Psyllid ID: psy2514

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70-
Protein Sequence
MLNLWVLRGSIKGTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRGTFTRDYKKTIGAL
Secondary Structure (PSIPRED)
ccEEEEEcccEEEEEEEEccccccHHHHHHHHHcccccccccccccEEEEEEEEEEccEEEEEccHHHccc
Secondary Structure Prediction (SSPRO)
cccEEEEEccEEEEEEEEEcccccHHHHHHHHHcccccHcHHHHEcEEEEEEEEEccccccHcHHHHHccc
Coil and Loop (DISEMBL)
MLNLWVLRGSIKGTVVIVGNGAVGKSSMIQRYcrgtftrdykktIGVKSSMIQRYCRGTFTRDYKKTIGAL
Flexible Loop (DISEMBL)
MLNLWVLRgsikgtvvivgngavgkssmiqrycrgtftrdykktigvkssmiqrycrgtftrdykktigal
Low Complexity Region (SEG)
MLNLWVLRGSIKGTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRGTFTRDYKKTIGAL
Disordered region (IsUnstruct)
**NLWVLRGSIKGTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRGTFTRDYK******
Disordered Region (DISOPRED)
*******RGSIKGTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRGTFTRDYKKTI***
Disordered Region (DISEMBL)
MLNLWVLRGSIKGTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRGTFTRDYKKTIGAL
Disordered Region (DISPRO)
MLNLWVLRGSIKGTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRGTFTRDYKKTIGAL
Transmembrane Helix (TMHMM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
oooooooohhhhhhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (MEMSAT_SVM)
oooooooooooooohhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (Phobius)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Coiled Coils (COILS)
MLNLWVLRGSIKGTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRGTFTRDYKKTIGAL
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	71	2.2.26 [Sep-21-2011]
P35288	237	Ras-related protein Rab-2	yes	N/A	0.464	0.139	0.848	8e-11
Q9ULC3	237	Ras-related protein Rab-2	yes	N/A	0.464	0.139	0.848	1e-10
Q55E31	260	Ras-related protein Rab-3	yes	N/A	0.521	0.142	0.567	2e-05
O95755	333	Ras-related protein Rab-3	no	N/A	0.380	0.081	0.606	2e-05
Q5U1Y1	259	Ras-related protein Rab-3	no	N/A	0.521	0.142	0.486	7e-05
Q06AU4	259	Ras-related protein Rab-3	no	N/A	0.521	0.142	0.486	7e-05
Q64008	259	Ras-related protein Rab-3	no	N/A	0.521	0.142	0.486	7e-05
Q9BZG1	259	Ras-related protein Rab-3	no	N/A	0.521	0.142	0.486	7e-05
Q91YQ1	204	Ras-related protein Rab-7	no	N/A	0.464	0.161	0.515	7e-05
Q63481	204	Ras-related protein Rab-7	no	N/A	0.464	0.161	0.515	7e-05

>sp|P35288|RAB23_MOUSE Ras-related protein Rab-23 OS=Mus musculus GN=Rab23 PE=1 SV=2

 Score = 65.5 bits (158), Expect = 8e-11,   Method: Composition-based stats.
 Identities = 28/33 (84%), Positives = 32/33 (96%)

Query: 15 VVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGV 47
          +V+VGNGAVGKSSMIQRYC+G FT+DYKKTIGV
Sbjct: 12 MVVVGNGAVGKSSMIQRYCKGIFTKDYKKTIGV 44

Mus musculus (taxid: 10090)

>sp|Q9ULC3|RAB23_HUMAN Ras-related protein Rab-23 OS=Homo sapiens GN=RAB23 PE=1 SV=1

 Score = 65.5 bits (158), Expect = 1e-10,   Method: Composition-based stats.
 Identities = 28/33 (84%), Positives = 32/33 (96%)

Query: 15 VVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGV 47
          +V+VGNGAVGKSSMIQRYC+G FT+DYKKTIGV
Sbjct: 12 MVVVGNGAVGKSSMIQRYCKGIFTKDYKKTIGV 44

Homo sapiens (taxid: 9606)

>sp|Q55E31|RB32B_DICDI Ras-related protein Rab-32B OS=Dictyostelium discoideum GN=rab32B PE=3 SV=1

 Score = 48.1 bits (113), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 21/37 (56%), Positives = 30/37 (81%)

Query: 15 VVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSM 51
          V+++G+ AVGKSS+I+RYC G F+ +YK TIGV  S+
Sbjct: 62 VLLIGDYAVGKSSIIKRYCTGIFSPNYKLTIGVDFSV 98

Dictyostelium discoideum (taxid: 44689)

>sp|O95755|RAB36_HUMAN Ras-related protein Rab-36 OS=Homo sapiens GN=RAB36 PE=2 SV=2

 Score = 47.8 bits (112), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 20/33 (60%), Positives = 26/33 (78%)

Query: 15  VVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGV 47
           VV+VG+  VGK+S+I R+C+  F RDYK TIGV
Sbjct: 126 VVVVGDLYVGKTSLIHRFCKNVFDRDYKATIGV 158

Protein transport. Probably involved in vesicular traffic.

Homo sapiens (taxid: 9606)

>sp|Q5U1Y1|RAB34_RAT Ras-related protein Rab-34 OS=Rattus norvegicus GN=Rab34 PE=2 SV=1

 Score = 45.8 bits (107), Expect = 7e-05,   Method: Composition-based stats.
 Identities = 18/37 (48%), Positives = 28/37 (75%)

Query: 15 VVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSM 51
          V++VG+ +VGK+ +I R+C+ TF ++YK TIGV   M
Sbjct: 55 VIVVGDLSVGKTCLINRFCKDTFDKNYKATIGVDFEM 91

Protein transport. Involved in the redistribution of lysosomes to the peri-Golgi region.

Rattus norvegicus (taxid: 10116)

>sp|Q06AU4|RAB34_PIG Ras-related protein Rab-34 OS=Sus scrofa GN=RAB34 PE=2 SV=1

 Score = 45.8 bits (107), Expect = 7e-05,   Method: Composition-based stats.
 Identities = 18/37 (48%), Positives = 28/37 (75%)

Query: 15 VVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSM 51
          V++VG+ +VGK+ +I R+C+ TF ++YK TIGV   M
Sbjct: 55 VIVVGDLSVGKTCLINRFCKDTFDKNYKATIGVDFEM 91

Protein transport. Involved in the redistribution of lysosomes to the peri-Golgi region.

Sus scrofa (taxid: 9823)

>sp|Q64008|RAB34_MOUSE Ras-related protein Rab-34 OS=Mus musculus GN=Rab34 PE=1 SV=2

 Score = 45.8 bits (107), Expect = 7e-05,   Method: Composition-based stats.
 Identities = 18/37 (48%), Positives = 28/37 (75%)

Query: 15 VVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSM 51
          V++VG+ +VGK+ +I R+C+ TF ++YK TIGV   M
Sbjct: 55 VIVVGDLSVGKTCLINRFCKDTFDKNYKATIGVDFEM 91

Protein transport. Involved in the redistribution of lysosomes to the peri-Golgi region.

Mus musculus (taxid: 10090)

>sp|Q9BZG1|RAB34_HUMAN Ras-related protein Rab-34 OS=Homo sapiens GN=RAB34 PE=1 SV=1

 Score = 45.8 bits (107), Expect = 7e-05,   Method: Composition-based stats.
 Identities = 18/37 (48%), Positives = 28/37 (75%)

Query: 15 VVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSM 51
          V++VG+ +VGK+ +I R+C+ TF ++YK TIGV   M
Sbjct: 55 VIVVGDLSVGKTCLINRFCKDTFDKNYKATIGVDFEM 91

Protein transport. Involved in the redistribution of lysosomes to the peri-Golgi region.

Homo sapiens (taxid: 9606)

>sp|Q91YQ1|RAB7L_MOUSE Ras-related protein Rab-7L1 OS=Mus musculus GN=Rab7l1 PE=2 SV=1

 Score = 45.8 bits (107), Expect = 7e-05,   Method: Compositional matrix adjust.
 Identities = 17/33 (51%), Positives = 28/33 (84%)

Query: 15 VVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGV 47
          V++VG+ AVGK+S++QRY + +F++ YK T+GV
Sbjct: 10 VLVVGDAAVGKTSLVQRYSQDSFSKHYKSTVGV 42

Mus musculus (taxid: 10090)

>sp|Q63481|RAB7L_RAT Ras-related protein Rab-7L1 OS=Rattus norvegicus GN=Rab7l1 PE=2 SV=1

 Score = 45.8 bits (107), Expect = 7e-05,   Method: Compositional matrix adjust.
 Identities = 17/33 (51%), Positives = 28/33 (84%)

Query: 15 VVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGV 47
          V++VG+ AVGK+S++QRY + +F++ YK T+GV
Sbjct: 10 VLVVGDAAVGKTSLVQRYSQDSFSKHYKSTVGV 42

Rattus norvegicus (taxid: 10116)

Close Homologs in the Non-Redundant Database Detected by BLAST

Original result of BLAST against Nonredundant Database

GI	Length	Definition	Q cover	H cover	Identity	E-value
Query	71
242247191	231	GTP-binding protein YPTM1-like [Acyrthos	0.676	0.207	0.770	3e-11
307212547	240	Ras-related protein Rab-23 [Harpegnathos	0.464	0.137	0.909	6e-10
307167470	240	Ras-related protein Rab-23 [Camponotus f	0.464	0.137	0.909	8e-10
383860301	240	PREDICTED: ras-related protein Rab-23-li	0.464	0.137	0.909	8e-10
72017227	233	PREDICTED: ras-related protein Rab-23-li	0.464	0.141	0.909	9e-10
332020425	240	Ras-related protein Rab-23 [Acromyrmex e	0.464	0.137	0.909	1e-09
328788824	301	PREDICTED: ras-related protein Rab-23 is	0.464	0.109	0.909	1e-09
443686937	240	hypothetical protein CAPTEDRAFT_178029 [	0.464	0.137	0.909	1e-09
350404524	295	PREDICTED: LOW QUALITY PROTEIN: ras-rela	0.464	0.111	0.909	1e-09
328788822	240	PREDICTED: ras-related protein Rab-23 is	0.464	0.137	0.909	1e-09

>gi|242247191|ref|NP_001156195.1| GTP-binding protein YPTM1-like [Acyrthosiphon pisum] gi|239799251|dbj|BAH70556.1| ACYPI005808 [Acyrthosiphon pisum]

 Score = 72.4 bits (176), Expect = 3e-11,   Method: Compositional matrix adjust.
 Identities = 37/48 (77%), Positives = 37/48 (77%)

Query: 15 VVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRGTFTR 62
          VVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGV     Q  C G   R
Sbjct: 12 VVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVDFLERQIECNGEDVR 59

Source: Acyrthosiphon pisum

Species: Acyrthosiphon pisum

Genus: Acyrthosiphon

Family: Aphididae

Order: Hemiptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|307212547|gb|EFN88270.1| Ras-related protein Rab-23 [Harpegnathos saltator]

 Score = 68.2 bits (165), Expect = 6e-10,   Method: Composition-based stats.
 Identities = 30/33 (90%), Positives = 33/33 (100%)

Query: 15 VVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGV 47
          VVIVGNGAVGKSSMIQR+C+GT+TRDYKKTIGV
Sbjct: 12 VVIVGNGAVGKSSMIQRFCKGTYTRDYKKTIGV 44

Source: Harpegnathos saltator

Species: Harpegnathos saltator

Genus: Harpegnathos

Family: Formicidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|307167470|gb|EFN61043.1| Ras-related protein Rab-23 [Camponotus floridanus]

 Score = 67.8 bits (164), Expect = 8e-10,   Method: Composition-based stats.
 Identities = 30/33 (90%), Positives = 33/33 (100%)

Query: 15 VVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGV 47
          VVIVGNGAVGKSSMIQR+C+GT+TRDYKKTIGV
Sbjct: 12 VVIVGNGAVGKSSMIQRFCKGTYTRDYKKTIGV 44

Source: Camponotus floridanus

Species: Camponotus floridanus

Genus: Camponotus

Family: Formicidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|383860301|ref|XP_003705629.1| PREDICTED: ras-related protein Rab-23-like [Megachile rotundata]

 Score = 67.8 bits (164), Expect = 8e-10,   Method: Composition-based stats.
 Identities = 30/33 (90%), Positives = 33/33 (100%)

Query: 15 VVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGV 47
          VVIVGNGAVGKSSMIQR+C+GT+TRDYKKTIGV
Sbjct: 12 VVIVGNGAVGKSSMIQRFCKGTYTRDYKKTIGV 44

Source: Megachile rotundata

Species: Megachile rotundata

Genus: Megachile

Family: Megachilidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|72017227|ref|XP_791019.1| PREDICTED: ras-related protein Rab-23-like isoform 2 [Strongylocentrotus purpuratus] gi|390359535|ref|XP_003729499.1| PREDICTED: ras-related protein Rab-23-like isoform 1 [Strongylocentrotus purpuratus]

 Score = 67.8 bits (164), Expect = 9e-10,   Method: Composition-based stats.
 Identities = 30/33 (90%), Positives = 32/33 (96%)

Query: 15 VVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGV 47
          VVIVGNGAVGKSSMIQRYC+G FT+DYKKTIGV
Sbjct: 12 VVIVGNGAVGKSSMIQRYCKGIFTKDYKKTIGV 44

Source: Strongylocentrotus purpuratus

Species: Strongylocentrotus purpuratus

Genus: Strongylocentrotus

Family: Strongylocentrotidae

Order: Echinoida

Class: Echinoidea

Phylum: Echinodermata

Superkingdom: Eukaryota

>gi|332020425|gb|EGI60845.1| Ras-related protein Rab-23 [Acromyrmex echinatior]

 Score = 67.4 bits (163), Expect = 1e-09,   Method: Composition-based stats.
 Identities = 30/33 (90%), Positives = 33/33 (100%)

Query: 15 VVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGV 47
          VVIVGNGAVGKSSMIQR+C+GT+TRDYKKTIGV
Sbjct: 12 VVIVGNGAVGKSSMIQRFCKGTYTRDYKKTIGV 44

Source: Acromyrmex echinatior

Species: Acromyrmex echinatior

Genus: Acromyrmex

Family: Formicidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|328788824|ref|XP_003251188.1| PREDICTED: ras-related protein Rab-23 isoform 1 [Apis mellifera]

 Score = 67.4 bits (163), Expect = 1e-09,   Method: Composition-based stats.
 Identities = 30/33 (90%), Positives = 33/33 (100%)

Query: 15 VVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGV 47
          VVIVGNGAVGKSSMIQR+C+GT+TRDYKKTIGV
Sbjct: 12 VVIVGNGAVGKSSMIQRFCKGTYTRDYKKTIGV 44

Source: Apis mellifera

Species: Apis mellifera

Genus: Apis

Family: Apidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|443686937|gb|ELT90055.1| hypothetical protein CAPTEDRAFT_178029 [Capitella teleta]

 Score = 67.4 bits (163), Expect = 1e-09,   Method: Composition-based stats.
 Identities = 30/33 (90%), Positives = 32/33 (96%)

Query: 15 VVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGV 47
          VVIVGNGAVGKSSMIQRYC+G FT+DYKKTIGV
Sbjct: 16 VVIVGNGAVGKSSMIQRYCKGIFTKDYKKTIGV 48

Source: Capitella teleta

Species: Capitella teleta

Genus: Capitella

Family: Capitellidae

Order: Capitellida

Class: Polychaeta

Phylum: Annelida

Superkingdom: Eukaryota

>gi|350404524|ref|XP_003487131.1| PREDICTED: LOW QUALITY PROTEIN: ras-related protein Rab-23-like [Bombus impatiens]

 Score = 67.0 bits (162), Expect = 1e-09,   Method: Composition-based stats.
 Identities = 30/33 (90%), Positives = 33/33 (100%)

Query: 15 VVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGV 47
          VVIVGNGAVGKSSMIQR+C+GT+TRDYKKTIGV
Sbjct: 12 VVIVGNGAVGKSSMIQRFCKGTYTRDYKKTIGV 44

Source: Bombus impatiens

Species: Bombus impatiens

Genus: Bombus

Family: Apidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|328788822|ref|XP_393641.3| PREDICTED: ras-related protein Rab-23 isoform 2 [Apis mellifera] gi|380027747|ref|XP_003697580.1| PREDICTED: ras-related protein Rab-23-like [Apis florea]

 Score = 67.0 bits (162), Expect = 1e-09,   Method: Composition-based stats.
 Identities = 30/33 (90%), Positives = 33/33 (100%)

Query: 15 VVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGV 47
          VVIVGNGAVGKSSMIQR+C+GT+TRDYKKTIGV
Sbjct: 12 VVIVGNGAVGKSSMIQRFCKGTYTRDYKKTIGV 44

Source: Apis mellifera

Species: Apis mellifera

Genus: Apis

Family: Apidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

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Prediction of Gene Ontology (GO) Terms

Close Homologs with Gene Ontology terms Detected by BLAST

Original result of BLAST against Gene Ontology (AMIGO)

ID	Length	Definition	Q cover	H cover	Identity	E-value
Query	71
UNIPROTKB|F1NTT5	237	RAB23 "Uncharacterized protein	0.464	0.139	0.878	1.7e-11
ZFIN|ZDB-GENE-050522-328	237	rab23 "RAB23, member RAS oncog	0.464	0.139	0.878	1.7e-11
UNIPROTKB|E1BAI0	237	RAB23 "Uncharacterized protein	0.464	0.139	0.848	3.5e-11
UNIPROTKB|E2QWS2	237	RAB23 "Uncharacterized protein	0.464	0.139	0.848	3.5e-11
UNIPROTKB|Q9ULC3	237	RAB23 "Ras-related protein Rab	0.464	0.139	0.848	3.5e-11
UNIPROTKB|F1RZV2	237	RAB23 "Uncharacterized protein	0.464	0.139	0.848	3.5e-11
MGI|MGI:99833	237	Rab23 "RAB23, member RAS oncog	0.464	0.139	0.848	3.5e-11
RGD|1306867	237	Rab23 "RAB23, member RAS oncog	0.464	0.139	0.848	3.5e-11
FB|FBgn0037364	268	Rab23 "Rab23" [Drosophila mela	0.464	0.123	0.878	6.3e-11
UNIPROTKB|H7C0Z1	132	RAB36 "Ras-related protein Rab	0.563	0.303	0.536	2.1e-06

UNIPROTKB|F1NTT5 RAB23 "Uncharacterized protein" [Gallus gallus (taxid:9031)]

 Score = 157 (60.3 bits), Expect = 1.7e-11, P = 1.7e-11
 Identities = 29/33 (87%), Positives = 32/33 (96%)

Query:    15 VVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGV 47
             VV+VGNGAVGKSSMIQRYC+G FT+DYKKTIGV
Sbjct:    12 VVVVGNGAVGKSSMIQRYCKGIFTKDYKKTIGV 44

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

GO:0015031 "protein transport" evidence=IEA

GO:0005525 "GTP binding" evidence=IEA

GO:0008589 "regulation of smoothened signaling pathway" evidence=IEA

GO:0021513 "spinal cord dorsal/ventral patterning" evidence=IEA

GO:0042733 "embryonic digit morphogenesis" evidence=IEA

GO:0045861 "negative regulation of proteolysis" evidence=IEA

ZFIN|ZDB-GENE-050522-328 rab23 "RAB23, member RAS oncogene family" [Danio rerio (taxid:7955)]

 Score = 157 (60.3 bits), Expect = 1.7e-11, P = 1.7e-11
 Identities = 29/33 (87%), Positives = 32/33 (96%)

Query:    15 VVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGV 47
             VV+VGNGAVGKSSMIQRYC+G FT+DYKKTIGV
Sbjct:    12 VVVVGNGAVGKSSMIQRYCKGIFTKDYKKTIGV 44

GO:0005525 "GTP binding" evidence=IEA

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

GO:0015031 "protein transport" evidence=IEA

GO:0000166 "nucleotide binding" evidence=IEA

UNIPROTKB|E1BAI0 RAB23 "Uncharacterized protein" [Bos taurus (taxid:9913)]

 Score = 154 (59.3 bits), Expect = 3.5e-11, P = 3.5e-11
 Identities = 28/33 (84%), Positives = 32/33 (96%)

Query:    15 VVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGV 47
             +V+VGNGAVGKSSMIQRYC+G FT+DYKKTIGV
Sbjct:    12 MVVVGNGAVGKSSMIQRYCKGIFTKDYKKTIGV 44

GO:0045861 "negative regulation of proteolysis" evidence=IEA

GO:0042733 "embryonic digit morphogenesis" evidence=IEA

GO:0021513 "spinal cord dorsal/ventral patterning" evidence=IEA

GO:0008589 "regulation of smoothened signaling pathway" evidence=IEA

GO:0005525 "GTP binding" evidence=IEA

GO:0015031 "protein transport" evidence=IEA

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

UNIPROTKB|E2QWS2 RAB23 "Uncharacterized protein" [Canis lupus familiaris (taxid:9615)]

 Score = 154 (59.3 bits), Expect = 3.5e-11, P = 3.5e-11
 Identities = 28/33 (84%), Positives = 32/33 (96%)

Query:    15 VVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGV 47
             +V+VGNGAVGKSSMIQRYC+G FT+DYKKTIGV
Sbjct:    12 MVVVGNGAVGKSSMIQRYCKGIFTKDYKKTIGV 44

GO:0005525 "GTP binding" evidence=IEA

GO:0015031 "protein transport" evidence=IEA

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

UNIPROTKB|Q9ULC3 RAB23 "Ras-related protein Rab-23" [Homo sapiens (taxid:9606)]

 Score = 154 (59.3 bits), Expect = 3.5e-11, P = 3.5e-11
 Identities = 28/33 (84%), Positives = 32/33 (96%)

Query:    15 VVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGV 47
             +V+VGNGAVGKSSMIQRYC+G FT+DYKKTIGV
Sbjct:    12 MVVVGNGAVGKSSMIQRYCKGIFTKDYKKTIGV 44

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

GO:0005525 "GTP binding" evidence=IEA

GO:0015031 "protein transport" evidence=IEA

GO:0008589 "regulation of smoothened signaling pathway" evidence=IEA

GO:0021513 "spinal cord dorsal/ventral patterning" evidence=IEA

GO:0042733 "embryonic digit morphogenesis" evidence=IEA

GO:0045861 "negative regulation of proteolysis" evidence=IEA

GO:0005886 "plasma membrane" evidence=IEA

GO:0010008 "endosome membrane" evidence=IEA

GO:0030670 "phagocytic vesicle membrane" evidence=IEA

GO:0005776 "autophagic vacuole" evidence=IDA

GO:0000045 "autophagic vacuole assembly" evidence=IMP

GO:0006968 "cellular defense response" evidence=IMP

GO:0003924 "GTPase activity" evidence=IDA

GO:0006184 "GTP catabolic process" evidence=IDA

GO:0042992 "negative regulation of transcription factor import into nucleus" evidence=IMP

GO:0005737 "cytoplasm" evidence=IDA

GO:0097094 "craniofacial suture morphogenesis" evidence=IMP

GO:0045335 "phagocytic vesicle" evidence=IDA

UNIPROTKB|F1RZV2 RAB23 "Uncharacterized protein" [Sus scrofa (taxid:9823)]

 Score = 154 (59.3 bits), Expect = 3.5e-11, P = 3.5e-11
 Identities = 28/33 (84%), Positives = 32/33 (96%)

Query:    15 VVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGV 47
             +V+VGNGAVGKSSMIQRYC+G FT+DYKKTIGV
Sbjct:    12 MVVVGNGAVGKSSMIQRYCKGIFTKDYKKTIGV 44

GO:0045861 "negative regulation of proteolysis" evidence=IEA

GO:0042733 "embryonic digit morphogenesis" evidence=IEA

GO:0021513 "spinal cord dorsal/ventral patterning" evidence=IEA

GO:0008589 "regulation of smoothened signaling pathway" evidence=IEA

GO:0015031 "protein transport" evidence=IEA

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

GO:0005525 "GTP binding" evidence=IEA

MGI|MGI:99833 Rab23 "RAB23, member RAS oncogene family" [Mus musculus (taxid:10090)]

 Score = 154 (59.3 bits), Expect = 3.5e-11, P = 3.5e-11
 Identities = 28/33 (84%), Positives = 32/33 (96%)

Query:    15 VVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGV 47
             +V+VGNGAVGKSSMIQRYC+G FT+DYKKTIGV
Sbjct:    12 MVVVGNGAVGKSSMIQRYCKGIFTKDYKKTIGV 44

GO:0000045 "autophagic vacuole assembly" evidence=ISO

GO:0000166 "nucleotide binding" evidence=IEA

GO:0003924 "GTPase activity" evidence=ISO

GO:0005525 "GTP binding" evidence=IEA

GO:0005737 "cytoplasm" evidence=ISO

GO:0005776 "autophagic vacuole" evidence=ISO

GO:0005886 "plasma membrane" evidence=IEA

GO:0006184 "GTP catabolic process" evidence=ISO

GO:0006810 "transport" evidence=IEA

GO:0006968 "cellular defense response" evidence=ISO

GO:0007165 "signal transduction" evidence=IMP

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

GO:0007399 "nervous system development" evidence=IMP

GO:0008589 "regulation of smoothened signaling pathway" evidence=IGI

GO:0015031 "protein transport" evidence=IEA

GO:0016020 "membrane" evidence=IEA

GO:0021513 "spinal cord dorsal/ventral patterning" evidence=IGI;IMP

GO:0042733 "embryonic digit morphogenesis" evidence=IMP

GO:0042992 "negative regulation of transcription factor import into nucleus" evidence=ISO

GO:0045335 "phagocytic vesicle" evidence=ISO

GO:0045861 "negative regulation of proteolysis" evidence=IMP

GO:0097094 "craniofacial suture morphogenesis" evidence=ISO

RGD|1306867 Rab23 "RAB23, member RAS oncogene family" [Rattus norvegicus (taxid:10116)]

 Score = 154 (59.3 bits), Expect = 3.5e-11, P = 3.5e-11
 Identities = 28/33 (84%), Positives = 32/33 (96%)

Query:    15 VVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGV 47
             +V+VGNGAVGKSSMIQRYC+G FT+DYKKTIGV
Sbjct:    12 MVVVGNGAVGKSSMIQRYCKGIFTKDYKKTIGV 44

GO:0000045 "autophagic vacuole assembly" evidence=ISO

GO:0003924 "GTPase activity" evidence=ISO

GO:0005525 "GTP binding" evidence=IEA

GO:0005737 "cytoplasm" evidence=ISO

GO:0005776 "autophagic vacuole" evidence=ISO

GO:0006184 "GTP catabolic process" evidence=ISO

GO:0006968 "cellular defense response" evidence=ISO

GO:0007165 "signal transduction" evidence=ISO

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

GO:0007399 "nervous system development" evidence=ISO

GO:0008589 "regulation of smoothened signaling pathway" evidence=IEA;ISO

GO:0015031 "protein transport" evidence=IEA

GO:0021513 "spinal cord dorsal/ventral patterning" evidence=IEA;ISO

GO:0042733 "embryonic digit morphogenesis" evidence=IEA;ISO

GO:0042992 "negative regulation of transcription factor import into nucleus" evidence=ISO

GO:0045335 "phagocytic vesicle" evidence=ISO

GO:0045861 "negative regulation of proteolysis" evidence=IEA;ISO

GO:0097094 "craniofacial suture morphogenesis" evidence=ISO

FB|FBgn0037364 Rab23 "Rab23" [Drosophila melanogaster (taxid:7227)]

 Score = 154 (59.3 bits), Expect = 6.3e-11, P = 6.3e-11
 Identities = 29/33 (87%), Positives = 31/33 (93%)

Query:    15 VVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGV 47
             VVIVGNG VGKSSMIQRYC+G FT+DYKKTIGV
Sbjct:    40 VVIVGNGGVGKSSMIQRYCKGIFTKDYKKTIGV 72

GO:0003924 "GTPase activity" evidence=ISS

GO:0015031 "protein transport" evidence=IEA

GO:0005525 "GTP binding" evidence=IEA

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

GO:0031982 "vesicle" evidence=ISS

GO:0001738 "morphogenesis of a polarized epithelium" evidence=IMP

GO:0007224 "smoothened signaling pathway" evidence=IMP

GO:0005886 "plasma membrane" evidence=IDA

GO:0005737 "cytoplasm" evidence=IDA

UNIPROTKB|H7C0Z1 RAB36 "Ras-related protein Rab-36" [Homo sapiens (taxid:9606)]

 Score = 109 (43.4 bits), Expect = 2.1e-06, P = 2.1e-06
 Identities = 22/41 (53%), Positives = 30/41 (73%)

Query:    15 VVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRY 55
             VV+VG+  VGK+S+I R+C+  F RDYK TIGV    I+R+
Sbjct:    21 VVVVGDLYVGKTSLIHRFCKNVFDRDYKATIGVDFE-IERF 60

