensus        22 ~v~vvG~PNVGKSs--N~L~~kk~v~vg~~PGvTk~~Q~i~l---~~~i~LlDtPGIv~p~~   78 (195)
                      .|+|+|.|||||||  |+|.+++...++..||.|+.......   +..+.++||||......
T Consensus         7 ~I~lvG~~~~GKSSLin~l~~~~~~~~~~~~~tt~~~~~~~~~~~~~~~~~~DtpG~~~~~~   68 (178)
T d1wf3a1           7 FVAIVGKPNVGKSTLLNNLLGVKVAPISPRPQTTRKRLRGILTEGRRQIVFVDTPGLHKPMD   68 (178)
T ss_dssp             EEEEECSTTSSHHHHHHHHHTSCCSCCCSSSCCCCSCEEEEEEETTEEEEEEECCCCCCCCS
T ss_pred             EEEEECCCCCCHHHHHHHHhCCCceeecccCCcccccccceeeeeeeeeeeccccccccccc
Confidence            59999999999999  99999999999999999988876433   34799999999975543

>d2gj8a1 c.37.1.8 (A:216-376) Probable tRNA modification GTPase TrmE (MnmE), G domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Probable tRNA modification GTPase TrmE (MnmE), G domain
species: Escherichia coli [TaxId: 562]

Probab=98.64  E-value=3.6e-09  Score=78.75  Aligned_cols=55  Identities=15%  Similarity=0.151  Sum_probs=47.3

Q ss_pred             ceEeecCCCCccCC--CCCCCCcccccCCCCCCccceeEEEe---cCCeEEecCCCCCCC
Q psy3587          22 NIRLCDCPGLVFPS--KVPKPLQVVSVSRTPGHTKHFQTIFL---TDNIRLCDCPGLVFP   76 (195)
Q Consensus        22 ~v~vvG~PNVGKSs--N~L~~kk~v~vg~~PGvTk~~Q~i~l---~~~i~LlDtPGIv~p   76 (195)
                      +|+++|.|||||||  |+|.+++...++..||.|+......+   +..+.++|+||+...
T Consensus         3 kI~lvG~~nvGKSsLin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~d~~g~~~~   62 (161)
T d2gj8a1           3 KVVIAGRPNAGKSSLLNALAGREAAIVTDIAGTTRDVLREHIHIDGMPLHIIDTAGLREA   62 (161)
T ss_dssp             EEEEEESTTSSHHHHHHHHHTSCCSCCCSSTTCCCSCEEEEEEETTEEEEEEECCCCSCC
T ss_pred             EEEEECCCCCCHHHHHHHHhCCCceEeecccccccceEeeeeeccCceeeeccccccccc
Confidence            68999999999999  99999999999999999988666433   347999999998754

>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=98.63  E-value=2.9e-09  Score=88.50  Aligned_cols=56  Identities=13%  Similarity=0.108  Sum_probs=46.1

Q ss_pred             ceEeecCCCCccCC--CCCCCCcccccCCCCCCccc--eeEEEecC------------------CeEEecCCCCCCCC
Q psy3587          22 NIRLCDCPGLVFPS--KVPKPLQVVSVSRTPGHTKH--FQTIFLTD------------------NIRLCDCPGLVFPS   77 (195)
Q Consensus        22 ~v~vvG~PNVGKSs--N~L~~kk~v~vg~~PGvTk~--~Q~i~l~~------------------~i~LlDtPGIv~p~   77 (195)
                      ++||||.|||||||  |+|.+.+.+.+++.|++|..  ...+.+.+                  .+.++|.||++.-.
T Consensus        12 kiGivG~Pn~GKSTlfnalT~~~~~~~anypftTi~pn~g~v~v~d~r~~~l~~~~~~~~~~~~~i~~~DvaGLv~gA   89 (296)
T d1ni3a1          12 KTGIVGMPNVGKSTFFRAITKSVLGNPANYPYATIDPEEAKVAVPDERFDWLCEAYKPKSRVPAFLTVFDIAGLTKGA   89 (296)
T ss_dssp             EEEEEECSSSSHHHHHHHHHHSTTTSTTCCSSCCCCTTEEEEEECCHHHHHHHHHHCCSEEECEEEEEECTGGGCCCC
T ss_pred             EEEEECCCCCCHHHHHHHHHCCCCCCcCCCCccCccCCeEEEeccccchhhhhhcccCCceecccceeeecccccccc
Confidence            69999999999999  99998888899999999964  33344432                  58999999999643

>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=98.61  E-value=2.9e-09  Score=88.71  Aligned_cols=54  Identities=17%  Similarity=0.186  Sum_probs=26.4

Q ss_pred             ceEeecCCCCccCC--CCCCCCcccccCCCCCCcccee----EEE-----------------------ecCCeEEecCCC
Q psy3587          22 NIRLCDCPGLVFPS--KVPKPLQVVSVSRTPGHTKHFQ----TIF-----------------------LTDNIRLCDCPG   72 (195)
Q Consensus        22 ~v~vvG~PNVGKSs--N~L~~kk~v~vg~~PGvTk~~Q----~i~-----------------------l~~~i~LlDtPG   72 (195)
                      +|++||+|||||||  |+|.+.+ +.||+.|..|..-.    ...                       ....|.++|+||
T Consensus         2 ~v~lvG~pn~GKStlfn~lt~~~-~~v~nypftT~~pn~Gv~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~D~pG   80 (319)
T d1wxqa1           2 EIGVVGKPNVGKSTFFSAATLVD-VEIANYPFTTIEANVGVTYAITDHPCKELGCSPNPQNYEYRNGLALIPVKMVDVAG   80 (319)
T ss_dssp             EEEEEECTTSSHHHHHHHHHC---------------CCEEEEEEEEECSCSSSCCSCCCSSSCEETTEEEEEEEEEECC-
T ss_pred             cEeEECCCCCCHHHHHHHHHCCC-CchhcCCCCcccCccceeeCCCCchhhhhhhccCccccccccccccccEEEEECCC
Confidence            48999999999999  9999875 79999997775321    110                       112489999999


Q ss_pred             CCCC
Q psy3587          73 LVFP   76 (195)
Q Consensus        73 Iv~p   76 (195)
                      ++..
T Consensus        81 li~g   84 (319)
T d1wxqa1          81 LVPG   84 (319)
T ss_dssp             ----
T ss_pred             cccc
Confidence            9854

>d1udxa2 c.37.1.8 (A:157-336) Obg GTP-binding protein middle domain {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Obg GTP-binding protein middle domain
species: Thermus thermophilus [TaxId: 274]

Probab=98.60  E-value=5.6e-09  Score=79.52  Aligned_cols=54  Identities=17%  Similarity=0.201  Sum_probs=42.2

Q ss_pred             ceEeecCCCCccCC--CCCCCCcccccCCCCCCccceeE--EEe--cCCeEEecCCCCCCC
Q psy3587          22 NIRLCDCPGLVFPS--KVPKPLQVVSVSRTPGHTKHFQT--IFL--TDNIRLCDCPGLVFP   76 (195)
Q Consensus        22 ~v~vvG~PNVGKSs--N~L~~kk~v~vg~~PGvTk~~Q~--i~l--~~~i~LlDtPGIv~p   76 (195)
                      +|+++|.|||||||  |+|.+.+. .+++.++.|.....  ...  +..+.++||||+...
T Consensus         3 ~VaivG~~nvGKSTLin~L~~~~~-~~~~~~~~t~~~~~~~~~~~~~~~~~~~DtpG~~~~   62 (180)
T d1udxa2           3 DVGLVGYPNAGKSSLLAAMTRAHP-KIAPYPFTTLSPNLGVVEVSEEERFTLADIPGIIEG   62 (180)
T ss_dssp             SEEEECCGGGCHHHHHHHHCSSCC-EECCCTTCSSCCEEEEEECSSSCEEEEEECCCCCCC
T ss_pred             EEEEECCCCCCHHHHHHHHhCCCC-ceeccCCCceeeeeceeeecCCCeEEEcCCCeeecC
Confidence            58999999999999  99998875 46777777776553  222  346999999998753

>d1u0la2 c.37.1.8 (A:69-293) Probable GTPase EngC (YjeQ), C-terminal domain {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Probable GTPase EngC (YjeQ), C-terminal domain
species: Thermotoga maritima [TaxId: 2336]

Probab=98.52  E-value=2.1e-08  Score=80.91  Aligned_cols=77  Identities=16%  Similarity=0.088  Sum_probs=52.6

Q ss_pred             cccCCCCcc-ceeEEEEecCceEeecCCCCccCC--CCCCCCcccccCC-------CCCCccceeEEEecCCeEEecCCC
Q psy3587           3 SVSRTPGHT-KHFQTIFLTDNIRLCDCPGLVFPS--KVPKPLQVVSVSR-------TPGHTKHFQTIFLTDNIRLCDCPG   72 (195)
Q Consensus         3 ~v~~~~g~t-k~~q~~~l~~~v~vvG~PNVGKSs--N~L~~kk~v~vg~-------~PGvTk~~Q~i~l~~~i~LlDtPG   72 (195)
                      .||+..|.- ..++..--.+..+++|-+||||||  |+|.+....+|+.       -...|++-|++.++.+-+|+||||
T Consensus        77 ~vSa~~~~g~~~L~~~l~~kt~~~~G~SGVGKSTLiN~L~~~~~~~T~~vs~~~~rGrHTTt~~~l~~l~~gg~iiDTPG  156 (225)
T d1u0la2          77 KTSAKTGMGIEELKEYLKGKISTMAGLSGVGKSSLLNAINPGLKLRVSEVSEKLQRGRHTTTTAQLLKFDFGGYVVDTPG  156 (225)
T ss_dssp             ECCTTTCTTHHHHHHHHSSSEEEEECSTTSSHHHHHHHHSTTCCCC-------------CCCSCCEEECTTSCEEESSCS
T ss_pred             EeccccchhHhhHHHHhcCCeEEEECCCCCCHHHHHHhhcchhhhhccCcccccCCCCccccceeEEEECCCcEEEeCCc
Confidence            455555543 112222235578999999999999  9998766555543       356899999999999999999999


Q ss_pred             CCCCCCC
Q psy3587          73 LVFPSKV   79 (195)
Q Consensus        73 Iv~p~~~   79 (195)
                      +-...+.
T Consensus       157 ~r~~~l~  163 (225)
T d1u0la2         157 FANLEIN  163 (225)
T ss_dssp             STTCCCC
T ss_pred             ccccccc
Confidence            9655543

>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=98.46  E-value=2.2e-08  Score=77.06  Aligned_cols=58  Identities=21%  Similarity=0.328  Sum_probs=41.7

Q ss_pred             ceEeecCCCCccCC--CCCCCCc-ccccCCCCCCccceeEEEecCCeEEecCCCCCCCCCC
Q psy3587          22 NIRLCDCPGLVFPS--KVPKPLQ-VVSVSRTPGHTKHFQTIFLTDNIRLCDCPGLVFPSKV   79 (195)
Q Consensus        22 ~v~vvG~PNVGKSs--N~L~~kk-~v~vg~~PGvTk~~Q~i~l~~~i~LlDtPGIv~p~~~   79 (195)
                      +|+|+|.|||||||  |+|.+++ .+.++..|+.|+......+...+.++|+||+-.+...
T Consensus        25 ~I~lvG~~n~GKSTLin~L~g~~~~~~~~~~~~~t~~~~~~~~~~~~~~~d~~~~~~~~~~   85 (195)
T d1svia_          25 EIALAGRSNVGKSSFINSLINRKNLARTSSKPGKTQTLNFYIINDELHFVDVPGYGFAKVS   85 (195)
T ss_dssp             EEEEEEBTTSSHHHHHHHHHTC-------------CCEEEEEETTTEEEEECCCBCCCSSC
T ss_pred             EEEEECCCCCCHHHHHHHhcCCCceEEeecccceeeecccccccccceEEEEEeecccccc
Confidence            69999999999999  9998755 5799999999999999988999999999999887654

>d1mkya2 c.37.1.8 (A:173-358) Probable GTPase Der, N-terminal and middle domains {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Probable GTPase Der, N-terminal and middle domains
species: Thermotoga maritima [TaxId: 2336]

Probab=98.46  E-value=9.5e-09  Score=78.23  Aligned_cols=54  Identities=19%  Similarity=0.205  Sum_probs=40.6

Q ss_pred             ceEeecCCCCccCC--CCCCCCcccccCCCCCCccceeEE--Ee-cCCeEEecCCCCCC
Q psy3587          22 NIRLCDCPGLVFPS--KVPKPLQVVSVSRTPGHTKHFQTI--FL-TDNIRLCDCPGLVF   75 (195)
Q Consensus        22 ~v~vvG~PNVGKSs--N~L~~kk~v~vg~~PGvTk~~Q~i--~l-~~~i~LlDtPGIv~   75 (195)
                      +|+|+|.|||||||  |+|.+++.+.+++.|+.|+..+..  .. +..+.++|+||+..
T Consensus        10 kV~iiG~~~~GKSTLin~l~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~d~~g~~~   68 (186)
T d1mkya2          10 KVAIVGRPNVGKSTLFNAILNKERALVSPIPGTTRDPVDDEVFIDGRKYVFVDTAGLRR   68 (186)
T ss_dssp             EEEEECSTTSSHHHHHHHHHTSTTEEECCCC------CCEEEEETTEEEEESSCSCC--
T ss_pred             EEEEECCCCCCHHHHHHHHHCCCcceeecccccccccceeeeccCCceeeeeccCCccc
Confidence            69999999999999  999999999999999999887643  33 45799999999853

>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=98.42  E-value=1.7e-08  Score=76.14  Aligned_cols=56  Identities=13%  Similarity=0.081  Sum_probs=34.5

Q ss_pred             ceEeecCCCCccCC--CCCCCCcccccCCCCCCccceeEEEe---cCCeEEecCCCCCCCC
Q psy3587          22 NIRLCDCPGLVFPS--KVPKPLQVVSVSRTPGHTKHFQTIFL---TDNIRLCDCPGLVFPS   77 (195)
Q Consensus        22 ~v~vvG~PNVGKSs--N~L~~kk~v~vg~~PGvTk~~Q~i~l---~~~i~LlDtPGIv~p~   77 (195)
                      .|+|+|.|||||||  |+|.+.+.+.++..||.|+....-.+   +..+.+.|+||+....
T Consensus         2 ~V~liG~~n~GKSsLi~~L~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~d~~g~~~~~   62 (171)
T d1mkya1           2 TVLIVGRPNVGKSTLFNKLVKKKKAIVEDEEGVTRDPVQDTVEWYGKTFKLVDTCGVFDNP   62 (171)
T ss_dssp             EEEEECCTTSSHHHHHHHHHC--------------CCSEEEEEETTEEEEEEECTTTTSSG
T ss_pred             EEEEECCCCCCHHHHHHHHhCCCcceecccCceeeccccccccccccccccccccceeeee
Confidence            48999999999999  99999999999999999988766544   2368899999997654

>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=98.42  E-value=1.4e-08  Score=83.41  Aligned_cols=53  Identities=15%  Similarity=0.195  Sum_probs=36.9

Q ss_pred             ceEeecCCCCccCC--CCCCCCcccccCCCCCCcccee--EEEecC------------------CeEEecCCCCCC
Q psy3587          22 NIRLCDCPGLVFPS--KVPKPLQVVSVSRTPGHTKHFQ--TIFLTD------------------NIRLCDCPGLVF   75 (195)
Q Consensus        22 ~v~vvG~PNVGKSs--N~L~~kk~v~vg~~PGvTk~~Q--~i~l~~------------------~i~LlDtPGIv~   75 (195)
                      ++||||+|||||||  |+|.+.+ +++++.|..|-.-.  .+.+++                  .|.++|.||++.
T Consensus         4 ~~GivG~Pn~GKSTlf~~lt~~~-~~~~~ypf~ti~pn~gvv~v~d~r~~~l~~~~~~~~~~~a~i~~~Di~GLi~   78 (278)
T d1jala1           4 KCGIVGLPNVGKSTLFNALTKAG-IEAANYPFCTIEPNTGVVPMPDPRLDALAEIVKPERILPTTMEFVDIAGLVA   78 (278)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHTC-------CCCCCCCCSSEEECCCHHHHHHHHHHCCSEEECCEEEEEECCSCCT
T ss_pred             eEEEECCCCCCHHHHHHHHHCCC-CccccCCCCCCCCceEEEecccHhHHHHHHhcCCCceeeeeEEEEEccccCC
Confidence            69999999999999  9999775 58999999985432  244432                  488999999994

>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=98.41  E-value=3.2e-08  Score=85.62  Aligned_cols=59  Identities=15%  Similarity=0.074  Sum_probs=41.7