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

GO:0005525 "GTP binding" evidence=IEA

---

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

ID	Name	Annotated EC number	Identity	Query coverage	Hit coverage	RBH(Q2H)	RBH(H2Q)
P35288	RAB23_MOUSE	No assigned EC number	0.8484	0.4647	0.1392	yes	N/A
Q9ULC3	RAB23_HUMAN	No assigned EC number	0.8484	0.4647	0.1392	yes	N/A
Q55E31	RB32B_DICDI	No assigned EC number	0.5675	0.5211	0.1423	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	71
cd04106	162	cd04106, Rab23_like, Rab GTPase family 23 (Rab23)-	3e-16
cd00154	159	cd00154, Rab, Ras-related in brain (Rab) family of	2e-10
cd04109	213	cd04109, Rab28, Rab GTPase family 28 (Rab28)	2e-10
cd04107	201	cd04107, Rab32_Rab38, Rab GTPase families 18 (Rab1	2e-10
cd04108	170	cd04108, Rab36_Rab34, Rab GTPase families 34 (Rab3	8e-09
smart00175	164	smart00175, RAB, Rab subfamily of small GTPases	1e-08
pfam00071	162	pfam00071, Ras, Ras family	4e-08
cd01862	172	cd01862, Rab7, Rab GTPase family 7 (Rab7)	4e-07
COG1100	219	COG1100, COG1100, GTPase SAR1 and related small G	3e-06
cd00876	160	cd00876, Ras, Rat sarcoma (Ras) family of small gu	3e-06
smart00174	174	smart00174, RHO, Rho (Ras homology) subfamily of R	3e-06
cd04140	165	cd04140, ARHI_like, A Ras homolog member I (ARHI)	5e-06
cd04119	168	cd04119, RJL, Rab GTPase family J-like (RabJ-like)	5e-06
cd01868	165	cd01868, Rab11_like, Rab GTPase family 11 (Rab11)-	7e-06
cd01860	163	cd01860, Rab5_related, Rab-related GTPase family i	1e-05
cd04123	162	cd04123, Rab21, Rab GTPase family 21 (Rab21)	1e-05
smart00010	166	smart00010, small_GTPase, Small GTPase of the Ras	2e-05
smart00173	164	smart00173, RAS, Ras subfamily of RAS small GTPase	2e-05
cd00157	171	cd00157, Rho, Ras homology family (Rho) of small g	3e-05
cd00877	166	cd00877, Ran, Ras-related nuclear proteins (Ran)/T	3e-05
PLN03071	219	PLN03071, PLN03071, GTP-binding nuclear protein Ra	4e-05
cd04107	201	cd04107, Rab32_Rab38, Rab GTPase families 18 (Rab1	5e-05
PTZ00132	215	PTZ00132, PTZ00132, GTP-binding nuclear protein Ra	6e-05
cd04115	170	cd04115, Rab33B_Rab33A, Rab GTPase family 33 inclu	6e-05
cd04132	197	cd04132, Rho4_like, Ras homology family 4 (Rho4) o	9e-05
pfam08477	116	pfam08477, Miro, Miro-like protein	2e-04
cd01861	161	cd01861, Rab6, Rab GTPase family 6 (Rab6)	3e-04
cd01863	161	cd01863, Rab18, Rab GTPase family 18 (Rab18)	3e-04
cd04137	180	cd04137, RheB, Ras Homolog Enriched in Brain (RheB	3e-04
cd01867	167	cd01867, Rab8_Rab10_Rab13_like, Rab GTPase familie	5e-04
cd04134	185	cd04134, Rho3, Ras homology family 3 (Rho3) of sma	5e-04
cd04130	173	cd04130, Wrch_1, Wnt-1 responsive Cdc42 homolog (W	5e-04
cd04116	170	cd04116, Rab9, Rab GTPase family 9 (Rab9)	5e-04
PLN03110	216	PLN03110, PLN03110, Rab GTPase; Provisional	5e-04
cd04110	199	cd04110, Rab35, Rab GTPase family 35 (Rab35)	5e-04
cd01869	166	cd01869, Rab1_Ypt1, Rab GTPase family 1 includes t	6e-04
cd01864	165	cd01864, Rab19, Rab GTPase family 19 (Rab19)	7e-04
cd04108	170	cd04108, Rab36_Rab34, Rab GTPase families 34 (Rab3	8e-04
smart00176	200	smart00176, RAN, Ran (Ras-related nuclear proteins	8e-04
cd01865	165	cd01865, Rab3, Rab GTPase family 3 contains Rab3A,	0.001
cd04114	169	cd04114, Rab30, Rab GTPase family 30 (Rab30)	0.001
cd04147	197	cd04147, Ras_dva, Ras - dorsal-ventral anterior lo	0.001
cd04176	163	cd04176, Rap2, Rap2 family GTPase consists of Rap2	0.002
cd04145	164	cd04145, M_R_Ras_like, R-Ras2/TC21, M-Ras/R-Ras3	0.003
cd09914	161	cd09914, RocCOR, Ras of complex proteins (Roc) C-t	0.003
cd04175	164	cd04175, Rap1, Rap1 family GTPase consists of Rap1	0.004

>gnl|CDD|133306 cd04106, Rab23_like, Rab GTPase family 23 (Rab23)-like

 Score = 67.9 bits (166), Expect = 3e-16
 Identities = 25/33 (75%), Positives = 30/33 (90%)

Query: 15 VVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGV 47
          V++VGNG VGKSSMIQR+ +G FT+DYKKTIGV
Sbjct: 3  VIVVGNGNVGKSSMIQRFVKGIFTKDYKKTIGV 35

Rab23-like subfamily. 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) signaling 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 GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of most Rab proteins. Due to the presence of truncated sequences in this CD, the lipid modification site is not available for annotation. Length = 162

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

 Score = 52.8 bits (128), Expect = 2e-10
 Identities = 14/33 (42%), Positives = 24/33 (72%)

Query: 15 VVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGV 47
          +V++G+  VGK+S++ R+    F+ +YK TIGV
Sbjct: 3  IVLIGDSGVGKTSLLLRFVDNKFSENYKSTIGV 35

Rab GTPases form the largest family within the Ras superfamily. There are at least 60 Rab genes in the human genome, and a number of Rab GTPases are conserved from yeast to humans. Rab GTPases are small, monomeric proteins that function as molecular switches to regulate vesicle trafficking pathways. The different Rab GTPases are localized to the cytosolic face of specific intracellular membranes, where they regulate distinct steps in membrane traffic pathways. In the GTP-bound form, Rab GTPases recruit specific sets of effector proteins onto membranes. Through their effectors, Rab GTPases regulate vesicle formation, actin- and tubulin-dependent vesicle movement, and membrane fusion. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which mask C-terminal lipid binding and promote cytosolic localization. While most unicellular organisms possess 5-20 Rab members, several have been found to possess 60 or more Rabs; for many of these Rab isoforms, homologous proteins are not found in other organisms. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of most Rab proteins. Since crystal structures often lack C-terminal residues, the lipid modification site is not available for annotation in many of the CDs in the hierarchy, but is included where possible. Length = 159

>gnl|CDD|206694 cd04109, Rab28, Rab GTPase family 28 (Rab28)

 Score = 53.3 bits (128), Expect = 2e-10
 Identities = 15/33 (45%), Positives = 27/33 (81%)

Query: 15 VVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGV 47
          +V++G+GA GK+S+I+R+ +  F + YK+TIG+
Sbjct: 3  IVVLGDGASGKTSLIRRFAQEGFGKSYKQTIGL 35

Rab28 subfamily. 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 presumably 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 are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of most Rab proteins. Length = 213

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

 Score = 53.1 bits (128), Expect = 2e-10
 Identities = 17/33 (51%), Positives = 26/33 (78%)

Query: 15 VVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGV 47
          V+++G+  VGK+S+I+RY  G F++ YK TIGV
Sbjct: 3  VLVIGDLGVGKTSIIKRYVHGVFSQHYKATIGV 35

Rab38/Rab32 subfamily. Rab32 and Rab38 are members of the Rab family of small GTPases. Human Rab32 was first identified in platelets but it is expressed in a variety of cell types, where it functions as an A-kinase anchoring protein (AKAP). Rab38 has been shown to be melanocyte-specific. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of most Rab proteins. Length = 201

>gnl|CDD|206693 cd04108, Rab36_Rab34, Rab GTPase families 34 (Rab34) and 36 (Rab36)

 Score = 48.3 bits (115), Expect = 8e-09
 Identities = 17/37 (45%), Positives = 27/37 (72%)

Query: 15 VVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSM 51
          V++VG+ +VGK+ +I R+C+  F ++YK TIGV   M
Sbjct: 3  VIVVGDLSVGKTCLINRFCKDVFDKNYKATIGVDFEM 39

Rab34/Rab36 subfamily. 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 regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of most Rab proteins. Length = 170

>gnl|CDD|197555 smart00175, RAB, Rab subfamily of small GTPases

 Score = 47.9 bits (115), Expect = 1e-08
 Identities = 15/33 (45%), Positives = 24/33 (72%)

Query: 15 VVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGV 47
          ++++G+  VGKSS++ R+  G F+  YK TIGV
Sbjct: 3  IILIGDSGVGKSSLLSRFTDGKFSEQYKSTIGV 35

Rab GTPases are implicated in vesicle trafficking. Length = 164

>gnl|CDD|215692 pfam00071, Ras, Ras family

 Score = 46.3 bits (111), Expect = 4e-08
 Identities = 16/33 (48%), Positives = 24/33 (72%)

Query: 15 VVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGV 47
          +V+VG+G VGKSS++ R+ +  F  +Y  TIGV
Sbjct: 2  LVLVGDGGVGKSSLLIRFTQNKFPEEYIPTIGV 34

Includes sub-families Ras, Rab, Rac, Ral, Ran, Rap Ypt1 and more. Shares P-loop motif with GTP_EFTU, arf and myosin_head. See pfam00009 pfam00025, pfam00063. As regards Rab GTPases, these are important regulators of vesicle formation, motility and fusion. They share a fold in common with all Ras GTPases: this is a six-stranded beta-sheet surrounded by five alpha-helices. Length = 162

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

 Score = 44.2 bits (105), Expect = 4e-07
 Identities = 14/32 (43%), Positives = 22/32 (68%)

Query: 15 VVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIG 46
          V+I+G+  VGK+S++ +Y    F+  YK TIG
Sbjct: 3  VIILGDSGVGKTSLMNQYVNKKFSNQYKATIG 34

Rab7 subfamily. Rab7 is a small Rab GTPase that regulates vesicular traffic from early to late endosomal stages of the endocytic pathway. The yeast Ypt7 and mammalian Rab7 are both involved in transport to the vacuole/lysosome, whereas Ypt7 is also required for homotypic vacuole fusion. Mammalian Rab7 is an essential participant in the autophagic pathway for sequestration and targeting of cytoplasmic components to the lytic compartment. Mammalian Rab7 is also proposed to function as a tumor suppressor. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of most Rab proteins. Due to the presence of truncated sequences in this CD, the lipid modification site is not available for annotation. Length = 172

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

 Score = 42.3 bits (99), Expect = 3e-06
 Identities = 12/34 (35%), Positives = 20/34 (58%)

Query: 15 VVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVK 48
          +V++G+G VGK++++ R     F   Y  TIG  
Sbjct: 8  IVVLGDGGVGKTTLLNRLVGDEFPEGYPPTIGNL 41

Length = 219

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

 Score = 41.7 bits (99), Expect = 3e-06
 Identities = 13/32 (40%), Positives = 20/32 (62%)

Query: 14 TVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTI 45
           +V++G G VGKS++  R+  G F  +Y  TI
Sbjct: 1  KLVVLGAGGVGKSALTIRFVSGEFVEEYDPTI 32

The Ras family of the Ras superfamily includes classical N-Ras, H-Ras, and K-Ras, as well as R-Ras, Rap, Ral, Rheb, Rhes, ARHI, RERG, Rin/Rit, RSR1, RRP22, Ras2, Ras-dva, and RGK proteins. Ras proteins regulate cell growth, proliferation and differentiation. Ras is activated by guanine nucleotide exchange factors (GEFs) that release GDP and allow GTP binding. Many RasGEFs have been identified. These are sequestered in the cytosol until activation by growth factors triggers recruitment to the plasma membrane or Golgi, where the GEF colocalizes with Ras. Active GTP-bound Ras interacts with several effector proteins: among the best characterized are the Raf kinases, phosphatidylinositol 3-kinase (PI3K), RalGEFs and NORE/MST1. Most Ras proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an aliphatic amino acid and X = any amino acid. Lipid binding is essential for membrane attachment, a key feature of most Ras proteins. Due to the presence of truncated sequences in this CD, the lipid modification site is not available for annotation. Length = 160

>gnl|CDD|197554 smart00174, RHO, Rho (Ras homology) subfamily of Ras-like small GTPases

 Score = 41.4 bits (98), Expect = 3e-06
 Identities = 13/31 (41%), Positives = 20/31 (64%)

Query: 15 VVIVGNGAVGKSSMIQRYCRGTFTRDYKKTI 45
          +V+VG+GAVGK+ ++  Y    F  DY  T+
Sbjct: 1  LVVVGDGAVGKTCLLIVYTTNAFPEDYVPTV 31

Members of this subfamily of Ras-like small GTPases include Cdc42 and Rac, as well as Rho isoforms. Length = 174

>gnl|CDD|206711 cd04140, ARHI_like, A Ras homolog member I (ARHI)

 Score = 41.0 bits (96), Expect = 5e-06
 Identities = 16/31 (51%), Positives = 21/31 (67%)

Query: 15 VVIVGNGAVGKSSMIQRYCRGTFTRDYKKTI 45
          VV+ G G VGKSS++ R+ +GTF   Y  TI
Sbjct: 4  VVVFGAGGVGKSSLVLRFVKGTFRESYIPTI 34

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 the presence of truncated sequences in this CD, the lipid modification site is not available for annotation. Length = 165

>gnl|CDD|133319 cd04119, RJL, Rab GTPase family J-like (RabJ-like)

 Score = 40.8 bits (96), Expect = 5e-06
 Identities = 17/33 (51%), Positives = 22/33 (66%)

Query: 15 VVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGV 47
          V+ +GN  VGKS +I+RYC G F   Y  TIG+
Sbjct: 3  VISMGNSGVGKSCIIKRYCEGRFVSKYLPTIGI 35

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. Length = 168

>gnl|CDD|206660 cd01868, Rab11_like, Rab GTPase family 11 (Rab11)-like includes Rab11a, Rab11b, and Rab25

 Score = 40.6 bits (96), Expect = 7e-06
 Identities = 15/33 (45%), Positives = 23/33 (69%)

Query: 15 VVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGV 47
          +V++G+  VGKS+++ R+ R  F  D K TIGV
Sbjct: 6  IVLIGDSGVGKSNLLSRFTRNEFNLDSKSTIGV 38

Rab11a, Rab11b, and Rab25 are closely related, evolutionary conserved Rab proteins that are differentially expressed. Rab11a is ubiquitously synthesized, Rab11b is enriched in brain and heart and Rab25 is only found in epithelia. Rab11/25 proteins seem to regulate recycling pathways from endosomes to the plasma membrane and to the trans-Golgi network. Furthermore, Rab11a is thought to function in the histamine-induced fusion of tubulovesicles containing H+, K+ ATPase with the plasma membrane in gastric parietal cells and in insulin-stimulated insertion of GLUT4 in the plasma membrane of cardiomyocytes. Overexpression of Rab25 has recently been observed in ovarian cancer and breast cancer, and has been correlated with worsened outcomes in both diseases. In addition, Rab25 overexpression has also been observed in prostate cancer, transitional cell carcinoma of the bladder, and invasive breast tumor cells. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of most Rab proteins. Due to the presence of truncated sequences in this CD, the lipid modification site is not available for annotation. Length = 165

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

 Score = 40.2 bits (95), Expect = 1e-05
 Identities = 12/32 (37%), Positives = 24/32 (75%)

Query: 15 VVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIG 46
          +V++G+ +VGKSS++ R+ +  F+ + + TIG
Sbjct: 4  LVLLGDSSVGKSSIVLRFVKNEFSENQESTIG 35

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

>gnl|CDD|133323 cd04123, Rab21, Rab GTPase family 21 (Rab21)

 Score = 39.9 bits (94), Expect = 1e-05
 Identities = 14/40 (35%), Positives = 24/40 (60%), Gaps = 2/40 (5%)

Query: 15 VVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQR 54
          VV++G G VGK+S++ RY    F   ++ T   ++S  Q+
Sbjct: 3  VVLLGEGRVGKTSLVLRYVENKFNEKHESTT--QASFFQK 40

The localization and function of Rab21 are not clearly defined, with conflicting data reported. Rab21 has been reported to localize in the ER in human intestinal epithelial cells, with partial colocalization with alpha-glucosidase, a late endosomal/lysosomal marker. More recently, Rab21 was shown to colocalize with and affect the morphology of early endosomes. In Dictyostelium, GTP-bound Rab21, together with two novel LIM domain proteins, LimF and ChLim, has been shown to regulate phagocytosis. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of most Rab proteins. Due to the presence of truncated sequences in this CD, the lipid modification site is not available for annotation. Length = 162

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

 Score = 39.1 bits (92), Expect = 2e-05
 Identities = 12/31 (38%), Positives = 21/31 (67%)

Query: 15 VVIVGNGAVGKSSMIQRYCRGTFTRDYKKTI 45
          +V++G G VGKS++  ++ +G F  +Y  TI
Sbjct: 5  LVVLGGGGVGKSALTIQFVQGHFVDEYDPTI 35

SMART predicts Ras-like small GTPases of the ARF, RAB, RAN, RAS, and SAR subfamilies. Others that could not be classified in this way are predicted to be members of the small GTPase superfamily without predictions of the subfamily. Length = 166

>gnl|CDD|214541 smart00173, RAS, Ras subfamily of RAS small GTPases

 Score = 39.1 bits (92), Expect = 2e-05
 Identities = 13/31 (41%), Positives = 22/31 (70%)

Query: 15 VVIVGNGAVGKSSMIQRYCRGTFTRDYKKTI 45
          +V++G+G VGKS++  ++ +G F  DY  TI
Sbjct: 3  LVVLGSGGVGKSALTIQFIQGHFVDDYDPTI 33

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

>gnl|CDD|206641 cd00157, Rho, Ras homology family (Rho) of small guanosine triphosphatases (GTPases)

 Score = 39.1 bits (92), Expect = 3e-05
 Identities = 12/32 (37%), Positives = 20/32 (62%)

Query: 14 TVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTI 45
           +V+VG+GAVGK+ ++  Y    F  +Y  T+
Sbjct: 2  KIVVVGDGAVGKTCLLISYTTNKFPTEYVPTV 33

Members of the Rho (Ras homology) 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 proteins. Since crystal structures often lack C-terminal residues, this feature is not available for annotation in many of the CDs in the hierarchy. Length = 171

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

 Score = 38.8 bits (91), Expect = 3e-05
 Identities = 13/33 (39%), Positives = 23/33 (69%)

Query: 15 VVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGV 47
          +V+VG+G  GK++ ++R+  G F + Y  T+GV
Sbjct: 3  LVLVGDGGTGKTTFVKRHLTGEFEKKYVATLGV 35

Ran GTPase is involved in diverse biological functions, such as nuclear transport, spindle formation during mitosis, DNA replication, and cell division. Among the Ras superfamily, Ran is a unique small G protein. It does not have a lipid modification motif at the C-terminus to bind to the membrane, which is often observed within the Ras superfamily. Ran may therefore interact with a wide range of proteins in various intracellular locations. Like other GTPases, Ran exists in GTP- and GDP-bound conformations that interact differently with effectors. Conversion between these forms and the assembly or disassembly of effector complexes requires the interaction of regulator proteins. The intrinsic GTPase activity of Ran is very low, but it is greatly stimulated by a GTPase-activating protein (RanGAP1) located in the cytoplasm. By contrast, RCC1, a guanine nucleotide exchange factor that generates RanGTP, is bound to chromatin and confined to the nucleus. Ran itself is mobile and is actively imported into the nucleus by a mechanism involving NTF-2. Together with the compartmentalization of its regulators, this is thought to produce a relatively high concentration of RanGTP in the nucleus. Length = 166

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

 Score = 39.0 bits (91), Expect = 4e-05
 Identities = 15/32 (46%), Positives = 23/32 (71%)

Query: 16 VIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGV 47
          VIVG+G  GK++ ++R+  G F + Y+ TIGV
Sbjct: 17 VIVGDGGTGKTTFVKRHLTGEFEKKYEPTIGV 48

Length = 219

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

 Score = 38.4 bits (90), Expect = 5e-05
 Identities = 12/22 (54%), Positives = 17/22 (77%)

Query: 48 KSSMIQRYCRGTFTRDYKKTIG 69
          K+S+I+RY  G F++ YK TIG
Sbjct: 13 KTSIIKRYVHGVFSQHYKATIG 34

Rab38/Rab32 subfamily. Rab32 and Rab38 are members of the Rab family of small GTPases. Human Rab32 was first identified in platelets but it is expressed in a variety of cell types, where it functions as an A-kinase anchoring protein (AKAP). Rab38 has been shown to be melanocyte-specific. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of most Rab proteins. Length = 201

>gnl|CDD|240284 PTZ00132, PTZ00132, GTP-binding nuclear protein Ran; Provisional

 Score = 38.5 bits (90), Expect = 6e-05
 Identities = 13/33 (39%), Positives = 24/33 (72%)

Query: 15 VVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGV 47
          +++VG+G VGK++ ++R+  G F + Y  T+GV
Sbjct: 12 LILVGDGGVGKTTFVKRHLTGEFEKKYIPTLGV 44

Length = 215

>gnl|CDD|133315 cd04115, Rab33B_Rab33A, Rab GTPase family 33 includes Rab33A and Rab33B

 Score = 38.2 bits (89), Expect = 6e-05
 Identities = 12/33 (36%), Positives = 21/33 (63%)

Query: 15 VVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGV 47
          ++++G+  VGK+ +  R+C G F    + TIGV
Sbjct: 5  IIVIGDSNVGKTCLTYRFCAGRFPERTEATIGV 37

Rab33B/Rab33A subfamily. 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 nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of most Rab proteins. Due to the presence of truncated sequences in this CD, the lipid modification site is not available for annotation. Length = 170

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

 Score = 37.7 bits (88), Expect = 9e-05
 Identities = 11/31 (35%), Positives = 21/31 (67%)

Query: 15 VVIVGNGAVGKSSMIQRYCRGTFTRDYKKTI 45
          +V+VG+G  GK+ ++  Y +G+F  +Y  T+
Sbjct: 6  IVVVGDGGCGKTCLLMVYAQGSFPEEYVPTV 36

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

>gnl|CDD|219856 pfam08477, Miro, Miro-like protein

 Score = 35.8 bits (83), Expect = 2e-04
 Identities = 10/32 (31%), Positives = 18/32 (56%)

Query: 15 VVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIG 46
          VV++G+   GKSS++ +   G F  +  +  G
Sbjct: 2  VVVIGDKGSGKSSLLSQLVGGEFPPEPLEIQG 33

Mitochondrial Rho proteins (Miro-1, and Miro-2), are atypical Rho GTPases. They have a unique domain organisation, with tandem GTP-binding domains and two EF hand domains (pfam00036), that may bind calcium. They are also larger than classical small GTPases. It has been proposed that they are involved in mitochondrial homeostasis and apoptosis. Length = 116

>gnl|CDD|206654 cd01861, Rab6, Rab GTPase family 6 (Rab6)

 Score = 36.4 bits (85), Expect = 3e-04
 Identities = 14/33 (42%), Positives = 23/33 (69%)

Query: 15 VVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGV 47
          +V +G+ +VGK+S+I R+   TF   Y+ TIG+
Sbjct: 3  LVFLGDQSVGKTSIITRFMYDTFDNQYQATIGI 35

Rab6 is involved in microtubule-dependent transport pathways through the Golgi and from endosomes to the Golgi. Rab6A of mammals is implicated in retrograde transport through the Golgi stack, and is also required for a slow, COPI-independent, retrograde transport pathway from the Golgi to the endoplasmic reticulum (ER). This pathway may allow Golgi residents to be recycled through the ER for scrutiny by ER quality-control systems. Yeast Ypt6p, the homolog of the mammalian Rab6 GTPase, is not essential for cell viability. Ypt6p acts in endosome-to-Golgi, in intra-Golgi retrograde transport, and possibly also in Golgi-to-ER trafficking. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of most Rab proteins. Due to the presence of truncated sequences in this CD, the lipid modification site is not available for annotation. Length = 161

>gnl|CDD|206656 cd01863, Rab18, Rab GTPase family 18 (Rab18)

 Score = 36.1 bits (84), Expect = 3e-04
 Identities = 14/33 (42%), Positives = 22/33 (66%)

Query: 15 VVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGV 47
          ++++G+  VGKSS++ R+   TF  D   TIGV
Sbjct: 3  ILLIGDSGVGKSSLLLRFTDDTFDEDLSSTIGV 35

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

>gnl|CDD|206709 cd04137, RheB, Ras Homolog Enriched in Brain (RheB) is a small GTPase

 Score = 36.1 bits (84), Expect = 3e-04
 Identities = 11/31 (35%), Positives = 19/31 (61%)

Query: 15 VVIVGNGAVGKSSMIQRYCRGTFTRDYKKTI 45
          + ++G+ +VGKSS+  ++  G F   Y  TI
Sbjct: 4  IAVLGSRSVGKSSLTVQFVEGHFVESYYPTI 34

Rheb (Ras Homolog Enriched in Brain) subfamily. Rheb was initially identified in rat brain, where its expression is elevated by seizures or by long-term potentiation. It is expressed ubiquitously, with elevated levels in muscle and brain. Rheb functions as an important mediator between the tuberous sclerosis complex proteins, TSC1 and TSC2, and the mammalian target of rapamycin (TOR) kinase to stimulate cell growth. TOR kinase regulates cell growth by controlling nutrient availability, growth factors, and the energy status of the cell. TSC1 and TSC2 form a dimeric complex that has tumor suppressor activity, and TSC2 is a GTPase activating protein (GAP) for Rheb. The TSC1/TSC2 complex inhibits the activation of TOR kinase through Rheb. Rheb has also been shown to induce the formation of large cytoplasmic vacuoles in a process that is dependent on the GTPase cycle of Rheb, but independent of the TOR kinase, suggesting Rheb plays a role in endocytic trafficking that leads to cell growth and cell-cycle progression. Most Ras proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an aliphatic amino acid and X = any amino acid. Lipid binding is essential for membrane attachment, a key feature of most Ras proteins. Length = 180

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

 Score = 35.7 bits (83), Expect = 5e-04
 Identities = 10/33 (30%), Positives = 21/33 (63%)

Query: 15 VVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGV 47
          ++++G+  VGKS ++ R+   +F   +  TIG+
Sbjct: 6  LLLIGDSGVGKSCLLLRFSEDSFNPSFISTIGI 38

Rab8/Sec4/Ypt2 are known or suspected to be involved in post-Golgi transport to the plasma membrane. It is likely that these Rabs have functions that are specific to the mammalian lineage and have no orthologs in plants. Rab8 modulates polarized membrane transport through reorganization of actin and microtubules, induces the formation of new surface extensions, and has an important role in directed membrane transport to cell surfaces. The Ypt2 gene of the fission yeast Schizosaccharomyces pombe encodes a member of the Ypt/Rab family of small GTP-binding proteins, related in sequence to Sec4p of Saccharomyces cerevisiae but closer to mammalian Rab8. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of most Rab proteins. Due to the presence of truncated sequences in this CD, the lipid modification site is not available for annotation. Length = 167

>gnl|CDD|206706 cd04134, Rho3, Ras homology family 3 (Rho3) of small guanosine triphosphatases (GTPases)

 Score = 35.6 bits (82), Expect = 5e-04
 Identities = 13/31 (41%), Positives = 23/31 (74%)

Query: 15 VVIVGNGAVGKSSMIQRYCRGTFTRDYKKTI 45
          VV++G+GA GK+S++  + RG F + Y+ T+
Sbjct: 3  VVVLGDGACGKTSLLNVFTRGYFPQVYEPTV 33

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. Length = 185

>gnl|CDD|133330 cd04130, Wrch_1, Wnt-1 responsive Cdc42 homolog (Wrch-1) is a Rho family GTPase similar to Cdc42

 Score = 35.8 bits (83), Expect = 5e-04
 Identities = 13/29 (44%), Positives = 19/29 (65%)

Query: 16 VIVGNGAVGKSSMIQRYCRGTFTRDYKKT 44
          V+VG+GAVGK+S+I  Y    +  +Y  T
Sbjct: 4  VLVGDGAVGKTSLIVSYTTNGYPTEYVPT 32

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, 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. Length = 173

>gnl|CDD|206697 cd04116, Rab9, Rab GTPase family 9 (Rab9)

 Score = 35.6 bits (82), Expect = 5e-04
 Identities = 15/34 (44%), Positives = 22/34 (64%)

Query: 15 VVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVK 48
          V+++G+G VGKSS++ RY    F      TIGV+
Sbjct: 8  VILLGDGGVGKSSLMNRYVTNKFDTQLFHTIGVE 41

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, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of most Rab proteins. Due to the presence of truncated sequences in this CD, the lipid modification site is not available for annotation. Length = 170

>gnl|CDD|178657 PLN03110, PLN03110, Rab GTPase; Provisional

 Score = 35.7 bits (82), Expect = 5e-04
 Identities = 14/34 (41%), Positives = 24/34 (70%)

Query: 15 VVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVK 48
          +V++G+  VGKS+++ R+ R  F  + K TIGV+
Sbjct: 15 IVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVE 48

Length = 216

>gnl|CDD|133310 cd04110, Rab35, Rab GTPase family 35 (Rab35)

 Score = 35.6 bits (82), Expect = 5e-04
 Identities = 15/33 (45%), Positives = 23/33 (69%)

Query: 15 VVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGV 47
          ++I+G+  VGKSS++ R+   TF+  Y  TIGV
Sbjct: 9  LLIIGDSGVGKSSLLLRFADNTFSGSYITTIGV 41

Rab35 is one of several Rab proteins to be found to participate in the regulation of osteoclast cells in rats. In addition, Rab35 has been identified as a protein that interacts with nucleophosmin-anaplastic lymphoma kinase (NPM-ALK) in human cells. Overexpression of NPM-ALK is a key oncogenic event in some anaplastic large-cell lymphomas; since Rab35 interacts with N|PM-ALK, it may provide a target for cancer treatments. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of most Rab proteins. Length = 199

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

 Score = 35.4 bits (82), Expect = 6e-04
 Identities = 13/33 (39%), Positives = 22/33 (66%)

Query: 15 VVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGV 47
          ++++G+  VGKS ++ R+   T+T  Y  TIGV
Sbjct: 5  LLLIGDSGVGKSCLLLRFADDTYTESYISTIGV 37

Rab1/Ypt1 subfamily. Rab1 is found in every eukaryote and is a key regulatory component for the transport of vesicles from the ER to the Golgi apparatus. Studies on mutations of Ypt1, the yeast homolog of Rab1, showed that this protein is necessary for the budding of vesicles of the ER as well as for their transport to, and fusion with, the Golgi apparatus. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of most Rab proteins. Due to the presence of truncated sequences in this CD, the lipid modification site is not available for annotation. Length = 166

>gnl|CDD|133267 cd01864, Rab19, Rab GTPase family 19 (Rab19)

 Score = 35.1 bits (81), Expect = 7e-04
 Identities = 14/37 (37%), Positives = 25/37 (67%)

Query: 15 VVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSM 51
          ++++G+  VGK+ ++QR+  GTF+     TIGV  +M
Sbjct: 6  IILIGDSNVGKTCVVQRFKSGTFSERQGNTIGVDFTM 42

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

>gnl|CDD|206693 cd04108, Rab36_Rab34, Rab GTPase families 34 (Rab34) and 36 (Rab36)

 Score = 34.9 bits (80), Expect = 8e-04
 Identities = 10/22 (45%), Positives = 16/22 (72%)

Query: 48 KSSMIQRYCRGTFTRDYKKTIG 69
          K+ +I R+C+  F ++YK TIG
Sbjct: 13 KTCLINRFCKDVFDKNYKATIG 34

Rab34/Rab36 subfamily. 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 regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of most Rab proteins. Length = 170

>gnl|CDD|128473 smart00176, RAN, Ran (Ras-related nuclear proteins) /TC4 subfamily of small GTPases

 Score = 35.0 bits (80), Expect = 8e-04
 Identities = 12/31 (38%), Positives = 21/31 (67%)

Query: 18 VGNGAVGKSSMIQRYCRGTFTRDYKKTIGVK 48
          VG+G  GK++ ++R+  G F + Y  T+GV+
Sbjct: 1  VGDGGTGKTTFVKRHLTGEFEKKYVATLGVE 31

Ran is involved in the active transport of proteins through nuclear pores. Length = 200

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

 Score = 34.5 bits (79), Expect = 0.001
 Identities = 13/33 (39%), Positives = 23/33 (69%)

Query: 15 VVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGV 47
          ++I+GN +VGK+S + RY   +FT  +  T+G+
Sbjct: 4  LLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGI 36

The Rab3 subfamily contains Rab3A, Rab3B, Rab3C, and Rab3D. All four isoforms were found in mouse brain and endocrine tissues, with varying levels of expression. Rab3A, Rab3B, and Rab3C localized to synaptic and secretory vesicles; Rab3D was expressed at high levels only in adipose tissue, exocrine glands, and the endocrine pituitary, where it is localized to cytoplasmic secretory granules. Rab3 appears to control Ca2+-regulated exocytosis. The appropriate GDP/GTP exchange cycle of Rab3A is required for Ca2+-regulated exocytosis to occur, and interaction of the GTP-bound form of Rab3A with effector molecule(s) is widely believed to be essential for this process. Functionally, most studies point toward a role for Rab3 in the secretion of hormones and neurotransmitters. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of most Rab proteins. Due to the presence of truncated sequences in this CD, the lipid modification site is not available for annotation. Length = 165

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

 Score = 34.5 bits (79), Expect = 0.001
 Identities = 13/33 (39%), Positives = 22/33 (66%)

Query: 15 VVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGV 47
          +V++GN  VGK+ +++R+ +G F      TIGV
Sbjct: 10 IVLIGNAGVGKTCLVRRFTQGLFPPGQGATIGV 42

Rab30 subfamily. Rab30 appears to be associated with the Golgi stack. It is expressed in a wide variety of tissue types and in humans maps to chromosome 11. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of most Rab proteins. Due to the presence of truncated sequences in this CD, the lipid modification site is not available for annotation. Length = 169

>gnl|CDD|206714 cd04147, Ras_dva, Ras - dorsal-ventral anterior localization (Ras-dva) family

 Score = 34.4 bits (79), Expect = 0.001
 Identities = 11/31 (35%), Positives = 21/31 (67%)

Query: 15 VVIVGNGAVGKSSMIQRYCRGTFTRDYKKTI 45
          +V +G   VGK+++IQR+   TF   +++T+
Sbjct: 2  LVFMGAAGVGKTALIQRFLYDTFEPKHRRTV 32

Ras-dva subfamily. 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. Length = 197

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

 Score = 34.0 bits (78), Expect = 0.002
 Identities = 14/31 (45%), Positives = 21/31 (67%)

Query: 15 VVIVGNGAVGKSSMIQRYCRGTFTRDYKKTI 45
          VV++G+G VGKS++  ++  GTF   Y  TI
Sbjct: 4  VVVLGSGGVGKSALTVQFVSGTFIEKYDPTI 34

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

>gnl|CDD|133345 cd04145, M_R_Ras_like, R-Ras2/TC21, M-Ras/R-Ras3

 Score = 33.5 bits (77), Expect = 0.003
 Identities = 16/35 (45%), Positives = 20/35 (57%), Gaps = 8/35 (22%)

Query: 15 VVIVGNGAVGKSSM----IQRYCRGTFTRDYKKTI 45
          +V+VG G VGKS++    IQ Y    F  DY  TI
Sbjct: 5  LVVVGGGGVGKSALTIQFIQSY----FVTDYDPTI 35

The M-Ras/R-Ras-like subfamily contains R-Ras2/TC21, M-Ras/R-Ras3, and related members of the Ras family. M-Ras is expressed in lympho-hematopoetic cells. It interacts with some of the known Ras effectors, but appears to also have its own effectors. Expression of mutated M-Ras leads to transformation of several types of cell lines, including hematopoietic cells, mammary epithelial cells, and fibroblasts. Overexpression of M-Ras is observed in carcinomas from breast, uterus, thyroid, stomach, colon, kidney, lung, and rectum. In addition, expression of a constitutively active M-Ras mutant in murine bone marrow induces a malignant mast cell leukemia that is distinct from the monocytic leukemia induced by H-Ras. TC21, along with H-Ras, has been shown to regulate the branching morphogenesis of ureteric bud cell branching in mice. Most Ras proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an aliphatic amino acid and X = any amino acid. Lipid binding is essential for membrane attachment, a key feature of most Ras proteins. Due to the presence of truncated sequences in this CD, the lipid modification site is not available for annotation. Length = 164

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

 Score = 33.1 bits (76), Expect = 0.003
 Identities = 11/40 (27%), Positives = 20/40 (50%)

Query: 15 VVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQR 54
          +++VG G VGK+S+ ++     F  D   T G+     + 
Sbjct: 4  LMLVGQGGVGKTSLCKQLIGEKFDGDESSTHGINVQDWKI 43

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

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

 Score = 33.3 bits (76), Expect = 0.004
 Identities = 12/31 (38%), Positives = 21/31 (67%)

Query: 15 VVIVGNGAVGKSSMIQRYCRGTFTRDYKKTI 45
          +V++G+G VGKS++  ++ +G F   Y  TI
Sbjct: 4  LVVLGSGGVGKSALTVQFVQGIFVEKYDPTI 34

The Rap1 subgroup is part of the Rap subfamily of the Ras family. It can be further divided into the Rap1a and Rap1b isoforms. In humans, Rap1a and Rap1b share 95% sequence homology, but are products of two different genes located on chromosomes 1 and 12, respectively. Rap1a is sometimes called smg p21 or Krev1 in the older literature. Rap1 proteins are believed to perform different cellular functions, depending on the isoform, its subcellular localization, and the effector proteins it binds. For example, in rat salivary gland, neutrophils, and platelets, Rap1 localizes to secretory granules and is believed to regulate exocytosis or the formation of secretory granules. Rap1 has also been shown to localize in the Golgi of rat fibroblasts, zymogen granules, plasma membrane, and the microsomal membrane of pancreatic acini, as well as in the endocytic compartment of skeletal muscle cells and fibroblasts. High expression of Rap1 has been observed in the nucleus of human oropharyngeal squamous cell carcinomas (SCCs) and cell lines; interestingly, in the SCCs, the active GTP-bound form localized to the nucleus, while the inactive GDP-bound form localized to the cytoplasm. Rap1 plays a role in phagocytosis by controlling the binding of adhesion receptors (typically integrins) to their ligands. In yeast, Rap1 has been implicated in multiple functions, including activation and silencing of transcription and maintenance of telomeres. Rap1a, which is stimulated by T-cell receptor (TCR) activation, is a positive regulator of T cells by directing integrin activation and augmenting lymphocyte responses. In murine hippocampal neurons, Rap1b determines which neurite will become the axon and directs the recruitment of Cdc42, which is required for formation of dendrites and axons. In murine platelets, Rap1b is required for normal homeostasis in vivo and is involved in integrin activation. Most Ras proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an aliphatic amino acid and X = any amino acid. Lipid binding is essential for membrane attachment, a key feature of most Ras proteins. Due to the presence of truncated sequences in this CD, the lipid modification site is not available for annotation. Length = 164

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	71
KOG0084|consensus	205		99.9
KOG0094|consensus	221		99.89
KOG0394|consensus	210		99.85
KOG0092|consensus	200		99.85
KOG0080|consensus	209		99.84
KOG0078|consensus	207		99.84
KOG0098|consensus	216		99.84
KOG0079|consensus	198		99.83
cd04172	182	Rnd3_RhoE_Rho8 Rnd3/RhoE/Rho8 subfamily. Rnd3/RhoE	99.81
KOG0087|consensus	222		99.79
KOG0095|consensus	213		99.79
cd04131	178	Rnd Rnd subfamily. The Rnd subfamily contains Rnd1	99.79
cd04128	182	Spg1 Spg1p. Spg1p (septum-promoting GTPase) was fi	99.79
cd01875	191	RhoG RhoG subfamily. RhoG is a GTPase with high se	99.79
cd04133	176	Rop_like Rop subfamily. The Rop (Rho-related prote	99.79
cd04173	222	Rnd2_Rho7 Rnd2/Rho7 subfamily. Rnd2/Rho7 is a memb	99.78
KOG0093|consensus	193		99.78
cd04174	232	Rnd1_Rho6 Rnd1/Rho6 subfamily. Rnd1/Rho6 is a memb	99.78
cd01874	175	Cdc42 Cdc42 subfamily. Cdc42 is an essential GTPas	99.77
cd04120	202	Rab12 Rab12 subfamily. Rab12 was first identified	99.77
cd04121	189	Rab40 Rab40 subfamily. This subfamily contains Rab	99.76
cd04108	170	Rab36_Rab34 Rab34/Rab36 subfamily. Rab34, found pr	99.75
KOG0086|consensus	214		99.75
cd04102	202	RabL3 RabL3 (Rab-like3) subfamily. RabL3s are nove	99.74
PLN03071	219	GTP-binding nuclear protein Ran; Provisional	99.74
cd04122	166	Rab14 Rab14 subfamily. Rab14 GTPases are localized	99.73
cd04119	168	RJL RJL (RabJ-Like) subfamily. RJLs are found in m	99.73
PF00071	162	Ras: Ras family; InterPro: IPR001806 Small GTPases	99.73
cd04141	172	Rit_Rin_Ric Rit/Rin/Ric subfamily. Rit (Ras-like p	99.73
cd04107	201	Rab32_Rab38 Rab38/Rab32 subfamily. Rab32 and Rab38	99.73
cd01871	174	Rac1_like Rac1-like subfamily. The Rac1-like subfa	99.73
cd04117	161	Rab15 Rab15 subfamily. Rab15 colocalizes with the	99.73
KOG0091|consensus	213		99.72
cd04136	163	Rap_like Rap-like subfamily. The Rap subfamily con	99.72
cd01892	169	Miro2 Miro2 subfamily. Miro (mitochondrial Rho) pr	99.72
cd04138	162	H_N_K_Ras_like H-Ras/N-Ras/K-Ras subfamily. H-Ras,	99.72
PLN03110	216	Rab GTPase; Provisional	99.72
PTZ00369	189	Ras-like protein; Provisional	99.72
cd01865	165	Rab3 Rab3 subfamily. The Rab3 subfamily contains R	99.71
cd04175	164	Rap1 Rap1 subgroup. The Rap1 subgroup is part of t	99.71
KOG0393|consensus	198		99.71
cd04109	215	Rab28 Rab28 subfamily. First identified in maize,	99.71
cd01867	167	Rab8_Rab10_Rab13_like Rab8/Sec4/Ypt2. Rab8/Sec4/Yp	99.71
PLN00023	334	GTP-binding protein; Provisional	99.7
cd04110	199	Rab35 Rab35 subfamily. Rab35 is one of several Rab	99.7
cd04116	170	Rab9 Rab9 subfamily. Rab9 is found in late endosom	99.7
cd04127	180	Rab27A Rab27a subfamily. The Rab27a subfamily cons	99.7
KOG0097|consensus	215		99.7
cd04134	189	Rho3 Rho3 subfamily. Rho3 is a member of the Rho f	99.7
cd04132	187	Rho4_like Rho4-like subfamily. Rho4 is a GTPase th	99.69
cd00877	166	Ran Ran (Ras-related nuclear proteins) /TC4 subfam	99.69
cd04118	193	Rab24 Rab24 subfamily. Rab24 is distinct from othe	99.69
cd04142	198	RRP22 RRP22 subfamily. RRP22 (Ras-related protein	99.69
cd04124	161	RabL2 RabL2 subfamily. RabL2 (Rab-like2) subfamily	99.69
cd04176	163	Rap2 Rap2 subgroup. The Rap2 subgroup is part of t	99.69
cd04143	247	Rhes_like Rhes_like subfamily. This subfamily incl	99.69
cd04125	188	RabA_like RabA-like subfamily. RabA was first iden	99.69
cd01864	165	Rab19 Rab19 subfamily. Rab19 proteins are associat	99.69
cd01869	166	Rab1_Ypt1 Rab1/Ypt1 subfamily. Rab1 is found in ev	99.68
cd04144	190	Ras2 Ras2 subfamily. The Ras2 subfamily, found exc	99.68
cd04115	170	Rab33B_Rab33A Rab33B/Rab33A subfamily. Rab33B is u	99.68
PLN03108	210	Rab family protein; Provisional	99.68
cd01870	175	RhoA_like RhoA-like subfamily. The RhoA subfamily	99.68
cd04111	211	Rab39 Rab39 subfamily. Found in eukaryotes, Rab39	99.67
cd04106	162	Rab23_lke Rab23-like subfamily. Rab23 is a member	99.67
cd04140	165	ARHI_like ARHI subfamily. ARHI (A Ras homolog memb	99.67
cd01868	165	Rab11_like Rab11-like. Rab11a, Rab11b, and Rab25 a	99.67
cd04103	158	Centaurin_gamma Centaurin gamma. The centaurins (a	99.67
PTZ00132	215	GTP-binding nuclear protein Ran; Provisional	99.66
smart00173	164	RAS Ras subfamily of RAS small GTPases. Similar in	99.66
KOG0088|consensus	218		99.66
cd04130	173	Wrch_1 Wrch-1 subfamily. Wrch-1 (Wnt-1 responsive	99.66
cd01866	168	Rab2 Rab2 subfamily. Rab2 is localized on cis-Golg	99.66
cd04113	161	Rab4 Rab4 subfamily. Rab4 has been implicated in n	99.65
cd04101	164	RabL4 RabL4 (Rab-like4) subfamily. RabL4s are nove	99.65
cd01860	163	Rab5_related Rab5-related subfamily. This subfamil	99.65
cd04112	191	Rab26 Rab26 subfamily. First identified in rat pan	99.65
cd04145	164	M_R_Ras_like M-Ras/R-Ras-like subfamily. This subf	99.64
cd04135	174	Tc10 TC10 subfamily. TC10 is a Rho family protein	99.64
KOG0081|consensus	219		99.64
cd01873	195	RhoBTB RhoBTB subfamily. Members of the RhoBTB sub	99.64
smart00174	174	RHO Rho (Ras homology) subfamily of Ras-like small	99.63
cd04177	168	RSR1 RSR1 subgroup. RSR1/Bud1p is a member of the	99.63
cd01861	161	Rab6 Rab6 subfamily. Rab6 is involved in microtubu	99.63
cd04146	165	RERG_RasL11_like RERG/RasL11-like subfamily. RERG	99.62
COG1100	219	GTPase SAR1 and related small G proteins [General	99.62
cd04148	221	RGK RGK subfamily. The RGK (Rem, Rem2, Rad, Gem/Ki	99.62
cd01862	172	Rab7 Rab7 subfamily. Rab7 is a small Rab GTPase th	99.62
PLN03118	211	Rab family protein; Provisional	99.6
smart00176	200	RAN Ran (Ras-related nuclear proteins) /TC4 subfam	99.6
smart00175	164	RAB Rab subfamily of small GTPases. Rab GTPases ar	99.59
cd04126	220	Rab20 Rab20 subfamily. Rab20 is one of several Rab	99.59
cd04139	164	RalA_RalB RalA/RalB subfamily. The Ral (Ras-like)	99.59
cd01863	161	Rab18 Rab18 subfamily. Mammalian Rab18 is implicat	99.58
cd00157	171	Rho Rho (Ras homology) family. Members of the Rho	99.57
cd04114	169	Rab30 Rab30 subfamily. Rab30 appears to be associa	99.57
KOG0395|consensus	196		99.55
cd04123	162	Rab21 Rab21 subfamily. The localization and functi	99.55
cd01893	166	Miro1 Miro1 subfamily. Miro (mitochondrial Rho) pr	99.55
smart00177	175	ARF ARF-like small GTPases; ARF, ADP-ribosylation	99.55
KOG0083|consensus	192		99.55
cd04149	168	Arf6 Arf6 subfamily. Arf6 (ADP ribosylation factor	99.55
PTZ00133	182	ADP-ribosylation factor; Provisional	99.54
cd04150	159	Arf1_5_like Arf1-Arf5-like subfamily. This subfami	99.54
cd00154	159	Rab Rab family. Rab GTPases form the largest famil	99.54
cd04152	183	Arl4_Arl7 Arl4/Arl7 subfamily. Arl4 (Arf-like 4) i	99.54
cd04162	164	Arl9_Arfrp2_like Arl9/Arfrp2-like subfamily. Arl9	99.54
cd04129	187	Rho2 Rho2 subfamily. Rho2 is a fungal GTPase that	99.54
cd04137	180	RheB Rheb (Ras Homolog Enriched in Brain) subfamil	99.52
PLN00223	181	ADP-ribosylation factor; Provisional	99.51
cd04147	198	Ras_dva Ras-dva subfamily. Ras-dva (Ras - dorsal-v	99.51
TIGR00231	161	small_GTP small GTP-binding protein domain. This m	99.5
cd00876	160	Ras Ras family. The Ras family of the Ras superfam	99.47
cd04158	169	ARD1 ARD1 subfamily. ARD1 (ADP-ribosylation factor	99.47
cd04156	160	ARLTS1 ARLTS1 subfamily. ARLTS1 (Arf-like tumor su	99.46
cd04154	173	Arl2 Arl2 subfamily. Arl2 (Arf-like 2) GTPases are	99.45
cd04157	162	Arl6 Arl6 subfamily. Arl6 (Arf-like 6) forms a sub	99.45
cd04161	167	Arl2l1_Arl13_like Arl2l1/Arl13 subfamily. Arl2l1 (	99.42
cd04159	159	Arl10_like Arl10-like subfamily. Arl9/Arl10 was id	99.42
KOG4252|consensus	246		99.41
PF08477	119	Miro: Miro-like protein; InterPro: IPR013684 Mitoc	99.4
cd04153	174	Arl5_Arl8 Arl5/Arl8 subfamily. Arl5 (Arf-like 5) a	99.4
cd04151	158	Arl1 Arl1 subfamily. Arl1 (Arf-like 1) localizes t	99.38
cd01850	276	CDC_Septin CDC/Septin. Septins are a conserved fam	99.36
cd04171	164	SelB SelB subfamily. SelB is an elongation factor	99.35
KOG0096|consensus	216		99.35
PRK04213	201	GTP-binding protein; Provisional	99.34
TIGR03598	179	GTPase_YsxC ribosome biogenesis GTP-binding protei	99.34
PRK00454	196	engB GTP-binding protein YsxC; Reviewed	99.33
cd00878	158	Arf_Arl Arf (ADP-ribosylation factor)/Arl (Arf-lik	99.33
cd00879	190	Sar1 Sar1 subfamily. Sar1 is an essential componen	99.32
cd04160	167	Arfrp1 Arfrp1 subfamily. Arfrp1 (Arf-related prote	99.32
smart00178	184	SAR Sar1p-like members of the Ras-family of small	99.32
cd01897	168	NOG NOG1 is a nucleolar GTP-binding protein presen	99.31
cd01878	204	HflX HflX subfamily. A distinct conserved domain w	99.28
TIGR02528	142	EutP ethanolamine utilization protein, EutP. This	99.27
KOG1673|consensus	205		99.27
cd01891	194	TypA_BipA TypA (tyrosine phosphorylated protein A)	99.26
cd04155	173	Arl3 Arl3 subfamily. Arl3 (Arf-like 3) is an Arf f	99.25
cd01887	168	IF2_eIF5B IF2/eIF5B (initiation factors 2/ eukaryo	99.24
PF00025	175	Arf: ADP-ribosylation factor family The prints ent	99.22
cd01890	179	LepA LepA subfamily. LepA belongs to the GTPase fa	99.21
cd01879	158	FeoB Ferrous iron transport protein B (FeoB) subfa	99.21
TIGR00450	442	mnmE_trmE_thdF tRNA modification GTPase TrmE. TrmE	99.2
TIGR03156	351	GTP_HflX GTP-binding protein HflX. This protein fa	99.19
PRK15494	339	era GTPase Era; Provisional	99.18
KOG0073|consensus	185		99.18
cd04105	203	SR_beta Signal recognition particle receptor, beta	99.16
cd04164	157	trmE TrmE (MnmE, ThdF, MSS1) is a 3-domain protein	99.15
cd01876	170	YihA_EngB The YihA (EngB) subfamily. This subfamil	99.14
cd04163	168	Era Era subfamily. Era (E. coli Ras-like protein)	99.14
KOG0070|consensus	181		99.13
cd01898	170	Obg Obg subfamily. The Obg nucleotide binding prot	99.13
PRK03003	472	GTP-binding protein Der; Reviewed	99.12
cd01889	192	SelB_euk SelB subfamily. SelB is an elongation fac	99.09
PRK05291	449	trmE tRNA modification GTPase TrmE; Reviewed	99.08
PRK00093	435	GTP-binding protein Der; Reviewed	99.05
PRK03003	472	GTP-binding protein Der; Reviewed	99.04
cd01895	174	EngA2 EngA2 subfamily. This CD represents the seco	99.03
cd01857	141	HSR1_MMR1 HSR1/MMR1. Human HSR1, is localized to t	99.03
PRK11058	426	GTPase HflX; Provisional	99.02
KOG4423|consensus	229		99.02
cd01859	156	MJ1464 MJ1464. This family represents archaeal GTP	99.01
cd04104	197	p47_IIGP_like p47 (47-kDa) family. The p47 GTPase	99.01
KOG0071|consensus	180		98.99
cd00882	157	Ras_like_GTPase Ras-like GTPase superfamily. The R	98.99
KOG0074|consensus	185		98.98
cd01856	171	YlqF YlqF. Proteins of the YlqF family contain all	98.98
TIGR00436	270	era GTP-binding protein Era. Era is an essential G	98.98
KOG3883|consensus	198		98.97
cd01881	176	Obg_like The Obg-like subfamily consists of five w	98.97
PF01926	116	MMR_HSR1: 50S ribosome-binding GTPase; InterPro: I	98.94
TIGR03594	429	GTPase_EngA ribosome-associated GTPase EngA. EngA	98.94
cd01894	157	EngA1 EngA1 subfamily. This CD represents the firs	98.94
PF00735	281	Septin: Septin; InterPro: IPR000038 Septins consti	98.93
TIGR00487	587	IF-2 translation initiation factor IF-2. This mode	98.92
cd01896	233	DRG The developmentally regulated GTP-binding prot	98.92
PF02421	156	FeoB_N: Ferrous iron transport protein B; InterPro	98.92
TIGR00991	313	3a0901s02IAP34 GTP-binding protein (Chloroplast En	98.91
PRK09518	712	bifunctional cytidylate kinase/GTPase Der; Reviewe	98.91
TIGR03594	429	GTPase_EngA ribosome-associated GTPase EngA. EngA	98.89
PRK00089	292	era GTPase Era; Reviewed	98.88
TIGR01393	595	lepA GTP-binding protein LepA. LepA (GUF1 in Sacca	98.87
cd01853	249	Toc34_like Toc34-like (Translocon at the Outer-env	98.87
cd01899	318	Ygr210 Ygr210 subfamily. Ygr210 is a member of Obg	98.86
COG0486	454	ThdF Predicted GTPase [General function prediction	98.85
PRK09518	712	bifunctional cytidylate kinase/GTPase Der; Reviewe	98.85
cd00881	189	GTP_translation_factor GTP translation factor fami	98.84
smart00010	124	small_GTPase Small GTPase of the Ras superfamily;	98.84
TIGR00475	581	selB selenocysteine-specific elongation factor Sel	98.83
PRK00093	435	GTP-binding protein Der; Reviewed	98.82
cd04167	213	Snu114p Snu114p subfamily. Snu114p is one of sever	98.79
cd00880	163	Era_like Era (E. coli Ras-like protein)-like. This	98.78
TIGR02729	329	Obg_CgtA Obg family GTPase CgtA. This model descri	98.77
PRK09602	396	translation-associated GTPase; Reviewed	98.77
TIGR00437	591	feoB ferrous iron transporter FeoB. FeoB (773 amin	98.75
PRK09554	772	feoB ferrous iron transport protein B; Reviewed	98.74
PRK05306	787	infB translation initiation factor IF-2; Validated	98.7
CHL00189	742	infB translation initiation factor 2; Provisional	98.69
PF04670	232	Gtr1_RagA: Gtr1/RagA G protein conserved region; I	98.68
COG3596	296	Predicted GTPase [General function prediction only	98.68
PRK12299	335	obgE GTPase CgtA; Reviewed	98.67
PRK10218	607	GTP-binding protein; Provisional	98.66
PRK12296	500	obgE GTPase CgtA; Reviewed	98.64
COG5019	373	CDC3 Septin family protein [Cell division and chro	98.62
PRK15467	158	ethanolamine utilization protein EutP; Provisional	98.62
PRK12297	424	obgE GTPase CgtA; Reviewed	98.61
cd01852	196	AIG1 AIG1 (avrRpt2-induced gene 1). This represent	98.6
TIGR03596	276	GTPase_YlqF ribosome biogenesis GTP-binding protei	98.58
cd01858	157	NGP_1 NGP-1. Autoantigen NGP-1 (Nucleolar G-protei	98.57
PF04548	212	AIG1: AIG1 family; InterPro: IPR006703 This entry	98.56
PRK09563	287	rbgA GTPase YlqF; Reviewed	98.54
KOG1707|consensus	625		98.53
KOG2655|consensus	366		98.51
cd01855	190	YqeH YqeH. YqeH is an essential GTP-binding protei	98.49
KOG0075|consensus	186		98.49
KOG1191|consensus	531		98.49
cd04168	237	TetM_like Tet(M)-like subfamily. Tet(M), Tet(O), T	98.47
PRK12317	425	elongation factor 1-alpha; Reviewed	98.47
cd04178	172	Nucleostemin_like Nucleostemin-like. Nucleostemin	98.46
PTZ00099	176	rab6; Provisional	98.45
PRK12298	390	obgE GTPase CgtA; Reviewed	98.45
TIGR00491	590	aIF-2 translation initiation factor aIF-2/yIF-2. T	98.44
TIGR00483	426	EF-1_alpha translation elongation factor EF-1 alph	98.44
PRK05433	600	GTP-binding protein LepA; Provisional	98.43
cd04169	267	RF3 RF3 subfamily. Peptide chain release factor 3	98.42
COG1160	444	Predicted GTPases [General function prediction onl	98.42
KOG1423|consensus	379		98.41
TIGR00490	720	aEF-2 translation elongation factor aEF-2. This mo	98.4
PTZ00258	390	GTP-binding protein; Provisional	98.38
PRK09601	364	GTP-binding protein YchF; Reviewed	98.37
KOG1547|consensus	336		98.37
cd01900	274	YchF YchF subfamily. YchF is a member of the Obg f	98.36
cd04170	268	EF-G_bact Elongation factor G (EF-G) subfamily. Tr	98.36
KOG3859|consensus	406		98.35
cd04166	208	CysN_ATPS CysN_ATPS subfamily. CysN, together with	98.33
COG1161	322	Predicted GTPases [General function prediction onl	98.31
COG1159	298	Era GTPase [General function prediction only]	98.28
TIGR00993	763	3a0901s04IAP86 chloroplast protein import componen	98.28
COG1160	444	Predicted GTPases [General function prediction onl	98.27
PF10662	143	PduV-EutP: Ethanolamine utilisation - propanediol	98.27
PRK10512	614	selenocysteinyl-tRNA-specific translation factor;	98.26
COG0218	200	Predicted GTPase [General function prediction only	98.25
TIGR01394	594	TypA_BipA GTP-binding protein TypA/BipA. This bact	98.25
TIGR00485	394	EF-Tu translation elongation factor TU. This align	98.24
COG1084	346	Predicted GTPase [General function prediction only	98.23
cd01849	155	YlqF_related_GTPase YlqF-related GTPases. These pr	98.19
PRK04004	586	translation initiation factor IF-2; Validated	98.17
PRK04000	411	translation initiation factor IF-2 subunit gamma;	98.15
PRK13351	687	elongation factor G; Reviewed	98.14
cd01886	270	EF-G Elongation factor G (EF-G) subfamily. Translo	98.13
PF09439	181	SRPRB: Signal recognition particle receptor beta s	98.11
CHL00071	409	tufA elongation factor Tu	98.11
PF03193	161	DUF258: Protein of unknown function, DUF258; Inter	98.09
COG0370	653	FeoB Fe2+ transport system protein B [Inorganic io	98.09
PRK12735	396	elongation factor Tu; Reviewed	98.08
TIGR00503	527	prfC peptide chain release factor 3. This translat	98.08
PRK00741	526	prfC peptide chain release factor 3; Provisional	98.08
cd01888	203	eIF2_gamma eIF2-gamma (gamma subunit of initiation	98.06
PRK12288	347	GTPase RsgA; Reviewed	98.04
cd01883	219	EF1_alpha Eukaryotic elongation factor 1 (EF1) alp	98.02
cd01851	224	GBP Guanylate-binding protein (GBP), N-terminal do	98.02
PF05049	376	IIGP: Interferon-inducible GTPase (IIGP); InterPro	98.02
PRK12289	352	GTPase RsgA; Reviewed	97.99
TIGR03597	360	GTPase_YqeH ribosome biogenesis GTPase YqeH. This	97.95
TIGR00157	245	ribosome small subunit-dependent GTPase A. The Aqu	97.95
PRK12736	394	elongation factor Tu; Reviewed	97.95
cd01854	287	YjeQ_engC YjeQ/EngC. YjeQ (YloQ in Bacillus subtil	97.94
PLN03126	478	Elongation factor Tu; Provisional	97.93
COG2229	187	Predicted GTPase [General function prediction only	97.93
PRK13796	365	GTPase YqeH; Provisional	97.93
PF00009	188	GTP_EFTU: Elongation factor Tu GTP binding domain;	97.92
TIGR00484	689	EF-G translation elongation factor EF-G. After pep	97.92
cd01884	195	EF_Tu EF-Tu subfamily. This subfamily includes ort	97.89
COG1163	365	DRG Predicted GTPase [General function prediction	97.88
PRK00098	298	GTPase RsgA; Reviewed	97.87
cd01885	222	EF2 EF2 (for archaea and eukarya). Translocation r	97.86
PF03266	168	NTPase_1: NTPase; InterPro: IPR004948 This entry r	97.86
TIGR03680	406	eif2g_arch translation initiation factor 2 subunit	97.82
PRK00049	396	elongation factor Tu; Reviewed	97.81
PRK14738	206	gmk guanylate kinase; Provisional	97.81
PF13207	121	AAA_17: AAA domain; PDB: 3AKC_A 3AKE_A 3AKD_A 2QL6	97.76
PRK12739	691	elongation factor G; Reviewed	97.74
PF00350	168	Dynamin_N: Dynamin family; InterPro: IPR001401 Mem	97.72
COG1618	179	Predicted nucleotide kinase [Nucleotide transport	97.71
COG0563	178	Adk Adenylate kinase and related kinases [Nucleoti	97.7
PLN03127	447	Elongation factor Tu; Provisional	97.69
cd04165	224	GTPBP1_like GTPBP1-like. Mammalian GTP binding pro	97.68
PRK08118	167	topology modulation protein; Reviewed	97.67
TIGR00092	368	GTP-binding protein YchF. This predicted GTP-bindi	97.66
TIGR02034	406	CysN sulfate adenylyltransferase, large subunit. H	97.66
PRK07261	171	topology modulation protein; Provisional	97.65
PRK05506	632	bifunctional sulfate adenylyltransferase subunit 1	97.62
KOG0705|consensus	749		97.61
PF13671	143	AAA_33: AAA domain; PDB: 1LTQ_A 2IA5_K 1RC8_A 1LY1	97.61
PTZ00141	446	elongation factor 1- alpha; Provisional	97.6
COG1162	301	Predicted GTPases [General function prediction onl	97.6
PF07728	139	AAA_5: AAA domain (dynein-related subfamily); Inte	97.59
PRK05124	474	cysN sulfate adenylyltransferase subunit 1; Provis	97.59
KOG1491|consensus	391		97.58
cd01882	225	BMS1 Bms1. Bms1 is an essential, evolutionarily co	97.57
PF00004	132	AAA: ATPase family associated with various cellula	97.53
PRK00007	693	elongation factor G; Reviewed	97.51
PF13521	163	AAA_28: AAA domain; PDB: 1LW7_A.	97.51
TIGR02836	492	spore_IV_A stage IV sporulation protein A. A compa	97.51
KOG1707|consensus	625		97.49
KOG0072|consensus	182		97.48
KOG0076|consensus	197		97.47
PF13191	185	AAA_16: AAA ATPase domain; PDB: 2V1U_A.	97.46
COG1116	248	TauB ABC-type nitrate/sulfonate/bicarbonate transp	97.46
PF13401	131	AAA_22: AAA domain; PDB: 2QBY_B 1FNN_B 1W5T_A 1W5S	97.46
KOG3886|consensus	295		97.44
PF05783	472	DLIC: Dynein light intermediate chain (DLIC); Inte	97.43
PF05729	166	NACHT: NACHT domain	97.43
PRK06217	183	hypothetical protein; Validated	97.4
KOG2485|consensus	335		97.4
smart00382	148	AAA ATPases associated with a variety of cellular	97.4
TIGR00235	207	udk uridine kinase. Model contains a number of lon	97.39
COG3839	338	MalK ABC-type sugar transport systems, ATPase comp	97.32
KOG0077|consensus	193		97.3
PRK10078	186	ribose 1,5-bisphosphokinase; Provisional	97.3
TIGR02322	179	phosphon_PhnN phosphonate metabolism protein/1,5-b	97.3
cd02019	69	NK Nucleoside/nucleotide kinase (NK) is a protein	97.3
cd00071	137	GMPK Guanosine monophosphate kinase (GMPK, EC 2.7.	97.29
PRK05480	209	uridine/cytidine kinase; Provisional	97.29
PRK12740	668	elongation factor G; Reviewed	97.29
cd00009	151	AAA The AAA+ (ATPases Associated with a wide varie	97.29
COG0012	372	Predicted GTPase, probable translation factor [Tra	97.28
PLN00043	447	elongation factor 1-alpha; Provisional	97.26
PF00005	137	ABC_tran: ABC transporter This structure is on hol	97.26
PF13238	129	AAA_18: AAA domain; PDB: 3IIK_A 3IIJ_A 3IIL_A 1RKB	97.25
PRK03839	180	putative kinase; Provisional	97.23
TIGR00150	133	HI0065_YjeE ATPase, YjeE family. Members of this f	97.22
PRK14737	186	gmk guanylate kinase; Provisional	97.21
COG1126	240	GlnQ ABC-type polar amino acid transport system, A	97.21
PLN00116	843	translation elongation factor EF-2 subunit; Provis	97.2
TIGR03263	180	guanyl_kin guanylate kinase. Members of this famil	97.2
PRK10751	173	molybdopterin-guanine dinucleotide biosynthesis pr	97.2
PF13173	128	AAA_14: AAA domain	97.2
PRK14530	215	adenylate kinase; Provisional	97.19
PRK14532	188	adenylate kinase; Provisional	97.18
COG3842	352	PotA ABC-type spermidine/putrescine transport syst	97.18
KOG1424|consensus	562		97.16
PF01637	234	Arch_ATPase: Archaeal ATPase; InterPro: IPR011579	97.16
PF03205	140	MobB: Molybdopterin guanine dinucleotide synthesis	97.15
PRK00300	205	gmk guanylate kinase; Provisional	97.15
TIGR00101	199	ureG urease accessory protein UreG. This model rep	97.15
PRK13695	174	putative NTPase; Provisional	97.14
PRK14531	183	adenylate kinase; Provisional	97.13
COG1117	253	PstB ABC-type phosphate transport system, ATPase c	97.12
KOG3905|consensus	473		97.12
TIGR01360	188	aden_kin_iso1 adenylate kinase, isozyme 1 subfamil	97.12
COG1124	252	DppF ABC-type dipeptide/oligopeptide/nickel transp	97.11
PF04665	241	Pox_A32: Poxvirus A32 protein; InterPro: IPR006758	97.11
PRK02496	184	adk adenylate kinase; Provisional	97.1
cd00820	107	PEPCK_HprK Phosphoenolpyruvate carboxykinase (PEPC	97.1
KOG0090|consensus	238		97.08
PRK13949	169	shikimate kinase; Provisional	97.07
cd01428	194	ADK Adenylate kinase (ADK) catalyzes the reversibl	97.07
cd02023	198	UMPK Uridine monophosphate kinase (UMPK, EC 2.7.1.	97.07
COG4525	259	TauB ABC-type taurine transport system, ATPase com	97.05
COG0194	191	Gmk Guanylate kinase [Nucleotide transport and met	97.05
COG1136	226	SalX ABC-type antimicrobial peptide transport syst	97.05
PRK08233	182	hypothetical protein; Provisional	97.04
PHA00729	226	NTP-binding motif containing protein	97.03
KOG3347|consensus	176		97.03
PTZ00088	229	adenylate kinase 1; Provisional	97.03
cd03238	176	ABC_UvrA The excision repair protein UvrA; Nucleot	97.02
COG3638	258	ABC-type phosphate/phosphonate transport system, A	97.02
PF12775	272	AAA_7: P-loop containing dynein motor region D3; P	97.01
TIGR01351	210	adk adenylate kinases. Adenylate kinase (EC 2.7.4.	97.01
TIGR03015	269	pepcterm_ATPase putative secretion ATPase, PEP-CTE	97.01
PF00910	107	RNA_helicase: RNA helicase; InterPro: IPR000605 He	97.0
TIGR01313	163	therm_gnt_kin carbohydrate kinase, thermoresistant	97.0
TIGR01359	183	UMP_CMP_kin_fam UMP-CMP kinase family. This subfam	96.99
smart00053	240	DYNc Dynamin, GTPase. Large GTPases that mediate v	96.97
PLN02200	234	adenylate kinase family protein	96.95
PTZ00416	836	elongation factor 2; Provisional	96.95
PRK06547	172	hypothetical protein; Provisional	96.94
PRK05057	172	aroK shikimate kinase I; Reviewed	96.92
PRK07429	327	phosphoribulokinase; Provisional	96.92
PF13555	62	AAA_29: P-loop containing region of AAA domain	96.91
cd03255	218	ABC_MJ0796_Lo1CDE_FtsE This family is comprised of	96.91
KOG1486|consensus	364		96.9
PF00625	183	Guanylate_kin: Guanylate kinase; InterPro: IPR0081	96.9
smart00072	184	GuKc Guanylate kinase homologues. Active enzymes c	96.88
cd01120	165	RecA-like_NTPases RecA-like NTPases. This family i	96.87
PF07724	171	AAA_2: AAA domain (Cdc48 subfamily); InterPro: IPR	96.87
PRK06762	166	hypothetical protein; Provisional	96.87
PRK08099	399	bifunctional DNA-binding transcriptional repressor	96.87
cd02021	150	GntK Gluconate kinase (GntK) catalyzes the phospho	96.86
TIGR01526	325	nadR_NMN_Atrans nicotinamide-nucleotide adenylyltr	96.86
TIGR00960	216	3a0501s02 Type II (General) Secretory Pathway (IIS	96.85
cd03264	211	ABC_drug_resistance_like ABC-type multidrug transp	96.85
PRK00279	215	adk adenylate kinase; Reviewed	96.84
cd01124	187	KaiC KaiC is a circadian clock protein primarily f	96.84
cd01128	249	rho_factor Transcription termination factor rho is	96.84
TIGR02315	243	ABC_phnC phosphonate ABC transporter, ATP-binding	96.84
TIGR02881	261	spore_V_K stage V sporulation protein K. Members o	96.83
cd03226	205	ABC_cobalt_CbiO_domain2 Domain II of the ABC compo	96.82
COG1120	258	FepC ABC-type cobalamin/Fe3+-siderophores transpor	96.82
TIGR02868	529	CydC thiol reductant ABC exporter, CydC subunit. T	96.82
PRK13947	171	shikimate kinase; Provisional	96.82
PRK14528	186	adenylate kinase; Provisional	96.82
cd03225	211	ABC_cobalt_CbiO_domain1 Domain I of the ABC compon	96.8
PRK00625	173	shikimate kinase; Provisional	96.8
PF13479	213	AAA_24: AAA domain	96.79
cd03292	214	ABC_FtsE_transporter FtsE is a hydrophilic nucleot	96.79
PF00448	196	SRP54: SRP54-type protein, GTPase domain; InterPro	96.78
cd03260	227	ABC_PstB_phosphate_transporter Phosphate uptake is	96.78
TIGR03420	226	DnaA_homol_Hda DnaA regulatory inactivator Hda. Me	96.78
TIGR00073	207	hypB hydrogenase accessory protein HypB. HypB is i	96.78
PRK13540	200	cytochrome c biogenesis protein CcmA; Provisional	96.78
PRK04040	188	adenylate kinase; Provisional	96.78
TIGR03608	206	L_ocin_972_ABC putative bacteriocin export ABC tra	96.78
PF00485	194	PRK: Phosphoribulokinase / Uridine kinase family;	96.77
cd03224	222	ABC_TM1139_LivF_branched LivF (TM1139) is part of	96.76
PRK00131	175	aroK shikimate kinase; Reviewed	96.76
cd03269	210	ABC_putative_ATPase This subfamily is involved in	96.76
cd00227	175	CPT Chloramphenicol (Cm) phosphotransferase (CPT).	96.76
TIGR01166	190	cbiO cobalt transport protein ATP-binding subunit.	96.76
cd00464	154	SK Shikimate kinase (SK) is the fifth enzyme in th	96.75
cd01131	198	PilT Pilus retraction ATPase PilT. PilT is a nucle	96.75
cd03261	235	ABC_Org_Solvent_Resistant ABC (ATP-binding cassett	96.75
TIGR02673	214	FtsE cell division ATP-binding protein FtsE. This	96.75
cd01130	186	VirB11-like_ATPase Type IV secretory pathway compo	96.74
cd03262	213	ABC_HisP_GlnQ_permeases HisP and GlnQ are the ATP-	96.74
PRK14526	211	adenylate kinase; Provisional	96.73
cd03266	218	ABC_NatA_sodium_exporter NatA is the ATPase compon	96.73
COG1936	180	Predicted nucleotide kinase (related to CMP and AM	96.73
cd03222	177	ABC_RNaseL_inhibitor The ABC ATPase RNase L inhibi	96.73
cd02025	220	PanK Pantothenate kinase (PanK) catalyzes the phos	96.72
COG4619	223	ABC-type uncharacterized transport system, ATPase	96.72
cd03293	220	ABC_NrtD_SsuB_transporters NrtD and SsuB are the A	96.72
cd03257	228	ABC_NikE_OppD_transporters The ABC transporter sub	96.72
cd03218	232	ABC_YhbG The ABC transporters belonging to the Yhb	96.71
PRK13541	195	cytochrome c biogenesis protein CcmA; Provisional	96.71
cd02027	149	APSK Adenosine 5'-phosphosulfate kinase (APSK) cat	96.71
cd03259	213	ABC_Carb_Solutes_like ABC Carbohydrate and Solute	96.71
cd03256	241	ABC_PhnC_transporter ABC-type phosphate/phosphonat	96.7
PRK15177	213	Vi polysaccharide export ATP-binding protein VexC;	96.7
COG2262	411	HflX GTPases [General function prediction only]	96.7
PRK11629	233	lolD lipoprotein transporter ATP-binding subunit;	96.7
cd03216	163	ABC_Carb_Monos_I This family represents the domain	96.7
cd03265	220	ABC_DrrA DrrA is the ATP-binding protein component	96.69
TIGR02211	221	LolD_lipo_ex lipoprotein releasing system, ATP-bin	96.69
PLN02674	244	adenylate kinase	96.69
TIGR00635	305	ruvB Holliday junction DNA helicase, RuvB subunit.	96.69
PRK05541	176	adenylylsulfate kinase; Provisional	96.69
cd03116	159	MobB Molybdenum is an essential trace element in t	96.68
COG0466	782	Lon ATP-dependent Lon protease, bacterial type [Po	96.68
PRK11248	255	tauB taurine transporter ATP-binding subunit; Prov	96.68
cd03263	220	ABC_subfamily_A The ABCA subfamily mediates the tr	96.67
PF05621	302	TniB: Bacterial TniB protein; InterPro: IPR008868	96.67
cd03258	233	ABC_MetN_methionine_transporter MetN (also known a	96.67
cd03219	236	ABC_Mj1267_LivG_branched The Mj1267/LivG ABC trans	96.66
PRK14529	223	adenylate kinase; Provisional	96.66
cd02028	179	UMPK_like Uridine monophosphate kinase_like (UMPK_	96.66
PF06745	226	KaiC: KaiC; InterPro: IPR014774 This entry represe	96.66
cd01918	149	HprK_C HprK/P, the bifunctional histidine-containi	96.65
PF03029	238	ATP_bind_1: Conserved hypothetical ATP binding pro	96.65
PRK11247	257	ssuB aliphatic sulfonates transport ATP-binding su	96.65
PRK10908	222	cell division protein FtsE; Provisional	96.64
cd03301	213	ABC_MalK_N The N-terminal ATPase domain of the mal	96.64
PRK09270	229	nucleoside triphosphate hydrolase domain-containin	96.64
TIGR01978	243	sufC FeS assembly ATPase SufC. SufC is part of the	96.64
PHA02530	300	pseT polynucleotide kinase; Provisional	96.64
cd03235	213	ABC_Metallic_Cations ABC component of the metal-ty	96.64
COG4987	573	CydC ABC-type transport system involved in cytochr	96.64
cd03268	208	ABC_BcrA_bacitracin_resist The BcrA subfamily repr	96.64
TIGR03410	230	urea_trans_UrtE urea ABC transporter, ATP-binding	96.64
cd03229	178	ABC_Class3 This class is comprised of all BPD (Bin	96.63
PRK08903	227	DnaA regulatory inactivator Hda; Validated	96.63
PRK13539	207	cytochrome c biogenesis protein CcmA; Provisional	96.62
TIGR01189	198	ccmA heme ABC exporter, ATP-binding protein CcmA.	96.62
TIGR02323	253	CP_lyasePhnK phosphonate C-P lyase system protein	96.62
PRK10895	241	lipopolysaccharide ABC transporter ATP-binding pro	96.62
PRK09825	176	idnK D-gluconate kinase; Provisional	96.62
PRK14527	191	adenylate kinase; Provisional	96.61
cd03214	180	ABC_Iron-Siderophores_B12_Hemin ABC transporters,	96.61
TIGR03864	236	PQQ_ABC_ATP ABC transporter, ATP-binding subunit,	96.6
PRK13851	344	type IV secretion system protein VirB11; Provision	96.6
TIGR00176	155	mobB molybdopterin-guanine dinucleotide biosynthes	96.6
cd03296	239	ABC_CysA_sulfate_importer Part of the ABC transpor	96.6
PRK13538	204	cytochrome c biogenesis protein CcmA; Provisional	96.6
cd01672	200	TMPK Thymidine monophosphate kinase (TMPK), also k	96.6
cd03223	166	ABCD_peroxisomal_ALDP Peroxisomal ATP-binding cass	96.59
cd03230	173	ABC_DR_subfamily_A This family of ATP-binding prot	96.59
cd02020	147	CMPK Cytidine monophosphate kinase (CMPK) catalyze	96.59
PRK14242	253	phosphate transporter ATP-binding protein; Provisi	96.58
PRK14731	208	coaE dephospho-CoA kinase; Provisional	96.57
cd03221	144	ABCF_EF-3 ABCF_EF-3 Elongation factor 3 (EF-3) is	96.57
cd03237	246	ABC_RNaseL_inhibitor_domain2 The ATPase domain 2 o	96.57
cd03297	214	ABC_ModC_molybdenum_transporter ModC is an ABC-typ	96.57
cd03231	201	ABC_CcmA_heme_exporter CcmA, the ATP-binding compo	96.56
PF00503	389	G-alpha: G-protein alpha subunit; InterPro: IPR001	96.56
cd03254	229	ABCC_Glucan_exporter_like Glucan exporter ATP-bind	96.56
PRK04182	180	cytidylate kinase; Provisional	96.56
cd03247	178	ABCC_cytochrome_bd The CYD subfamily implicated in	96.55
PRK14247	250	phosphate ABC transporter ATP-binding protein; Pro	96.55