Q ss_pred             ceEeecCCCCccCC--CCCCCCccccc----CCCCCCccceeEEEe--cCCeEEecCCCCCCCCCCC
Q psy3587          22 NIRLCDCPGLVFPS--KVPKPLQVVSV----SRTPGHTKHFQTIFL--TDNIRLCDCPGLVFPSKVP   80 (195)
Q Consensus        22 ~v~vvG~PNVGKSs--N~L~~kk~v~v----g~~PGvTk~~Q~i~l--~~~i~LlDtPGIv~p~~~~   80 (195)
                      +|+|+|-|||||||  |+|.|.+....    ...++.|+....+..  .+++.|+||||+-.+....
T Consensus        58 ~Iai~G~~n~GKSSLiNaL~G~~~~~~~~~~~g~~~tT~~~~~~~~~~~~~~~l~DtPG~~~~~~~~  124 (400)
T d1tq4a_          58 NVAVTGETGSGKSSFINTLRGIGNEEEGAAKTGVVEVTMERHPYKHPNIPNVVFWDLPGIGSTNFPP  124 (400)
T ss_dssp             EEEEEECTTSSHHHHHHHHHTCCTTSTTSCCCCC----CCCEEEECSSCTTEEEEECCCGGGSSCCH
T ss_pred             EEEEECCCCCCHHHHHHHHhCCCcCCCccCCCCCCCCceeeeeeeccCCCeEEEEeCCCcccccccH
Confidence            69999999999999  99988554322    223567777666654  3579999999998776543

>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=98.33  E-value=5.8e-08  Score=73.01  Aligned_cols=53  Identities=19%  Similarity=0.169  Sum_probs=42.0

Q ss_pred             eEeecCCCCccCC--CCCCCCcccccCCCCCCccceeEEEe---cCCeEEecCCCCCC
Q psy3587          23 IRLCDCPGLVFPS--KVPKPLQVVSVSRTPGHTKHFQTIFL---TDNIRLCDCPGLVF   75 (195)
Q Consensus        23 v~vvG~PNVGKSs--N~L~~kk~v~vg~~PGvTk~~Q~i~l---~~~i~LlDtPGIv~   75 (195)
                      |+++|.|||||||  |+|.+++.+.++..++.|+.......   ...+.++|+||...
T Consensus         8 I~iiG~~nvGKSSLin~L~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~~~~~~   65 (179)
T d1egaa1           8 IAIVGRPNVGKSTLLNKLLGQKISITSRKAQTTRHRIVGIHTEGAYQAIYVDTPGLHM   65 (179)
T ss_dssp             EEEECSSSSSHHHHHHHHHTCSEEECCCCSSCCSSCEEEEEEETTEEEEEESSSSCCH
T ss_pred             EEEECCCCCCHHHHHHHHhCCCceeeccCCCceEEEEEeeeecCCceeEeecCCCcee
Confidence            8899999999999  99999998889988888876544322   23566789888753

>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=98.11  E-value=2e-07  Score=71.56  Aligned_cols=50  Identities=18%  Similarity=0.090  Sum_probs=38.5

Q ss_pred             CceEeecCCCCccCC--CCCCCCcccccCCCCCCccceeEEEe---cCCeEEecCCCCCC
Q psy3587          21 DNIRLCDCPGLVFPS--KVPKPLQVVSVSRTPGHTKHFQTIFL---TDNIRLCDCPGLVF   75 (195)
Q Consensus        21 ~~v~vvG~PNVGKSs--N~L~~kk~v~vg~~PGvTk~~Q~i~l---~~~i~LlDtPGIv~   75 (195)
                      .+|+|||.|||||||  |+|.+.+.     .|++|+......+   +..+.+.||||.--
T Consensus         4 p~V~lvG~~n~GKTSLln~l~~~~~-----~~~tt~~~~~~~~~~~~~~~~l~D~~g~~~   58 (209)
T d1nrjb_           4 PSIIIAGPQNSGKTSLLTLLTTDSV-----RPTVVSQEPLSAADYDGSGVTLVDFPGHVK   58 (209)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHHSSC-----CCBCCCSSCEEETTGGGSSCEEEECCCCGG
T ss_pred             CEEEEECCCCCCHHHHHHHHhCCCC-----CCeEEecceEEEEEeCCeEEEEEecccccc
Confidence            479999999999999  99987654     3677765555443   45799999999653

>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=98.00  E-value=1.7e-06  Score=64.49  Aligned_cols=53  Identities=21%  Similarity=0.292  Sum_probs=30.6

Q ss_pred             ceEeecCCCCccCC--CCCCCCcccccC-CCCCCccceeEEEecCCeEEecCCCCC
Q psy3587          22 NIRLCDCPGLVFPS--KVPKPLQVVSVS-RTPGHTKHFQTIFLTDNIRLCDCPGLV   74 (195)
Q Consensus        22 ~v~vvG~PNVGKSs--N~L~~kk~v~vg-~~PGvTk~~Q~i~l~~~i~LlDtPGIv   74 (195)
                      +|+++|.|||||||  |+|.+.+...+. ..++.+.....+........+++++..
T Consensus        18 ~I~lvG~~NvGKSSL~n~L~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   73 (188)
T d1puia_          18 EVAFAGRSNAGKSSALNTLTNQKSLARTSKTPGRTQLINLFEVADGKRLVDLPGYG   73 (188)
T ss_dssp             EEEEEECTTSSHHHHHTTTCCC-------------CCEEEEEEETTEEEEECCCCC
T ss_pred             EEEEECCCCCCHHHHHHHHhCCCceEeecccccceeeccceecccccceeeeeccc
Confidence            69999999999999  999987765444 444545555555555555555554443

>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=97.88  E-value=6.9e-07  Score=72.02  Aligned_cols=58  Identities=17%  Similarity=0.196  Sum_probs=36.1

Q ss_pred             cCceEeecCCCCccCC--CCCCCCcccccCCCC-----C--CccceeEEEecCCeEEecCCCCCCCCC
Q psy3587          20 TDNIRLCDCPGLVFPS--KVPKPLQVVSVSRTP-----G--HTKHFQTIFLTDNIRLCDCPGLVFPSK   78 (195)
Q Consensus        20 ~~~v~vvG~PNVGKSs--N~L~~kk~v~vg~~P-----G--vTk~~Q~i~l~~~i~LlDtPGIv~p~~   78 (195)
                      ++...++|-+||||||  |+|.+....+|+..-     |  .|++-+.+.++ +=+|+||||+=--.+
T Consensus        97 ~~~~vl~G~SGVGKSSLiN~L~~~~~~~t~~vs~~~~rGrHTTt~~~l~~~~-gg~iiDTPG~r~~~l  163 (231)
T d1t9ha2          97 DKTTVFAGQSGVGKSSLLNAISPELGLRTNEISEHLGRGKHTTRHVELIHTS-GGLVADTPGFSSLEF  163 (231)
T ss_dssp             TSEEEEEESHHHHHHHHHHHHCC-------------------CCCCCEEEET-TEEEESSCSCSSCCC
T ss_pred             cceEEEECCCCccHHHHHHhhccHhHhhhcccccccCCCceeeeeEEEEecC-CCEEEECCccccccc
Confidence            4567899999999999  999886655554433     3  56666666665 668999999954333

>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=97.85  E-value=1e-06  Score=63.82  Aligned_cols=52  Identities=10%  Similarity=-0.039  Sum_probs=40.3

Q ss_pred             ceEeecCCCCccCC--CCCCCCcccccCCCCCCccceeEEEecCCeEEecCCCCC
Q psy3587          22 NIRLCDCPGLVFPS--KVPKPLQVVSVSRTPGHTKHFQTIFLTDNIRLCDCPGLV   74 (195)
Q Consensus        22 ~v~vvG~PNVGKSs--N~L~~kk~v~vg~~PGvTk~~Q~i~l~~~i~LlDtPGIv   74 (195)
                      +|++||-|||||||  |.|.+.+.+.+++++|.+..... .-+-...+.|++|..
T Consensus         2 KI~liG~~nvGKSSLln~l~~~~~~~~~~t~~~~~~~~~-~~~~~~~~~~~~~~~   55 (166)
T d2qtvb1           2 KLLFLGLDNAGKTTLLHMLKNDRLATLQPTWHPTSEELA-IGNIKFTTFDLGGHI   55 (166)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHSCCCCCCCCCSCEEEEEC-CTTCCEEEEECCCSG
T ss_pred             EEEEECCCCCCHHHHHHHHhCCCCCeeeceeeEeEEEec-cCCeeEEEEeeccch
Confidence            58999999999999  99999888888888876653222 124568888988765

>d1wb1a4 c.37.1.8 (A:1-179) Elongation factor SelB, N-terminal domain {Methanococcus maripaludis [TaxId: 39152]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Elongation factor SelB, N-terminal domain
species: Methanococcus maripaludis [TaxId: 39152]

Probab=97.84  E-value=6.9e-07  Score=68.00  Aligned_cols=53  Identities=23%  Similarity=0.174  Sum_probs=29.7

Q ss_pred             ceEeecCCCCccCC--CCCCCCcccccCCCC------CCccceeEE--Ee-cCCeEEecCCCCC
Q psy3587          22 NIRLCDCPGLVFPS--KVPKPLQVVSVSRTP------GHTKHFQTI--FL-TDNIRLCDCPGLV   74 (195)
Q Consensus        22 ~v~vvG~PNVGKSs--N~L~~kk~v~vg~~P------GvTk~~Q~i--~l-~~~i~LlDtPGIv   74 (195)
                      +|++||.||+||||  |+|.+.+.+.+....      |.|......  .+ +..+.++|+||..
T Consensus         7 nIaiiG~~naGKSTL~n~L~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~~d~~g~~   70 (179)
T d1wb1a4           7 NLGIFGHIDHGKTTLSKVLTEIASTSAHDKLPESQKRGITIDIGFSAFKLENYRITLVDAPGHA   70 (179)
T ss_dssp             EEEEEECTTSSHHHHHHHHHTTC--------------------CCCEEEETTEEEEECCCSSHH
T ss_pred             EEEEEeCCCCcHHHHHHHHHHhcCceecccccceeeeeeeccccccccccCCcccccccccccc
Confidence            69999999999999  999876555443332      444333332  22 3467888988853

>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=97.66  E-value=7.1e-06  Score=60.59  Aligned_cols=48  Identities=19%  Similarity=0.130  Sum_probs=36.1

Q ss_pred             ceEeecCCCCccCC--CCCCCCcccccCCCCCCccceeEEEe--c-CCeEEecCCCC
Q psy3587          22 NIRLCDCPGLVFPS--KVPKPLQVVSVSRTPGHTKHFQTIFL--T-DNIRLCDCPGL   73 (195)
Q Consensus        22 ~v~vvG~PNVGKSs--N~L~~kk~v~vg~~PGvTk~~Q~i~l--~-~~i~LlDtPGI   73 (195)
                      +|+++|.|||||||  |.|.+.....++++-|    .....+  . -.+.+.|+||.
T Consensus         4 ki~ivG~~~~GKTsLi~~l~~~~~~~~~~t~~----~~~~~~~~~~~~~~~~D~~G~   56 (165)
T d1ksha_           4 RLLMLGLDNAGKTTILKKFNGEDVDTISPTLG----FNIKTLEHRGFKLNIWDVGGQ   56 (165)
T ss_dssp             EEEEECSTTSSHHHHHHHHTTCCCSSCCCCSS----EEEEEEEETTEEEEEEEECCS
T ss_pred             EEEEECCCCCCHHHHHHHHcCCCCCcccceEe----eeeeeccccccceeeeecCcc
Confidence            69999999999999  9998887765555444    444333  2 26999999993

>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=97.61  E-value=5.2e-06  Score=61.93  Aligned_cols=51  Identities=14%  Similarity=0.121  Sum_probs=40.7

Q ss_pred             ceEeecCCCCccCC--CCCCCCcccccCCCCCCccceeEEEecC-CeEEecCCCCC
Q psy3587          22 NIRLCDCPGLVFPS--KVPKPLQVVSVSRTPGHTKHFQTIFLTD-NIRLCDCPGLV   74 (195)
Q Consensus        22 ~v~vvG~PNVGKSs--N~L~~kk~v~vg~~PGvTk~~Q~i~l~~-~i~LlDtPGIv   74 (195)
                      +|+++|.|||||||  |.|.+.+...+.+..|.+.  ..+.... .+.+.|+||.-
T Consensus        18 kI~vvG~~~vGKSsLi~~l~~~~~~~~~~~~~~~~--~~i~~~~~~~~i~d~~g~~   71 (176)
T d1fzqa_          18 RILLLGLDNAGKTTLLKQLASEDISHITPTQGFNI--KSVQSQGFKLNVWDIGGQR   71 (176)
T ss_dssp             EEEEEESTTSSHHHHHHHHCCSCCEEEEEETTEEE--EEEEETTEEEEEEECSSCG
T ss_pred             EEEEECCCCCCHHHHHHHHhcCCCCcceeeeeeeE--EEeccCCeeEeEeeccccc
Confidence            79999999999999  9999988888888888763  3344433 68889999854

>d3raba_ c.37.1.8 (A:) Rab3a {Rat (Rattus norvegicus) [TaxId: 10116]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab3a
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=97.58  E-value=6.7e-06  Score=61.38  Aligned_cols=52  Identities=17%  Similarity=0.135  Sum_probs=40.0

Q ss_pred             ceEeecCCCCccCC--CCCCCCc-ccccCCCCCCccceeEEEecC---CeEEecCCCC
Q psy3587          22 NIRLCDCPGLVFPS--KVPKPLQ-VVSVSRTPGHTKHFQTIFLTD---NIRLCDCPGL   73 (195)
Q Consensus        22 ~v~vvG~PNVGKSs--N~L~~kk-~v~vg~~PGvTk~~Q~i~l~~---~i~LlDtPGI   73 (195)
                      +|++||-|||||||  |+|.+.+ .....+++|.+.....+....   .+.+.||||-
T Consensus         7 Ki~vvG~~~vGKTsLi~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~wDt~G~   64 (169)
T d3raba_           7 KILIIGNSSVGKTSFLFRYADDSFTPAFVSTVGIDFKVKTIYRNDKRIKLQIWDTAGQ   64 (169)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHSCCCSSCCCCCSEEEEEEEEEETTEEEEEEEEEECCS
T ss_pred             EEEEECCCCcCHHHHHHHHHcCCCCcccccccccceeeEEEEeecceEEEEEEECCCc
Confidence            69999999999999  8876554 445566777777776666644   5888999993

>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=97.57  E-value=5.7e-06  Score=63.57  Aligned_cols=51  Identities=12%  Similarity=-0.030  Sum_probs=37.3

Q ss_pred             CceEeecCCCCccCC--CCCCCCcccccCCCCCCccceeEEEec----CCeEEecCCCC
Q psy3587          21 DNIRLCDCPGLVFPS--KVPKPLQVVSVSRTPGHTKHFQTIFLT----DNIRLCDCPGL   73 (195)
Q Consensus        21 ~~v~vvG~PNVGKSs--N~L~~kk~v~vg~~PGvTk~~Q~i~l~----~~i~LlDtPGI   73 (195)
                      |+|.|+|-|||||||  |+|.+.+...+.  |+.+.....+.+.    -.+.+.|+||.
T Consensus         1 k~V~ivG~~~~GKTsLl~~l~~~~~~~~~--~t~~~~~~~~~~~~~~~~~~~~~d~~g~   57 (207)
T d2fh5b1           1 RAVLFVGLCDSGKTLLFVRLLTGQYRDTQ--TSITDSSAIYKVNNNRGNSLTLIDLPGH   57 (207)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHHSCCCCBC--CCCSCEEEEEECSSTTCCEEEEEECCCC
T ss_pred             CEEEEECCCCCCHHHHHHHHHcCCCCccc--CCeeEEEEEEEEeeeeeeeeeeeecccc
Confidence            579999999999999  999877766654  4444444445442    24888999995

>d1g16a_ c.37.1.8 (A:) Rab-related protein Sec4 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab-related protein Sec4
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=97.52  E-value=7.9e-06  Score=60.61  Aligned_cols=53  Identities=17%  Similarity=0.080  Sum_probs=33.1

Q ss_pred             ceEeecCCCCccCC--CCCCCCc-ccccCCCCCCccceeEEEecC---CeEEecCCCCC
Q psy3587          22 NIRLCDCPGLVFPS--KVPKPLQ-VVSVSRTPGHTKHFQTIFLTD---NIRLCDCPGLV   74 (195)
Q Consensus        22 ~v~vvG~PNVGKSs--N~L~~kk-~v~vg~~PGvTk~~Q~i~l~~---~i~LlDtPGIv   74 (195)
                      +|+++|-|||||||  |.+...+ .....++.|.+.....+.++.   .+.+.||||.-
T Consensus         4 Ki~vvG~~~vGKTSli~~l~~~~~~~~~~~t~~~~~~~~~i~~~~~~~~~~i~Dt~G~~   62 (166)
T d1g16a_           4 KILLIGDSGVGKSCLLVRFVEDKFNPSFITTIGIDFKIKTVDINGKKVKLQIWDTAGQE   62 (166)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHCCCCC-------CCEEEEEEESSSCEEEEEEECCTTGG
T ss_pred             EEEEECCCCcCHHHHHHHHHhCCCCCccCCccceeEEEEEEEECCEEEEEEEEECCCch
Confidence            58999999999999  8776544 333345555555555565543   36689999963

>d1g7sa4 c.37.1.8 (A:1-227) Initiation factor IF2/eIF5b, N-terminal (G) domain {Archaeon Methanobacterium thermoautotrophicum [TaxId: 145262]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Initiation factor IF2/eIF5b, N-terminal (G) domain
species: Archaeon Methanobacterium thermoautotrophicum [TaxId: 145262]