>KOG0084|consensus

Probab=99.90  E-value=8.5e-24  Score=122.17  Aligned_cols=65  Identities=26%  Similarity=0.369  Sum_probs=60.7

Q ss_pred             cccCceeeeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCC-EEEEEEEcCCCC
Q psy2514           6 VLRGSIKGTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRG-TFTRDYKKTIGA   70 (71)
Q Consensus         6 ~~~~~~~~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~-~~~l~i~Dt~G~   70 (71)
                      ...-++.||++++||++||||+|+.||..+.|++.|..|+|+||..+.+..++ .++++||||||+
T Consensus         3 ~~~~dylFKiiliGds~VGKtCL~~Rf~~~~f~e~~~sTIGVDf~~rt~e~~gk~iKlQIWDTAGQ   68 (205)
T KOG0084|consen    3 NPEYDYLFKIILIGDSGVGKTCLLLRFKDDTFTESYISTIGVDFKIRTVELDGKTIKLQIWDTAGQ   68 (205)
T ss_pred             CcccceEEEEEEECCCCcChhhhhhhhccCCcchhhcceeeeEEEEEEeeecceEEEEEeeecccc
Confidence            34567899999999999999999999999999999999999999999998887 789999999996

>KOG0094|consensus

Probab=99.89  E-value=1e-22  Score=117.93  Aligned_cols=61  Identities=30%  Similarity=0.432  Sum_probs=57.2

Q ss_pred             ceeeeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCC-EEEEEEEcCCCC
Q psy2514          10 SIKGTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRG-TFTRDYKKTIGA   70 (71)
Q Consensus        10 ~~~~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~-~~~l~i~Dt~G~   70 (71)
                      -.++|++++|+.+||||||+.||+.+.|...|.+|+|+||..++++..+ ++.|++|||||+
T Consensus        20 ~k~~KlVflGdqsVGKTslItRf~yd~fd~~YqATIGiDFlskt~~l~d~~vrLQlWDTAGQ   81 (221)
T KOG0094|consen   20 LKKYKLVFLGDQSVGKTSLITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQ   81 (221)
T ss_pred             ceEEEEEEEccCccchHHHHHHHHHhhhcccccceeeeEEEEEEEEEcCcEEEEEEEecccH
Confidence            3459999999999999999999999999999999999999999998865 999999999996

>KOG0394|consensus

Probab=99.85  E-value=1.6e-21  Score=112.08  Aligned_cols=63  Identities=29%  Similarity=0.438  Sum_probs=58.7

Q ss_pred             cCceeeeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCC-EEEEEEEcCCCC
Q psy2514           8 RGSIKGTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRG-TFTRDYKKTIGA   70 (71)
Q Consensus         8 ~~~~~~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~-~~~l~i~Dt~G~   70 (71)
                      ++...+|++++||+|||||||+.+|..++|..+|..|+|.+|..+.+.+++ .+.++||||||+
T Consensus         5 ~K~~lLKViiLGDsGVGKtSLmn~yv~~kF~~qykaTIgadFltKev~Vd~~~vtlQiWDTAGQ   68 (210)
T KOG0394|consen    5 RKRTLLKVIILGDSGVGKTSLMNQYVNKKFSQQYKATIGADFLTKEVQVDDRSVTLQIWDTAGQ   68 (210)
T ss_pred             CcccceEEEEeCCCCccHHHHHHHHHHHHHHHHhccccchhheeeEEEEcCeEEEEEEEecccH
Confidence            456679999999999999999999999999999999999999999998876 788999999996

>KOG0092|consensus

Probab=99.85  E-value=6.7e-21  Score=109.87  Aligned_cols=61  Identities=26%  Similarity=0.376  Sum_probs=56.9

Q ss_pred             ceeeeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCC-EEEEEEEcCCCC
Q psy2514          10 SIKGTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRG-TFTRDYKKTIGA   70 (71)
Q Consensus        10 ~~~~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~-~~~l~i~Dt~G~   70 (71)
                      ...+|++++|+++||||||+.||..+.|.+...||+|..|..+++..++ .++++||||||+
T Consensus         3 ~~~~KvvLLG~~~VGKSSlV~Rfvk~~F~e~~e~TIGaaF~tktv~~~~~~ikfeIWDTAGQ   64 (200)
T KOG0092|consen    3 TREFKVVLLGDSGVGKSSLVLRFVKDQFHENIEPTIGAAFLTKTVTVDDNTIKFEIWDTAGQ   64 (200)
T ss_pred             cceEEEEEECCCCCCchhhhhhhhhCccccccccccccEEEEEEEEeCCcEEEEEEEEcCCc
Confidence            4579999999999999999999999999998899999999999998865 899999999996

>KOG0080|consensus

Probab=99.84  E-value=2e-20  Score=106.07  Aligned_cols=63  Identities=25%  Similarity=0.331  Sum_probs=58.2

Q ss_pred             cCceeeeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCC-EEEEEEEcCCCC
Q psy2514           8 RGSIKGTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRG-TFTRDYKKTIGA   70 (71)
Q Consensus         8 ~~~~~~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~-~~~l~i~Dt~G~   70 (71)
                      .....+|++++|++|||||||+.||..+.|.+....|+|.||..+.+..++ .+++.||||||+
T Consensus         7 ~~~~t~KiLlIGeSGVGKSSLllrFv~~~fd~~~~~tIGvDFkvk~m~vdg~~~KlaiWDTAGq   70 (209)
T KOG0080|consen    7 GYDTTFKILLIGESGVGKSSLLLRFVSNTFDDLHPTTIGVDFKVKVMQVDGKRLKLAIWDTAGQ   70 (209)
T ss_pred             CcceeEEEEEEccCCccHHHHHHHHHhcccCccCCceeeeeEEEEEEEEcCceEEEEEEeccch
Confidence            345679999999999999999999999999998888899999999998876 899999999996

>KOG0078|consensus

Probab=99.84  E-value=1.8e-20  Score=109.23  Aligned_cols=63  Identities=19%  Similarity=0.355  Sum_probs=59.7

Q ss_pred             cCceeeeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCC-EEEEEEEcCCCC
Q psy2514           8 RGSIKGTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRG-TFTRDYKKTIGA   70 (71)
Q Consensus         8 ~~~~~~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~-~~~l~i~Dt~G~   70 (71)
                      ..+..+|++++||++||||+++.||.++.|...|..|+|+||..+++..++ .+.+++|||||+
T Consensus         8 ~~d~~~kvlliGDs~vGKt~~l~rf~d~~f~~~~~sTiGIDFk~kti~l~g~~i~lQiWDtaGQ   71 (207)
T KOG0078|consen    8 DYDYLFKLLLIGDSGVGKTCLLLRFSDDSFNTSFISTIGIDFKIKTIELDGKKIKLQIWDTAGQ   71 (207)
T ss_pred             CcceEEEEEEECCCCCchhHhhhhhhhccCcCCccceEEEEEEEEEEEeCCeEEEEEEEEcccc
Confidence            567889999999999999999999999999999999999999999999987 889999999996

>KOG0098|consensus

Probab=99.84  E-value=2e-20  Score=107.89  Aligned_cols=63  Identities=24%  Similarity=0.264  Sum_probs=58.9

Q ss_pred             cCceeeeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCC-EEEEEEEcCCCC
Q psy2514           8 RGSIKGTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRG-TFTRDYKKTIGA   70 (71)
Q Consensus         8 ~~~~~~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~-~~~l~i~Dt~G~   70 (71)
                      ...+.+|++++||.|||||+|+.||+++.|...|..|+|++|-.+.+.+++ +++|+||||||.
T Consensus         2 ~~~~~fKyIiiGd~gVGKSclllrf~~krF~~~hd~TiGvefg~r~~~id~k~IKlqiwDtaGq   65 (216)
T KOG0098|consen    2 SYAYLFKYIIIGDTGVGKSCLLLRFTDKRFQPVHDLTIGVEFGARMVTIDGKQIKLQIWDTAGQ   65 (216)
T ss_pred             CccceEEEEEECCCCccHHHHHHHHhccCccccccceeeeeeceeEEEEcCceEEEEEEecCCc
Confidence            356789999999999999999999999999999999999999999998876 999999999995

>KOG0079|consensus

Probab=99.83  E-value=3e-21  Score=108.27  Aligned_cols=61  Identities=30%  Similarity=0.427  Sum_probs=57.3

Q ss_pred             ceeeeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCC-EEEEEEEcCCCC
Q psy2514          10 SIKGTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRG-TFTRDYKKTIGA   70 (71)
Q Consensus        10 ~~~~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~-~~~l~i~Dt~G~   70 (71)
                      ...+|.+++||+|||||+|+.+|.++.|..+|..|+|.||.++++.+++ .++++||||||+
T Consensus         6 dhLfkllIigDsgVGKssLl~rF~ddtFs~sYitTiGvDfkirTv~i~G~~VkLqIwDtAGq   67 (198)
T KOG0079|consen    6 DHLFKLLIIGDSGVGKSSLLLRFADDTFSGSYITTIGVDFKIRTVDINGDRVKLQIWDTAGQ   67 (198)
T ss_pred             HHHHHHHeecCCcccHHHHHHHHhhcccccceEEEeeeeEEEEEeecCCcEEEEEEeecccH
Confidence            4568899999999999999999999999999999999999999999887 899999999995

>cd04172 Rnd3_RhoE_Rho8 Rnd3/RhoE/Rho8 subfamily

Probab=99.81  E-value=1.6e-19  Score=104.08  Aligned_cols=62  Identities=18%  Similarity=0.325  Sum_probs=53.4

Q ss_pred             CceeeeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCCEEEEEEEcCCCC
Q psy2514           9 GSIKGTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRGTFTRDYKKTIGA   70 (71)
Q Consensus         9 ~~~~~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~   70 (71)
                      +...+|++++|+++||||||+.+|..+.|.++|.||++.+|.......+..+.++||||+|+
T Consensus         2 ~~~~~KivvvGd~~vGKTsli~~~~~~~f~~~~~pT~~~~~~~~~~~~~~~~~l~iwDtaG~   63 (182)
T cd04172           2 QNVKCKIVVVGDSQCGKTALLHVFAKDCFPENYVPTVFENYTASFEIDTQRIELSLWDTSGS   63 (182)
T ss_pred             CcceEEEEEECCCCCCHHHHHHHHHhCCCCCccCCceeeeeEEEEEECCEEEEEEEEECCCc
Confidence            45679999999999999999999999999999999999887644333344899999999995

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

>KOG0087|consensus

Probab=99.79  E-value=3.1e-19  Score=104.24  Aligned_cols=64  Identities=30%  Similarity=0.419  Sum_probs=59.5

Q ss_pred             ccCceeeeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCC-EEEEEEEcCCCC
Q psy2514           7 LRGSIKGTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRG-TFTRDYKKTIGA   70 (71)
Q Consensus         7 ~~~~~~~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~-~~~l~i~Dt~G~   70 (71)
                      ...++.||++++||++||||-|+.||..++|..+..+|+|++|..+.+..++ .++.+||||||+
T Consensus         9 ~~~dylFKiVliGDS~VGKsnLlsRftrnEF~~~SksTIGvef~t~t~~vd~k~vkaqIWDTAGQ   73 (222)
T KOG0087|consen    9 EEYDYLFKIVLIGDSAVGKSNLLSRFTRNEFSLESKSTIGVEFATRTVNVDGKTVKAQIWDTAGQ   73 (222)
T ss_pred             cccceEEEEEEeCCCccchhHHHHHhcccccCcccccceeEEEEeeceeecCcEEEEeeecccch
Confidence            4457889999999999999999999999999999999999999999998876 889999999996

>KOG0095|consensus

Probab=99.79  E-value=3.9e-19  Score=100.14  Aligned_cols=62  Identities=27%  Similarity=0.405  Sum_probs=58.1

Q ss_pred             CceeeeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCC-EEEEEEEcCCCC
Q psy2514           9 GSIKGTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRG-TFTRDYKKTIGA   70 (71)
Q Consensus         9 ~~~~~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~-~~~l~i~Dt~G~   70 (71)
                      ....+|++++|+.|||||+|.+||.++-|+.....|+|++|-.+++..++ +++++||||||+
T Consensus         4 ykflfkivlvgnagvgktclvrrftqglfppgqgatigvdfmiktvev~gekiklqiwdtagq   66 (213)
T KOG0095|consen    4 YKFLFKIVLVGNAGVGKTCLVRRFTQGLFPPGQGATIGVDFMIKTVEVNGEKIKLQIWDTAGQ   66 (213)
T ss_pred             cceeEEEEEEccCCcCcchhhhhhhccCCCCCCCceeeeeEEEEEEEECCeEEEEEEeeccch
Confidence            35679999999999999999999999999999999999999999999987 899999999995

>cd04131 Rnd Rnd subfamily

Probab=99.79  E-value=8.4e-19  Score=100.63  Aligned_cols=58  Identities=17%  Similarity=0.296  Sum_probs=50.9

Q ss_pred             eeeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeC-CEEEEEEEcCCCC
Q psy2514          12 KGTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCR-GTFTRDYKKTIGA   70 (71)
Q Consensus        12 ~~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~-~~~~l~i~Dt~G~   70 (71)
                      ++|++++|+++||||||+.+|..+.|+..|.||++.++.. .+..+ ..+.++||||+|+
T Consensus         1 ~~Kiv~vG~~~vGKTsli~~~~~~~f~~~~~~t~~~~~~~-~~~~~~~~~~l~iwDt~G~   59 (178)
T cd04131           1 RCKIVVVGDVQCGKTALLQVFAKDCYPETYVPTVFENYTA-SFEIDEQRIELSLWDTSGS   59 (178)
T ss_pred             CeEEEEECCCCCCHHHHHHHHHhCcCCCCcCCceEEEEEE-EEEECCEEEEEEEEECCCc
Confidence            4799999999999999999999999999999999988764 44444 4789999999995

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.

>cd04128 Spg1 Spg1p

Probab=99.79  E-value=1.3e-18  Score=100.11  Aligned_cols=58  Identities=28%  Similarity=0.447  Sum_probs=52.8

Q ss_pred             eeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCC-EEEEEEEcCCCC
Q psy2514          13 GTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRG-TFTRDYKKTIGA   70 (71)
Q Consensus        13 ~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~-~~~l~i~Dt~G~   70 (71)
                      +|++++|+++||||||+.||..+.|.++|.||++.++..+.+..++ .+.++||||+|.
T Consensus         1 ~Ki~vlG~~~vGKTsLi~~~~~~~f~~~~~~T~g~~~~~~~i~~~~~~~~l~iwDt~G~   59 (182)
T cd04128           1 LKIGLLGDAQIGKTSLMVKYVEGEFDEDYIQTLGVNFMEKTISIRGTEITFSIWDLGGQ   59 (182)
T ss_pred             CEEEEECCCCCCHHHHHHHHHhCCCCCCCCCccceEEEEEEEEECCEEEEEEEEeCCCc
Confidence            5899999999999999999999999999999999999877776666 789999999985

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

>cd01875 RhoG RhoG subfamily

Probab=99.79  E-value=9.7e-19  Score=101.07  Aligned_cols=59  Identities=27%  Similarity=0.361  Sum_probs=51.4

Q ss_pred             eeeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCCEEEEEEEcCCCC
Q psy2514          12 KGTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRGTFTRDYKKTIGA   70 (71)
Q Consensus        12 ~~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~   70 (71)
                      .+|++++|+++||||||+.||..+.|+++|.||++.++.......+..+.++||||+|+
T Consensus         3 ~~ki~~vG~~~vGKTsli~~~~~~~f~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~   61 (191)
T cd01875           3 SIKCVVVGDGAVGKTCLLICYTTNAFPKEYIPTVFDNYSAQTAVDGRTVSLNLWDTAGQ   61 (191)
T ss_pred             cEEEEEECCCCCCHHHHHHHHHhCCCCcCCCCceEeeeEEEEEECCEEEEEEEEECCCc
Confidence            48999999999999999999999999999999999877654434445899999999995

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

>cd04133 Rop_like Rop subfamily

Probab=99.79  E-value=9.8e-19  Score=100.39  Aligned_cols=58  Identities=31%  Similarity=0.320  Sum_probs=50.5

Q ss_pred             eeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCCEEEEEEEcCCCC
Q psy2514          13 GTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRGTFTRDYKKTIGA   70 (71)
Q Consensus        13 ~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~   70 (71)
                      +|++++|+++||||||+.+|..+.|..+|.||++..+.......+..++++||||+|.
T Consensus         2 ~kivv~G~~~vGKTsli~~~~~~~f~~~~~~Ti~~~~~~~~~~~~~~v~l~i~Dt~G~   59 (176)
T cd04133           2 IKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVSVDGNTVNLGLWDTAGQ   59 (176)
T ss_pred             eEEEEECCCCCcHHHHHHHHhcCCCCCCCCCcceeeeEEEEEECCEEEEEEEEECCCC
Confidence            6899999999999999999999999999999999887654433344799999999985

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,

>cd04173 Rnd2_Rho7 Rnd2/Rho7 subfamily

Probab=99.78  E-value=9.7e-19  Score=103.64  Aligned_cols=59  Identities=17%  Similarity=0.334  Sum_probs=51.6

Q ss_pred             eeeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCCEEEEEEEcCCCC
Q psy2514          12 KGTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRGTFTRDYKKTIGA   70 (71)
Q Consensus        12 ~~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~   70 (71)
                      ++||+++|+++||||||+.+|..+.|++.|.||++.+|.......+..+.++||||+|+
T Consensus         1 ~~KIvvvGd~~vGKTsLi~~~~~~~f~~~y~pTi~~~~~~~~~~~~~~v~L~iwDt~G~   59 (222)
T cd04173           1 RCKIVVVGDAECGKTALLQVFAKDAYPGSYVPTVFENYTASFEIDKRRIELNMWDTSGS   59 (222)
T ss_pred             CeEEEEECCCCCCHHHHHHHHHcCCCCCccCCccccceEEEEEECCEEEEEEEEeCCCc
Confidence            37999999999999999999999999999999999888654444445899999999995

Rnd2/Rho7 is a member of the novel Rho subfamily Rnd, together with Rnd1/Rho6 and Rnd3/RhoE/Rho8. Rnd2/Rho7 is transiently expressed in radially migrating cells in the brain while they are within the subventricular zone of the hippocampus and cerebral cortex. These migrating cells typically develop into pyramidal neurons. Cells that exogenously expressed Rnd2/Rho7 failed to migrate to upper layers of the brain, suggesting that Rnd2/Rho7 plays a role in the radial migration and morphological changes of developing pyramidal neurons, and that Rnd2/Rho7 degradation is necessary for proper cellular migration. The Rnd2/Rho7 GEF Rapostlin is found primarily in the brain and together with Rnd2/Rho7 induces dendrite branching. Unlike Rnd1/Rho6 and Rnd3/RhoE/Rho8, which are RhoA antagonists, Rnd2/Rho7 binds the GEF Pragmin and significantly stimulates RhoA activity and Rho-A mediated cell contraction. Rnd2/Rho7 is also found to be expressed in sperma

>KOG0093|consensus

Probab=99.78  E-value=6.4e-19  Score=98.84  Aligned_cols=63  Identities=25%  Similarity=0.406  Sum_probs=57.8

Q ss_pred             cCceeeeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCC-EEEEEEEcCCCC
Q psy2514           8 RGSIKGTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRG-TFTRDYKKTIGA   70 (71)
Q Consensus         8 ~~~~~~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~-~~~l~i~Dt~G~   70 (71)
                      +=++.+|++++|++.+||||++.||+++.|...|.+|+|++|..++++-.. +++++||||||.
T Consensus        17 nFDymfKlliiGnssvGKTSfl~ry~ddSFt~afvsTvGidFKvKTvyr~~kRiklQiwDTagq   80 (193)
T KOG0093|consen   17 NFDYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVYRSDKRIKLQIWDTAGQ   80 (193)
T ss_pred             cccceeeEEEEccCCccchhhhHHhhccccccceeeeeeeeEEEeEeeecccEEEEEEEecccc
Confidence            345789999999999999999999999999999999999999999887754 899999999985

>cd04174 Rnd1_Rho6 Rnd1/Rho6 subfamily

Probab=99.78  E-value=1.8e-18  Score=103.07  Aligned_cols=61  Identities=18%  Similarity=0.240  Sum_probs=53.4

Q ss_pred             ceeeeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCCEEEEEEEcCCCC
Q psy2514          10 SIKGTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRGTFTRDYKKTIGA   70 (71)
Q Consensus        10 ~~~~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~   70 (71)
                      -..+||+++|+++||||||+.+|..+.|..+|.||++.+|.......+..+.++||||+|+
T Consensus        11 ~~~~KIvvvGd~~VGKTsLi~r~~~~~F~~~y~pTi~~~~~~~i~~~~~~v~l~iwDTaG~   71 (232)
T cd04174          11 VMRCKLVLVGDVQCGKTAMLQVLAKDCYPETYVPTVFENYTAGLETEEQRVELSLWDTSGS   71 (232)
T ss_pred             eeeEEEEEECCCCCcHHHHHHHHhcCCCCCCcCCceeeeeEEEEEECCEEEEEEEEeCCCc
Confidence            4679999999999999999999999999999999999888765434345899999999995

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.

>cd01874 Cdc42 Cdc42 subfamily

Probab=99.77  E-value=2.5e-18  Score=98.21  Aligned_cols=58  Identities=26%  Similarity=0.381  Sum_probs=50.4

Q ss_pred             eeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCCEEEEEEEcCCCC
Q psy2514          13 GTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRGTFTRDYKKTIGA   70 (71)
Q Consensus        13 ~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~   70 (71)
                      +|++++|+++||||||+.++..+.|.++|.||++.++.......+.++.++||||+|.
T Consensus         2 ~ki~vvG~~~vGKTsl~~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~l~i~Dt~G~   59 (175)
T cd01874           2 IKCVVVGDGAVGKTCLLISYTTNKFPSEYVPTVFDNYAVTVMIGGEPYTLGLFDTAGQ   59 (175)
T ss_pred             eEEEEECCCCCCHHHHHHHHHcCCCCCCCCCceeeeeEEEEEECCEEEEEEEEECCCc
Confidence            6999999999999999999999999999999999888654433344789999999985

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

>cd04120 Rab12 Rab12 subfamily

Probab=99.77  E-value=4.6e-18  Score=99.47  Aligned_cols=58  Identities=29%  Similarity=0.462  Sum_probs=52.9

Q ss_pred             eeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCC-EEEEEEEcCCCC
Q psy2514          13 GTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRG-TFTRDYKKTIGA   70 (71)
Q Consensus        13 ~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~-~~~l~i~Dt~G~   70 (71)
                      +.++++|+++||||||+.||..+.|.++|.||++.+|..+.+..++ .+.++||||+|+
T Consensus         1 ~~vvvlG~~gVGKTSli~r~~~~~f~~~~~~Ti~~~~~~~~i~~~~~~v~l~iwDtaGq   59 (202)
T cd04120           1 LQVIIIGSRGVGKTSLMRRFTDDTFCEACKSGVGVDFKIKTVELRGKKIRLQIWDTAGQ   59 (202)
T ss_pred             CEEEEECcCCCCHHHHHHHHHhCCCCCcCCCcceeEEEEEEEEECCEEEEEEEEeCCCc
Confidence            3689999999999999999999999999999999999888777766 799999999996

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

>cd04121 Rab40 Rab40 subfamily

Probab=99.76  E-value=1.2e-17  Score=96.83  Aligned_cols=61  Identities=18%  Similarity=0.282  Sum_probs=54.9

Q ss_pred             ceeeeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCC-EEEEEEEcCCCC
Q psy2514          10 SIKGTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRG-TFTRDYKKTIGA   70 (71)
Q Consensus        10 ~~~~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~-~~~l~i~Dt~G~   70 (71)
                      ...+||+++|+.+||||||+.+|..+.|..+|.|+++.++....+..++ .+.+++|||+|.
T Consensus         4 ~~~~KivviG~~~vGKTsll~~~~~~~~~~~~~~t~~~~~~~~~i~~~~~~~~l~iwDt~G~   65 (189)
T cd04121           4 DYLLKFLLVGDSDVGKGEILASLQDGSTESPYGYNMGIDYKTTTILLDGRRVKLQLWDTSGQ   65 (189)
T ss_pred             CceeEEEEECCCCCCHHHHHHHHHcCCCCCCCCCcceeEEEEEEEEECCEEEEEEEEeCCCc
Confidence            4569999999999999999999999999999999999999877777665 789999999985

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

>cd04108 Rab36_Rab34 Rab34/Rab36 subfamily

Probab=99.75  E-value=1.5e-17  Score=94.58  Aligned_cols=57  Identities=37%  Similarity=0.672  Sum_probs=51.9

Q ss_pred             eEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCC-EEEEEEEcCCCC
Q psy2514          14 TVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRG-TFTRDYKKTIGA   70 (71)
Q Consensus        14 ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~-~~~l~i~Dt~G~   70 (71)
                      ||+++|+++||||||++++..+.|.++|.||++.++..+.+..++ .+.+++|||+|.
T Consensus         2 ki~ivG~~~vGKTsli~~~~~~~f~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~   59 (170)
T cd04108           2 KVIVVGDLSVGKTCLINRFCKDVFDKNYKATIGVDFEMERFEILGVPFSLQLWDTAGQ   59 (170)
T ss_pred             EEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeeEEEEEEEEECCEEEEEEEEeCCCh
Confidence            899999999999999999999999999999999998877776665 789999999984

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

>KOG0086|consensus

Probab=99.75  E-value=3.7e-18  Score=96.44  Aligned_cols=64  Identities=22%  Similarity=0.290  Sum_probs=59.3

Q ss_pred             ccCceeeeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCC-EEEEEEEcCCCC
Q psy2514           7 LRGSIKGTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRG-TFTRDYKKTIGA   70 (71)
Q Consensus         7 ~~~~~~~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~-~~~l~i~Dt~G~   70 (71)
                      -..++.+|++++|+.|.|||+|+++|..++|.++..-|+|++|-.+++..++ .++++||||||+
T Consensus         4 EtYDyLfKfl~iG~aGtGKSCLLh~Fie~kfkDdssHTiGveFgSrIinVGgK~vKLQIWDTAGQ   68 (214)
T KOG0086|consen    4 ETYDYLFKFLVIGSAGTGKSCLLHQFIENKFKDDSSHTIGVEFGSRIVNVGGKTVKLQIWDTAGQ   68 (214)
T ss_pred             hhhhhhheeEEeccCCCChhHHHHHHHHhhhcccccceeeeeecceeeeecCcEEEEEEeecccH
Confidence            4457789999999999999999999999999999999999999999998876 789999999995

>cd04102 RabL3 RabL3 (Rab-like3) subfamily

Probab=99.74  E-value=1.5e-17  Score=97.41  Aligned_cols=58  Identities=24%  Similarity=0.379  Sum_probs=51.8

Q ss_pred             eeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeC------CEEEEEEEcCCCC
Q psy2514          13 GTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCR------GTFTRDYKKTIGA   70 (71)
Q Consensus        13 ~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~------~~~~l~i~Dt~G~   70 (71)
                      +|++++|+++||||||+.+++.+.|.+++.||++.++..+.+..+      ..+.++||||+|+
T Consensus         1 vKIvlvGd~gVGKTSLi~~~~~~~f~~~~~~Tig~~~~~k~~~~~~~~~~~~~~~l~IwDtaG~   64 (202)
T cd04102           1 VRVLVVGDSGVGKSSLVHLICKNQVLGRPSWTVGCSVDVKHHTYKEGTPEEKTFFVELWDVGGS   64 (202)
T ss_pred             CEEEEECCCCCCHHHHHHHHHcCCCCCCCCcceeeeEEEEEEEEcCCCCCCcEEEEEEEecCCc
Confidence            589999999999999999999999999999999988877766653      4789999999995

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.

>PLN03071 GTP-binding nuclear protein Ran; Provisional

Probab=99.74  E-value=3.2e-17  Score=96.66  Aligned_cols=61  Identities=30%  Similarity=0.489  Sum_probs=54.6

Q ss_pred             ceeeeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeC-CEEEEEEEcCCCC
Q psy2514          10 SIKGTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCR-GTFTRDYKKTIGA   70 (71)
Q Consensus        10 ~~~~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~-~~~~l~i~Dt~G~   70 (71)
                      ...+|++++|+++||||||+.++..+.|...|.||++.++....+..+ +.+.+++|||+|.
T Consensus        11 ~~~~Ki~vvG~~gvGKTsli~~~~~~~f~~~~~~tig~~~~~~~~~~~~~~~~l~i~Dt~G~   72 (219)
T PLN03071         11 YPSFKLVIVGDGGTGKTTFVKRHLTGEFEKKYEPTIGVEVHPLDFFTNCGKIRFYCWDTAGQ   72 (219)
T ss_pred             CCceEEEEECcCCCCHHHHHHHHhhCCCCCccCCccceeEEEEEEEECCeEEEEEEEECCCc
Confidence            677999999999999999999999999999999999998877666555 4789999999985

>cd04122 Rab14 Rab14 subfamily

Probab=99.73  E-value=4e-17  Score=91.94  Aligned_cols=59  Identities=25%  Similarity=0.352  Sum_probs=53.1

Q ss_pred             eeeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCC-EEEEEEEcCCCC
Q psy2514          12 KGTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRG-TFTRDYKKTIGA   70 (71)
Q Consensus        12 ~~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~-~~~l~i~Dt~G~   70 (71)
                      .+|++++|+++||||||++++..+.|...+.||++.++..+.+..++ .+.+++|||+|.
T Consensus         2 ~~ki~iiG~~~vGKTsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~   61 (166)
T cd04122           2 IFKYIIIGDMGVGKSCLLHQFTEKKFMADCPHTIGVEFGTRIIEVNGQKIKLQIWDTAGQ   61 (166)
T ss_pred             ceEEEEECCCCCCHHHHHHHHhcCCCCCCCCcccceeEEEEEEEECCEEEEEEEEECCCc
Confidence            48999999999999999999999999999999999998877666665 789999999985

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

>cd04119 RJL RJL (RabJ-Like) subfamily

Probab=99.73  E-value=4.1e-17  Score=91.16  Aligned_cols=58  Identities=33%  Similarity=0.588  Sum_probs=52.4

Q ss_pred             eeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCC-EEEEEEEcCCCC
Q psy2514          13 GTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRG-TFTRDYKKTIGA   70 (71)
Q Consensus        13 ~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~-~~~l~i~Dt~G~   70 (71)
                      +|++++|+++||||||+.+++.+.|...|.||++.++..+.+..++ .+.+++|||+|.
T Consensus         1 ~ki~~vG~~~vGKTsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~   59 (168)
T cd04119           1 IKVISMGNSGVGKSCIIKRYCEGRFVSKYLPTIGIDYGVKKVSVRNKEVRVNFFDLSGH   59 (168)
T ss_pred             CEEEEECCCCCCHHHHHHHHHhCCCCCCCCCccceeEEEEEEEECCeEEEEEEEECCcc
Confidence            5899999999999999999999999999999999998777776655 789999999984

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.

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

Probab=99.73  E-value=4.7e-17  Score=90.98  Aligned_cols=57  Identities=33%  Similarity=0.548  Sum_probs=52.7

Q ss_pred             eEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCC-EEEEEEEcCCCC
Q psy2514          14 TVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRG-TFTRDYKKTIGA   70 (71)
Q Consensus        14 ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~-~~~l~i~Dt~G~   70 (71)
                      ||+++|+++||||+|+.+|..+.|+++|.||++.++....+..++ ++.+++||++|+
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            799999999999999999999999999999999888888887765 899999999985

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 ....

>cd04141 Rit_Rin_Ric Rit/Rin/Ric subfamily

Probab=99.73  E-value=2.7e-17  Score=93.66  Aligned_cols=59  Identities=24%  Similarity=0.271  Sum_probs=50.9

Q ss_pred             eeeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCCEEEEEEEcCCCC
Q psy2514          12 KGTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRGTFTRDYKKTIGA   70 (71)
Q Consensus        12 ~~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~   70 (71)
                      .+|++++|+++||||||+.++..++|+..|.||++..+.......+..+.+++|||+|.
T Consensus         2 ~~ki~vvG~~~vGKTsL~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~   60 (172)
T cd04141           2 EYKIVMLGAGGVGKSAVTMQFISHSFPDYHDPTIEDAYKQQARIDNEPALLDILDTAGQ   60 (172)
T ss_pred             ceEEEEECCCCCcHHHHHHHHHhCCCCCCcCCcccceEEEEEEECCEEEEEEEEeCCCc
Confidence            47999999999999999999999999999999999777655444444789999999985

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

>cd04107 Rab32_Rab38 Rab38/Rab32 subfamily

Probab=99.73  E-value=3.6e-17  Score=94.93  Aligned_cols=58  Identities=31%  Similarity=0.487  Sum_probs=52.5

Q ss_pred             eeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeC--CEEEEEEEcCCCC
Q psy2514          13 GTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCR--GTFTRDYKKTIGA   70 (71)
Q Consensus        13 ~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~--~~~~l~i~Dt~G~   70 (71)
                      +||+++|+++||||||+.++..+.|...|.||++.++..+.+..+  ..+.+++|||+|.
T Consensus         1 ~KivivG~~~vGKTsli~~l~~~~~~~~~~~t~~~d~~~~~v~~~~~~~~~l~l~Dt~G~   60 (201)
T cd04107           1 LKVLVIGDLGVGKTSIIKRYVHGIFSQHYKATIGVDFALKVIEWDPNTVVRLQLWDIAGQ   60 (201)
T ss_pred             CEEEEECCCCCCHHHHHHHHHcCCCCCCCCCceeEEEEEEEEEECCCCEEEEEEEECCCc
Confidence            589999999999999999999999999999999999887777665  4889999999995

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.

>cd01871 Rac1_like Rac1-like subfamily

Probab=99.73  E-value=3.1e-17  Score=93.63  Aligned_cols=58  Identities=26%  Similarity=0.305  Sum_probs=49.2

Q ss_pred             eeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCCEEEEEEEcCCCC
Q psy2514          13 GTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRGTFTRDYKKTIGA   70 (71)
Q Consensus        13 ~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~   70 (71)
                      +|++++|+++||||||+.++..+.|.++|.||++..+.......+..+.++||||+|.
T Consensus         2 ~ki~iiG~~~vGKSsli~~~~~~~f~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~   59 (174)
T cd01871           2 IKCVVVGDGAVGKTCLLISYTTNAFPGEYIPTVFDNYSANVMVDGKPVNLGLWDTAGQ   59 (174)
T ss_pred             eEEEEECCCCCCHHHHHHHHhcCCCCCcCCCcceeeeEEEEEECCEEEEEEEEECCCc
Confidence            6999999999999999999999999999999998655544433334789999999985

The Rac1-like subfamily consists of Rac1, Rac2, and Rac3 proteins, plus the splice variant Rac1b that contains a 19-residue insertion near switch II relative to Rac1. While Rac1 is ubiquitously expressed, Rac2 and Rac3 are largely restricted to hematopoietic and neural tissues respectively. Rac1 stimulates the formation of actin lamellipodia and membrane ruffles. It also plays a role in cell-matrix adhesion and cell anoikis. In intestinal epithelial cells, Rac1 is an important regulator of migration and mediates apoptosis. Rac1 is also essential for RhoA-regulated actin stress fiber and focal adhesion complex formation. In leukocytes, Rac1 and Rac2 have distinct roles in regulating cell morphology, migration, and invasion, but are not essential for macrophage migration or chemotaxis. Rac3 has biochemical properties that are closely related to Rac1, such as effector interaction, nucleotide binding, and hydrolysis; Rac2 has a slower nucleoti

>cd04117 Rab15 Rab15 subfamily

Probab=99.73  E-value=5.1e-17  Score=91.44  Aligned_cols=58  Identities=24%  Similarity=0.372  Sum_probs=52.6

Q ss_pred             eeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCC-EEEEEEEcCCCC
Q psy2514          13 GTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRG-TFTRDYKKTIGA   70 (71)
Q Consensus        13 ~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~-~~~l~i~Dt~G~   70 (71)
                      +|++++|++++|||||+.++..+.|.+.+.||++.++..+.+..++ .+.+++|||+|+
T Consensus         1 ~ki~vvG~~~~GKTsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~   59 (161)
T cd04117           1 FRLLLIGDSGVGKTCLLCRFTDNEFHSSHISTIGVDFKMKTIEVDGIKVRIQIWDTAGQ   59 (161)
T ss_pred             CEEEEECcCCCCHHHHHHHHhcCCCCCCCCCceeeEEEEEEEEECCEEEEEEEEeCCCc
Confidence            5899999999999999999999999999999999998877777766 789999999985

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

>KOG0091|consensus

Probab=99.72  E-value=3e-18  Score=97.53  Aligned_cols=61  Identities=23%  Similarity=0.315  Sum_probs=55.8

Q ss_pred             ceeeeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeC--CEEEEEEEcCCCC
Q psy2514          10 SIKGTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCR--GTFTRDYKKTIGA   70 (71)
Q Consensus        10 ~~~~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~--~~~~l~i~Dt~G~   70 (71)
                      .+.++++++||+-||||||+++|..++|.+-..||+|+||..+.+...  .++++++|||||+
T Consensus         6 ~yqfrlivigdstvgkssll~~ft~gkfaelsdptvgvdffarlie~~pg~riklqlwdtagq   68 (213)
T KOG0091|consen    6 HYQFRLIVIGDSTVGKSSLLRYFTEGKFAELSDPTVGVDFFARLIELRPGYRIKLQLWDTAGQ   68 (213)
T ss_pred             EEEEEEEEEcCCcccHHHHHHHHhcCcccccCCCccchHHHHHHHhcCCCcEEEEEEeeccch
Confidence            467999999999999999999999999999889999999998887764  3899999999996

>cd04136 Rap_like Rap-like subfamily

Probab=99.72  E-value=3.7e-17  Score=91.30  Aligned_cols=58  Identities=29%  Similarity=0.454  Sum_probs=49.2

Q ss_pred             eeeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCC-EEEEEEEcCCCC
Q psy2514          12 KGTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRG-TFTRDYKKTIGA   70 (71)
Q Consensus        12 ~~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~-~~~l~i~Dt~G~   70 (71)
                      ++|++++|+++||||||+.++..+.|...|.||++..+. +.+..++ .+.+++|||+|.
T Consensus         1 ~~ki~i~G~~~vGKTsl~~~~~~~~~~~~~~~t~~~~~~-~~~~~~~~~~~l~i~Dt~G~   59 (163)
T cd04136           1 EYKVVVLGSGGVGKSALTVQFVQGIFVEKYDPTIEDSYR-KQIEVDGQQCMLEILDTAGT   59 (163)
T ss_pred             CeEEEEECCCCCCHHHHHHHHHhCCCCcccCCchhhhEE-EEEEECCEEEEEEEEECCCc
Confidence            379999999999999999999999999999999985444 4454554 789999999994

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.

>cd01892 Miro2 Miro2 subfamily

Probab=99.72  E-value=7.2e-17  Score=91.64  Aligned_cols=61  Identities=15%  Similarity=0.157  Sum_probs=54.2

Q ss_pred             ceeeeEEEEeCCCCCHHHHHHHHHhCcCC-CCccCCcceeeEEEEEEeCC-EEEEEEEcCCCC
Q psy2514          10 SIKGTVVIVGNGAVGKSSMIQRYCRGTFT-RDYKKTIGVKSSMIQRYCRG-TFTRDYKKTIGA   70 (71)
Q Consensus        10 ~~~~ki~v~G~~~vGKtsl~~~~~~~~f~-~~~~~t~~~~~~~~~~~~~~-~~~l~i~Dt~G~   70 (71)
                      +..+|++++|+++||||||+.+|..+.|. .+|.||++.++..+.+..++ .+.+.+||++|.
T Consensus         2 ~~~~kv~~vG~~~vGKTsli~~~~~~~f~~~~~~~T~~~~~~~~~~~~~~~~~~l~~~d~~g~   64 (169)
T cd01892           2 RNVFLCFVLGAKGSGKSALLRAFLGRSFSLNAYSPTIKPRYAVNTVEVYGQEKYLILREVGED   64 (169)
T ss_pred             CeEEEEEEECCCCCcHHHHHHHHhCCCCCcccCCCccCcceEEEEEEECCeEEEEEEEecCCc
Confidence            45799999999999999999999999998 89999999998877776665 678999999985

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.

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

Probab=99.72  E-value=5e-17  Score=90.40  Aligned_cols=59  Identities=27%  Similarity=0.314  Sum_probs=49.5

Q ss_pred             eeeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCCEEEEEEEcCCCC
Q psy2514          12 KGTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRGTFTRDYKKTIGA   70 (71)
Q Consensus        12 ~~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~   70 (71)
                      .+||+++|+++||||||++++..++|..++.||++..+.......+..+.+++|||+|.
T Consensus         1 ~~ki~iiG~~~vGKTsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~i~Dt~G~   59 (162)
T cd04138           1 EYKLVVVGAGGVGKSALTIQLIQNHFVDEYDPTIEDSYRKQVVIDGETCLLDILDTAGQ   59 (162)
T ss_pred             CeEEEEECCCCCCHHHHHHHHHhCCCcCCcCCcchheEEEEEEECCEEEEEEEEECCCC
Confidence            37999999999999999999999999999999998776544333334678999999985

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.