Probab=97.51  E-value=5.6e-06  Score=65.38  Aligned_cols=50  Identities=14%  Similarity=0.125  Sum_probs=33.2

Q ss_pred             eEeecCCCCccCC--CCCCCCcccccCCCCCCccceeEEEe---------------------cCCeEEecCCCC
Q psy3587          23 IRLCDCPGLVFPS--KVPKPLQVVSVSRTPGHTKHFQTIFL---------------------TDNIRLCDCPGL   73 (195)
Q Consensus        23 v~vvG~PNVGKSs--N~L~~kk~v~vg~~PGvTk~~Q~i~l---------------------~~~i~LlDtPGI   73 (195)
                      |+|+|-||+||||  |+|.+.+.+ .....++|++......                     +..+.++||||.
T Consensus         8 IaIiGh~d~GKSTL~~~L~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~iDtPGh   80 (227)
T d1g7sa4           8 VSVLGHVDHGKTTLLDHIRGSAVA-SREAGGITQHIGATEIPMDVIEGICGDFLKKFSIRETLPGLFFIDTPGH   80 (227)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHHHS-CC----CCCBTTEEEEEHHHHHHHSCGGGGGCGGGGTCCEEEEECCCTT
T ss_pred             EEEEeCCCccHHHHHHHHHhhcch-heecCceeeeccccccccccccccccccccceeecccccccccccccce
Confidence            9999999999999  988765433 2344566665444322                     135999999995

>d1x3sa1 c.37.1.8 (A:2-178) Rab18 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab18
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.37  E-value=1.8e-05  Score=59.41  Aligned_cols=54  Identities=17%  Similarity=0.057  Sum_probs=37.7

Q ss_pred             CceEeecCCCCccCC--CCCCCCc-ccccCCCCCCccceeEEEecC---CeEEecCCCCC
Q psy3587          21 DNIRLCDCPGLVFPS--KVPKPLQ-VVSVSRTPGHTKHFQTIFLTD---NIRLCDCPGLV   74 (195)
Q Consensus        21 ~~v~vvG~PNVGKSs--N~L~~kk-~v~vg~~PGvTk~~Q~i~l~~---~i~LlDtPGIv   74 (195)
                      -+|++||-|||||||  |++.+.+ .....+.++.+-....+.++.   .+.|+||||.-
T Consensus         8 iKi~vvG~~~vGKTsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~Dt~G~~   67 (177)
T d1x3sa1           8 LKILIIGESGVGKSSLLLRFTDDTFDPELAATIGVDFKVKTISVDGNKAKLAIWDTAGQE   67 (177)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHSCCCTTCCCCCSEEEEEEEEEETTEEEEEEEEEECSSG
T ss_pred             eEEEEECCCCcCHHHHHHHHHhCCCCCccccceeecceeEEEEEeccccEEEEEECCCch
Confidence            369999999999999  8877544 334444555554455555543   58899999963

>d2bcgy1 c.37.1.8 (Y:3-196) GTPase Ytp1 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: GTPase Ytp1
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=97.36  E-value=2.4e-05  Score=59.72  Aligned_cols=54  Identities=15%  Similarity=0.052  Sum_probs=39.4

Q ss_pred             CceEeecCCCCccCC--CCCCCCc-ccccCCCCCCccceeEEEecC---CeEEecCCCCC
Q psy3587          21 DNIRLCDCPGLVFPS--KVPKPLQ-VVSVSRTPGHTKHFQTIFLTD---NIRLCDCPGLV   74 (195)
Q Consensus        21 ~~v~vvG~PNVGKSs--N~L~~kk-~v~vg~~PGvTk~~Q~i~l~~---~i~LlDtPGIv   74 (195)
                      .+|+|+|-|||||||  |.+.... .....++.|.+.....+.++.   .+.++||||--
T Consensus         7 ~KivvvG~~~vGKTsli~~l~~~~~~~~~~~t~~~~~~~~~i~~~~~~~~l~i~Dt~G~e   66 (194)
T d2bcgy1           7 FKLLLIGNSGVGKSCLLLRFSDDTYTNDYISTIGVDFKIKTVELDGKTVKLQIWDTAGQE   66 (194)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHCCCCTTCCCSSCCCEEEEEEEETTEEEEEEEECCTTTT
T ss_pred             EEEEEECCCCcCHHHHHHHHhhCCCCCCcCCccceeEEEEEEEEeeEEEEEEEEECCCch
Confidence            369999999999999  8776544 455667777776655555432   57789999953

>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=97.31  E-value=2.1e-05  Score=58.24  Aligned_cols=54  Identities=13%  Similarity=-0.044  Sum_probs=40.1

Q ss_pred             ceEeecCCCCccCC--CCCCCCcccccCCCCCCccceeEEEecCCeEEecCCCCCCC
Q psy3587          22 NIRLCDCPGLVFPS--KVPKPLQVVSVSRTPGHTKHFQTIFLTDNIRLCDCPGLVFP   76 (195)
Q Consensus        22 ~v~vvG~PNVGKSs--N~L~~kk~v~vg~~PGvTk~~Q~i~l~~~i~LlDtPGIv~p   76 (195)
                      +|+|||.|||||||  |+|.+.+.+.+....|.+..... ..+-.+.+.|++|--..
T Consensus        17 kI~vvG~~~~GKSsLi~rl~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~d~~~~~~~   72 (177)
T d1zj6a1          17 KVIIVGLDNAGKTTILYQFSMNEVVHTSPTIGSNVEEIV-INNTRFLMWDIGGQESL   72 (177)
T ss_dssp             EEEEEESTTSSHHHHHHHHHTTSCEEEECCSCSSCEEEE-ETTEEEEEEECCC----
T ss_pred             EEEEECCCCCCHHHHHHHHhcCCCCccccccceeEEEEe-ecceEEEEecccccccc
Confidence            79999999999999  99999998888888876543322 23457888898875443

>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=97.30  E-value=1.9e-05  Score=57.34  Aligned_cols=53  Identities=19%  Similarity=0.100  Sum_probs=36.5

Q ss_pred             ceEeecCCCCccCC--CCCCCCcccccCCCCCCccceeEEEe-cCCeEEecCCCCCCC
Q psy3587          22 NIRLCDCPGLVFPS--KVPKPLQVVSVSRTPGHTKHFQTIFL-TDNIRLCDCPGLVFP   76 (195)
Q Consensus        22 ~v~vvG~PNVGKSs--N~L~~kk~v~vg~~PGvTk~~Q~i~l-~~~i~LlDtPGIv~p   76 (195)
                      +|++||.|||||||  |++.+.+.+.+..+.|.+.  ..... +-.+.+.|+||.-..
T Consensus         7 kI~ivG~~~vGKSSLi~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~   62 (169)
T d1upta_           7 RILILGLDGAGKTTILYRLQVGEVVTTIPTIGFNV--ETVTYKNLKFQVWDLGGLTSI   62 (169)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHSSCCCCCCCSSEEE--EEEEETTEEEEEEEECCCGGG
T ss_pred             EEEEECCCCCCHHHHHHHHhCCCCcceecccceee--eeeccCceEEEEeeccccccc
Confidence            68999999999999  9998887776665554332  22222 336777888876543

>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=97.29  E-value=1.5e-05  Score=59.49  Aligned_cols=52  Identities=17%  Similarity=-0.010  Sum_probs=37.4

Q ss_pred             ceEeecCCCCccCC--CCCCCCcccccCCCCCCccceeEEEecCCeEEecCCCCC
Q psy3587          22 NIRLCDCPGLVFPS--KVPKPLQVVSVSRTPGHTKHFQTIFLTDNIRLCDCPGLV   74 (195)
Q Consensus        22 ~v~vvG~PNVGKSs--N~L~~kk~v~vg~~PGvTk~~Q~i~l~~~i~LlDtPGIv   74 (195)
                      +|+++|.|||||||  |.+..........+.|.+...... -.-.+.+.|+||.-
T Consensus        14 kIvlvG~~~vGKTSli~rl~~~~~~~~~~t~~~~~~~~~~-~~~~~~i~D~~g~~   67 (173)
T d1e0sa_          14 RILMLGLDAAGKTTILYKLKLGQSVTTIPTVGFNVETVTY-KNVKFNVWDVGGQD   67 (173)
T ss_dssp             EEEEEEETTSSHHHHHHHTTCCCCEEEEEETTEEEEEEEE-TTEEEEEEEESCCG
T ss_pred             EEEEECCCCCCHHHHHHHHhcCCCCCccceeeeeEEEeec-cceeeEEecCCCcc
Confidence            69999999999999  999877766666666655322211 12368899999954

>d2fu5c1 c.37.1.8 (C:3-175) Rab8a {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab8a
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=97.27  E-value=2.8e-05  Score=58.05  Aligned_cols=52  Identities=17%  Similarity=0.103  Sum_probs=23.9

Q ss_pred             ceEeecCCCCccCC--CCCCCCcc-cccCCCCCCccceeEEEecC---CeEEecCCCC
Q psy3587          22 NIRLCDCPGLVFPS--KVPKPLQV-VSVSRTPGHTKHFQTIFLTD---NIRLCDCPGL   73 (195)
Q Consensus        22 ~v~vvG~PNVGKSs--N~L~~kk~-v~vg~~PGvTk~~Q~i~l~~---~i~LlDtPGI   73 (195)
                      +|.++|-|||||||  |+|.+.+. -...++.|.+.....+.++.   .+.++||||-
T Consensus         8 Ki~vvG~~~vGKTsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~G~   65 (173)
T d2fu5c1           8 KLLLIGDSGVGKTCVLFRFSEDAFNSTFISTIGIDFKIRTIELDGKRIKLQIWDTAGQ   65 (173)
T ss_dssp             EEEEECCCCC----------------CHHHHHCEEEEEEEEEETTEEEEEEEEEC---
T ss_pred             EEEEECCCCcCHHHHHHHHHhCCCCCccCccccceEEEEEEEECCEEEEEEEEECCCc
Confidence            69999999999999  88876542 22333444444445565544   4678999994

>d2ew1a1 c.37.1.8 (A:4-174) Rab30 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab30
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.27  E-value=2.6e-05  Score=57.99  Aligned_cols=52  Identities=15%  Similarity=0.087  Sum_probs=33.8

Q ss_pred             CceEeecCCCCccCC--CCCCCCc-ccccCCCCCCccceeEEEecC---CeEEecCCC
Q psy3587          21 DNIRLCDCPGLVFPS--KVPKPLQ-VVSVSRTPGHTKHFQTIFLTD---NIRLCDCPG   72 (195)
Q Consensus        21 ~~v~vvG~PNVGKSs--N~L~~kk-~v~vg~~PGvTk~~Q~i~l~~---~i~LlDtPG   72 (195)
                      .+|.++|-|||||||  |.+...+ .....++++.+-....+.++.   .+.+.||||
T Consensus         6 ~Ki~lvG~~~vGKTsLi~~l~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~l~i~Dt~G   63 (171)
T d2ew1a1           6 FKIVLIGNAGVGKTCLVRRFTQGLFPPGQGATIGVDFMIKTVEINGEKVKLQIWDTAG   63 (171)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHSSCCTTCCCCCSEEEEEEEEEETTEEEEEEEEEECC
T ss_pred             EEEEEECCCCcCHHHHHHHHHhCCCCCcccccccceEEEEEEEECCEEEEEEEEECCC
Confidence            369999999999999  8776544 223333444443334444443   367889999

>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=97.27  E-value=2e-05  Score=56.86  Aligned_cols=53  Identities=15%  Similarity=0.024  Sum_probs=34.2

Q ss_pred             ceEeecCCCCccCC--CCCCCCcccccCCCCCCccceeEEEe-cCCeEEecCCCCCCC
Q psy3587          22 NIRLCDCPGLVFPS--KVPKPLQVVSVSRTPGHTKHFQTIFL-TDNIRLCDCPGLVFP   76 (195)
Q Consensus        22 ~v~vvG~PNVGKSs--N~L~~kk~v~vg~~PGvTk~~Q~i~l-~~~i~LlDtPGIv~p   76 (195)
                      +|.++|-|||||||  |+|.+.+..........+  ...... .-.+.+.|+||....
T Consensus         2 kivlvG~~~vGKSsLi~~l~~~~~~~~~~~~~~~--~~~~~~~~~~~~~~d~~g~~~~   57 (160)
T d1r8sa_           2 RILMVGLDAAGKTTILYKLKLGEIVTTIPTIGFN--VETVEYKNISFTVWDVGGQDKI   57 (160)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHCSSCCCCCSSCC--EEEEECSSCEEEEEECCCCGGG
T ss_pred             EEEEECCCCCCHHHHHHHHhcCCCCccccceeeE--EEEEeeeeEEEEEecCCCcccc
Confidence            58899999999999  888766544333322222  122222 235888999997653

>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=97.24  E-value=2.7e-05  Score=58.61  Aligned_cols=57  Identities=12%  Similarity=0.065  Sum_probs=40.6

Q ss_pred             ceEeecCCCCccCC--CCCCCCc-ccccCCCCCCccceeEEEecC---CeEEecCCCCCCCCC
Q psy3587          22 NIRLCDCPGLVFPS--KVPKPLQ-VVSVSRTPGHTKHFQTIFLTD---NIRLCDCPGLVFPSK   78 (195)
Q Consensus        22 ~v~vvG~PNVGKSs--N~L~~kk-~v~vg~~PGvTk~~Q~i~l~~---~i~LlDtPGIv~p~~   78 (195)
                      +|+|||.|||||||  |.+.+.+ .....++.|.+...-.+....   .+.+.||||-.....
T Consensus         4 Kv~vvG~~~vGKSSLi~~l~~~~f~~~~~~t~~~~~~~~~~~~~~~~~~~~~~d~~g~~~~~~   66 (184)
T d1vg8a_           4 KVIILGDSGVGKTSLMNQYVNKKFSNQYKATIGADFLTKEVMVDDRLVTMQIWDTAGQERFQS   66 (184)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHSCCCSSCCCCCSEEEEEEEEESSSCEEEEEEEEECSSGGGSC
T ss_pred             EEEEECCCCcCHHHHHHHHHhCCCCCCcCCccceeeeeeeeeeCCceEEEEeeecCCcccccc
Confidence            58999999999999  8776544 444556667776655555432   577899999765443

>d1puja_ c.37.1.8 (A:) Probable GTPase YlqF {Bacillus subtilis [TaxId: 1423]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Probable GTPase YlqF
species: Bacillus subtilis [TaxId: 1423]

Probab=97.24  E-value=5.1e-05  Score=61.42  Aligned_cols=35  Identities=26%  Similarity=0.535  Sum_probs=21.4

Q ss_pred             CccccCCCCccceeEEEEecCceEeecCCCCccCC
Q psy3587           1 VVSVSRTPGHTKHFQTIFLTDNIRLCDCPGLVFPS   35 (195)
Q Consensus         1 ~~~v~~~~g~tk~~q~~~l~~~v~vvG~PNVGKSs   35 (195)
                      +|.||++||.||++|++.+++++.++|+||+..+.
T Consensus       137 ~~~~~~~pG~Tr~~~~i~~~~~~~l~DTPGi~~p~  171 (273)
T d1puja_         137 IAKTGDRPGITTSQQWVKVGKELELLDTPGILWPK  171 (273)
T ss_dssp             CC------------CCEEETTTEEEEECCCCCCSC
T ss_pred             eEEECCcccccccceEEECCCCeEEecCCCccccC
Confidence            57899999999999999999999999999999876

>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=97.20  E-value=3.9e-05  Score=57.31  Aligned_cols=52  Identities=13%  Similarity=0.077  Sum_probs=38.0

Q ss_pred             ceEeecCCCCccCC--CCCCCCccc-ccCCCCCCccceeEEEecC---CeEEecCCCC
Q psy3587          22 NIRLCDCPGLVFPS--KVPKPLQVV-SVSRTPGHTKHFQTIFLTD---NIRLCDCPGL   73 (195)
Q Consensus        22 ~v~vvG~PNVGKSs--N~L~~kk~v-~vg~~PGvTk~~Q~i~l~~---~i~LlDtPGI   73 (195)
                      +|++||-|||||||  |.+.+.+.. .-.+.++.+.....+..+.   .+.|.|+||.
T Consensus         6 Ki~vvG~~~vGKTsLi~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~d~~g~   63 (175)
T d2f9la1           6 KVVLIGDSGVGKSNLLSRFTRNEFNLESKSTIGVEFATRSIQVDGKTIKAQIWDTAGQ   63 (175)
T ss_dssp             EEEEESSTTSSHHHHHHHHHHSCCCC---CCCSCEEEEEEEEETTEEEEEEEEECSSG
T ss_pred             EEEEECCCCcCHHHHHHHHHhCCCCCcccccccceeeeEEEEECCEEEEEEecccCCc
Confidence            69999999999999  887665533 4445566666666677665   6889999995

>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=97.17  E-value=3.5e-05  Score=57.81  Aligned_cols=51  Identities=18%  Similarity=0.100  Sum_probs=36.3