>PLN03110 Rab GTPase; Provisional

Probab=99.72  E-value=1e-16  Score=94.23  Aligned_cols=63  Identities=29%  Similarity=0.420  Sum_probs=56.2

Q ss_pred             cCceeeeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCC-EEEEEEEcCCCC
Q psy2514           8 RGSIKGTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRG-TFTRDYKKTIGA   70 (71)
Q Consensus         8 ~~~~~~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~-~~~l~i~Dt~G~   70 (71)
                      .....+|++++|+++||||+|+.++..+.|..++.||++.++..+.+..++ .+.++||||+|+
T Consensus         8 ~~~~~~Ki~ivG~~~vGKStLi~~l~~~~~~~~~~~t~g~~~~~~~v~~~~~~~~l~l~Dt~G~   71 (216)
T PLN03110          8 EYDYLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQ   71 (216)
T ss_pred             ccCceeEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeEEEEEEEEEECCEEEEEEEEECCCc
Confidence            345679999999999999999999999999888999999999888777766 689999999986

>PTZ00369 Ras-like protein; Provisional

Probab=99.72  E-value=5.9e-17  Score=93.31  Aligned_cols=61  Identities=28%  Similarity=0.343  Sum_probs=51.6

Q ss_pred             ceeeeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCCEEEEEEEcCCCC
Q psy2514          10 SIKGTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRGTFTRDYKKTIGA   70 (71)
Q Consensus        10 ~~~~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~   70 (71)
                      ...+|++++|+++||||||+.++..+.|..++.||++..+.......+..+.+++|||+|.
T Consensus         3 ~~~~Ki~iiG~~~~GKTsLi~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~   63 (189)
T PTZ00369          3 STEYKLVVVGGGGVGKSALTIQFIQNHFIDEYDPTIEDSYRKQCVIDEETCLLDILDTAGQ   63 (189)
T ss_pred             CcceEEEEECCCCCCHHHHHHHHhcCCCCcCcCCchhhEEEEEEEECCEEEEEEEEeCCCC
Confidence            3469999999999999999999999999999999999877544333344788999999984

>cd01865 Rab3 Rab3 subfamily

Probab=99.71  E-value=9.6e-17  Score=90.41  Aligned_cols=58  Identities=26%  Similarity=0.461  Sum_probs=52.2

Q ss_pred             eeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCC-EEEEEEEcCCCC
Q psy2514          13 GTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRG-TFTRDYKKTIGA   70 (71)
Q Consensus        13 ~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~-~~~l~i~Dt~G~   70 (71)
                      +|++++|+++||||||++++..+.|...|.||++.++....+..++ .+.+++|||+|.
T Consensus         2 ~ki~i~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~Dt~g~   60 (165)
T cd01865           2 FKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRNDKRVKLQIWDTAGQ   60 (165)
T ss_pred             eEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeeEEEEEEEEECCEEEEEEEEECCCh
Confidence            7999999999999999999999999989999999888777766655 689999999984

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

>cd04175 Rap1 Rap1 subgroup

Probab=99.71  E-value=6.6e-17  Score=90.73  Aligned_cols=58  Identities=26%  Similarity=0.425  Sum_probs=49.9

Q ss_pred             eeeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCC-EEEEEEEcCCCC
Q psy2514          12 KGTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRG-TFTRDYKKTIGA   70 (71)
Q Consensus        12 ~~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~-~~~l~i~Dt~G~   70 (71)
                      ++|++++|+++||||||+.++..+.|...+.||++..+... +..++ .+.+++|||+|.
T Consensus         1 ~~ki~~~G~~~~GKTsli~~~~~~~~~~~~~~t~~~~~~~~-~~~~~~~~~l~i~Dt~G~   59 (164)
T cd04175           1 EYKLVVLGSGGVGKSALTVQFVQGIFVEKYDPTIEDSYRKQ-VEVDGQQCMLEILDTAGT   59 (164)
T ss_pred             CcEEEEECCCCCCHHHHHHHHHhCCCCcccCCcchheEEEE-EEECCEEEEEEEEECCCc
Confidence            47999999999999999999999999989999999777544 44444 789999999985

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

>KOG0393|consensus

Probab=99.71  E-value=3.9e-18  Score=99.30  Aligned_cols=61  Identities=26%  Similarity=0.318  Sum_probs=56.4

Q ss_pred             ceeeeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEe-CCEEEEEEEcCCCC
Q psy2514          10 SIKGTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYC-RGTFTRDYKKTIGA   70 (71)
Q Consensus        10 ~~~~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~-~~~~~l~i~Dt~G~   70 (71)
                      ...+|++++||.+||||+++..|..+.|++.|.||+.++|...+..+ +.++.+.+|||||+
T Consensus         2 ~~~~K~VvVGDga~GKT~ll~~~t~~~fp~~yvPTVFdnys~~v~V~dg~~v~L~LwDTAGq   63 (198)
T KOG0393|consen    2 SRRIKCVVVGDGAVGKTCLLISYTTNAFPEEYVPTVFDNYSANVTVDDGKPVELGLWDTAGQ   63 (198)
T ss_pred             ceeeEEEEECCCCcCceEEEEEeccCcCcccccCeEEccceEEEEecCCCEEEEeeeecCCC
Confidence            34689999999999999999999999999999999999999888885 67999999999996

>cd04109 Rab28 Rab28 subfamily

Probab=99.71  E-value=9.5e-17  Score=94.18  Aligned_cols=58  Identities=31%  Similarity=0.484  Sum_probs=52.5

Q ss_pred             eeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCC--EEEEEEEcCCCC
Q psy2514          13 GTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRG--TFTRDYKKTIGA   70 (71)
Q Consensus        13 ~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~--~~~l~i~Dt~G~   70 (71)
                      +|++++|+++||||||+++|..+.|...|.||++.++..+.+..++  .+.++||||+|.
T Consensus         1 ~Ki~ivG~~~vGKSsLi~~l~~~~~~~~~~~T~~~d~~~~~i~~~~~~~~~~~i~Dt~G~   60 (215)
T cd04109           1 FKIVVLGDGAVGKTSLCRRFAKEGFGKSYKQTIGLDFFSKRVTLPGNLNVTLQVWDIGGQ   60 (215)
T ss_pred             CEEEEECcCCCCHHHHHHHHhcCCCCCCCCCceeEEEEEEEEEeCCCCEEEEEEEECCCc
Confidence            5899999999999999999999999999999999998877777653  789999999985

First identified in maize, Rab28 has been shown to be a late embryogenesis-abundant (Lea) protein that is regulated by the plant hormone abcisic acid (ABA). In Arabidopsis, Rab28 is expressed during embryo development and is generally restricted to provascular tissues in mature embryos. Unlike maize Rab28, it is not ABA-inducible. Characterization of the human Rab28 homolog revealed two isoforms, which differ by a 95-base pair insertion, producing an alternative sequence for the 30 amino acids at the C-terminus. The two human isoforms are presumbly the result of alternative splicing. Since they differ at the C-terminus but not in the GTP-binding region, they are predicted to be targeted to different cellular locations. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs

>cd01867 Rab8_Rab10_Rab13_like Rab8/Sec4/Ypt2

Probab=99.71  E-value=1.3e-16  Score=89.96  Aligned_cols=60  Identities=22%  Similarity=0.396  Sum_probs=53.9

Q ss_pred             eeeeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCC-EEEEEEEcCCCC
Q psy2514          11 IKGTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRG-TFTRDYKKTIGA   70 (71)
Q Consensus        11 ~~~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~-~~~l~i~Dt~G~   70 (71)
                      +.+||+++|+++||||||+.++..+.|...|.||++.++..+.+..++ .+.+++|||+|.
T Consensus         2 ~~~ki~vvG~~~~GKSsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~~~~~l~l~D~~g~   62 (167)
T cd01867           2 YLFKLLLIGDSGVGKSCLLLRFSEDSFNPSFISTIGIDFKIRTIELDGKKIKLQIWDTAGQ   62 (167)
T ss_pred             cceEEEEECCCCCCHHHHHHHHhhCcCCcccccCccceEEEEEEEECCEEEEEEEEeCCch
Confidence            468999999999999999999999999999999999988777776665 689999999984

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

>PLN00023 GTP-binding protein; Provisional

Probab=99.70  E-value=1e-16  Score=99.29  Aligned_cols=63  Identities=22%  Similarity=0.275  Sum_probs=54.8

Q ss_pred             cCceeeeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeC--------------CEEEEEEEcCCCC
Q psy2514           8 RGSIKGTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCR--------------GTFTRDYKKTIGA   70 (71)
Q Consensus         8 ~~~~~~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~--------------~~~~l~i~Dt~G~   70 (71)
                      .+...+||+++|+.+||||||+.+|+.+.|...+.||+|.++..+.+..+              ..+.++||||+|+
T Consensus        17 ~~~~~iKIVLLGdsGVGKTSLI~rf~~g~F~~~~~pTIG~d~~ik~I~~~~~~~~~~~ik~d~~k~v~LqIWDTAGq   93 (334)
T PLN00023         17 PPCGQVRVLVVGDSGVGKSSLVHLIVKGSSIARPPQTIGCTVGVKHITYGSPGSSSNSIKGDSERDFFVELWDVSGH   93 (334)
T ss_pred             CCccceEEEEECCCCCcHHHHHHHHhcCCcccccCCceeeeEEEEEEEECCcccccccccccCCceEEEEEEECCCC
Confidence            34567999999999999999999999999999999999999877766543              3688999999996

>cd04110 Rab35 Rab35 subfamily

Probab=99.70  E-value=1.7e-16  Score=92.10  Aligned_cols=61  Identities=30%  Similarity=0.430  Sum_probs=54.4

Q ss_pred             ceeeeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCC-EEEEEEEcCCCC
Q psy2514          10 SIKGTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRG-TFTRDYKKTIGA   70 (71)
Q Consensus        10 ~~~~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~-~~~l~i~Dt~G~   70 (71)
                      +..+||+++|+++||||||+.++..+.|...|.||++.++....+..++ .+.+.||||+|.
T Consensus         4 ~~~~kivvvG~~~vGKTsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~l~D~~G~   65 (199)
T cd04110           4 DHLFKLLIIGDSGVGKSSLLLRFADNTFSGSYITTIGVDFKIRTVEINGERVKLQIWDTAGQ   65 (199)
T ss_pred             CceeEEEEECCCCCCHHHHHHHHhcCCCCCCcCccccceeEEEEEEECCEEEEEEEEeCCCc
Confidence            4579999999999999999999999999989999999988877776665 678999999985

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

>cd04116 Rab9 Rab9 subfamily

Probab=99.70  E-value=2e-16  Score=89.18  Aligned_cols=61  Identities=33%  Similarity=0.420  Sum_probs=54.0

Q ss_pred             ceeeeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCC-EEEEEEEcCCCC
Q psy2514          10 SIKGTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRG-TFTRDYKKTIGA   70 (71)
Q Consensus        10 ~~~~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~-~~~l~i~Dt~G~   70 (71)
                      ...+|++++|+++||||||+.++..+.|...+.|+++.++..+.+..++ .+.++||||+|.
T Consensus         3 ~~~~ki~vvG~~~~GKTsli~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~i~D~~G~   64 (170)
T cd04116           3 SSLLKVILLGDGGVGKSSLMNRYVTNKFDTQLFHTIGVEFLNKDLEVDGHFVTLQIWDTAGQ   64 (170)
T ss_pred             ceEEEEEEECCCCCCHHHHHHHHHcCCCCcCcCCceeeEEEEEEEEECCeEEEEEEEeCCCh
Confidence            4569999999999999999999999999988999999888777766655 789999999984

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

>cd04127 Rab27A Rab27a subfamily

Probab=99.70  E-value=2e-16  Score=89.93  Aligned_cols=60  Identities=18%  Similarity=0.304  Sum_probs=52.6

Q ss_pred             eeeeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeC-----------CEEEEEEEcCCCC
Q psy2514          11 IKGTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCR-----------GTFTRDYKKTIGA   70 (71)
Q Consensus        11 ~~~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~-----------~~~~l~i~Dt~G~   70 (71)
                      +.+|++++|+++||||||+.++..+.|...+.||++.++....+..+           ..+.+++|||+|.
T Consensus         3 ~~~ki~ivG~~~vGKTsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~Dt~G~   73 (180)
T cd04127           3 YLIKFLALGDSGVGKTSFLYQYTDNKFNPKFITTVGIDFREKRVVYNSSGPGGTLGRGQRIHLQLWDTAGQ   73 (180)
T ss_pred             ceEEEEEECCCCCCHHHHHHHHhcCCCCccCCCccceEEEEEEEEEcCccccccccCCCEEEEEEEeCCCh
Confidence            56999999999999999999999999999999999998876655442           3688999999985

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

>KOG0097|consensus

Probab=99.70  E-value=7.9e-17  Score=90.29  Aligned_cols=64  Identities=25%  Similarity=0.310  Sum_probs=59.4

Q ss_pred             ccCceeeeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCC-EEEEEEEcCCCC
Q psy2514           7 LRGSIKGTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRG-TFTRDYKKTIGA   70 (71)
Q Consensus         7 ~~~~~~~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~-~~~l~i~Dt~G~   70 (71)
                      .+..+.+|++++||-|||||+|+++|..++|..+-.-|+|++|-.+.+...+ +++++||||||+
T Consensus         6 ynysyifkyiiigdmgvgkscllhqftekkfmadcphtigvefgtriievsgqkiklqiwdtagq   70 (215)
T KOG0097|consen    6 YNYSYIFKYIIIGDMGVGKSCLLHQFTEKKFMADCPHTIGVEFGTRIIEVSGQKIKLQIWDTAGQ   70 (215)
T ss_pred             cchhheEEEEEEccccccHHHHHHHHHHHHHhhcCCcccceecceeEEEecCcEEEEEEeecccH
Confidence            4567889999999999999999999999999999889999999999998876 899999999985

>cd04134 Rho3 Rho3 subfamily

Probab=99.70  E-value=1.3e-16  Score=91.98  Aligned_cols=58  Identities=26%  Similarity=0.318  Sum_probs=49.8

Q ss_pred             eeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCCEEEEEEEcCCCC
Q psy2514          13 GTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRGTFTRDYKKTIGA   70 (71)
Q Consensus        13 ~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~   70 (71)
                      .|++++|+++||||||+.+|..+.|...|.||++.++.......+..+.++||||+|.
T Consensus         1 ~kivivG~~~vGKTsli~~~~~~~~~~~~~~t~~~~~~~~i~~~~~~~~l~i~Dt~G~   58 (189)
T cd04134           1 RKVVVLGDGACGKTSLLNVFTRGYFPQVYEPTVFENYVHDIFVDGLHIELSLWDTAGQ   58 (189)
T ss_pred             CEEEEECCCCCCHHHHHHHHhcCCCCCccCCcceeeeEEEEEECCEEEEEEEEECCCC
Confidence            3899999999999999999999999999999999887654433344789999999985

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.

>cd04132 Rho4_like Rho4-like subfamily

Probab=99.69  E-value=1.9e-16  Score=90.64  Aligned_cols=58  Identities=22%  Similarity=0.341  Sum_probs=50.3

Q ss_pred             eeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEe-CCEEEEEEEcCCCC
Q psy2514          13 GTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYC-RGTFTRDYKKTIGA   70 (71)
Q Consensus        13 ~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~-~~~~~l~i~Dt~G~   70 (71)
                      +||+++|++++|||||++++..+.|...|.||++.++....... +..+.+.||||+|.
T Consensus         1 ~ki~vvG~~~vGKTsli~~l~~~~~~~~~~~t~~~~~~~~i~~~~~~~~~l~i~Dt~G~   59 (187)
T cd04132           1 KKIVVVGDGGCGKTCLLIVYSQGKFPEEYVPTVFENYVTNIQGPNGKIIELALWDTAGQ   59 (187)
T ss_pred             CeEEEECCCCCCHHHHHHHHHhCcCCCCCCCeeeeeeEEEEEecCCcEEEEEEEECCCc
Confidence            48999999999999999999999999999999998876554443 34789999999985

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.

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

Probab=99.69  E-value=2.9e-16  Score=88.90  Aligned_cols=58  Identities=26%  Similarity=0.450  Sum_probs=51.5

Q ss_pred             eeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCC-EEEEEEEcCCCC
Q psy2514          13 GTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRG-TFTRDYKKTIGA   70 (71)
Q Consensus        13 ~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~-~~~l~i~Dt~G~   70 (71)
                      +|++++|+++||||||+.++..+.|...+.||++.++....+..++ .+.+++|||+|.
T Consensus         1 ~ki~vvG~~~vGKTsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~   59 (166)
T cd00877           1 FKLVLVGDGGTGKTTFVKRHLTGEFEKKYVATLGVEVHPLDFHTNRGKIRFNVWDTAGQ   59 (166)
T ss_pred             CEEEEECCCCCCHHHHHHHHHhCCCCCCCCCceeeEEEEEEEEECCEEEEEEEEECCCC
Confidence            5899999999999999999999999999999999888766665554 789999999985

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

>cd04118 Rab24 Rab24 subfamily

Probab=99.69  E-value=2.7e-16  Score=90.46  Aligned_cols=58  Identities=29%  Similarity=0.426  Sum_probs=51.4

Q ss_pred             eeEEEEeCCCCCHHHHHHHHHhCcCCC-CccCCcceeeEEEEEEeCC-EEEEEEEcCCCC
Q psy2514          13 GTVVIVGNGAVGKSSMIQRYCRGTFTR-DYKKTIGVKSSMIQRYCRG-TFTRDYKKTIGA   70 (71)
Q Consensus        13 ~ki~v~G~~~vGKtsl~~~~~~~~f~~-~~~~t~~~~~~~~~~~~~~-~~~l~i~Dt~G~   70 (71)
                      +||+++|+++||||||+.+++.+.|.. .|.||++.++..+.+..++ .+.+++|||+|.
T Consensus         1 ~ki~vvG~~~vGKSsLi~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~G~   60 (193)
T cd04118           1 VKVVMLGKESVGKTSLVERYVHHRFLVGPYQNTIGAAFVAKRMVVGERVVTLGIWDTAGS   60 (193)
T ss_pred             CEEEEECCCCCCHHHHHHHHHhCCcCCcCcccceeeEEEEEEEEECCEEEEEEEEECCCc
Confidence            489999999999999999999999975 6899999988777777765 788999999985

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

>cd04142 RRP22 RRP22 subfamily

Probab=99.69  E-value=1.6e-16  Score=92.59  Aligned_cols=57  Identities=16%  Similarity=0.253  Sum_probs=50.2

Q ss_pred             eeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCC-EEEEEEEcCCC
Q psy2514          13 GTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRG-TFTRDYKKTIG   69 (71)
Q Consensus        13 ~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~-~~~l~i~Dt~G   69 (71)
                      +||+++|+++||||||+.++..++|...|.||++.++....+..++ .+.+++|||+|
T Consensus         1 ~kI~ivG~~~vGKTsLi~~~~~~~f~~~~~pt~~~~~~~~~i~~~~~~~~l~i~Dt~G   58 (198)
T cd04142           1 VRVAVLGAPGVGKTAIVRQFLAQEFPEEYIPTEHRRLYRPAVVLSGRVYDLHILDVPN   58 (198)
T ss_pred             CEEEEECCCCCcHHHHHHHHHcCCCCcccCCccccccceeEEEECCEEEEEEEEeCCC
Confidence            5899999999999999999999999999999998877666665555 68999999987

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.

>cd04124 RabL2 RabL2 subfamily

Probab=99.69  E-value=3.3e-16  Score=88.05  Aligned_cols=58  Identities=22%  Similarity=0.375  Sum_probs=50.4

Q ss_pred             eeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCC-EEEEEEEcCCCC
Q psy2514          13 GTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRG-TFTRDYKKTIGA   70 (71)
Q Consensus        13 ~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~-~~~l~i~Dt~G~   70 (71)
                      +|++++|+++||||||+.++..+.|.+.+.++.+.++.......++ .+.+++|||+|.
T Consensus         1 ~ki~vvG~~~vGKTsli~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~Dt~G~   59 (161)
T cd04124           1 VKIILLGDSAVGKSKLVERFLMDGYEPQQLSTYALTLYKHNAKFEGKTILVDFWDTAGQ   59 (161)
T ss_pred             CEEEEECCCCCCHHHHHHHHHhCCCCCCcCCceeeEEEEEEEEECCEEEEEEEEeCCCc
Confidence            5899999999999999999999999988889988777666555554 789999999985

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

>cd04176 Rap2 Rap2 subgroup

Probab=99.69  E-value=2.2e-16  Score=88.47  Aligned_cols=58  Identities=28%  Similarity=0.385  Sum_probs=49.4

Q ss_pred             eeeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCC-EEEEEEEcCCCC
Q psy2514          12 KGTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRG-TFTRDYKKTIGA   70 (71)
Q Consensus        12 ~~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~-~~~l~i~Dt~G~   70 (71)
                      ++|++++|++++|||||+.++..+.|.+.+.||++. +....+..++ .+.++||||+|.
T Consensus         1 ~~ki~i~G~~~vGKTsl~~~~~~~~~~~~~~~t~~~-~~~~~~~~~~~~~~l~i~Dt~G~   59 (163)
T cd04176           1 EYKVVVLGSGGVGKSALTVQFVSGTFIEKYDPTIED-FYRKEIEVDSSPSVLEILDTAGT   59 (163)
T ss_pred             CeEEEEECCCCCCHHHHHHHHHcCCCCCCCCCchhh-eEEEEEEECCEEEEEEEEECCCc
Confidence            479999999999999999999999999999999874 4445555555 788999999994

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

>cd04143 Rhes_like Rhes_like subfamily

Probab=99.69  E-value=1.8e-16  Score=95.11  Aligned_cols=57  Identities=28%  Similarity=0.465  Sum_probs=49.9

Q ss_pred             eeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCC-EEEEEEEcCCCC
Q psy2514          13 GTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRG-TFTRDYKKTIGA   70 (71)
Q Consensus        13 ~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~-~~~l~i~Dt~G~   70 (71)
                      +|++++|+++||||||+.+|+.+.|...|.||++ ++..+.+..++ .+.++||||+|.
T Consensus         1 ~KVvvlG~~gvGKTSLi~r~~~~~f~~~y~pTi~-d~~~k~~~i~~~~~~l~I~Dt~G~   58 (247)
T cd04143           1 YRMVVLGASKVGKTAIVSRFLGGRFEEQYTPTIE-DFHRKLYSIRGEVYQLDILDTSGN   58 (247)
T ss_pred             CEEEEECcCCCCHHHHHHHHHcCCCCCCCCCChh-HhEEEEEEECCEEEEEEEEECCCC
Confidence            5899999999999999999999999999999998 55556666665 789999999995

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

>cd04125 RabA_like RabA-like subfamily

Probab=99.69  E-value=3.3e-16  Score=89.91  Aligned_cols=58  Identities=33%  Similarity=0.467  Sum_probs=52.2

Q ss_pred             eeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCC-EEEEEEEcCCCC
Q psy2514          13 GTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRG-TFTRDYKKTIGA   70 (71)
Q Consensus        13 ~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~-~~~l~i~Dt~G~   70 (71)
                      +|++++|+++||||||+.++..+.|...|.||++.++..+.+..++ .+.+++|||+|.
T Consensus         1 ~ki~v~G~~~vGKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~Dt~g~   59 (188)
T cd04125           1 FKVVIIGDYGVGKSSLLKRFTEDEFSESTKSTIGVDFKIKTVYIENKIIKLQIWDTNGQ   59 (188)
T ss_pred             CEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeeEEEEEEEEECCEEEEEEEEECCCc
Confidence            5899999999999999999999999888999999988877777765 788999999985

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.

>cd01864 Rab19 Rab19 subfamily

Probab=99.69  E-value=4.3e-16  Score=87.56  Aligned_cols=60  Identities=28%  Similarity=0.454  Sum_probs=53.9

Q ss_pred             eeeeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCC-EEEEEEEcCCCC
Q psy2514          11 IKGTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRG-TFTRDYKKTIGA   70 (71)
Q Consensus        11 ~~~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~-~~~l~i~Dt~G~   70 (71)
                      +.+|++++|++++|||||+.++..+.|...+.++.+.++..+.+..++ .+.+++|||+|.
T Consensus         2 ~~~kv~vvG~~~~GKTsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~G~   62 (165)
T cd01864           2 FLFKIILIGDSNVGKTCVVQRFKSGTFSERQGNTIGVDFTMKTLEIEGKRVKLQIWDTAGQ   62 (165)
T ss_pred             ceeEEEEECCCCCCHHHHHHHHhhCCCcccCCCccceEEEEEEEEECCEEEEEEEEECCCh
Confidence            468999999999999999999999999998999999888877777766 578999999984

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

>cd01869 Rab1_Ypt1 Rab1/Ypt1 subfamily

Probab=99.68  E-value=4.4e-16  Score=87.51  Aligned_cols=59  Identities=29%  Similarity=0.448  Sum_probs=53.0

Q ss_pred             eeeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCC-EEEEEEEcCCCC
Q psy2514          12 KGTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRG-TFTRDYKKTIGA   70 (71)
Q Consensus        12 ~~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~-~~~l~i~Dt~G~   70 (71)
                      .+|++++|+++||||+|+.++..+.|...+.||.+.++..+.+..++ .+.+++|||+|.
T Consensus         2 ~~ki~i~G~~~vGKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~   61 (166)
T cd01869           2 LFKLLLIGDSGVGKSCLLLRFADDTYTESYISTIGVDFKIRTIELDGKTIKLQIWDTAGQ   61 (166)
T ss_pred             eEEEEEECCCCCCHHHHHHHHhcCCCCCCCCCccceeEEEEEEEECCEEEEEEEEECCCc
Confidence            48999999999999999999999999988999999988877777665 688999999984

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

>cd04144 Ras2 Ras2 subfamily

Probab=99.68  E-value=1.6e-16  Score=91.60  Aligned_cols=57  Identities=23%  Similarity=0.355  Sum_probs=48.8

Q ss_pred             eEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCCEEEEEEEcCCCC
Q psy2514          14 TVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRGTFTRDYKKTIGA   70 (71)
Q Consensus        14 ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~   70 (71)
                      |++++|+++||||||+.+|+.+.|...|.||++..+.......+..+.+++|||+|.
T Consensus         1 ki~ivG~~~vGKTsli~~l~~~~f~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~   57 (190)
T cd04144           1 KLVVLGDGGVGKTALTIQLCLNHFVETYDPTIEDSYRKQVVVDGQPCMLEVLDTAGQ   57 (190)
T ss_pred             CEEEECCCCCCHHHHHHHHHhCCCCccCCCchHhhEEEEEEECCEEEEEEEEECCCc
Confidence            689999999999999999999999999999999777655444344788999999994

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.

>cd04115 Rab33B_Rab33A Rab33B/Rab33A subfamily

Probab=99.68  E-value=4.3e-16  Score=88.19  Aligned_cols=59  Identities=25%  Similarity=0.439  Sum_probs=53.3

Q ss_pred             eeeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCC-EEEEEEEcCCCC
Q psy2514          12 KGTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRG-TFTRDYKKTIGA   70 (71)
Q Consensus        12 ~~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~-~~~l~i~Dt~G~   70 (71)
                      .+||+++|+++||||+|+.++..+.|...+.++++.++..+.+..++ .+.++||||+|.
T Consensus         2 ~~ki~vvG~~~vGKTsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~Dt~G~   61 (170)
T cd04115           2 IFKIIVIGDSNVGKTCLTYRFCAGRFPERTEATIGVDFRERTVEIDGERIKVQLWDTAGQ   61 (170)
T ss_pred             ceEEEEECCCCCCHHHHHHHHHhCCCCCccccceeEEEEEEEEEECCeEEEEEEEeCCCh
Confidence            47999999999999999999999999988999999988877777665 789999999984

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

>PLN03108 Rab family protein; Provisional

Probab=99.68  E-value=5e-16  Score=90.99  Aligned_cols=62  Identities=21%  Similarity=0.217  Sum_probs=54.9

Q ss_pred             CceeeeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCC-EEEEEEEcCCCC
Q psy2514           9 GSIKGTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRG-TFTRDYKKTIGA   70 (71)
Q Consensus         9 ~~~~~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~-~~~l~i~Dt~G~   70 (71)
                      ..+.+||+++|++++|||||+.++..+.|...+.||++.++....+..++ .+.+++|||+|.
T Consensus         3 ~~~~~kivivG~~gvGKStLi~~l~~~~~~~~~~~ti~~~~~~~~i~~~~~~i~l~l~Dt~G~   65 (210)
T PLN03108          3 YAYLFKYIIIGDTGVGKSCLLLQFTDKRFQPVHDLTIGVEFGARMITIDNKPIKLQIWDTAGQ   65 (210)
T ss_pred             CCcceEEEEECCCCCCHHHHHHHHHhCCCCCCCCCCccceEEEEEEEECCEEEEEEEEeCCCc
Confidence            34569999999999999999999999999988999999998877777765 788999999984

>cd01870 RhoA_like RhoA-like subfamily

Probab=99.68  E-value=2.7e-16  Score=88.96  Aligned_cols=59  Identities=22%  Similarity=0.284  Sum_probs=50.0

Q ss_pred             eeeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCCEEEEEEEcCCCC
Q psy2514          12 KGTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRGTFTRDYKKTIGA   70 (71)
Q Consensus        12 ~~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~   70 (71)
                      +.|++++|+++||||||+.++..+.|...|.||++..+.......+..+.+.+|||+|.
T Consensus         1 ~~ki~iiG~~~~GKTsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~   59 (175)
T cd01870           1 RKKLVIVGDGACGKTCLLIVFSKDQFPEVYVPTVFENYVADIEVDGKQVELALWDTAGQ   59 (175)
T ss_pred             CcEEEEECCCCCCHHHHHHHHhcCCCCCCCCCccccceEEEEEECCEEEEEEEEeCCCc
Confidence            36899999999999999999999999999999999777654433344788999999984

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

>cd04111 Rab39 Rab39 subfamily

Probab=99.67  E-value=5.4e-16  Score=90.97  Aligned_cols=59  Identities=24%  Similarity=0.349  Sum_probs=52.8

Q ss_pred             eeeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeC--CEEEEEEEcCCCC
Q psy2514          12 KGTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCR--GTFTRDYKKTIGA   70 (71)
Q Consensus        12 ~~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~--~~~~l~i~Dt~G~   70 (71)
                      .+||+++|+++||||||++++..+.|...+.||++.++..+.+...  ..+.+++|||+|.
T Consensus         2 ~~KIvvvG~~~vGKTsLi~~l~~~~~~~~~~~ti~~d~~~~~i~~~~~~~~~l~i~Dt~G~   62 (211)
T cd04111           2 QFRLIVIGDSTVGKSSLLKRFTEGRFAEVSDPTVGVDFFSRLIEIEPGVRIKLQLWDTAGQ   62 (211)
T ss_pred             ceEEEEECCCCCCHHHHHHHHHcCCCCCCCCceeceEEEEEEEEECCCCEEEEEEEeCCcc
Confidence            5899999999999999999999999998899999999888777653  3789999999984

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.

>cd04106 Rab23_lke Rab23-like subfamily

Probab=99.67  E-value=6.8e-16  Score=86.18  Aligned_cols=58  Identities=50%  Similarity=0.685  Sum_probs=51.1

Q ss_pred             eeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeC---CEEEEEEEcCCCC
Q psy2514          13 GTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCR---GTFTRDYKKTIGA   70 (71)
Q Consensus        13 ~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~---~~~~l~i~Dt~G~   70 (71)
                      +|++++|++++|||||+.++..+.|...+.||++.++..+.+..+   ..+.+++|||+|.
T Consensus         1 ~kv~~vG~~~~GKTsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~~i~D~~G~   61 (162)
T cd04106           1 IKVIVVGNGNVGKSSMIQRFVKGIFTKDYKKTIGVDFLEKQIFLRQSDEDVRLMLWDTAGQ   61 (162)
T ss_pred             CEEEEECCCCCCHHHHHHHHhcCCCCCCCCCcEEEEEEEEEEEEcCCCCEEEEEEeeCCch
Confidence            489999999999999999999999999999999999876666554   3789999999984

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

>cd04140 ARHI_like ARHI subfamily

Probab=99.67  E-value=5.2e-16  Score=87.40  Aligned_cols=58  Identities=33%  Similarity=0.508  Sum_probs=49.1

Q ss_pred             eeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCCEEEEEEEcCCCC
Q psy2514          13 GTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRGTFTRDYKKTIGA   70 (71)
Q Consensus        13 ~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~   70 (71)
                      +||+++|+++||||||++++..+.|...|.||++..+..........+.+++|||+|.
T Consensus         2 ~kv~~vG~~~vGKTsli~~~~~~~f~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~   59 (165)
T cd04140           2 YRVVVFGAGGVGKSSLVLRFVKGTFRESYIPTIEDTYRQVISCSKNICTLQITDTTGS   59 (165)
T ss_pred             eEEEEECCCCCCHHHHHHHHHhCCCCCCcCCcchheEEEEEEECCEEEEEEEEECCCC
Confidence            7899999999999999999999999989999998766443333344788999999985

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

>cd01868 Rab11_like Rab11-like

Probab=99.67  E-value=9.1e-16  Score=86.07  Aligned_cols=60  Identities=32%  Similarity=0.471  Sum_probs=53.6

Q ss_pred             eeeeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCC-EEEEEEEcCCCC
Q psy2514          11 IKGTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRG-TFTRDYKKTIGA   70 (71)
Q Consensus        11 ~~~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~-~~~l~i~Dt~G~   70 (71)
                      ..+|++++|+++||||+|++++..+.|...+.|+++.++....+..++ .+.+++|||+|.
T Consensus         2 ~~~ki~vvG~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~D~~g~   62 (165)
T cd01868           2 YLFKIVLIGDSGVGKSNLLSRFTRNEFNLDSKSTIGVEFATRSIQIDGKTIKAQIWDTAGQ   62 (165)
T ss_pred             CceEEEEECCCCCCHHHHHHHHhcCCCCCCCCCccceEEEEEEEEECCEEEEEEEEeCCCh
Confidence            358999999999999999999999999988999999998887777766 678999999984

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

>cd04103 Centaurin_gamma Centaurin gamma

Probab=99.67  E-value=5.1e-16  Score=87.60  Aligned_cols=56  Identities=25%  Similarity=0.316  Sum_probs=46.1

Q ss_pred             eeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCC-EEEEEEEcCCCC
Q psy2514          13 GTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRG-TFTRDYKKTIGA   70 (71)
Q Consensus        13 ~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~-~~~l~i~Dt~G~   70 (71)
                      +|++++|+++||||||+.+|..+.|.+.+.|+ +.+|. +.+..++ .+.+.+|||+|+
T Consensus         1 ~ki~vvG~~gvGKTsli~~~~~~~f~~~~~~~-~~~~~-~~i~~~~~~~~l~i~D~~g~   57 (158)
T cd04103           1 LKLGIVGNLQSGKSALVHRYLTGSYVQLESPE-GGRFK-KEVLVDGQSHLLLIRDEGGA   57 (158)
T ss_pred             CEEEEECCCCCcHHHHHHHHHhCCCCCCCCCC-ccceE-EEEEECCEEEEEEEEECCCC
Confidence            48999999999999999999999998877665 44564 4455555 778999999986

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.

>PTZ00132 GTP-binding nuclear protein Ran; Provisional

Probab=99.66  E-value=1.1e-15  Score=89.57  Aligned_cols=64  Identities=27%  Similarity=0.511  Sum_probs=55.9

Q ss_pred             ccCceeeeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeC-CEEEEEEEcCCCC
Q psy2514           7 LRGSIKGTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCR-GTFTRDYKKTIGA   70 (71)
Q Consensus         7 ~~~~~~~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~-~~~~l~i~Dt~G~   70 (71)
                      +.+...+|++++|++|||||||+.+++.+.|...|.||++.++.......+ +.+.+++|||+|.
T Consensus         4 ~~~~~~~kv~liG~~g~GKTtLi~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~i~i~~~Dt~g~   68 (215)
T PTZ00132          4 MDEVPEFKLILVGDGGVGKTTFVKRHLTGEFEKKYIPTLGVEVHPLKFYTNCGPICFNVWDTAGQ   68 (215)
T ss_pred             ccCCCCceEEEECCCCCCHHHHHHHHHhCCCCCCCCCccceEEEEEEEEECCeEEEEEEEECCCc
Confidence            345667999999999999999999999999999999999999887766554 5899999999984

>smart00173 RAS Ras subfamily of RAS small GTPases

Probab=99.66  E-value=5.9e-16  Score=86.68  Aligned_cols=58  Identities=28%  Similarity=0.390  Sum_probs=48.6

Q ss_pred             eeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCCEEEEEEEcCCCC
Q psy2514          13 GTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRGTFTRDYKKTIGA   70 (71)
Q Consensus        13 ~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~   70 (71)
                      +||+++|++++|||||+.++..+.|...+.||++..+.......+..+.+++|||+|.
T Consensus         1 ~ki~v~G~~~~GKTsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~g~   58 (164)
T smart00173        1 YKLVVLGSGGVGKSALTIQFVQGHFVDDYDPTIEDSYRKQIEIDGEVCLLDILDTAGQ   58 (164)
T ss_pred             CEEEEECCCCCCHHHHHHHHHhCcCCcccCCchhhhEEEEEEECCEEEEEEEEECCCc
Confidence            5899999999999999999999999999999998665544333344789999999984

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

>KOG0088|consensus

Probab=99.66  E-value=5.6e-17  Score=92.11  Aligned_cols=64  Identities=23%  Similarity=0.280  Sum_probs=58.3

Q ss_pred             ccCceeeeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCC-EEEEEEEcCCCC
Q psy2514           7 LRGSIKGTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRG-TFTRDYKKTIGA   70 (71)
Q Consensus         7 ~~~~~~~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~-~~~l~i~Dt~G~   70 (71)
                      -.+..+||++++|+..||||||.-||+.+.|...+.+|+...|..+.+..++ +..+.||||||+
T Consensus         8 ~g~s~~FK~VLLGEGCVGKtSLVLRy~EnkFn~kHlsTlQASF~~kk~n~ed~ra~L~IWDTAGQ   72 (218)
T KOG0088|consen    8 DGKSFKFKIVLLGEGCVGKTSLVLRYVENKFNCKHLSTLQASFQNKKVNVEDCRADLHIWDTAGQ   72 (218)
T ss_pred             cCCceeeEEEEEcCCccchhHHHHHHHHhhcchhhHHHHHHHHhhcccccccceeeeeeeeccch
Confidence            3456889999999999999999999999999999999999999988887765 889999999996

>cd04130 Wrch_1 Wrch-1 subfamily

Probab=99.66  E-value=7.5e-16  Score=87.39  Aligned_cols=57  Identities=30%  Similarity=0.395  Sum_probs=48.1

Q ss_pred             eeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCC-EEEEEEEcCCCC
Q psy2514          13 GTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRG-TFTRDYKKTIGA   70 (71)
Q Consensus        13 ~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~-~~~l~i~Dt~G~   70 (71)
                      +|++++|++++|||||+.++..+.|..+|.||....+.. .+..++ .+.+++|||+|.
T Consensus         1 ~k~~i~G~~~~GKtsl~~~~~~~~~~~~~~~t~~~~~~~-~~~~~~~~~~~~i~Dt~G~   58 (173)
T cd04130           1 LKCVLVGDGAVGKTSLIVSYTTNGYPTEYVPTAFDNFSV-VVLVDGKPVRLQLCDTAGQ   58 (173)
T ss_pred             CEEEEECCCCCCHHHHHHHHHhCCCCCCCCCceeeeeeE-EEEECCEEEEEEEEECCCC
Confidence            589999999999999999999999999999998654444 444555 789999999985

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,

>cd01866 Rab2 Rab2 subfamily

Probab=99.66  E-value=1.6e-15  Score=85.67  Aligned_cols=60  Identities=23%  Similarity=0.274  Sum_probs=53.5

Q ss_pred             eeeeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCC-EEEEEEEcCCCC
Q psy2514          11 IKGTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRG-TFTRDYKKTIGA   70 (71)
Q Consensus        11 ~~~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~-~~~l~i~Dt~G~   70 (71)
                      ..+||+++|+++||||+|++++..+.+...+.++.+.++....+..++ .+.+.+|||+|.
T Consensus         3 ~~~ki~vvG~~~vGKSsLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~Dt~G~   63 (168)
T cd01866           3 YLFKYIIIGDTGVGKSCLLLQFTDKRFQPVHDLTIGVEFGARMITIDGKQIKLQIWDTAGQ   63 (168)
T ss_pred             cceEEEEECCCCCCHHHHHHHHHcCCCCCCCCCccceeEEEEEEEECCEEEEEEEEECCCc
Confidence            458999999999999999999999999988899999988877776665 678999999994

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

>cd04113 Rab4 Rab4 subfamily

Probab=99.65  E-value=1.3e-15  Score=85.11  Aligned_cols=58  Identities=26%  Similarity=0.403  Sum_probs=52.1

Q ss_pred             eeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCC-EEEEEEEcCCCC
Q psy2514          13 GTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRG-TFTRDYKKTIGA   70 (71)
Q Consensus        13 ~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~-~~~l~i~Dt~G~   70 (71)
                      +|++++|+++||||||++++..+.+...+.++.+.++....+..++ .+.+++|||+|.
T Consensus         1 ~ki~v~G~~~vGKTsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~l~D~~G~   59 (161)
T cd04113           1 FKFIIIGSSGTGKSCLLHRFVENKFKEDSQHTIGVEFGSKIIRVGGKRVKLQIWDTAGQ   59 (161)
T ss_pred             CEEEEECCCCCCHHHHHHHHHhCCCCCCCCCceeeeEEEEEEEECCEEEEEEEEECcch
Confidence            5899999999999999999999999988999999888877777666 688999999984

Rab4 has been implicated in numerous functions within the cell. It helps regulate endocytosis through the sorting, recycling, and degradation of early endosomes. Mammalian Rab4 is involved in the regulation of many surface proteins including G-protein-coupled receptors, transferrin receptor, integrins, and surfactant protein A. Experimental data implicate Rab4 in regulation of the recycling of internalized receptors back to the plasma membrane. It is also believed to influence receptor-mediated antigen processing in B-lymphocytes, in calcium-dependent exocytosis in platelets, in alpha-amylase secretion in pancreatic cells, and in insulin-induced translocation of Glut4 from internal vesicles to the cell surface. Rab4 is known to share effector proteins with Rab5 and Rab11. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to p

>cd04101 RabL4 RabL4 (Rab-like4) subfamily

Probab=99.65  E-value=1.3e-15  Score=85.23  Aligned_cols=58  Identities=22%  Similarity=0.313  Sum_probs=50.0

Q ss_pred             eeEEEEeCCCCCHHHHHHHHHhC--cCCCCccCCcceeeEEEEEEeC--CEEEEEEEcCCCC
Q psy2514          13 GTVVIVGNGAVGKSSMIQRYCRG--TFTRDYKKTIGVKSSMIQRYCR--GTFTRDYKKTIGA   70 (71)
Q Consensus        13 ~ki~v~G~~~vGKtsl~~~~~~~--~f~~~~~~t~~~~~~~~~~~~~--~~~~l~i~Dt~G~   70 (71)
                      +|++++|++++|||||+.++..+  .|+.+|.||++.++..+....+  ..+.+.+|||+|.
T Consensus         1 ~ki~vvG~~~~GKtsl~~~l~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~G~   62 (164)
T cd04101           1 LRCAVVGDPAVGKTAFVQMFHSNGAVFPKNYLMTTGCDFVVKEVPVDTDNTVELFIFDSAGQ   62 (164)
T ss_pred             CEEEEECCCCCCHHHHHHHHhcCCCCcCccCCCceEEEEEEEEEEeCCCCEEEEEEEECCCH
Confidence            48999999999999999999865  7888999999999877666553  4789999999984

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.

>cd01860 Rab5_related Rab5-related subfamily

Probab=99.65  E-value=2.1e-15  Score=84.29  Aligned_cols=59  Identities=25%  Similarity=0.390  Sum_probs=52.7

Q ss_pred             eeeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCC-EEEEEEEcCCCC
Q psy2514          12 KGTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRG-TFTRDYKKTIGA   70 (71)
Q Consensus        12 ~~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~-~~~l~i~Dt~G~   70 (71)
                      .+|++++|++++|||+|++++..+.+...+.|+.+.++..+.+..++ .+.+.+|||+|.
T Consensus         1 ~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~v~~~~~~~~~~i~D~~G~   60 (163)
T cd01860           1 QFKLVLLGDSSVGKSSLVLRFVKNEFSENQESTIGAAFLTQTVNLDDTTVKFEIWDTAGQ   60 (163)
T ss_pred             CeEEEEECCCCCCHHHHHHHHHcCCCCCCCCCccceeEEEEEEEECCEEEEEEEEeCCch
Confidence            37999999999999999999999999888899999888777777765 789999999985

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

>cd04112 Rab26 Rab26 subfamily

Probab=99.65  E-value=1.6e-15  Score=87.41  Aligned_cols=58  Identities=22%  Similarity=0.407  Sum_probs=50.8

Q ss_pred             eeEEEEeCCCCCHHHHHHHHHhCcCCC-CccCCcceeeEEEEEEeCC-EEEEEEEcCCCC
Q psy2514          13 GTVVIVGNGAVGKSSMIQRYCRGTFTR-DYKKTIGVKSSMIQRYCRG-TFTRDYKKTIGA   70 (71)
Q Consensus        13 ~ki~v~G~~~vGKtsl~~~~~~~~f~~-~~~~t~~~~~~~~~~~~~~-~~~l~i~Dt~G~   70 (71)
                      +||+++|++++|||||+.++..++|.. ++.+|++.++....+..++ .+.++||||+|+
T Consensus         1 ~Ki~vvG~~~vGKTSli~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~Dt~G~   60 (191)
T cd04112           1 FKVMLLGDSGVGKTCLLVRFKDGAFLNGNFIATVGIDFRNKVVTVDGVKVKLQIWDTAGQ   60 (191)
T ss_pred             CEEEEECCCCCCHHHHHHHHhcCCCCccCcCCcccceeEEEEEEECCEEEEEEEEeCCCc
Confidence            589999999999999999999999864 6889999888777676665 788999999985

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.

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

Probab=99.64  E-value=1.7e-15  Score=84.67  Aligned_cols=59  Identities=27%  Similarity=0.322  Sum_probs=49.4

Q ss_pred             eeeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCCEEEEEEEcCCCC
Q psy2514          12 KGTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRGTFTRDYKKTIGA   70 (71)
Q Consensus        12 ~~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~   70 (71)
                      .+|++++|++++|||||+.++..+.+...+.||++..+.......+..+.+++|||+|.
T Consensus         2 ~~ki~i~G~~~~GKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~i~Dt~G~   60 (164)
T cd04145           2 TYKLVVVGGGGVGKSALTIQFIQSYFVTDYDPTIEDSYTKQCEIDGQWAILDILDTAGQ   60 (164)
T ss_pred             ceEEEEECCCCCcHHHHHHHHHhCCCCcccCCCccceEEEEEEECCEEEEEEEEECCCC
Confidence            48999999999999999999999999988999998766544333334689999999994

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

>cd04135 Tc10 TC10 subfamily

Probab=99.64  E-value=1.5e-15  Score=85.85  Aligned_cols=57  Identities=26%  Similarity=0.437  Sum_probs=48.3

Q ss_pred             eeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCC-EEEEEEEcCCCC
Q psy2514          13 GTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRG-TFTRDYKKTIGA   70 (71)
Q Consensus        13 ~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~-~~~l~i~Dt~G~   70 (71)
                      +|++++|++++|||||+.++..+.|...|.|+++..+... +..++ .+.+++|||+|.
T Consensus         1 ~ki~i~G~~~~GKTsl~~~~~~~~~~~~~~~t~~~~~~~~-~~~~~~~~~~~i~Dt~G~   58 (174)
T cd04135           1 LKCVVVGDGAVGKTCLLMSYANDAFPEEYVPTVFDHYAVS-VTVGGKQYLLGLYDTAGQ   58 (174)
T ss_pred             CEEEEECCCCCCHHHHHHHHHhCCCCCCCCCceeeeeEEE-EEECCEEEEEEEEeCCCc
Confidence            5899999999999999999999999988999988665543 44444 788999999985

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

>KOG0081|consensus

Probab=99.64  E-value=5.4e-18  Score=96.28  Aligned_cols=62  Identities=19%  Similarity=0.314  Sum_probs=54.6

Q ss_pred             CceeeeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeC----------CEEEEEEEcCCCC
Q psy2514           9 GSIKGTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCR----------GTFTRDYKKTIGA   70 (71)
Q Consensus         9 ~~~~~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~----------~~~~l~i~Dt~G~   70 (71)
                      .++.+|.+.+||+||||||++++|.++.|..++.+|+|+||..+.+..+          .++.+++|||||+
T Consensus         6 ydylikfLaLGDSGVGKTs~Ly~YTD~~F~~qFIsTVGIDFreKrvvY~s~gp~g~gr~~rihLQlWDTAGQ   77 (219)
T KOG0081|consen    6 YDYLIKFLALGDSGVGKTSFLYQYTDGKFNTQFISTVGIDFREKRVVYNSSGPGGGGRGQRIHLQLWDTAGQ   77 (219)
T ss_pred             HHHHHHHHhhccCCCCceEEEEEecCCcccceeEEEeecccccceEEEeccCCCCCCcceEEEEeeeccccH
Confidence            3566899999999999999999999999999999999999997766552          1689999999995

>cd01873 RhoBTB RhoBTB subfamily

Probab=99.64  E-value=1.4e-15  Score=88.49  Aligned_cols=59  Identities=24%  Similarity=0.256  Sum_probs=43.8

Q ss_pred             eeeEEEEeCCCCCHHHHHH-HHHhC-----cCCCCccCCcce-e-eEEEE--------EEeCCEEEEEEEcCCCC
Q psy2514          12 KGTVVIVGNGAVGKSSMIQ-RYCRG-----TFTRDYKKTIGV-K-SSMIQ--------RYCRGTFTRDYKKTIGA   70 (71)
Q Consensus        12 ~~ki~v~G~~~vGKtsl~~-~~~~~-----~f~~~~~~t~~~-~-~~~~~--------~~~~~~~~l~i~Dt~G~   70 (71)
                      .+||+++|+++||||||+. ++..+     .|..+|.||++. + |....        ...+..+.++||||||.
T Consensus         2 ~~Kiv~vG~~~vGKTsLi~~~~~~~~~~~~~f~~~~~pTi~~~~~~~~~~~~~~~~~~~~~~~~v~l~iwDTaG~   76 (195)
T cd01873           2 TIKCVVVGDNAVGKTRLICARACNKTLTQYQLLATHVPTVWAIDQYRVCQEVLERSRDVVDGVSVSLRLWDTFGD   76 (195)
T ss_pred             ceEEEEECCCCcCHHHHHHHHHhCCCcccccCccccCCceecccceeEEeeeccccceeeCCEEEEEEEEeCCCC
Confidence            4799999999999999995 56544     456778999973 3 43321        23344899999999995

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.

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

Probab=99.63  E-value=1.5e-15  Score=85.76  Aligned_cols=56  Identities=29%  Similarity=0.384  Sum_probs=47.5

Q ss_pred             EEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCCEEEEEEEcCCCC
Q psy2514          15 VVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRGTFTRDYKKTIGA   70 (71)
Q Consensus        15 i~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~   70 (71)
                      |+++|+++||||||+.++..+.|...|.|+++..+.......+..+.+.+|||+|.
T Consensus         1 i~i~G~~~vGKTsli~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~Dt~G~   56 (174)
T smart00174        1 LVVVGDGAVGKTCLLISYTTNAFPEDYVPTVFENYSADVEVDGKPVELGLWDTAGQ   56 (174)
T ss_pred             CEEECCCCCCHHHHHHHHHhCCCCCCCCCcEEeeeeEEEEECCEEEEEEEEECCCC
Confidence            57899999999999999999999999999998777654444344789999999984

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

>cd04177 RSR1 RSR1 subgroup

Probab=99.63  E-value=2.3e-15  Score=84.97  Aligned_cols=57  Identities=25%  Similarity=0.365  Sum_probs=48.9

Q ss_pred             eeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeC-CEEEEEEEcCCCC
Q psy2514          13 GTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCR-GTFTRDYKKTIGA   70 (71)
Q Consensus        13 ~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~-~~~~l~i~Dt~G~   70 (71)
                      +|++++|++++|||||++++..+.|...+.||++..+. +.+..+ ..+.+++|||+|.
T Consensus         2 ~ki~liG~~~~GKTsli~~~~~~~~~~~~~~t~~~~~~-~~~~~~~~~~~~~i~Dt~G~   59 (168)
T cd04177           2 YKIVVLGAGGVGKSALTVQFVQNVFIESYDPTIEDSYR-KQVEIDGRQCDLEILDTAGT   59 (168)
T ss_pred             eEEEEECCCCCCHHHHHHHHHhCCCCcccCCcchheEE-EEEEECCEEEEEEEEeCCCc
Confidence            78999999999999999999999999889999987664 444444 4789999999984

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

>cd01861 Rab6 Rab6 subfamily

Probab=99.63  E-value=3.8e-15  Score=83.11  Aligned_cols=58  Identities=31%  Similarity=0.492  Sum_probs=52.4

Q ss_pred             eeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCC-EEEEEEEcCCCC
Q psy2514          13 GTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRG-TFTRDYKKTIGA   70 (71)
Q Consensus        13 ~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~-~~~l~i~Dt~G~   70 (71)
                      +|++++|++++|||||++++..+++...+.|+.+.++..+.+..++ .+.+++|||+|.
T Consensus         1 ~ki~liG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~D~~G~   59 (161)
T cd01861           1 HKLVFLGDQSVGKTSIITRFMYDTFDNQYQATIGIDFLSKTMYLEDKTVRLQLWDTAGQ   59 (161)
T ss_pred             CEEEEECCCCCCHHHHHHHHHcCCCCccCCCceeeeEEEEEEEECCEEEEEEEEECCCc
Confidence            4899999999999999999999999888999999999888887766 678999999984

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

>cd04146 RERG_RasL11_like RERG/RasL11-like subfamily

Probab=99.62  E-value=1.7e-15  Score=85.18  Aligned_cols=57  Identities=19%  Similarity=0.326  Sum_probs=47.8

Q ss_pred             eEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCCEEEEEEEcCCCC
Q psy2514          14 TVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRGTFTRDYKKTIGA   70 (71)
Q Consensus        14 ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~   70 (71)
                      ||+++|+++||||||+.+++.+.|..+|.|+.+..+.......+..+.+++|||+|.
T Consensus         1 ki~vvG~~~~GKtsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~i~D~~g~   57 (165)
T cd04146           1 KIAVLGASGVGKSALVVRFLTKRFIGEYDPNLESLYSRQVTIDGEQVSLEILDTAGQ   57 (165)
T ss_pred             CEEEECCCCCcHHHHHHHHHhCccccccCCChHHhceEEEEECCEEEEEEEEECCCC
Confidence            689999999999999999999999888999987666544434344788999999984

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

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

Probab=99.62  E-value=3.5e-15  Score=87.07  Aligned_cols=59  Identities=24%  Similarity=0.369  Sum_probs=54.2

Q ss_pred             eeeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCC-EEEEEEEcCCCC
Q psy2514          12 KGTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRG-TFTRDYKKTIGA   70 (71)
Q Consensus        12 ~~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~-~~~l~i~Dt~G~   70 (71)
                      .+|++++|++++|||||+.++..+.|...|.||++.++........+ .+++.+|||+|.
T Consensus         5 ~~kivv~G~~g~GKTtl~~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~~Dt~gq   64 (219)
T COG1100           5 EFKIVVLGDGGVGKTTLLNRLVGDEFPEGYPPTIGNLDPAKTIEPYRRNIKLQLWDTAGQ   64 (219)
T ss_pred             eEEEEEEcCCCccHHHHHHHHhcCcCcccCCCceeeeeEEEEEEeCCCEEEEEeecCCCH
Confidence            38999999999999999999999999999999999988888877765 889999999985

>cd04148 RGK RGK subfamily

Probab=99.62  E-value=3.7e-15  Score=88.02  Aligned_cols=58  Identities=21%  Similarity=0.230  Sum_probs=49.6

Q ss_pred             eeEEEEeCCCCCHHHHHHHHHhCcCC-CCccCCcceeeEEEEEEeCC-EEEEEEEcCCCC
Q psy2514          13 GTVVIVGNGAVGKSSMIQRYCRGTFT-RDYKKTIGVKSSMIQRYCRG-TFTRDYKKTIGA   70 (71)
Q Consensus        13 ~ki~v~G~~~vGKtsl~~~~~~~~f~-~~~~~t~~~~~~~~~~~~~~-~~~l~i~Dt~G~   70 (71)
                      +||+++|+++||||||+.+|..+.|. ..|.|+.+.++..+.+..++ .+.+.+|||+|.
T Consensus         1 ~KI~lvG~~gvGKTsLi~~~~~~~~~~~~~~~t~~~~~~~~~i~~~~~~~~l~i~Dt~G~   60 (221)
T cd04148           1 YRVVMLGSPGVGKSSLASQFTSGEYDDHAYDASGDDDTYERTVSVDGEESTLVVIDHWEQ   60 (221)
T ss_pred             CEEEEECCCCCcHHHHHHHHhcCCcCccCcCCCccccceEEEEEECCEEEEEEEEeCCCc
Confidence            58999999999999999999999987 77888887677666666654 788999999985

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

>cd01862 Rab7 Rab7 subfamily

Probab=99.62  E-value=5.8e-15  Score=83.02  Aligned_cols=58  Identities=29%  Similarity=0.447  Sum_probs=51.5

Q ss_pred             eeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCC-EEEEEEEcCCCC
Q psy2514          13 GTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRG-TFTRDYKKTIGA   70 (71)
Q Consensus        13 ~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~-~~~l~i~Dt~G~   70 (71)
                      +||+++|++++|||||++++.++.+...+.++++.++..+.+..++ .+.+++||++|.
T Consensus         1 ~ki~viG~~~~GKSsl~~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~~D~~g~   59 (172)
T cd01862           1 LKVIILGDSGVGKTSLMNQYVNKKFSNQYKATIGADFLTKEVTVDDKLVTLQIWDTAGQ   59 (172)
T ss_pred             CEEEEECCCCCCHHHHHHHHhcCCCCcCcCCccceEEEEEEEEECCEEEEEEEEeCCCh
Confidence            5899999999999999999999999888899999888777766665 788999999984

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-

>PLN03118 Rab family protein; Provisional

Probab=99.60  E-value=1.2e-14  Score=85.00  Aligned_cols=61  Identities=25%  Similarity=0.377  Sum_probs=52.5

Q ss_pred             CceeeeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCC-EEEEEEEcCCCC
Q psy2514           9 GSIKGTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRG-TFTRDYKKTIGA   70 (71)
Q Consensus         9 ~~~~~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~-~~~l~i~Dt~G~   70 (71)
                      ....+|++++|+++||||||+.+++.+.+. .+.|+.+.++....+..++ .+.+.+|||+|.
T Consensus        11 ~~~~~kv~ivG~~~vGKTsli~~l~~~~~~-~~~~t~~~~~~~~~~~~~~~~~~l~l~Dt~G~   72 (211)
T PLN03118         11 YDLSFKILLIGDSGVGKSSLLVSFISSSVE-DLAPTIGVDFKIKQLTVGGKRLKLTIWDTAGQ   72 (211)
T ss_pred             cCcceEEEEECcCCCCHHHHHHHHHhCCCC-CcCCCceeEEEEEEEEECCEEEEEEEEECCCc
Confidence            456799999999999999999999998874 6789999888777776665 788999999995

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

Probab=99.60  E-value=4.5e-15  Score=86.77  Aligned_cols=53  Identities=26%  Similarity=0.459  Sum_probs=47.7

Q ss_pred             EeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCC-EEEEEEEcCCCC
Q psy2514          18 VGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRG-TFTRDYKKTIGA   70 (71)
Q Consensus        18 ~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~-~~~l~i~Dt~G~   70 (71)
                      +|+++||||||+.+|+.+.|...|.||++.++....+..++ .+.++||||+|.
T Consensus         1 vG~~~vGKTsLi~r~~~~~f~~~~~~Tig~~~~~~~~~~~~~~~~l~iwDt~G~   54 (200)
T smart00176        1 VGDGGTGKTTFVKRHLTGEFEKKYVATLGVEVHPLVFHTNRGPIRFNVWDTAGQ   54 (200)
T ss_pred             CCCCCCCHHHHHHHHhcCCCCCCCCCceeEEEEEEEEEECCEEEEEEEEECCCc
Confidence            59999999999999999999989999999998877776655 799999999995

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

>smart00175 RAB Rab subfamily of small GTPases

Probab=99.59  E-value=1.4e-14  Score=80.76  Aligned_cols=58  Identities=31%  Similarity=0.533  Sum_probs=51.8

Q ss_pred             eeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCC-EEEEEEEcCCCC
Q psy2514          13 GTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRG-TFTRDYKKTIGA   70 (71)
Q Consensus        13 ~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~-~~~l~i~Dt~G~   70 (71)
                      +|++++|++++|||||++++....+...+.++++.++....+..++ .+.+++||++|.
T Consensus         1 ~kv~v~G~~~~GKTtli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~D~~G~   59 (164)
T smart00175        1 FKIILIGDSGVGKSSLLSRFTDGKFSEQYKSTIGVDFKTKTIEVDGKRVKLQIWDTAGQ   59 (164)
T ss_pred             CEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeeEEEEEEEEECCEEEEEEEEECCCh
Confidence            5899999999999999999999999888899999988877777766 678999999984

Rab GTPases are implicated in vesicle trafficking.