Q ss_pred             ceEeecCCCCccCC--CCCCCCcccccCCCCCCccceeEEEe-cCCeEEecCCCCC
Q psy3587          22 NIRLCDCPGLVFPS--KVPKPLQVVSVSRTPGHTKHFQTIFL-TDNIRLCDCPGLV   74 (195)
Q Consensus        22 ~v~vvG~PNVGKSs--N~L~~kk~v~vg~~PGvTk~~Q~i~l-~~~i~LlDtPGIv   74 (195)
                      +|+++|.|||||||  |.+.........++.|.+..  .+.. +-.+.+.|+||.-
T Consensus        19 KI~lvG~~~vGKTsLi~~l~~~~~~~~~~t~~~~~~--~~~~~~~~~~i~D~~g~~   72 (182)
T d1moza_          19 RILILGLDGAGKTTILYRLQIGEVVTTKPTIGFNVE--TLSYKNLKLNVWDLGGQT   72 (182)
T ss_dssp             EEEEEEETTSSHHHHHHHTCCSEEEEECSSTTCCEE--EEEETTEEEEEEEEC---
T ss_pred             EEEEECCCCCCHHHHHHHHhcCCCCccccccceEEE--EEeeCCEEEEEEeccccc
Confidence            79999999999999  99988777777776665532  2222 2358899999974

>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=97.13  E-value=8.9e-05  Score=54.58  Aligned_cols=55  Identities=15%  Similarity=-0.028  Sum_probs=38.2

Q ss_pred             ceEeecCCCCccCC--CCCCCCc-ccccCCCCCCccceeEEEecC---CeEEecCCCCCCC
Q psy3587          22 NIRLCDCPGLVFPS--KVPKPLQ-VVSVSRTPGHTKHFQTIFLTD---NIRLCDCPGLVFP   76 (195)
Q Consensus        22 ~v~vvG~PNVGKSs--N~L~~kk-~v~vg~~PGvTk~~Q~i~l~~---~i~LlDtPGIv~p   76 (195)
                      +|++||-|||||||  |.+...+ .....++.|.+.....+..+.   .+.+.||+|--..
T Consensus         4 Kv~liG~~~vGKSsLi~rl~~~~~~~~~~~ti~~~~~~~~~~~~~~~~~~~i~d~~g~~~~   64 (164)
T d1z2aa1           4 KMVVVGNGAVGKSSMIQRYCKGIFTKDYKKTIGVDFLERQIQVNDEDVRLMLWDTAGQEEF   64 (164)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHCCCCCCSSCCCSSSEEEEEEEETTEEEEEEEECCTTGGGT
T ss_pred             EEEEECCCCcCHHHHHHHHHhCCCCcccccccccccceeeeeecCceeeeeeeccCCccch
Confidence            58999999999999  8776433 344456666665544444433   5789999996543

>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=97.11  E-value=5.2e-05  Score=56.50  Aligned_cols=54  Identities=15%  Similarity=0.012  Sum_probs=33.9

Q ss_pred             CceEeecCCCCccCC--CCCCCCccc-ccCCCCCCccceeEEEecC---CeEEecCCCCC
Q psy3587          21 DNIRLCDCPGLVFPS--KVPKPLQVV-SVSRTPGHTKHFQTIFLTD---NIRLCDCPGLV   74 (195)
Q Consensus        21 ~~v~vvG~PNVGKSs--N~L~~kk~v-~vg~~PGvTk~~Q~i~l~~---~i~LlDtPGIv   74 (195)
                      .+|+++|-|||||||  |++...+-. .-.++-|+......+.++.   .+.+.||||--
T Consensus         4 ~Ki~vvG~~~vGKTsli~~~~~~~f~~~~~~Ti~~~~~~~~~~~~~~~~~l~i~D~~g~~   63 (170)
T d1i2ma_           4 FKLVLVGDGGTGKTTFVKRHLTGEFEKKYVATLGVEVHPLVFHTNRGPIKFNVWDTAGQE   63 (170)
T ss_dssp             EEEEEEECTTSSHHHHHHTTC-----CCEEEETTEEEEEEEECBTTCCEEEEEEECTTHH
T ss_pred             EEEEEECCCCcCHHHHHHHHHhCCCCcccccceecccccccccccccccccccccccccc
Confidence            379999999999999  888765422 2233334444444444444   58899999843

>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=97.08  E-value=4.5e-05  Score=56.75  Aligned_cols=52  Identities=12%  Similarity=0.038  Sum_probs=35.4

Q ss_pred             ceEeecCCCCccCC--CCCCCCccc-ccCCCCCCccceeEEEecC---CeEEecCCCC
Q psy3587          22 NIRLCDCPGLVFPS--KVPKPLQVV-SVSRTPGHTKHFQTIFLTD---NIRLCDCPGL   73 (195)
Q Consensus        22 ~v~vvG~PNVGKSs--N~L~~kk~v-~vg~~PGvTk~~Q~i~l~~---~i~LlDtPGI   73 (195)
                      +|+++|-|||||||  |.+...+.. ...++.+.+.....+..+.   .+.+.||||-
T Consensus         7 KI~lvG~~~vGKTsll~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~   64 (174)
T d2bmea1           7 KFLVIGNAGTGKSCLLHQFIEKKFKDDSNHTIGVEFGSKIINVGGKYVKLQIWDTAGQ   64 (174)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHSSCCTTCCCCSEEEEEEEEEEETTEEEEEEEEEECCS
T ss_pred             EEEEECCCCcCHHHHHHHHHhCCCCcccccccccceeeEEEEecCcceeEEEEECCCc
Confidence            69999999999999  887655433 3334445554444444432   5889999993

>d2g6ba1 c.37.1.8 (A:58-227) Rab26 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab26
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.07  E-value=7.7e-05  Score=55.29  Aligned_cols=52  Identities=13%  Similarity=0.073  Sum_probs=35.1

Q ss_pred             ceEeecCCCCccCC--CCCCCCccccc--CCCCCCccceeEEEecC---CeEEecCCCC
Q psy3587          22 NIRLCDCPGLVFPS--KVPKPLQVVSV--SRTPGHTKHFQTIFLTD---NIRLCDCPGL   73 (195)
Q Consensus        22 ~v~vvG~PNVGKSs--N~L~~kk~v~v--g~~PGvTk~~Q~i~l~~---~i~LlDtPGI   73 (195)
                      +|.+||-|||||||  |.+...+-..-  ..+.|.+.....+..+.   .+.+.||||-
T Consensus         8 Ki~vvG~~~vGKTsli~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~i~Dt~G~   66 (170)
T d2g6ba1           8 KVMLVGDSGVGKTCLLVRFKDGAFLAGTFISTVGIDFRNKVLDVDGVKVKLQMWDTAGQ   66 (170)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHSCCCCCCCCCCCSCEEEEEEEEETTEEEEEEEEECCCC
T ss_pred             EEEEECCCCcCHHHHHHHHHhCCCCcccccceeeeeeEEEEEEecCcEEEEEEEECCCc
Confidence            69999999999999  87765443322  33335554444455543   4778999994

>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=96.93  E-value=8.2e-05  Score=56.77  Aligned_cols=37  Identities=16%  Similarity=-0.022  Sum_probs=27.2

Q ss_pred             ceEeecCCCCccCC--CCCCC--CcccccCCCCCCccceeE
Q psy3587          22 NIRLCDCPGLVFPS--KVPKP--LQVVSVSRTPGHTKHFQT   58 (195)
Q Consensus        22 ~v~vvG~PNVGKSs--N~L~~--kk~v~vg~~PGvTk~~Q~   58 (195)
                      ||+++|-+|.||||  |+|.+  ......+...|.|.....
T Consensus         7 nIaiiGhvd~GKSTL~~~L~g~~~~~~~~~~~~g~t~~~~~   47 (195)
T d1kk1a3           7 NIGMVGHVDHGKTTLTKALTGVWTDTHSEELRRGITIKIGF   47 (195)
T ss_dssp             EEEEECSTTSSHHHHHHHHHTCCCC--CGGGGSCSSSCCEE
T ss_pred             EEEEEeccCCcHHHHHHHHHhhhhhhhHHHHHcCcccccch
Confidence            79999999999999  98865  344455667788876543

>d1z0fa1 c.37.1.8 (A:8-173) Rab14 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab14
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.93  E-value=0.00012  Score=53.91  Aligned_cols=52  Identities=12%  Similarity=0.083  Sum_probs=35.3

Q ss_pred             ceEeecCCCCccCC--CCCCCCcccc-cCCCCCCccceeEEEecC---CeEEecCCCC
Q psy3587          22 NIRLCDCPGLVFPS--KVPKPLQVVS-VSRTPGHTKHFQTIFLTD---NIRLCDCPGL   73 (195)
Q Consensus        22 ~v~vvG~PNVGKSs--N~L~~kk~v~-vg~~PGvTk~~Q~i~l~~---~i~LlDtPGI   73 (195)
                      +|.|+|-|||||||  |++.+.+-.. .....+.+.....+..+.   .+.+.||||.
T Consensus         6 KivlvG~~~vGKTsli~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~i~D~~g~   63 (166)
T d1z0fa1           6 KYIIIGDMGVGKSCLLHQFTEKKFMADCPHTIGVEFGTRIIEVSGQKIKLQIWDTAGQ   63 (166)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHSCCCSSCTTSCCCCEEEEEEEETTEEEEEEEEECTTG
T ss_pred             EEEEECCCCcCHHHHHHHHHhCCCCCcccccccccceeEEEEECCEEEEEEEeccCCc
Confidence            69999999999999  8877554332 233344444444455544   5788999994

>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=96.92  E-value=7.7e-05  Score=57.96  Aligned_cols=53  Identities=19%  Similarity=0.251  Sum_probs=37.7

Q ss_pred             ceEeecCCCCccCC--CCCC-------CCcccc----cCCCC-----CCccceeEEEe---cCCeEEecCCCCC
Q psy3587          22 NIRLCDCPGLVFPS--KVPK-------PLQVVS----VSRTP-----GHTKHFQTIFL---TDNIRLCDCPGLV   74 (195)
Q Consensus        22 ~v~vvG~PNVGKSs--N~L~-------~kk~v~----vg~~P-----GvTk~~Q~i~l---~~~i~LlDtPGIv   74 (195)
                      ||+++|=+|.||||  |+|.       +...+.    ....|     |+|.....+.+   +..+.|+||||-.
T Consensus         5 ni~iiGhvd~GKSTL~~~Ll~~~g~~~~~~~~~~~~~~d~~~eE~~rgiTi~~~~~~~~~~~~~i~iiDtPGh~   78 (204)
T d2c78a3           5 NVGTIGHVDHGKTTLTAALTYVAAAENPNVEVKDYGDIDKAPEERARGITINTAHVEYETAKRHYSHVDCPGHA   78 (204)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHHHHSCTTSCCCCHHHHSCSHHHHHHTCCCSCEEEEEECSSCEEEEEECCCSG
T ss_pred             EEEEEeCCCCcHHHHHHHHHHHhhhccCCcchhhhhhcccchHHhcCCeEEEeeEEEEEeCCeEEEEEeCCCch
Confidence            79999999999999  7763       111111    12223     99988877655   4579999999955

>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=96.85  E-value=0.00015  Score=53.85  Aligned_cols=53  Identities=13%  Similarity=0.037  Sum_probs=35.9

Q ss_pred             ceEeecCCCCccCC--CCCCCCc-ccccCCCCCCccceeEEEecC---CeEEecCCCCC
Q psy3587          22 NIRLCDCPGLVFPS--KVPKPLQ-VVSVSRTPGHTKHFQTIFLTD---NIRLCDCPGLV   74 (195)
Q Consensus        22 ~v~vvG~PNVGKSs--N~L~~kk-~v~vg~~PGvTk~~Q~i~l~~---~i~LlDtPGIv   74 (195)
                      +|+|||-|||||||  |.+...+ ......++|.+.....+..+.   .+.+.|++|-.
T Consensus         8 KI~vvG~~~vGKSSli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~d~~g~~   66 (174)
T d1wmsa_           8 KVILLGDGGVGKSSLMNRYVTNKFDTQLFHTIGVEFLNKDLEVDGHFVTMQIWDTAGQE   66 (174)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHSCCCC----CCSEEEEEEEEEETTEEEEEEEEECCCCG
T ss_pred             EEEEECCCCCCHHHHHHHHHhCCCCCccccceeeeeeeeeeeecCceeeEeeecccCcc
Confidence            58999999999999  8776443 444556667776565565544   35789999954

>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=96.84  E-value=0.00011  Score=54.28  Aligned_cols=53  Identities=11%  Similarity=0.041  Sum_probs=32.4

Q ss_pred             ceEeecCCCCccCC--CCCCCCc-ccccCCCCCCccceeEEEecC----CeEEecCCCCC
Q psy3587          22 NIRLCDCPGLVFPS--KVPKPLQ-VVSVSRTPGHTKHFQTIFLTD----NIRLCDCPGLV   74 (195)
Q Consensus        22 ~v~vvG~PNVGKSs--N~L~~kk-~v~vg~~PGvTk~~Q~i~l~~----~i~LlDtPGIv   74 (195)
                      +|+++|-|||||||  |.+.+.+ .....+++|.+..........    .+.+.||||.-
T Consensus         4 Ki~~vG~~~vGKSsLi~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~~~d~~g~~   63 (175)
T d1ky3a_           4 KVIILGDSGVGKTSLMHRYVNDKYSQQYKATIGADFLTKEVTVDGDKVATMQVWDTAGQE   63 (175)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHSCCCTTC---CCCSCEEEEECCSSSCCEEEEEECCC---
T ss_pred             EEEEECCCCcCHHHHHHHHHcCCCCCccCcccccceeeeeeeecCcccccceeeccCCch
Confidence            58999999999999  8876544 334455666654444443322    47789999953

>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=96.83  E-value=8.4e-05  Score=55.13  Aligned_cols=51  Identities=16%  Similarity=0.199  Sum_probs=29.7

Q ss_pred             ceEeecCCCCccCC--CCCCCCcccccCCCCCCccceeEEEecC---CeEEecCCCC
Q psy3587          22 NIRLCDCPGLVFPS--KVPKPLQVVSVSRTPGHTKHFQTIFLTD---NIRLCDCPGL   73 (195)
Q Consensus        22 ~v~vvG~PNVGKSs--N~L~~kk~v~vg~~PGvTk~~Q~i~l~~---~i~LlDtPGI   73 (195)
                      +|+++|-|||||||  |.+.+........+.+.+. ...+.++.   .+.+.||||-
T Consensus         3 Ki~lvG~~~vGKTsLi~~~~~~~~~~~~~~~~~~~-~~~i~~~~~~~~l~i~D~~g~   58 (168)
T d2gjsa1           3 KVLLLGAPGVGKSALARIFGGVEDGPEAEAAGHTY-DRSIVVDGEEASLMVYDIWEQ   58 (168)
T ss_dssp             EEEEECCTTSSHHHHHHHHHTC---------CEEE-EEEEEETTEEEEEEEEECC--
T ss_pred             EEEEECCCCcCHHHHHHHHhCCccCCcCCeeeeee-cceeeccccccceeeeecccc
Confidence            58999999999999  8877766544444444443 33455543   5788999995

>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=96.77  E-value=0.00014  Score=53.32  Aligned_cols=54  Identities=9%  Similarity=-0.010  Sum_probs=33.0

Q ss_pred             ceEeecCCCCccCC--CCCCCCcccccCCCCCCccceeEEEec-CCeEEecCCCCCCCC
Q psy3587          22 NIRLCDCPGLVFPS--KVPKPLQVVSVSRTPGHTKHFQTIFLT-DNIRLCDCPGLVFPS   77 (195)
Q Consensus        22 ~v~vvG~PNVGKSs--N~L~~kk~v~vg~~PGvTk~~Q~i~l~-~~i~LlDtPGIv~p~   77 (195)
                      +|.+||-|||||||  |+|.+.....+.++.+.|.  ..+..+ ..+...|++|.....
T Consensus        15 kI~lvG~~~vGKTsLl~~l~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~   71 (186)
T d1f6ba_          15 KLVFLGLDNAGKTTLLHMLKDDRLGQHVPTLHPTS--EELTIAGMTFTTFDLGGHIQAR   71 (186)
T ss_dssp             EEEEEEETTSSHHHHHHHHSCC------CCCCCSC--EEEEETTEEEEEEEECC----C
T ss_pred             EEEEECCCCCCHHHHHHHHhCCCCcceecccccce--eEEEecccccccccccchhhhh
Confidence            79999999999999  9999988877766666654  344443 356677777766443

>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=96.68  E-value=0.00024  Score=57.59  Aligned_cols=30  Identities=7%  Similarity=-0.173  Sum_probs=22.9

Q ss_pred             ceEeecCCCCccCC--CCCCCCcccccCCCCC
Q psy3587          22 NIRLCDCPGLVFPS--KVPKPLQVVSVSRTPG   51 (195)
Q Consensus        22 ~v~vvG~PNVGKSs--N~L~~kk~v~vg~~PG   51 (195)
                      +|.|||-.+.||||  |+|.|.....++..|.
T Consensus        26 ~ivVvG~~ssGKSSliNaLlG~~~lP~~~~~~   57 (306)
T d1jwyb_          26 QIVVVGSQSSGKSSVLENIVGRDFLPRGSGIV   57 (306)
T ss_dssp             EEEEEECSSSSHHHHHHHHHTSCCCCC-----
T ss_pred             eEEEEeCCCCCHHHHHHHHhCCCCCCCCCCcc
Confidence            68999999999999  9999988777777653

>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=96.68  E-value=0.00018  Score=53.04  Aligned_cols=53  Identities=13%  Similarity=0.034  Sum_probs=38.0

Q ss_pred             ceEeecCCCCccCC--CCCCCCc-ccccCCCCCCccceeEEEecC---CeEEecCCCCC
Q psy3587          22 NIRLCDCPGLVFPS--KVPKPLQ-VVSVSRTPGHTKHFQTIFLTD---NIRLCDCPGLV   74 (195)
Q Consensus        22 ~v~vvG~PNVGKSs--N~L~~kk-~v~vg~~PGvTk~~Q~i~l~~---~i~LlDtPGIv   74 (195)
                      +|.+||-|||||||  +.+...+ .-...+++|..-....+..+.   .+.+.||+|.-
T Consensus         5 Ki~vvG~~~vGKTsLi~~~~~~~f~~~~~~t~~~~~~~~~i~~~~~~~~l~i~d~~g~~   63 (170)
T d1ek0a_           5 KLVLLGEAAVGKSSIVLRFVSNDFAENKEPTIGAAFLTQRVTINEHTVKFEIWDTAGQE   63 (170)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHSCCCTTCCCCSSEEEEEEEEEETTEEEEEEEEEECCSG
T ss_pred             EEEEECCCCcCHHHHHHHHHhCCCCccccccccceeeccccccccccccccccccCCch
Confidence            68999999999999  7766544 444566777654444455443   58899999964

>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=96.67  E-value=0.00023  Score=52.84  Aligned_cols=53  Identities=11%  Similarity=-0.019  Sum_probs=33.5

Q ss_pred             ceEeecCCCCccCC--CCCCCCcccc-cCCCCCCccceeEEEecC---CeEEecCCCCCC
Q psy3587          22 NIRLCDCPGLVFPS--KVPKPLQVVS-VSRTPGHTKHFQTIFLTD---NIRLCDCPGLVF   75 (195)
Q Consensus        22 ~v~vvG~PNVGKSs--N~L~~kk~v~-vg~~PGvTk~~Q~i~l~~---~i~LlDtPGIv~   75 (195)
                      +|+|||-|||||||  |.+...+-.. ..++. .......+.++.   .+.++||+|.--
T Consensus         8 Kv~lvG~~~vGKTsLi~r~~~~~f~~~~~~t~-~~~~~~~~~~~~~~~~l~~~d~~g~~~   66 (173)
T d2fn4a1           8 KLVVVGGGGVGKSALTIQFIQSYFVSDYDPTI-EDSYTKICSVDGIPARLDILDTAGQEE   66 (173)
T ss_dssp             EEEEEECTTSSHHHHHHHHHHSSCCSSCCTTC-CEEEEEEEEETTEEEEEEEEECCCTTT
T ss_pred             EEEEECCCCcCHHHHHHHHHhCCCCccccccc-ccceeeEeccCCeeeeeeccccccccc
Confidence            69999999999999  7766444222 22222 122233455543   477899999754

>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=96.61  E-value=0.0002  Score=53.30  Aligned_cols=54  Identities=17%  Similarity=0.042  Sum_probs=33.5

Q ss_pred             cCceEeecCCCCccCC--CCCCCCccccc-CCCCCCccceeEEEecC---CeEEecCCCCC
Q psy3587          20 TDNIRLCDCPGLVFPS--KVPKPLQVVSV-SRTPGHTKHFQTIFLTD---NIRLCDCPGLV   74 (195)
Q Consensus        20 ~~~v~vvG~PNVGKSs--N~L~~kk~v~v-g~~PGvTk~~Q~i~l~~---~i~LlDtPGIv   74 (195)
                      ..+|+|+|-+||||||  |.+...+-... .++-| ......+.++.   .+.+.|++|--
T Consensus         2 r~KivvvG~~~vGKTsLi~~~~~~~f~~~~~~t~~-~~~~~~~~~~~~~~~l~i~D~~g~~   61 (177)
T d1kmqa_           2 RKKLVIVGDGACGKTCLLIVNSKDQFPEVYVPTVF-ENYVADIEVDGKQVELALWDTAGLE   61 (177)
T ss_dssp             EEEEEEEESTTSSHHHHHHHHHHSCCCSSCCCCSE-EEEEEEEEETTEEEEEEEEEECCSG
T ss_pred             cEEEEEECCCCcCHHHHHHHHHhCCCCCCcCCcee-eeccccccccccceeeeccccCccc
Confidence            4579999999999999  77665443322 22222 12222233433   58999999963

>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=96.53  E-value=0.00032  Score=51.43  Aligned_cols=48  Identities=19%  Similarity=0.072  Sum_probs=32.1

Q ss_pred             ceEeecCCCCccCC--CCCCCCccc-ccCCCCCCccceeEE--EecC-CeEEecCCCC
Q psy3587          22 NIRLCDCPGLVFPS--KVPKPLQVV-SVSRTPGHTKHFQTI--FLTD-NIRLCDCPGL   73 (195)
Q Consensus        22 ~v~vvG~PNVGKSs--N~L~~kk~v-~vg~~PGvTk~~Q~i--~l~~-~i~LlDtPGI   73 (195)
                      +|+++|-|||||||  |.|.+.+.. ...+    |.+....  ..++ .+.++|+||-
T Consensus         4 ki~i~G~~~~GKTsLl~~l~~~~~~~~~~~----T~~~~~~~~~~~~~~~~i~D~~G~   57 (164)
T d1zd9a1           4 ELTLVGLQYSGKTTFVNVIASGQFNEDMIP----TVGFNMRKITKGNVTIKLWDIGGQ   57 (164)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHSCCCCSCCC----CCSEEEEEEEETTEEEEEEEECCS
T ss_pred             EEEEECCCCCCHHHHHHHHHcCCCCCcccc----cceeeeeeeeeeeEEEEEeecccc
Confidence            68999999999999  888665533 2333    4333333  2332 5779999993

>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=96.52  E-value=0.00023  Score=52.78  Aligned_cols=56  Identities=11%  Similarity=-0.027  Sum_probs=34.4

Q ss_pred             ceEeecCCCCccCC--CCCCCCcccccC-CCCCCccceeEEEec---CCeEEecCCCCCCCC
Q psy3587          22 NIRLCDCPGLVFPS--KVPKPLQVVSVS-RTPGHTKHFQTIFLT---DNIRLCDCPGLVFPS   77 (195)
Q Consensus        22 ~v~vvG~PNVGKSs--N~L~~kk~v~vg-~~PGvTk~~Q~i~l~---~~i~LlDtPGIv~p~   77 (195)
                      +|.|||-|||||||  |++...+..... ...+.+.........   -.+.+.|++|--...
T Consensus         5 KivvvG~~~vGKTsli~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~d~~g~~~~~   66 (173)
T d2a5ja1           5 KYIIIGDTGVGKSCLLLQFTDKRFQPVHDLTIGVEFGARMVNIDGKQIKLQIWDTAGQESFR   66 (173)
T ss_dssp             EEEEESSTTSSHHHHHHHHHHSCCCC-----CCSSEEEEEEEETTEEEEEEEECCTTGGGTS
T ss_pred             EEEEECCCCcCHHHHHHHHhcCCCCCCcccceeeccceeeeeeeeeEEEEEeecccCccchh
Confidence            69999999999999  877655433222 223333333333333   257899999976443

>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=96.51  E-value=0.00026  Score=51.78  Aligned_cols=53  Identities=17%  Similarity=0.076  Sum_probs=35.9

Q ss_pred             ceEeecCCCCccCC--CCCCCCccc-ccCCCCCCccceeEEEecC---CeEEecCCCCC
Q psy3587          22 NIRLCDCPGLVFPS--KVPKPLQVV-SVSRTPGHTKHFQTIFLTD---NIRLCDCPGLV   74 (195)
Q Consensus        22 ~v~vvG~PNVGKSs--N~L~~kk~v-~vg~~PGvTk~~Q~i~l~~---~i~LlDtPGIv   74 (195)
                      +|.++|-|||||||  |++.+.+-. ...+..|.+.....+..+.   .+.+.|+||.-
T Consensus         2 Kv~vvG~~~vGKTsLi~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~d~~g~~   60 (164)
T d1yzqa1           2 KLVFLGEQSVGKTSLITRFMYDSFDNTYQATIGIDFLSKTMYLEDRTIRLQLWDTAGQE   60 (164)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHSCCCSSCCCCCSEEEEEEEEECSSCEEEEEEEEECCSG
T ss_pred             EEEEECCCCcCHHHHHHHHHhCCCCCccccceeeeccceeeccCCCceeeeecccCCcc
Confidence            68999999999999  887755432 2233445555555555543   46799999964

>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=96.40  E-value=0.00035  Score=51.49  Aligned_cols=53  Identities=19%  Similarity=-0.004  Sum_probs=35.8

Q ss_pred             ceEeecCCCCccCC--CCCCCCc-ccccCCCCCCccceeEEEec---CCeEEecCCCCC
Q psy3587          22 NIRLCDCPGLVFPS--KVPKPLQ-VVSVSRTPGHTKHFQTIFLT---DNIRLCDCPGLV   74 (195)
Q Consensus        22 ~v~vvG~PNVGKSs--N~L~~kk-~v~vg~~PGvTk~~Q~i~l~---~~i~LlDtPGIv   74 (195)
                      +|++||-|||||||  +.+...+ .....++.|.+.....+..+   -.+.+.|+||--
T Consensus         8 Ki~vvG~~~vGKTsLi~~l~~~~f~~~~~~t~~~~~~~~~~~~~~~~~~~~~~d~~g~~   66 (170)
T d1r2qa_           8 KLVLLGESAVGKSSLVLRFVKGQFHEFQESTIGAAFLTQTVCLDDTTVKFEIWDTAGQE   66 (170)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHSCCCTTCCCCSSEEEEEEEEEETTEEEEEEEEEECCSG
T ss_pred             EEEEECCCCcCHHHHHHHHHhCCCCcccccccccccccceeeccceEEEEEeccCCCch
Confidence            79999999999999  8776444 44455555655433333332   258889999953

>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=96.34  E-value=0.00041  Score=51.00  Aligned_cols=54  Identities=17%  Similarity=0.052  Sum_probs=36.8

Q ss_pred             ceEeecCCCCccCC--CCCCCCc-ccccCCCCCCccceeEEEecC---CeEEecCCCCCC
Q psy3587          22 NIRLCDCPGLVFPS--KVPKPLQ-VVSVSRTPGHTKHFQTIFLTD---NIRLCDCPGLVF   75 (195)
Q Consensus        22 ~v~vvG~PNVGKSs--N~L~~kk-~v~vg~~PGvTk~~Q~i~l~~---~i~LlDtPGIv~   75 (195)
                      +|.|||-|||||||  |.+...+ .....++.+.+.....+..+.   .+.+.||+|---
T Consensus         6 Ki~lvG~~~vGKTsli~rl~~~~f~~~~~~t~~~~~~~~~~~~~~~~~~~~i~d~~g~~~   65 (167)
T d1z0ja1           6 KVCLLGDTGVGKSSIMWRFVEDSFDPNINPTIGASFMTKTVQYQNELHKFLIWDTAGLER   65 (167)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHSCCCTTCCCCCSEEEEEEEEEETTEEEEEEEEEECCSGG
T ss_pred             EEEEECCCCcCHHHHHHHHHhCCCCcccccccccccccccccccccccceeeeecCCchh
Confidence            68999999999999  8876544 334445556555544444443   356889999653

>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=96.33  E-value=0.00024  Score=52.22  Aligned_cols=55  Identities=11%  Similarity=0.004  Sum_probs=34.8

Q ss_pred             CceEeecCCCCccCC--CCCCCCccc-ccCCCCCCccceeEEEecC--CeEEecCCCCCC
Q psy3587          21 DNIRLCDCPGLVFPS--KVPKPLQVV-SVSRTPGHTKHFQTIFLTD--NIRLCDCPGLVF   75 (195)
Q Consensus        21 ~~v~vvG~PNVGKSs--N~L~~kk~v-~vg~~PGvTk~~Q~i~l~~--~i~LlDtPGIv~   75 (195)
                      .+|++||-|||||||  |++.+..-. ...++.|.+........+.  .+.+.|+||.-.
T Consensus         4 ~Ki~viG~~~vGKTsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~d~~~~~~   63 (166)
T d1ctqa_           4 YKLVVVGAGGVGKSALTIQLIQNHFVDEYDPTIEDSYRKQVVIDGETCLLDILDTAGQEE   63 (166)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHCCCCCSCCCCSEEEEEEEEEETTEEEEEEEEEECCCGG
T ss_pred             eEEEEECCCCCCHHHHHHHHHhCCCCCccCCccceeeccceeeeceeeeeeeeeccCccc
Confidence            379999999999999  887755432 2344444443333222222  477889888764

>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=96.31  E-value=0.00055  Score=50.16  Aligned_cols=52  Identities=10%  Similarity=-0.005  Sum_probs=32.5

Q ss_pred             ceEeecCCCCccCC--CCCCCCccc-ccCCCCCCccceeEEEecC---CeEEecCCCCC
Q psy3587          22 NIRLCDCPGLVFPS--KVPKPLQVV-SVSRTPGHTKHFQTIFLTD---NIRLCDCPGLV   74 (195)
Q Consensus        22 ~v~vvG~PNVGKSs--N~L~~kk~v-~vg~~PGvTk~~Q~i~l~~---~i~LlDtPGIv   74 (195)
                      +|.+||-|||||||  |++.+.+-. ...++-|-+ ....+.++.   .+.+.|++|--
T Consensus         5 Ki~lvG~~~vGKTsLi~r~~~~~f~~~~~~t~~~~-~~~~~~~~~~~~~l~~~d~~g~~   62 (167)
T d1kaoa_           5 KVVVLGSGGVGKSALTVQFVTGTFIEKYDPTIEDF-YRKEIEVDSSPSVLEILDTAGTE   62 (167)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHSCCCSCCCTTCCEE-EEEEEEETTEEEEEEEEECCCTT
T ss_pred             EEEEECCCCcCHHHHHHHHHhCCCCCccCCceeee-eeeeeecCcceEeeccccCCCcc
Confidence            79999999999999  877654422 222222322 222334443   57889999944

>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=96.29  E-value=0.00053  Score=50.36  Aligned_cols=55  Identities=13%  Similarity=-0.086  Sum_probs=36.7

Q ss_pred             CceEeecCCCCccCC--CCCCCCc-ccccCCCCCCccceeEEEecC---CeEEecCCCCCC
Q psy3587          21 DNIRLCDCPGLVFPS--KVPKPLQ-VVSVSRTPGHTKHFQTIFLTD---NIRLCDCPGLVF   75 (195)
Q Consensus        21 ~~v~vvG~PNVGKSs--N~L~~kk-~v~vg~~PGvTk~~Q~i~l~~---~i~LlDtPGIv~   75 (195)
                      .+|.|||-|||||||  |.+.+.+ .....++.|.......+..+.   .+.+.|++|--.
T Consensus         4 fKivlvG~~~vGKTsLi~r~~~~~f~~~~~~t~~~~~~~~~~~~~~~~~~~~~~d~~g~~~   64 (167)
T d1z08a1           4 FKVVLLGEGCVGKTSLVLRYCENKFNDKHITTLGASFLTKKLNIGGKRVNLAIWDTAGQER   64 (167)
T ss_dssp             EEEEEECCTTSCHHHHHHHHHHCCCCSSCCCCCSCEEEEEEEESSSCEEEEEEEECCCC--
T ss_pred             EEEEEECCCCcCHHHHHHHHHhCCCCcccccccccchheeeeccCCccceeeeeccCCcce
Confidence            368999999999999  7766544 333444555555555555443   577999999753

>d1d2ea3 c.37.1.8 (A:55-250) Elongation factor Tu (EF-Tu), N-terminal (G) domain {Cow (Bos taurus), mitochondrial [TaxId: 9913]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Elongation factor Tu (EF-Tu), N-terminal (G) domain
species: Cow (Bos taurus), mitochondrial [TaxId: 9913]

Probab=96.22  E-value=0.00022  Score=55.09  Aligned_cols=53  Identities=15%  Similarity=0.110  Sum_probs=38.0

Q ss_pred             ceEeecCCCCccCC--CCCCC------C----c-----ccccCCCCCCccceeEEEe---cCCeEEecCCCCC
Q psy3587          22 NIRLCDCPGLVFPS--KVPKP------L----Q-----VVSVSRTPGHTKHFQTIFL---TDNIRLCDCPGLV   74 (195)
Q Consensus        22 ~v~vvG~PNVGKSs--N~L~~------k----k-----~v~vg~~PGvTk~~Q~i~l---~~~i~LlDtPGIv   74 (195)
                      ||+++|=+|.||||  |+|.+      .    .     ....+...|+|.....+..   +..+.++||||-.
T Consensus         5 ni~iiGHvd~GKSTL~~~l~~~~~~~~~~~~~~~~~~~~~~~Er~rgiTi~~~~~~~~~~~~~~~~iDtPGh~   77 (196)
T d1d2ea3           5 NVGTIGHVDHGKTTLTAAITKILAEGGGAKFKKYEEIDNAPEERARGITINAAHVEYSTAARHYAHTDCPGHA   77 (196)
T ss_dssp             EEEEESSTTSSHHHHHHHHHHHHHHTTSBCCCCHHHHHSCCEEEETTEEEECEEEEEECSSCEEEEEECSSHH
T ss_pred             EEEEEeCCCCcHHHHHHHHHHHHHHcCcchhhhhhhcccchhhcCCCccCCcceEEEEeceeeEEeecCcchH
Confidence            69999999999999  87642      0    0     1123445588877776655   4579999999954

>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=96.15  E-value=0.00067  Score=49.67  Aligned_cols=54  Identities=19%  Similarity=0.049  Sum_probs=34.8

Q ss_pred             ceEeecCCCCccCC--CCCCCCcccc-cCCCCCCccceeEEEecC---CeEEecCCCCCCC
Q psy3587          22 NIRLCDCPGLVFPS--KVPKPLQVVS-VSRTPGHTKHFQTIFLTD---NIRLCDCPGLVFP   76 (195)
Q Consensus        22 ~v~vvG~PNVGKSs--N~L~~kk~v~-vg~~PGvTk~~Q~i~l~~---~i~LlDtPGIv~p   76 (195)
                      +|+|+|-+||||||  |.+...+-.. ..++.|.. ....+.++.   .+.+.||+|.-..
T Consensus         6 Kv~liG~~~vGKTsLl~~~~~~~f~~~~~~t~~~~-~~~~~~~~~~~~~l~i~d~~g~~~~   65 (167)
T d1xtqa1           6 KIAILGYRSVGKSSLTIQFVEGQFVDSYDPTIENT-FTKLITVNGQEYHLQLVDTAGQDEY   65 (167)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHSCCCSCCCSSCCEE-EEEEEEETTEEEEEEEEECCCCCTT
T ss_pred             EEEEECCCCcCHHHHHHHHHhCCCCcccCcceecc-cceEEecCcEEEEeeeccccccccc
Confidence            69999999999999  8876544332 23333332 123344543   4778999997643

>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=96.14  E-value=0.00063  Score=49.54  Aligned_cols=53  Identities=13%  Similarity=-0.047  Sum_probs=38.1

Q ss_pred             ceEeecCCCCccCC--CCCCCCc-ccccCCCCCCccceeEEEec---CCeEEecCCCCC
Q psy3587          22 NIRLCDCPGLVFPS--KVPKPLQ-VVSVSRTPGHTKHFQTIFLT---DNIRLCDCPGLV   74 (195)
Q Consensus        22 ~v~vvG~PNVGKSs--N~L~~kk-~v~vg~~PGvTk~~Q~i~l~---~~i~LlDtPGIv   74 (195)
                      +|+++|-+||||||  |.+...+ ......++|.+.....+.+.   ..+.+.|++|.-
T Consensus         4 Kv~liG~~~vGKTsLl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   62 (165)
T d1z06a1           4 KIIVIGDSNVGKTCLTYRFCAGRFPDRTEATIGVDFRERAVDIDGERIKIQLWDTAGQE   62 (165)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHSSCCSSCCCCCSCCEEEEEEEETTEEEEEEEEECCCSH
T ss_pred             EEEEECCCCcCHHHHHHHHHhCCCCCccCcccccccceeeeeeeccceEEEEEeccCch
Confidence            58999999999999  8776444 44556666766655555543   368889998843

>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=96.12  E-value=0.00072  Score=49.86  Aligned_cols=53  Identities=13%  Similarity=0.058  Sum_probs=33.2

Q ss_pred             ceEeecCCCCccCC--CCCCCCc-ccccCCCCCCccceeEEEecC---CeEEecCCCCCC
Q psy3587          22 NIRLCDCPGLVFPS--KVPKPLQ-VVSVSRTPGHTKHFQTIFLTD---NIRLCDCPGLVF   75 (195)
Q Consensus        22 ~v~vvG~PNVGKSs--N~L~~kk-~v~vg~~PGvTk~~Q~i~l~~---~i~LlDtPGIv~   75 (195)
                      +|.|||-|||||||  |.+...+ .....++.|.+- ...+.++.   .+.+.|+||..-
T Consensus         6 KivlvG~~~vGKTsli~~~~~~~f~~~~~~T~~~~~-~~~~~~~~~~~~l~i~d~~g~~~   64 (168)
T d1u8za_           6 KVIMVGSGGVGKSALTLQFMYDEFVEDYEPTKADSY-RKKVVLDGEEVQIDILDTAGQED   64 (168)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHSCCCSCCCTTCCEEE-EEEEEETTEEEEEEEEECCC---
T ss_pred             EEEEECCCCcCHHHHHHHHHhCCCCcccCCcccccc-ccccccccccccccccccccccc
Confidence            69999999999999  8765443 333344555442 23344443   577899999753

>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=96.05  E-value=0.00087  Score=50.35  Aligned_cols=56  Identities=14%  Similarity=0.019  Sum_probs=34.0

Q ss_pred             eEEEEecCceEeecCCCCccCC--CCCCCCcc-cccCCCCCCccceeEEEecC---CeEEecCCCCC
Q psy3587          14 FQTIFLTDNIRLCDCPGLVFPS--KVPKPLQV-VSVSRTPGHTKHFQTIFLTD---NIRLCDCPGLV   74 (195)
Q Consensus        14 ~q~~~l~~~v~vvG~PNVGKSs--N~L~~kk~-v~vg~~PGvTk~~Q~i~l~~---~i~LlDtPGIv   74 (195)
                      ||+|    +|.++|-+||||||  |.+...+- ....++-|.. ...++.++.   .+.+.||||--
T Consensus         1 m~~i----KvvllG~~~vGKTSli~r~~~~~f~~~~~~t~~~~-~~~~~~~~~~~~~l~i~D~~g~~   62 (191)
T d2ngra_           1 MQTI----KCVVVGDGAVGKTCLLISYTTNKFPSEYVPTVFDN-YAVTVMIGGEPYTLGLFDTAGQE   62 (191)
T ss_dssp             CEEE----EEEEEESTTSSHHHHHHHHHHSCCCSSCCCCSEEE-EEEEEEETTEEEEEEEEEECCSG
T ss_pred             CCce----EEEEECCCCcCHHHHHHHHHhCCCCCCcCCceeee-cceeEeeCCceeeeeccccccch
Confidence            4555    58999999999999  77765442 2222222321 122233332   58899999864

>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=96.02  E-value=0.0012  Score=52.92  Aligned_cols=29  Identities=7%  Similarity=-0.153  Sum_probs=26.3

Q ss_pred             ceEeecCCCCccCC--CCCCCCcccccCCCC
Q psy3587          22 NIRLCDCPGLVFPS--KVPKPLQVVSVSRTP   50 (195)
Q Consensus        22 ~v~vvG~PNVGKSs--N~L~~kk~v~vg~~P   50 (195)
                      +|.|||-=+.||||  |+|.|.....+|..|
T Consensus        28 ~ivvvG~~SsGKSsliNaLlg~~~lP~~~~~   58 (299)
T d2akab1          28 QIAVVGGQSAGKSSVLENFVGRDFLPRGSGI   58 (299)
T ss_dssp             EEEEEEBTTSCHHHHHHHHHTSCCSCCCSSC
T ss_pred             eEEEEcCCCCCHHHHHHHHhCCCcCCCCCCc
Confidence            68999999999999  999998888888877

>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=96.00  E-value=0.00079  Score=49.38  Aligned_cols=53  Identities=17%  Similarity=0.008  Sum_probs=33.5

Q ss_pred             ceEeecCCCCccCC--CCCCCCccc-ccCCCCCCccceeEEEecC---CeEEecCCCCCC
Q psy3587          22 NIRLCDCPGLVFPS--KVPKPLQVV-SVSRTPGHTKHFQTIFLTD---NIRLCDCPGLVF   75 (195)
Q Consensus        22 ~v~vvG~PNVGKSs--N~L~~kk~v-~vg~~PGvTk~~Q~i~l~~---~i~LlDtPGIv~   75 (195)
                      +|++||-|||||||  |++.+.+-. ...++-|... ..++.++.   .+.+.|++|.-.
T Consensus         4 Ki~viG~~~vGKTsLi~r~~~~~f~~~~~~T~~~~~-~~~~~~~~~~~~l~~~d~~g~~~   62 (171)
T d2erxa1           4 RVAVFGAGGVGKSSLVLRFVKGTFRESYIPTVEDTY-RQVISCDKSICTLQITDTTGSHQ   62 (171)
T ss_dssp             EEEEECCTTSSHHHHHHHHHTCCCCSSCCCCSCEEE-EEEEEETTEEEEEEEEECCSCSS
T ss_pred             EEEEECCCCCCHHHHHHHHHhCCCCCccCcceeecc-ccceeeccccceecccccccccc
Confidence            68999999999999  877654422 2233334332 22334443   467799999653

>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=95.97  E-value=0.001  Score=49.72  Aligned_cols=53  Identities=8%  Similarity=-0.162  Sum_probs=32.9

Q ss_pred             CceEeecCCCCccCC--CCCCCCcc-cccCCCCCCccceeEEEecC---CeEEecCCCCC
Q psy3587          21 DNIRLCDCPGLVFPS--KVPKPLQV-VSVSRTPGHTKHFQTIFLTD---NIRLCDCPGLV   74 (195)
Q Consensus        21 ~~v~vvG~PNVGKSs--N~L~~kk~-v~vg~~PGvTk~~Q~i~l~~---~i~LlDtPGIv   74 (195)
                      .+|+|||-+||||||  |.+...+- ....++-|.. ...++..+.   .+.+.||||--
T Consensus        10 ~Ki~lvG~~~vGKTsLi~r~~~~~f~~~~~~Ti~~~-~~~~~~~~~~~~~l~i~D~~g~e   68 (185)
T d2atxa1          10 LKCVVVGDGAVGKTCLLMSYANDAFPEEYVPTVFDH-YAVSVTVGGKQYLLGLYDTAGQE   68 (185)
T ss_dssp             EEEEEEECTTSSHHHHHHHHHHSSCCCSCCCSSCCC-EEEEEESSSCEEEEEEECCCCSS
T ss_pred             EEEEEECCCCCCHHHHHHHHhhCCCCCcCCCceeee-eeEEEeeCCceEEeecccccccc
Confidence            379999999999999  77654332 2222333333 223344333   37799999963

>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=95.87  E-value=0.00077  Score=49.62  Aligned_cols=52  Identities=13%  Similarity=0.092  Sum_probs=32.6

Q ss_pred             ceEeecCCCCccCC--CCCCCCcc-cccCCCCCCccceeEEEecC---CeEEecCCCCC
Q psy3587          22 NIRLCDCPGLVFPS--KVPKPLQV-VSVSRTPGHTKHFQTIFLTD---NIRLCDCPGLV   74 (195)
Q Consensus        22 ~v~vvG~PNVGKSs--N~L~~kk~-v~vg~~PGvTk~~Q~i~l~~---~i~LlDtPGIv   74 (195)
                      +|.+||-|||||||  |.+...+- -...++-|..-..+. ..+.   .+.+.||+|..
T Consensus         4 Ki~lvG~~~vGKTsli~r~~~~~f~~~~~pTi~~~~~~~~-~~~~~~~~l~i~D~~g~~   61 (168)
T d2atva1           4 KLAIFGRAGVGKSALVVRFLTKRFIWEYDPTLESTYRHQA-TIDDEVVSMEILDTAGQE   61 (168)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHSCCCSCCCTTCCEEEEEEE-EETTEEEEEEEEECCCCC
T ss_pred             EEEEECCCCCCHHHHHHHHHhCCCCCccCCceeccccccc-cccccceEEEEeeccccc
Confidence            68999999999999  77665442 222333344322222 2232   57899999964

>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=95.79  E-value=0.0008  Score=49.50  Aligned_cols=53  Identities=11%  Similarity=0.028  Sum_probs=33.3

Q ss_pred             ceEeecCCCCccCC--CCCCCCc-ccccCCCCCCccceeEEEecC---CeEEecCCCCCC
Q psy3587          22 NIRLCDCPGLVFPS--KVPKPLQ-VVSVSRTPGHTKHFQTIFLTD---NIRLCDCPGLVF   75 (195)
Q Consensus        22 ~v~vvG~PNVGKSs--N~L~~kk-~v~vg~~PGvTk~~Q~i~l~~---~i~LlDtPGIv~   75 (195)
                      +|+|||-|||||||  |.+...+ .....++.|.+. ..++.++.   .+.+.|++|...
T Consensus         7 Ki~lvG~~~vGKTsLi~r~~~~~f~~~~~~t~~~~~-~~~~~~~~~~~~~~~~d~~g~~~   65 (171)
T d2erya1           7 RLVVVGGGGVGKSALTIQFIQSYFVTDYDPTIEDSY-TKQCVIDDRAARLDILDTAGQEE   65 (171)
T ss_dssp             EEEEEECTTSSHHHHHHHHHHSCCCSSCCTTCCEEE-EEEEEETTEEEEEEEEECC----
T ss_pred             EEEEECCCCCCHHHHHHHHHhCCCCcccCcccccce-eeeeeeccccccccccccccccc
Confidence            69999999999999  8766544 333445555443 23344443   588999999663

>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=95.77  E-value=0.00039  Score=51.90  Aligned_cols=21  Identities=5%  Similarity=-0.154  Sum_probs=17.8

Q ss_pred             ceEeecCCCCccCC--CCCCCCc
Q psy3587          22 NIRLCDCPGLVFPS--KVPKPLQ   42 (195)
Q Consensus        22 ~v~vvG~PNVGKSs--N~L~~kk   42 (195)
                      +|+++|-|||||||  |.+.+.+
T Consensus         7 Ki~ivG~~~vGKTsLi~~l~~~~   29 (186)
T d2f7sa1           7 KLLALGDSGVGKTTFLYRYTDNK   29 (186)
T ss_dssp             EEEEESCTTSSHHHHHHHHHCSC
T ss_pred             EEEEECCCCcCHHHHHHHHhcCC
Confidence            69999999999999  8776543

>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=95.70  E-value=0.0013  Score=49.21  Aligned_cols=54  Identities=6%  Similarity=-0.115  Sum_probs=34.7

Q ss_pred             CceEeecCCCCccCC--CCCCCCcccccCCCCCCccceeEEEecC---CeEEecCCCCCC
Q psy3587          21 DNIRLCDCPGLVFPS--KVPKPLQVVSVSRTPGHTKHFQTIFLTD---NIRLCDCPGLVF   75 (195)
Q Consensus        21 ~~v~vvG~PNVGKSs--N~L~~kk~v~vg~~PGvTk~~Q~i~l~~---~i~LlDtPGIv~   75 (195)
                      -+|.++|-+||||||  |.+...+.....++.+.+ ....+.++.   .+.+.||+|..-
T Consensus         6 ~ki~vlG~~~vGKTsLi~~~~~~~f~~~~~t~~~~-~~~~i~v~~~~~~l~i~Dt~g~~~   64 (175)
T d2bmja1           6 LRLGVLGDARSGKSSLIHRFLTGSYQVLEKTESEQ-YKKEMLVDGQTHLVLIREEAGAPD   64 (175)
T ss_dssp             EEEEEECCTTTTHHHHHHHHHHSCCCCCCCSSCEE-EEEEEEETTEEEEEEEEECSSCCC
T ss_pred             EEEEEECCCCCCHHHHHHHHHhCCCCCcCCcccee-EEEEeecCceEEEEEEeecccccc
Confidence            479999999999999  776655543333332322 233344543   477889999653

>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=95.38  E-value=0.0023  Score=47.19  Aligned_cols=51  Identities=16%  Similarity=0.076  Sum_probs=32.3

Q ss_pred             ceEeecCCCCccCC--CCCCCCcccccCC--CCCCccceeEEEecC---CeEEecCCC
Q psy3587          22 NIRLCDCPGLVFPS--KVPKPLQVVSVSR--TPGHTKHFQTIFLTD---NIRLCDCPG   72 (195)
Q Consensus        22 ~v~vvG~PNVGKSs--N~L~~kk~v~vg~--~PGvTk~~Q~i~l~~---~i~LlDtPG   72 (195)
                      +|+++|-+||||||  |.+.+.+-.....  +-|+......+.++.   .+.++|+||
T Consensus         5 Kv~lvG~~~vGKTsLi~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~~d~~~   62 (172)
T d2g3ya1           5 RVVLIGEQGVGKSTLANIFAGVHDSMDSDCEVLGEDTYERTLMVDGESATIILLDMWE   62 (172)
T ss_dssp             EEEEECCTTSSHHHHHHHHHCCCCTTCCC---CCTTEEEEEEEETTEEEEEEEECCTT
T ss_pred             EEEEECCCCcCHHHHHHHHHhCcCCccccccceeeecceeeeccCCceeeeeeecccc
Confidence            68999999999999  8876554332222  224333334455543   467889875

>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=95.22  E-value=0.0021  Score=47.78  Aligned_cols=52  Identities=10%  Similarity=-0.078  Sum_probs=31.4

Q ss_pred             ceEeecCCCCccCC--CCCCCCc-ccccCCCCCCccceeEEEecC---CeEEecCCCCC
Q psy3587          22 NIRLCDCPGLVFPS--KVPKPLQ-VVSVSRTPGHTKHFQTIFLTD---NIRLCDCPGLV   74 (195)
Q Consensus        22 ~v~vvG~PNVGKSs--N~L~~kk-~v~vg~~PGvTk~~Q~i~l~~---~i~LlDtPGIv   74 (195)
                      +|+|||-|||||||  |.+..+. .-...++-|... ...+..+.   .+.+.|++|--
T Consensus         7 KivviG~~~vGKTsli~~~~~~~f~~~~~~ti~~~~-~~~~~~~~~~~~~~~~d~~g~~   64 (183)
T d1mh1a_           7 KCVVVGDGAVGKTCLLISYTTNAFPGEYIPTVFDNY-SANVMVDGKPVNLGLWDTAGQE   64 (183)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHSSCCSSCCCCSCCEE-EEEEEETTEEEEEEEECCCCSG
T ss_pred             EEEEECCCCCCHHHHHHHHHhCCCCcccccceeece-eeeeeccCcceEEEeecccccc
Confidence            69999999999999  8776544 222223333221 12233332   46788888854

>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=95.10  E-value=0.0026  Score=46.45  Aligned_cols=53  Identities=9%  Similarity=-0.039  Sum_probs=33.9

Q ss_pred             ceEeecCCCCccCC--CCCCCCccc-ccCCCCCCccceeEEEecC---CeEEecCCCCCC
Q psy3587          22 NIRLCDCPGLVFPS--KVPKPLQVV-SVSRTPGHTKHFQTIFLTD---NIRLCDCPGLVF   75 (195)
Q Consensus        22 ~v~vvG~PNVGKSs--N~L~~kk~v-~vg~~PGvTk~~Q~i~l~~---~i~LlDtPGIv~   75 (195)
                      +|.+||-+||||||  +.+...+-. ...++.|... ...+..+.   .+.+.|++|--.
T Consensus         5 KivvvG~~~vGKTsli~r~~~~~f~~~~~~t~~~~~-~~~~~~~~~~~~~~~~d~~g~~~   63 (167)
T d1c1ya_           5 KLVVLGSGGVGKSALTVQFVQGIFVEKYDPTIEDSY-RKQVEVDCQQCMLEILDTAGTEQ   63 (167)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHCCCCCSCCCCSEEEE-EEEEESSSCEEEEEEEEECSSCS
T ss_pred             EEEEECCCCCCHHHHHHHHHcCCCCCccCCcccccc-ceeEEeeeeEEEeccccccCccc
Confidence            68999999999999  776654432 2333334332 22334443   388999999664

>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=94.53  E-value=0.0053  Score=44.93  Aligned_cols=54  Identities=7%  Similarity=-0.072  Sum_probs=33.9

Q ss_pred             CceEeecCCCCccCC--CCCCCCcc-cccCCCCCCccceeEEEecC---CeEEecCCCCCC
Q psy3587          21 DNIRLCDCPGLVFPS--KVPKPLQV-VSVSRTPGHTKHFQTIFLTD---NIRLCDCPGLVF   75 (195)
Q Consensus        21 ~~v~vvG~PNVGKSs--N~L~~kk~-v~vg~~PGvTk~~Q~i~l~~---~i~LlDtPGIv~   75 (195)
                      .+|.++|-+||||||  |.+...+- -...++.|.+. ...+.++.   .+.+.|++|.-.
T Consensus         5 ~Ki~lvG~~~vGKTsll~~~~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~~~i~d~~g~~~   64 (169)
T d1x1ra1           5 YKLVVVGDGGVGKSALTIQFFQKIFVPDYDPTIEDSY-LKHTEIDNQWAILDVLDTAGQEE   64 (169)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHSSCCTTCCTTCCEEE-EEEEEETTEEEEEEEEECCSCGG
T ss_pred             EEEEEECCCCcCHHHHHHHHHhCCCCcccCcceeecc-ccccccccccccccccccccccc
Confidence            478999999999999  77654432 22333334332 22333332   577999999753

>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=94.26  E-value=0.0044  Score=45.85  Aligned_cols=47  Identities=17%  Similarity=0.142  Sum_probs=31.1

Q ss_pred             ceEeecCCCCccCC--CCCCCCcccccCCCCCCccceeEEEe---cCCeEEecCCCCC
Q psy3587          22 NIRLCDCPGLVFPS--KVPKPLQVVSVSRTPGHTKHFQTIFL---TDNIRLCDCPGLV   74 (195)
Q Consensus        22 ~v~vvG~PNVGKSs--N~L~~kk~v~vg~~PGvTk~~Q~i~l---~~~i~LlDtPGIv   74 (195)
                      +|.++|-+||||||  |.+.  -.  ....|  |.++....+   ...+.+.|++|.-
T Consensus         4 KivllG~~~vGKTsll~r~~--f~--~~~~p--TiG~~~~~~~~~~~~~~~~D~~gq~   55 (200)
T d1zcba2           4 KILLLGAGESGKSTFLKQMR--II--HGQDP--TKGIHEYDFEIKNVPFKMVDVGGQR   55 (200)
T ss_dssp             EEEEECSTTSSHHHHHHHHH--HH--HSCCC--CSSEEEEEEEETTEEEEEEEECC--
T ss_pred             EEEEECCCCCCHHHHHHHHh--cC--CCCCC--eeeeEEEEEeeeeeeeeeeccccee
Confidence            68899999999999  7772  11  12233  555555444   2368899999964

>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=94.06  E-value=0.0058  Score=45.30  Aligned_cols=51  Identities=12%  Similarity=-0.038  Sum_probs=30.3

Q ss_pred             ceEeecCCCCccCC--CCCCCCccc-ccCCCCCCccceeEEEecC---CeEEecCCCC
Q psy3587          22 NIRLCDCPGLVFPS--KVPKPLQVV-SVSRTPGHTKHFQTIFLTD---NIRLCDCPGL   73 (195)
Q Consensus        22 ~v~vvG~PNVGKSs--N~L~~kk~v-~vg~~PGvTk~~Q~i~l~~---~i~LlDtPGI   73 (195)
                      +|.++|-+||||||  +.+...+-. .-.++-+.+.. ..+.++.   .+.+.|++|-
T Consensus         4 KivliG~~~vGKTsli~r~~~~~f~~~~~~t~~~~~~-~~~~~~~~~~~~~i~D~~g~   60 (179)
T d1m7ba_           4 KIVVVGDSQCGKTALLHVFAKDCFPENYVPTVFENYT-ASFEIDTQRIELSLWDTSGS   60 (179)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHSCCCSSCCCCSEEEEE-EEEECSSCEEEEEEEEECCS
T ss_pred             EEEEECCCCcCHHHHHHHHHhCCCCCccCCceeeccc-ccccccceEEeecccccccc
Confidence            68999999999999  665543322 11222232222 2233432   4678999995

>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=93.83  E-value=0.011  Score=47.66  Aligned_cols=56  Identities=18%  Similarity=-0.017  Sum_probs=38.6

Q ss_pred             eEeecCCCCccCC--CCCCCCc-ccccCCC-CCCccceeEE--Ee----cCCeEEecCCCCCCCCC
Q psy3587          23 IRLCDCPGLVFPS--KVPKPLQ-VVSVSRT-PGHTKHFQTI--FL----TDNIRLCDCPGLVFPSK   78 (195)
Q Consensus        23 v~vvG~PNVGKSs--N~L~~kk-~v~vg~~-PGvTk~~Q~i--~l----~~~i~LlDtPGIv~p~~   78 (195)
                      |+|+|....|||+  |.|.+.. ...+|+. --.|+++..-  .+    +..++++||.|..-+..
T Consensus        35 vsi~G~~~sGKS~llN~l~~~~~~f~~~~~~~~~T~Giw~~~~~~~~~~~~~~~~lDteG~~~~~~  100 (277)
T d1f5na2          35 VAIVGLYRTGKSYLMNKLAGKKKGFSLGSTVQSHTKGIWMWCVPHPKKPGHILVLLDTEGLGDVEK  100 (277)
T ss_dssp             EEEEEBTTSSHHHHHHHHTTCSSCSCCCCSSSCCCCSEEEEEEECSSSTTCEEEEEEECCBCCGGG
T ss_pred             EEEECCCCCCHHHHHHHHcCCCCCCccCCCCCCCCCceEEEEeeccCCCCceEEEEeccccccccc
Confidence            7899999999999  9988754 2334431 1357777332  12    22599999999997654

>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=93.60  E-value=0.0036  Score=47.64  Aligned_cols=19  Identities=11%  Similarity=-0.062  Sum_probs=16.4

Q ss_pred             ceEeecCCCCccCC--CCCCC
Q psy3587          22 NIRLCDCPGLVFPS--KVPKP   40 (195)
Q Consensus        22 ~v~vvG~PNVGKSs--N~L~~   40 (195)
                      ||+++|-.+.||||  |+|.+
T Consensus        10 ni~iiGhVd~GKSTL~~~L~~   30 (205)
T d2qn6a3          10 NIGVVGHVDHGKTTLVQAITG   30 (205)
T ss_dssp             EEEEECSTTSSHHHHHHHHHS
T ss_pred             EEEEEEccCCcHHHHHHHHHh
Confidence            89999988889999  87754

>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=93.46  E-value=0.0012  Score=49.33  Aligned_cols=20  Identities=15%  Similarity=-0.036  Sum_probs=16.6

Q ss_pred             eEeecCCCCccCC--CCCCCCc
Q psy3587          23 IRLCDCPGLVFPS--KVPKPLQ   42 (195)
Q Consensus        23 v~vvG~PNVGKSs--N~L~~kk   42 (195)
                      |+++|.||+||||  |.|...-
T Consensus         5 i~l~GlpgsGKSTla~~L~~~l   26 (213)
T d1bifa1           5 IVMVGLPARGKTYISKKLTRYL   26 (213)
T ss_dssp             EEEECCTTSSHHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHH
Confidence            7889999999999  7776433

>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=92.95  E-value=0.0046  Score=51.18  Aligned_cols=33  Identities=15%  Similarity=0.229  Sum_probs=24.0

Q ss_pred             ceEeecCCCCccCC--CCCC------CCcccccCCCCCCcc
Q psy3587          22 NIRLCDCPGLVFPS--KVPK------PLQVVSVSRTPGHTK   54 (195)
Q Consensus        22 ~v~vvG~PNVGKSs--N~L~------~kk~v~vg~~PGvTk   54 (195)
                      +|+|.|.||+||||  |+|.      +.+++-++.-|..++
T Consensus        56 ~IgitG~pGaGKSTLi~~l~~~~~~~g~~vavlavDpss~~   96 (327)
T d2p67a1          56 RLGVTGTPGAGKSTFLEAFGMLLIREGLKVAVIAVDPSSPV   96 (327)
T ss_dssp             EEEEEECTTSCHHHHHHHHHHHHHHTTCCEEEEEECCC---
T ss_pred             EEEeeCCCCCCHHHHHHHHHHHHHhcCCceeeecCCCceee
Confidence            69999999999999  8764      667776666665444

>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=92.08  E-value=0.016  Score=42.09  Aligned_cols=15  Identities=20%  Similarity=0.089  Sum_probs=14.1

Q ss_pred             CceEeecCCCCccCC
Q psy3587          21 DNIRLCDCPGLVFPS   35 (195)
Q Consensus        21 ~~v~vvG~PNVGKSs   35 (195)
                      |+|.++|+||+||||
T Consensus         1 k~I~liG~~GsGKsT   15 (161)
T d1viaa_           1 KNIVFIGFMGSGKST   15 (161)
T ss_dssp             CCEEEECCTTSCHHH
T ss_pred             CcEEEECCCCCCHHH
Confidence            579999999999998

>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=91.79  E-value=0.014  Score=45.28  Aligned_cols=17  Identities=6%  Similarity=-0.158  Sum_probs=14.9

Q ss_pred             ceEeecCCCCccCC--CCC
Q psy3587          22 NIRLCDCPGLVFPS--KVP   38 (195)
Q Consensus        22 ~v~vvG~PNVGKSs--N~L   38 (195)
                      |+.+||=++.||||  ++|
T Consensus        11 ~i~viGHVd~GKSTL~~~L   29 (222)
T d1zunb3          11 RFLTCGNVDDGKSTLIGRL   29 (222)
T ss_dssp             EEEEECCTTSSHHHHHHHH
T ss_pred             eEEEEcCCCCCHHHHHHHH
Confidence            58999999999999  655

>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=91.64  E-value=0.02  Score=39.95  Aligned_cols=15  Identities=27%  Similarity=0.082  Sum_probs=14.0

Q ss_pred             CceEeecCCCCccCC
Q psy3587          21 DNIRLCDCPGLVFPS   35 (195)
Q Consensus        21 ~~v~vvG~PNVGKSs   35 (195)
                      |+|.++|.||+||||
T Consensus         3 k~I~l~G~~GsGKST   17 (169)
T d1kaga_           3 RNIFLVGPMGAGKST   17 (169)
T ss_dssp             CCEEEECCTTSCHHH
T ss_pred             CeEEEECCCCCCHHH
Confidence            579999999999999

>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=91.18  E-value=0.022  Score=41.20  Aligned_cols=15  Identities=20%  Similarity=0.164  Sum_probs=13.6

Q ss_pred             CceEeecCCCCccCC
Q psy3587          21 DNIRLCDCPGLVFPS   35 (195)
Q Consensus        21 ~~v~vvG~PNVGKSs   35 (195)
                      .+|.++|+||+||||
T Consensus         2 p~IvliG~~G~GKST   16 (165)
T d2iyva1           2 PKAVLVGLPGSGKST   16 (165)
T ss_dssp             CSEEEECSTTSSHHH
T ss_pred             CcEEEECCCCCCHHH
Confidence            368899999999999

>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=91.15  E-value=0.021  Score=40.54  Aligned_cols=22  Identities=32%  Similarity=0.333  Sum_probs=17.7

Q ss_pred             EecCceEeecCCCCccCC--CCCC
Q psy3587          18 FLTDNIRLCDCPGLVFPS--KVPK   39 (195)
Q Consensus        18 ~l~~~v~vvG~PNVGKSs--N~L~   39 (195)
                      ++..+|.|+|.||+||||  +.|.
T Consensus         2 m~~~~I~i~G~pGsGKTTia~~La   25 (173)
T d1rkba_           2 MLLPNILLTGTPGVGKTTLGKELA   25 (173)
T ss_dssp             CCCCCEEEECSTTSSHHHHHHHHH
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHH
Confidence            345689999999999999  5554

>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=90.02  E-value=0.023  Score=40.42  Aligned_cols=21  Identities=0%  Similarity=-0.143  Sum_probs=17.7

Q ss_pred             cCceEeecCCCCccCC--CCCCC
Q psy3587          20 TDNIRLCDCPGLVFPS--KVPKP   40 (195)
Q Consensus        20 ~~~v~vvG~PNVGKSs--N~L~~   40 (195)
                      .|+|.|+|.||+||||  +.|..
T Consensus         7 ~K~I~i~G~~GsGKTTla~~La~   29 (192)
T d1lw7a2           7 AKTVAILGGESSGKSVLVNKLAA   29 (192)
T ss_dssp             CEEEEEECCTTSHHHHHHHHHHH
T ss_pred             ceEEEEECCCCCCHHHHHHHHHH
Confidence            4689999999999999  66654

>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=89.49  E-value=0.15  Score=40.44  Aligned_cols=26  Identities=4%  Similarity=0.000  Sum_probs=20.3

Q ss_pred             cCCcccHHHHHHHHHHHHHcCCcceE
Q psy3587         145 KTGRYDSYRAANELLRMATEGRICLC  170 (195)
Q Consensus       145 kgG~~D~~rAa~~~L~d~~~Gkl~~~  170 (195)
                      .+++++.+..-..+-+.++.|++...
T Consensus       218 e~~~l~~eel~~~l~~ai~~g~i~PV  243 (267)
T d2dy1a2         218 EGEEVTGEALEKAFHEAVRRGLLYPV  243 (267)
T ss_dssp             HTCCCCHHHHHHHHHHHHHTTSCEEE
T ss_pred             CCCcccHHHHHHHHHHHHHcCcEEEE
Confidence            47788888888888888888887544

>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=88.51  E-value=0.056  Score=39.25  Aligned_cols=48  Identities=17%  Similarity=0.081  Sum_probs=32.7

Q ss_pred             ceEeecCCCCccCC--CCCCCCcccccCCCCCCccceeEEEe---cCCeEEecCCCCC
Q psy3587          22 NIRLCDCPGLVFPS--KVPKPLQVVSVSRTPGHTKHFQTIFL---TDNIRLCDCPGLV   74 (195)
Q Consensus        22 ~v~vvG~PNVGKSs--N~L~~kk~v~vg~~PGvTk~~Q~i~l---~~~i~LlDtPGIv   74 (195)
                      +|.++|-.||||+|  +.+....- .  ..|  |-+.....+   .-.+.+.|+.|.-
T Consensus         4 Kiv~lG~~~vGKTsll~r~~~~~~-~--~~p--TiG~~~~~~~~~~~~~~~~d~~g~~   56 (200)
T d2bcjq2           4 KLLLLGTGESGKSTFIKQMRIIHG-S--GVP--TTGIIEYPFDLQSVIFRMVDVGGQR   56 (200)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHHTS-S--CCC--CCSCEEEEEECSSCEEEEEECCCST
T ss_pred             EEEEECCCCCCHHHHHHHHhCCCC-C--CCc--eeeEEEEEEeccceeeeeccccccc
Confidence            68999999999999  76653332 2  233  555555443   3368899999975

>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=87.83  E-value=0.061  Score=38.91  Aligned_cols=16  Identities=19%  Similarity=0.264  Sum_probs=14.2

Q ss_pred             cCceEeecCCCCccCC
Q psy3587          20 TDNIRLCDCPGLVFPS   35 (195)
Q Consensus        20 ~~~v~vvG~PNVGKSs   35 (195)
                      .+.|.++|.||+||||
T Consensus         2 ~~~Iil~G~~GsGKST   17 (170)
T d1e6ca_           2 TEPIFMVGARGCGMTT   17 (170)
T ss_dssp             CCCEEEESCTTSSHHH
T ss_pred             CCCEEEECCCCCCHHH
Confidence            3578899999999999

>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=87.57  E-value=0.059  Score=38.10  Aligned_cols=18  Identities=11%  Similarity=-0.070  Sum_probs=14.6

Q ss_pred             ceEeecCCCCccCC--CCCC
Q psy3587          22 NIRLCDCPGLVFPS--KVPK   39 (195)
Q Consensus        22 ~v~vvG~PNVGKSs--N~L~   39 (195)
                      -|.++|+||+||||  ..|.
T Consensus         8 ~I~l~G~~GsGKTTia~~La   27 (183)
T d1m8pa3           8 TIFLTGYMNSGKDAIARALQ   27 (183)
T ss_dssp             EEEEECSTTSSHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHH
Confidence            37789999999999  5554

>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=87.18  E-value=0.048  Score=40.99  Aligned_cols=32  Identities=13%  Similarity=0.070  Sum_probs=23.8

Q ss_pred             eEeecCCCCccCC--CCC-----CCCcccccCCCCCCcc
Q psy3587          23 IRLCDCPGLVFPS--KVP-----KPLQVVSVSRTPGHTK   54 (195)
Q Consensus        23 v~vvG~PNVGKSs--N~L-----~~kk~v~vg~~PGvTk   54 (195)
                      |.|+|.||.||||  |+|     .+++++-+-.-||.+.
T Consensus         3 i~v~G~~GsGKTTLl~~ll~~~~~~~~~~ivn~d~~~~~   41 (244)
T d1yrba1           3 VVFVGTAGSGKTTLTGEFGRYLEDNYKVAYVNLDTGVKE   41 (244)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHHTTTSCEEEEECCSSCSC
T ss_pred             EEEEcCCCCcHHHHHHHHHHHHhhCCeEEEEecCccccc
Confidence            6899999999999  665     3566666666666654

>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=87.05  E-value=0.063  Score=38.10  Aligned_cols=19  Identities=26%  Similarity=0.214  Sum_probs=16.0

Q ss_pred             CceEeecCCCCccCC--CCCC
Q psy3587          21 DNIRLCDCPGLVFPS--KVPK   39 (195)
Q Consensus        21 ~~v~vvG~PNVGKSs--N~L~   39 (195)
                      .+|.|.|.||+||||  +.|.
T Consensus         6 ~~I~i~G~~GsGKTT~~~~La   26 (174)
T d1y63a_           6 INILITGTPGTGKTSMAEMIA   26 (174)
T ss_dssp             CEEEEECSTTSSHHHHHHHHH
T ss_pred             CEEEEEeCCCCCHHHHHHHHH
Confidence            369999999999999  5554

>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=86.94  E-value=0.16  Score=40.51  Aligned_cols=54  Identities=20%  Similarity=0.123  Sum_probs=31.4

Q ss_pred             ceEeecCCCCccCC--CCCC-------CCccccc----------CCCCCCccceeEEEe---cCCeEEecCCCCCC
Q psy3587          22 NIRLCDCPGLVFPS--KVPK-------PLQVVSV----------SRTPGHTKHFQTIFL---TDNIRLCDCPGLVF   75 (195)
Q Consensus        22 ~v~vvG~PNVGKSs--N~L~-------~kk~v~v----------g~~PGvTk~~Q~i~l---~~~i~LlDtPGIv~   75 (195)
                      ||+|+|=.+.||+|  .+|.       +...+.-          ...=|+|-......+   +..|.|+||||-..
T Consensus         8 ni~i~gh~~~GKTtL~e~ll~~~g~~~~~g~v~~~~~~~D~~~~E~~r~~si~~~~~~~~~~~~~~n~iDtPG~~d   83 (276)
T d2bv3a2           8 NIGIAAHIDAGKTTTTERILYYTGRIHKIGEVHEGAATMDFMEQERERGITITAAVTTCFWKDHRINIIDAPGHVD   83 (276)
T ss_dssp             EEEEEECTTSCHHHHHHHHHHHHTSSCC-------------------CCCCCCCSEEEEEETTEEEEEECCCSSSS
T ss_pred             EEEEEeCCCCCHHHHHHHHHHhcCccccccceecCceEEeccHHHHhcCCccccceeeeccCCeEEEEecCCchhh
Confidence            79999999999998  3331       1111111          111244444444433   45799999999874

>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=86.12  E-value=0.032  Score=45.71  Aligned_cols=30  Identities=17%  Similarity=0.195  Sum_probs=22.3

Q ss_pred             CHHHHHHHHHHHcCcccccCCcccHHHHHHH
Q psy3587         127 CAMDICDGWAQKRSYMTAKTGRYDSYRAANE  157 (195)
Q Consensus       127 ~~~e~L~~iA~k~g~l~~kgG~~D~~rAa~~  157 (195)
                      -.+++.+.+.+.+.++ .+.|.++..|..+.
T Consensus       243 Gi~el~~~I~~~~~~~-~~~G~l~~rR~~q~  272 (323)
T d2qm8a1         243 GLDSLWSRIEDHRSKL-TATGEIAGKRREQD  272 (323)
T ss_dssp             SHHHHHHHHHHHHHHH-HHTTHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHHH-HHCChHHHHHHHHH
Confidence            4788888888877777 57788777766543

>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=85.24  E-value=0.089  Score=37.87  Aligned_cols=14  Identities=29%  Similarity=0.301  Sum_probs=13.1

Q ss_pred             ceEeecCCCCccCC
Q psy3587          22 NIRLCDCPGLVFPS   35 (195)
Q Consensus        22 ~v~vvG~PNVGKSs   35 (195)
                      +|.|+|.||.||||
T Consensus         2 ~I~i~G~pGSGKsT   15 (182)
T d1zina1           2 NLVLMGLPGAGKGT   15 (182)
T ss_dssp             EEEEECSTTSSHHH
T ss_pred             EEEEECCCCCCHHH
Confidence            58899999999999

>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=84.97  E-value=0.063  Score=38.77  Aligned_cols=45  Identities=11%  Similarity=0.039  Sum_probs=30.8

Q ss_pred             ceEeecCCCCccCC--CCCCCCcccccCCCCCCccceeEEEe---cCCeEEecCCCCC
Q psy3587          22 NIRLCDCPGLVFPS--KVPKPLQVVSVSRTPGHTKHFQTIFL---TDNIRLCDCPGLV   74 (195)
Q Consensus        22 ~v~vvG~PNVGKSs--N~L~~kk~v~vg~~PGvTk~~Q~i~l---~~~i~LlDtPGIv   74 (195)
                      ++.++|--||||||  +.+...+.      |  |-++....+   +-.+.+.||.|-.
T Consensus         4 KivllG~~~vGKTsl~~r~~~~~~------~--t~~~~~~~~~~~~~~~~i~D~~Gq~   53 (195)
T d1svsa1           4 KLLLLGAGESGKSTIVKQMKIIHE------A--GTGIVETHFTFKDLHFKMFDVGGQR   53 (195)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHHS------C--CCSEEEEEEEETTEEEEEEEECCSG
T ss_pred             EEEEECCCCCCHHHHHHHHhhCCC------C--CccEEEEEEEeeeeeeeeecccccc
Confidence            68999999999999  77654332      2  223444433   2368899999954

>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=84.94  E-value=0.096  Score=38.44  Aligned_cols=14  Identities=14%  Similarity=0.128  Sum_probs=12.9

Q ss_pred             ceEeecCCCCccCC
Q psy3587          22 NIRLCDCPGLVFPS   35 (195)
Q Consensus        22 ~v~vvG~PNVGKSs   35 (195)
                      =|+++|.||+||||
T Consensus        16 liil~G~pGsGKST   29 (172)
T d1yj5a2          16 VVVAVGFPGAGKST   29 (172)
T ss_dssp             EEEEECCTTSSHHH
T ss_pred             EEEEECCCCCCHHH
Confidence            48899999999999

>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=84.73  E-value=0.099  Score=36.34  Aligned_cols=16  Identities=25%  Similarity=0.322  Sum_probs=13.9

Q ss_pred             eEeecCCCCccCC--CCC
Q psy3587          23 IRLCDCPGLVFPS--KVP   38 (195)
Q Consensus        23 v~vvG~PNVGKSs--N~L   38 (195)
                      |.++|.||+||||  +.|
T Consensus         5 Iii~G~pGsGKTTla~~L   22 (152)
T d1ly1a_           5 ILTIGCPGSGKSTWAREF   22 (152)
T ss_dssp             EEEECCTTSSHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHH
Confidence            6789999999999  655

>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=84.30  E-value=0.11  Score=39.29  Aligned_cols=50  Identities=18%  Similarity=0.104  Sum_probs=32.8

Q ss_pred             ceEeecCCCCccCC--CCCCCCcccccCCCCCCccceeEEEecC-CeEEecCCCCCCC
Q psy3587          22 NIRLCDCPGLVFPS--KVPKPLQVVSVSRTPGHTKHFQTIFLTD-NIRLCDCPGLVFP   76 (195)
Q Consensus        22 ~v~vvG~PNVGKSs--N~L~~kk~v~vg~~PGvTk~~Q~i~l~~-~i~LlDtPGIv~p   76 (195)
                      +|.++|-.||||||  +.+...+   ..++-|+.-  ..+.++. .+.+.|+.|--..
T Consensus         8 KilllG~~~vGKTsll~~~~~~~---~~pTiG~~~--~~~~~~~~~~~~~D~~Gq~~~   60 (221)
T d1azta2           8 RLLLLGAGESGKSTIVKQMRILH---VVLTSGIFE--TKFQVDKVNFHMFDVGGQRDE   60 (221)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHH---CCCCCSCEE--EEEEETTEEEEEEECCCSTTT
T ss_pred             EEEEECCCCCCHHHHHHHHhcCC---cCCCCCeEE--EEEEECcEEEEEEecCcccee
Confidence            79999999999999  7664322   224444431  2233433 6889999997644

>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=83.94  E-value=0.11  Score=38.56  Aligned_cols=14  Identities=14%  Similarity=0.164  Sum_probs=13.3

Q ss_pred             ceEeecCCCCccCC
Q psy3587          22 NIRLCDCPGLVFPS   35 (195)
Q Consensus        22 ~v~vvG~PNVGKSs   35 (195)
                      +|.|+|.||+||+|
T Consensus         8 rIiliG~PGSGKtT   21 (189)
T d2ak3a1           8 RAAIMGAPGSGKGT   21 (189)
T ss_dssp             EEEEECCTTSSHHH
T ss_pred             eEEEECCCCCCHHH
Confidence            78999999999999

>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=83.44  E-value=0.12  Score=37.49  Aligned_cols=14  Identities=21%  Similarity=0.168  Sum_probs=13.1

Q ss_pred             ceEeecCCCCccCC
Q psy3587          22 NIRLCDCPGLVFPS   35 (195)
Q Consensus        22 ~v~vvG~PNVGKSs   35 (195)
                      +|.|+|.||+||||
T Consensus         2 ~I~i~G~pGsGKsT   15 (181)
T d2cdna1           2 RVLLLGPPGAGKGT   15 (181)
T ss_dssp             EEEEECCTTSSHHH
T ss_pred             EEEEECCCCCCHHH
Confidence            58899999999999

>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=83.30  E-value=0.13  Score=35.99  Aligned_cols=19  Identities=11%  Similarity=-0.067  Sum_probs=15.6

Q ss_pred             ceEeecCCCCccCC--CCCCC
Q psy3587          22 NIRLCDCPGLVFPS--KVPKP   40 (195)
Q Consensus        22 ~v~vvG~PNVGKSs--N~L~~   40 (195)
                      -|.|+|.||+||||  +.|..
T Consensus         4 lI~i~G~~GsGKTTva~~L~~   24 (176)
T d2bdta1           4 LYIITGPAGVGKSTTCKRLAA   24 (176)
T ss_dssp             EEEEECSTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            37899999999999  66643

>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=82.92  E-value=0.066  Score=37.98  Aligned_cols=18  Identities=17%  Similarity=0.161  Sum_probs=15.2

Q ss_pred             eEeecCCCCccCC--CCCCC
Q psy3587          23 IRLCDCPGLVFPS--KVPKP   40 (195)
Q Consensus        23 v~vvG~PNVGKSs--N~L~~   40 (195)
                      |.++|.||+||||  +.|.+
T Consensus         7 I~l~G~~GsGKSTia~~La~   26 (176)
T d1zp6a1           7 LLLSGHPGSGKSTIAEALAN   26 (176)
T ss_dssp             EEEEECTTSCHHHHHHHHHT
T ss_pred             EEEECCCCCCHHHHHHHHHH
Confidence            7889999999999  66644

>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=82.15  E-value=0.14  Score=37.11  Aligned_cols=14  Identities=36%  Similarity=0.330  Sum_probs=13.0

Q ss_pred             ceEeecCCCCccCC
Q psy3587          22 NIRLCDCPGLVFPS   35 (195)
Q Consensus        22 ~v~vvG~PNVGKSs   35 (195)
                      +|.|+|.||.||||
T Consensus         2 ~I~i~G~pGSGKsT   15 (182)
T d1s3ga1           2 NIVLMGLPGAGKGT   15 (182)
T ss_dssp             EEEEECSTTSSHHH
T ss_pred             EEEEECCCCCCHHH
Confidence            48899999999999

>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=82.10  E-value=0.15  Score=36.09  Aligned_cols=18  Identities=11%  Similarity=0.296  Sum_probs=14.7

Q ss_pred             CceEeecCCCCccCC--CCC
Q psy3587          21 DNIRLCDCPGLVFPS--KVP   38 (195)
Q Consensus        21 ~~v~vvG~PNVGKSs--N~L   38 (195)
                      |-|.|.|.||+||||  +.|
T Consensus         2 kiI~i~G~~GsGKsT~~~~L   21 (190)
T d1khta_           2 KVVVVTGVPGVGSTTSSQLA   21 (190)
T ss_dssp             CEEEEECCTTSCHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHH
Confidence            347889999999999  544

>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=80.84  E-value=0.098  Score=36.80  Aligned_cols=18  Identities=11%  Similarity=-0.031  Sum_probs=15.4

Q ss_pred             ceEeecCCCCccCC--CCCC
Q psy3587          22 NIRLCDCPGLVFPS--KVPK   39 (195)
Q Consensus        22 ~v~vvG~PNVGKSs--N~L~   39 (195)
                      -++|+|.||+||+|  |.|.
T Consensus         4 vi~itG~~GSGKTTL~~~L~   23 (170)
T d1np6a_           4 LLAFAAWSGTGKTTLLKKLI   23 (170)
T ss_dssp             EEEEECCTTSCHHHHHHHHH
T ss_pred             EEEEEcCCCCCHHHHHHHHH
Confidence            37899999999999  7664

>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=80.77  E-value=0.17  Score=36.88  Aligned_cols=14  Identities=21%  Similarity=0.081  Sum_probs=13.1

Q ss_pred             ceEeecCCCCccCC
Q psy3587          22 NIRLCDCPGLVFPS   35 (195)
Q Consensus        22 ~v~vvG~PNVGKSs   35 (195)
                      +|.++|.||+||||
T Consensus         5 riil~G~pGSGKsT   18 (190)
T d1ak2a1           5 RAVLLGPPGAGKGT   18 (190)
T ss_dssp             EEEEECCTTSSHHH
T ss_pred             EEEEECCCCCCHHH
Confidence            68899999999999

>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=80.28  E-value=0.18  Score=36.39  Aligned_cols=14  Identities=21%  Similarity=0.036  Sum_probs=13.0

Q ss_pred             ceEeecCCCCccCC
Q psy3587          22 NIRLCDCPGLVFPS   35 (195)
Q Consensus        22 ~v~vvG~PNVGKSs   35 (195)
                      +|.++|.||.||||
T Consensus         2 ~I~i~G~pGSGKsT   15 (179)
T d1e4va1           2 RIILLGAPVAGKGT   15 (179)
T ss_dssp             EEEEEESTTSSHHH
T ss_pred             EEEEECCCCCCHHH
Confidence            58899999999999