>cd04126 Rab20 Rab20 subfamily

Probab=99.59  E-value=8e-15  Score=86.85  Aligned_cols=54  Identities=30%  Similarity=0.433  Sum_probs=46.5

Q ss_pred             eeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCCEEEEEEEcCCCC
Q psy2514          13 GTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRGTFTRDYKKTIGA   70 (71)
Q Consensus        13 ~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~   70 (71)
                      +|++++|+++||||||+.++..++|.. +.||++.++.....   +.+.+.||||+|.
T Consensus         1 ~KIvivG~~~vGKTSLi~r~~~~~f~~-~~~Tig~~~~~~~~---~~~~l~iwDt~G~   54 (220)
T cd04126           1 LKVVLLGDMNVGKTSLLHRYMERRFKD-TVSTVGGAFYLKQW---GPYNISIWDTAGR   54 (220)
T ss_pred             CEEEEECCCCCcHHHHHHHHhcCCCCC-CCCccceEEEEEEe---eEEEEEEEeCCCc
Confidence            589999999999999999999999985 68999987765433   4688999999985

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

>cd04139 RalA_RalB RalA/RalB subfamily

Probab=99.59  E-value=9.9e-15  Score=81.32  Aligned_cols=58  Identities=24%  Similarity=0.311  Sum_probs=49.5

Q ss_pred             eeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCCEEEEEEEcCCCC
Q psy2514          13 GTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRGTFTRDYKKTIGA   70 (71)
Q Consensus        13 ~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~   70 (71)
                      +|++++|++++|||||+.++..+.|...+.|+++..+.......+..+.+.+|||+|.
T Consensus         1 ~ki~~~G~~~~GKTsl~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~   58 (164)
T cd04139           1 YKVIVVGAGGVGKSALTLQFMYDEFVEDYEPTKADSYRKKVVLDGEDVQLNILDTAGQ   58 (164)
T ss_pred             CEEEEECCCCCCHHHHHHHHHhCCCccccCCcchhhEEEEEEECCEEEEEEEEECCCh
Confidence            5899999999999999999999999999999998766554444345789999999984

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

>cd01863 Rab18 Rab18 subfamily

Probab=99.58  E-value=2.4e-14  Score=79.95  Aligned_cols=58  Identities=29%  Similarity=0.447  Sum_probs=51.0

Q ss_pred             eeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCC-EEEEEEEcCCCC
Q psy2514          13 GTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRG-TFTRDYKKTIGA   70 (71)
Q Consensus        13 ~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~-~~~l~i~Dt~G~   70 (71)
                      +|++++|++++|||||++++..+.+...+.|+.+.++....+..++ .+.+.+|||+|.
T Consensus         1 ~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~D~~g~   59 (161)
T cd01863           1 LKILLIGDSGVGKSSLLLRFTDDTFDPDLAATIGVDFKVKTLTVDGKKVKLAIWDTAGQ   59 (161)
T ss_pred             CEEEEECCCCCCHHHHHHHHHcCCCCcccCCcccceEEEEEEEECCEEEEEEEEECCCc
Confidence            5899999999999999999999999888899999888776666654 688999999984

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

>cd00157 Rho Rho (Ras homology) family

Probab=99.57  E-value=2.4e-14  Score=80.44  Aligned_cols=58  Identities=28%  Similarity=0.383  Sum_probs=49.3

Q ss_pred             eeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCCEEEEEEEcCCCC
Q psy2514          13 GTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRGTFTRDYKKTIGA   70 (71)
Q Consensus        13 ~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~   70 (71)
                      +|++++|++++|||||++++..+.+...+.|+....+.......+..+.+++|||+|.
T Consensus         1 iki~i~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~D~~g~   58 (171)
T cd00157           1 IKIVVVGDGAVGKTCLLISYTTGKFPTEYVPTVFDNYSATVTVDGKQVNLGLWDTAGQ   58 (171)
T ss_pred             CEEEEECCCCCCHHHHHHHHHhCCCCCCCCCceeeeeEEEEEECCEEEEEEEEeCCCc
Confidence            5899999999999999999999999888889988666555544445889999999984

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

>cd04114 Rab30 Rab30 subfamily

Probab=99.57  E-value=5.4e-14  Score=79.04  Aligned_cols=61  Identities=26%  Similarity=0.441  Sum_probs=53.6

Q ss_pred             ceeeeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCC-EEEEEEEcCCCC
Q psy2514          10 SIKGTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRG-TFTRDYKKTIGA   70 (71)
Q Consensus        10 ~~~~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~-~~~l~i~Dt~G~   70 (71)
                      ...+|++++|+++||||||+.++..+.+...+.++++.++..+.+..++ .+.+.+||++|.
T Consensus         5 ~~~~~v~v~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~~D~~g~   66 (169)
T cd04114           5 DFLFKIVLIGNAGVGKTCLVRRFTQGLFPPGQGATIGVDFMIKTVEIKGEKIKLQIWDTAGQ   66 (169)
T ss_pred             CceeEEEEECCCCCCHHHHHHHHHhCCCCCCCCCceeeEEEEEEEEECCEEEEEEEEECCCc
Confidence            4569999999999999999999999998888889999888877777766 688999999984

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.

>KOG0395|consensus

Probab=99.55  E-value=5.7e-15  Score=86.24  Aligned_cols=59  Identities=27%  Similarity=0.363  Sum_probs=52.7

Q ss_pred             eeeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCCEEEEEEEcCCCC
Q psy2514          12 KGTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRGTFTRDYKKTIGA   70 (71)
Q Consensus        12 ~~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~   70 (71)
                      .+|++++|.+|||||+|..+|..+.|.+.|.||+++.|......+++.+.++|+||+|.
T Consensus         3 ~~kvvvlG~~gVGKSal~~qf~~~~f~~~y~ptied~y~k~~~v~~~~~~l~ilDt~g~   61 (196)
T KOG0395|consen    3 EYKVVVLGAGGVGKSALTIQFLTGRFVEDYDPTIEDSYRKELTVDGEVCMLEILDTAGQ   61 (196)
T ss_pred             ceEEEEECCCCCCcchheeeecccccccccCCCccccceEEEEECCEEEEEEEEcCCCc
Confidence            58999999999999999999999999999999999767666666556899999999983

>cd04123 Rab21 Rab21 subfamily

Probab=99.55  E-value=6.5e-14  Score=77.80  Aligned_cols=58  Identities=26%  Similarity=0.335  Sum_probs=50.3

Q ss_pred             eeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCC-EEEEEEEcCCCC
Q psy2514          13 GTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRG-TFTRDYKKTIGA   70 (71)
Q Consensus        13 ~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~-~~~l~i~Dt~G~   70 (71)
                      +|++++|++++|||||++++..+.+...+.+++..++....+...+ .+.+.+||++|.
T Consensus         1 ~ki~i~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~   59 (162)
T cd04123           1 FKVVLLGEGRVGKTSLVLRYVENKFNEKHESTTQASFFQKTVNIGGKRIDLAIWDTAGQ   59 (162)
T ss_pred             CEEEEECCCCCCHHHHHHHHHhCCCCCCcCCccceeEEEEEEEECCEEEEEEEEECCch
Confidence            5899999999999999999999999888888888777766666655 678999999984

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

>cd01893 Miro1 Miro1 subfamily

Probab=99.55  E-value=3.8e-14  Score=79.94  Aligned_cols=57  Identities=18%  Similarity=0.233  Sum_probs=44.2

Q ss_pred             eeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCCEEEEEEEcCCCC
Q psy2514          13 GTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRGTFTRDYKKTIGA   70 (71)
Q Consensus        13 ~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~   70 (71)
                      .|++++|+++||||||+.++..+.|+..+ |+...++.......+..+.+++|||+|.
T Consensus         1 ~kv~ivG~~~vGKTsl~~~l~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~i~Dt~G~   57 (166)
T cd01893           1 VRIVLIGDEGVGKSSLIMSLVSEEFPENV-PRVLPEITIPADVTPERVPTTIVDTSSR   57 (166)
T ss_pred             CEEEEECCCCCCHHHHHHHHHhCcCCccC-CCcccceEeeeeecCCeEEEEEEeCCCc
Confidence            48999999999999999999999998765 4444444433333345789999999985

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.

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

Probab=99.55  E-value=3.3e-14  Score=81.12  Aligned_cols=57  Identities=18%  Similarity=0.184  Sum_probs=46.8

Q ss_pred             ceeeeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCCEEEEEEEcCCCC
Q psy2514          10 SIKGTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRGTFTRDYKKTIGA   70 (71)
Q Consensus        10 ~~~~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~   70 (71)
                      ...+|++++|++++|||||+.++..++|. .+.||++.++..  ... ..+.+.+|||+|.
T Consensus        11 ~~~~ki~l~G~~~~GKTsL~~~~~~~~~~-~~~~t~~~~~~~--~~~-~~~~l~l~D~~G~   67 (175)
T smart00177       11 NKEMRILMVGLDAAGKTTILYKLKLGESV-TTIPTIGFNVET--VTY-KNISFTVWDVGGQ   67 (175)
T ss_pred             CCccEEEEEcCCCCCHHHHHHHHhcCCCC-CcCCccccceEE--EEE-CCEEEEEEECCCC
Confidence            34699999999999999999999988885 578999977643  322 4588999999995

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).

>KOG0083|consensus

Probab=99.55  E-value=3.1e-16  Score=87.14  Aligned_cols=54  Identities=19%  Similarity=0.355  Sum_probs=49.1

Q ss_pred             EEeCCCCCHHHHHHHHHhCcCC-CCccCCcceeeEEEEEEeCC-EEEEEEEcCCCC
Q psy2514          17 IVGNGAVGKSSMIQRYCRGTFT-RDYKKTIGVKSSMIQRYCRG-TFTRDYKKTIGA   70 (71)
Q Consensus        17 v~G~~~vGKtsl~~~~~~~~f~-~~~~~t~~~~~~~~~~~~~~-~~~l~i~Dt~G~   70 (71)
                      ++||+++|||+|+.||.++.|- .++.+|+|+||..+.+..++ +++++||||||+
T Consensus         2 llgds~~gktcllir~kdgafl~~~fistvgid~rnkli~~~~~kvklqiwdtagq   57 (192)
T KOG0083|consen    2 LLGDSCTGKTCLLIRFKDGAFLAGNFISTVGIDFRNKLIDMDDKKVKLQIWDTAGQ   57 (192)
T ss_pred             ccccCccCceEEEEEeccCceecCceeeeeeeccccceeccCCcEEEEEEeeccch
Confidence            6899999999999999999885 46889999999999887766 899999999996

>cd04149 Arf6 Arf6 subfamily

Probab=99.55  E-value=3.3e-14  Score=80.73  Aligned_cols=57  Identities=14%  Similarity=0.170  Sum_probs=46.8

Q ss_pred             ceeeeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCCEEEEEEEcCCCC
Q psy2514          10 SIKGTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRGTFTRDYKKTIGA   70 (71)
Q Consensus        10 ~~~~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~   70 (71)
                      ...+|++++|+++||||||+.++..+.|. .+.||++.++..  ... ..+.+++|||+|.
T Consensus         7 ~~~~kv~i~G~~~~GKTsli~~l~~~~~~-~~~~t~g~~~~~--~~~-~~~~~~l~Dt~G~   63 (168)
T cd04149           7 NKEMRILMLGLDAAGKTTILYKLKLGQSV-TTIPTVGFNVET--VTY-KNVKFNVWDVGGQ   63 (168)
T ss_pred             CCccEEEEECcCCCCHHHHHHHHccCCCc-cccCCcccceEE--EEE-CCEEEEEEECCCC
Confidence            34689999999999999999999988886 478999977642  222 4688999999995

Arf6 (ADP ribosylation factor 6) proteins localize to the plasma membrane, where they perform a wide variety of functions. In its active, GTP-bound form, Arf6 is involved in cell spreading, Rac-induced formation of plasma membrane ruffles, cell migration, wound healing, and Fc-mediated phagocytosis. Arf6 appears to change the actin structure at the plasma membrane by activating Rac, a Rho family protein involved in membrane ruffling. Arf6 is required for and enhances Rac formation of ruffles. Arf6 can regulate dendritic branching in hippocampal neurons, and in yeast it localizes to the growing bud, where it plays a role in polarized growth and bud site selection. In leukocytes, Arf6 is required for chemokine-stimulated migration across endothelial cells. Arf6 also plays a role in down-regulation of beta2-adrenergic receptors and luteinizing hormone receptors by facilitating the release of sequestered arrestin to allow endocytosis. Arf6 is believed t

>PTZ00133 ADP-ribosylation factor; Provisional

Probab=99.54  E-value=3.8e-14  Score=81.42  Aligned_cols=57  Identities=18%  Similarity=0.198  Sum_probs=47.1

Q ss_pred             ceeeeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCCEEEEEEEcCCCC
Q psy2514          10 SIKGTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRGTFTRDYKKTIGA   70 (71)
Q Consensus        10 ~~~~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~   70 (71)
                      +..+|++++|+++||||||+.++..+.|.. +.||++.++.  .+.. ..+.+++|||+|.
T Consensus        15 ~~~~kv~lvG~~~vGKTsli~~~~~~~~~~-~~~T~~~~~~--~~~~-~~~~~~l~D~~G~   71 (182)
T PTZ00133         15 KKEVRILMVGLDAAGKTTILYKLKLGEVVT-TIPTIGFNVE--TVEY-KNLKFTMWDVGGQ   71 (182)
T ss_pred             CCccEEEEEcCCCCCHHHHHHHHhcCCccc-cCCccccceE--EEEE-CCEEEEEEECCCC
Confidence            446999999999999999999999888875 7899997664  2322 4588999999995

>cd04150 Arf1_5_like Arf1-Arf5-like subfamily

Probab=99.54  E-value=3.8e-14  Score=79.74  Aligned_cols=54  Identities=19%  Similarity=0.217  Sum_probs=44.9

Q ss_pred             eeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCCEEEEEEEcCCCC
Q psy2514          13 GTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRGTFTRDYKKTIGA   70 (71)
Q Consensus        13 ~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~   70 (71)
                      +|++++|+++||||||+.++..+.|. .+.||++.++.  .+.. ..+.+++|||+|.
T Consensus         1 ~kv~~~G~~~~GKTsli~~l~~~~~~-~~~pt~g~~~~--~~~~-~~~~~~l~D~~G~   54 (159)
T cd04150           1 MRILMVGLDAAGKTTILYKLKLGEIV-TTIPTIGFNVE--TVEY-KNISFTVWDVGGQ   54 (159)
T ss_pred             CEEEEECCCCCCHHHHHHHHhcCCCc-ccCCCCCcceE--EEEE-CCEEEEEEECCCC
Confidence            48999999999999999999988887 47899997653  2332 4688999999995

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

>cd00154 Rab Rab family

Probab=99.54  E-value=8.6e-14  Score=76.59  Aligned_cols=58  Identities=33%  Similarity=0.527  Sum_probs=51.8

Q ss_pred             eeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCC-EEEEEEEcCCCC
Q psy2514          13 GTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRG-TFTRDYKKTIGA   70 (71)
Q Consensus        13 ~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~-~~~l~i~Dt~G~   70 (71)
                      +|++++|++++|||||+.++..+.+...+.+|.+.++....+..++ .+.+.+||++|.
T Consensus         1 ~~i~~~G~~~~GKStl~~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~D~~g~   59 (159)
T cd00154           1 FKIVLIGDSGVGKTSLLLRFVDGKFDENYKSTIGVDFKSKTIEIDGKTVKLQIWDTAGQ   59 (159)
T ss_pred             CeEEEECCCCCCHHHHHHHHHhCcCCCccCCceeeeeEEEEEEECCEEEEEEEEecCCh
Confidence            5899999999999999999999999988889999988887777765 688999999984

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

>cd04152 Arl4_Arl7 Arl4/Arl7 subfamily

Probab=99.54  E-value=4.8e-14  Score=80.90  Aligned_cols=58  Identities=19%  Similarity=0.241  Sum_probs=47.8

Q ss_pred             eeeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEe-C-CEEEEEEEcCCCC
Q psy2514          12 KGTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYC-R-GTFTRDYKKTIGA   70 (71)
Q Consensus        12 ~~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~-~-~~~~l~i~Dt~G~   70 (71)
                      .+|++++|+++||||||+.++..+.|... .||.+.++....+.. + ..+.+++|||+|.
T Consensus         3 ~~kv~~vG~~~~GKTsli~~~~~~~~~~~-~~t~~~~~~~~~~~~~~~~~~~l~l~Dt~G~   62 (183)
T cd04152           3 SLHIVMLGLDSAGKTTVLYRLKFNEFVNT-VPTKGFNTEKIKVSLGNSKGITFHFWDVGGQ   62 (183)
T ss_pred             ceEEEEECCCCCCHHHHHHHHhcCCcCCc-CCccccceeEEEeeccCCCceEEEEEECCCc
Confidence            58999999999999999999999888764 689887765554443 2 4688999999985

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.

>cd04162 Arl9_Arfrp2_like Arl9/Arfrp2-like subfamily

Probab=99.54  E-value=3e-14  Score=80.54  Aligned_cols=53  Identities=15%  Similarity=0.191  Sum_probs=44.8

Q ss_pred             EEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCCEEEEEEEcCCCC
Q psy2514          15 VVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRGTFTRDYKKTIGA   70 (71)
Q Consensus        15 i~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~   70 (71)
                      ++++|+++||||||+.++..+.|...|.||++.++.  .+ ..+.+.+++|||+|.
T Consensus         2 i~ivG~~~vGKTsli~~~~~~~~~~~~~pt~g~~~~--~i-~~~~~~l~i~Dt~G~   54 (164)
T cd04162           2 ILVLGLDGAGKTSLLHSLSSERSLESVVPTTGFNSV--AI-PTQDAIMELLEIGGS   54 (164)
T ss_pred             EEEECCCCCCHHHHHHHHhcCCCcccccccCCcceE--EE-eeCCeEEEEEECCCC
Confidence            789999999999999999999999899999996542  22 344689999999985

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.

>cd04129 Rho2 Rho2 subfamily

Probab=99.54  E-value=6.4e-14  Score=80.56  Aligned_cols=58  Identities=28%  Similarity=0.371  Sum_probs=48.7

Q ss_pred             eeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCCEEEEEEEcCCCC
Q psy2514          13 GTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRGTFTRDYKKTIGA   70 (71)
Q Consensus        13 ~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~   70 (71)
                      .|++++|++|+|||||+.++..+.|.+.+.+|++..+.......+..+.+.+|||+|.
T Consensus         2 ~Ki~ivG~~g~GKStLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~g~   59 (187)
T cd04129           2 RKLVIVGDGACGKTSLLSVFTLGEFPEEYHPTVFENYVTDCRVDGKPVQLALWDTAGQ   59 (187)
T ss_pred             eEEEEECCCCCCHHHHHHHHHhCCCCcccCCcccceEEEEEEECCEEEEEEEEECCCC
Confidence            6999999999999999999999999988899988777654433344688999999984

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).

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

Probab=99.52  E-value=7.9e-14  Score=79.28  Aligned_cols=58  Identities=29%  Similarity=0.474  Sum_probs=48.3

Q ss_pred             eeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCCEEEEEEEcCCCC
Q psy2514          13 GTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRGTFTRDYKKTIGA   70 (71)
Q Consensus        13 ~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~   70 (71)
                      .|++++|+++||||||+.++..+.+...+.|+++..+.......+..+.+++|||+|.
T Consensus         2 ~kv~l~G~~g~GKTtl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~D~~g~   59 (180)
T cd04137           2 RKIAVLGSRSVGKSSLTVQFVEGHFVESYYPTIENTFSKIIRYKGQDYHLEIVDTAGQ   59 (180)
T ss_pred             eEEEEECCCCCCHHHHHHHHHhCCCccccCcchhhhEEEEEEECCEEEEEEEEECCCh
Confidence            6899999999999999999999999888899998766544433334788999999984

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

>PLN00223 ADP-ribosylation factor; Provisional

Probab=99.51  E-value=1e-13  Score=79.68  Aligned_cols=57  Identities=18%  Similarity=0.201  Sum_probs=46.8

Q ss_pred             ceeeeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCCEEEEEEEcCCCC
Q psy2514          10 SIKGTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRGTFTRDYKKTIGA   70 (71)
Q Consensus        10 ~~~~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~   70 (71)
                      ...+|++++|++++|||||+.++..++|. .+.||++.++.  .+.. +.+.+++||++|.
T Consensus        15 ~~~~ki~ivG~~~~GKTsl~~~l~~~~~~-~~~pt~g~~~~--~~~~-~~~~~~i~D~~Gq   71 (181)
T PLN00223         15 KKEMRILMVGLDAAGKTTILYKLKLGEIV-TTIPTIGFNVE--TVEY-KNISFTVWDVGGQ   71 (181)
T ss_pred             CCccEEEEECCCCCCHHHHHHHHccCCCc-cccCCcceeEE--EEEE-CCEEEEEEECCCC
Confidence            34589999999999999999999988887 47899997653  2332 4588999999995

>cd04147 Ras_dva Ras-dva subfamily

Probab=99.51  E-value=9.4e-14  Score=80.54  Aligned_cols=56  Identities=30%  Similarity=0.500  Sum_probs=47.2

Q ss_pred             eEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCC-EEEEEEEcCCCC
Q psy2514          14 TVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRG-TFTRDYKKTIGA   70 (71)
Q Consensus        14 ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~-~~~l~i~Dt~G~   70 (71)
                      ||+++|+++||||||+.+++.+.|...|.+|++. +....+..++ .+.+++|||+|.
T Consensus         1 kv~vvG~~~vGKTsll~~~~~~~~~~~~~~t~~~-~~~~~~~~~~~~~~l~i~D~~G~   57 (198)
T cd04147           1 RLVFMGAAGVGKTALIQRFLYDTFEPKYRRTVEE-MHRKEYEVGGVSLTLDILDTSGS   57 (198)
T ss_pred             CEEEECCCCCCHHHHHHHHHhCCCCccCCCchhh-heeEEEEECCEEEEEEEEECCCc
Confidence            6899999999999999999999999888888874 4445555555 688999999984

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.

>TIGR00231 small_GTP small GTP-binding protein domain

Probab=99.50  E-value=3.5e-13  Score=73.71  Aligned_cols=58  Identities=28%  Similarity=0.366  Sum_probs=51.1

Q ss_pred             eeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCC-EEEEEEEcCCCC
Q psy2514          13 GTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRG-TFTRDYKKTIGA   70 (71)
Q Consensus        13 ~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~-~~~l~i~Dt~G~   70 (71)
                      +||+++|.+++|||||++++..+.++.++.++++.++....+..++ .+.+.+|||.|.
T Consensus         2 ~ki~~~G~~~~GKstl~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~G~   60 (161)
T TIGR00231         2 IKIVIVGDPNVGKSTLLNRLLGNKFITEYKPGTTRNYVTTVIEEDGKTYKFNLLDTAGQ   60 (161)
T ss_pred             eEEEEECCCCCCHHHHHHHHhCCCCcCcCCCCceeeeeEEEEEECCEEEEEEEEECCCc
Confidence            7999999999999999999999888888889999888877666665 488999999984

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.

>cd00876 Ras Ras family

Probab=99.47  E-value=2.9e-13  Score=75.01  Aligned_cols=56  Identities=38%  Similarity=0.586  Sum_probs=46.9

Q ss_pred             eEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCC-EEEEEEEcCCCC
Q psy2514          14 TVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRG-TFTRDYKKTIGA   70 (71)
Q Consensus        14 ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~-~~~l~i~Dt~G~   70 (71)
                      |++++|++++|||||+.++..+.+...+.|+.+. ........++ .+.+++||++|.
T Consensus         1 ki~i~G~~~~GKTsli~~l~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~l~D~~g~   57 (160)
T cd00876           1 KVVVLGAGGVGKSAITIQFVKGTFVEEYDPTIED-SYRKTIVVDGETYTLDILDTAGQ   57 (160)
T ss_pred             CEEEECCCCCCHHHHHHHHHhCCCCcCcCCChhH-eEEEEEEECCEEEEEEEEECCCh
Confidence            6899999999999999999998899999999884 4444455554 789999999984

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

>cd04158 ARD1 ARD1 subfamily

Probab=99.47  E-value=2.8e-13  Score=76.73  Aligned_cols=53  Identities=19%  Similarity=0.224  Sum_probs=43.9

Q ss_pred             eEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCCEEEEEEEcCCCC
Q psy2514          14 TVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRGTFTRDYKKTIGA   70 (71)
Q Consensus        14 ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~   70 (71)
                      |++++|+++||||||+.++..+.|.. +.||++.++.  .... ..+.+.+|||+|.
T Consensus         1 ~vvlvG~~~~GKTsl~~~l~~~~~~~-~~~T~~~~~~--~~~~-~~~~i~l~Dt~G~   53 (169)
T cd04158           1 RVVTLGLDGAGKTTILFKLKQDEFMQ-PIPTIGFNVE--TVEY-KNLKFTIWDVGGK   53 (169)
T ss_pred             CEEEECCCCCCHHHHHHHHhcCCCCC-cCCcCceeEE--EEEE-CCEEEEEEECCCC
Confidence            68999999999999999999988864 7899987764  2322 4588999999985

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

>cd04156 ARLTS1 ARLTS1 subfamily

Probab=99.46  E-value=4.5e-13  Score=74.71  Aligned_cols=54  Identities=15%  Similarity=0.195  Sum_probs=44.5

Q ss_pred             eEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCCEEEEEEEcCCCC
Q psy2514          14 TVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRGTFTRDYKKTIGA   70 (71)
Q Consensus        14 ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~   70 (71)
                      +++++|+++||||||+.++..+.+.. +.||++.++  ..+..++.+.+.+|||+|.
T Consensus         1 ~i~i~G~~~~GKTsl~~~~~~~~~~~-~~~t~~~~~--~~~~~~~~~~l~i~D~~G~   54 (160)
T cd04156           1 QVLLLGLDSAGKSTLLYKLKHAELVT-TIPTVGFNV--EMLQLEKHLSLTVWDVGGQ   54 (160)
T ss_pred             CEEEEcCCCCCHHHHHHHHhcCCccc-ccCccCcce--EEEEeCCceEEEEEECCCC
Confidence            58999999999999999999998875 468888554  3444456789999999985

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

>cd04154 Arl2 Arl2 subfamily

Probab=99.45  E-value=5.6e-13  Score=75.57  Aligned_cols=57  Identities=12%  Similarity=0.206  Sum_probs=45.0

Q ss_pred             ceeeeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCCEEEEEEEcCCCC
Q psy2514          10 SIKGTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRGTFTRDYKKTIGA   70 (71)
Q Consensus        10 ~~~~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~   70 (71)
                      ...+|++++|++++|||||+.++..+.+ ..+.||++..+  ..+..+ .+.+++|||+|.
T Consensus        12 ~~~~kv~ivG~~~~GKTsL~~~l~~~~~-~~~~~t~g~~~--~~~~~~-~~~l~l~D~~G~   68 (173)
T cd04154          12 EREMRILILGLDNAGKTTILKKLLGEDI-DTISPTLGFQI--KTLEYE-GYKLNIWDVGGQ   68 (173)
T ss_pred             CCccEEEEECCCCCCHHHHHHHHccCCC-CCcCCccccce--EEEEEC-CEEEEEEECCCC
Confidence            3468999999999999999999997755 46789988433  444444 488999999995

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.

>cd04157 Arl6 Arl6 subfamily

Probab=99.45  E-value=3.2e-13  Score=75.25  Aligned_cols=54  Identities=17%  Similarity=0.255  Sum_probs=43.2

Q ss_pred             eEEEEeCCCCCHHHHHHHHHhCc-CCCCccCCcceeeEEEEEEeCCEEEEEEEcCCCC
Q psy2514          14 TVVIVGNGAVGKSSMIQRYCRGT-FTRDYKKTIGVKSSMIQRYCRGTFTRDYKKTIGA   70 (71)
Q Consensus        14 ki~v~G~~~vGKtsl~~~~~~~~-f~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~   70 (71)
                      +|+++|+++||||||+.++..+. +...+.||++..+.  ... .+.+.+++|||+|.
T Consensus         1 ~i~~vG~~~~GKTsl~~~l~~~~~~~~~~~~t~g~~~~--~~~-~~~~~~~l~Dt~G~   55 (162)
T cd04157           1 NILVVGLDNSGKTTIINQLKPENAQSQIIVPTVGFNVE--SFE-KGNLSFTAFDMSGQ   55 (162)
T ss_pred             CEEEECCCCCCHHHHHHHHcccCCCcceecCccccceE--EEE-ECCEEEEEEECCCC
Confidence            57899999999999999999876 46678899985442  222 34688999999995

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

>cd04161 Arl2l1_Arl13_like Arl2l1/Arl13 subfamily

Probab=99.42  E-value=1.2e-12  Score=74.17  Aligned_cols=53  Identities=15%  Similarity=0.202  Sum_probs=43.2

Q ss_pred             eEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCCEEEEEEEcCCCC
Q psy2514          14 TVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRGTFTRDYKKTIGA   70 (71)
Q Consensus        14 ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~   70 (71)
                      +++++|+++||||||++++..+ |...+.||++..  ...+.. +.+.+++||++|.
T Consensus         1 ~i~~~G~~~~GKTsl~~~l~~~-~~~~~~~t~g~~--~~~~~~-~~~~~~i~D~~G~   53 (167)
T cd04161           1 TLLTVGLDNAGKTTLVSALQGE-IPKKVAPTVGFT--PTKLRL-DKYEVCIFDLGGG   53 (167)
T ss_pred             CEEEECCCCCCHHHHHHHHhCC-CCccccCcccce--EEEEEE-CCEEEEEEECCCc
Confidence            4789999999999999999866 888899999964  334443 4588999999995

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.

>cd04159 Arl10_like Arl10-like subfamily

Probab=99.42  E-value=1.3e-12  Score=71.89  Aligned_cols=54  Identities=20%  Similarity=0.265  Sum_probs=45.7

Q ss_pred             eEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCCEEEEEEEcCCCC
Q psy2514          14 TVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRGTFTRDYKKTIGA   70 (71)
Q Consensus        14 ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~   70 (71)
                      .++++|++++|||||++++...+|..++.||++.++..  ...+ .+.+++||++|.
T Consensus         1 ~i~i~G~~~~GKssl~~~l~~~~~~~~~~~t~~~~~~~--~~~~-~~~~~~~D~~g~   54 (159)
T cd04159           1 EITLVGLQNSGKTTLVNVIAGGQFSEDTIPTVGFNMRK--VTKG-NVTLKVWDLGGQ   54 (159)
T ss_pred             CEEEEcCCCCCHHHHHHHHccCCCCcCccCCCCcceEE--EEEC-CEEEEEEECCCC
Confidence            37899999999999999999999999999999977653  3333 488999999984

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.

>KOG4252|consensus

Probab=99.41  E-value=6.8e-15  Score=85.10  Aligned_cols=60  Identities=52%  Similarity=0.640  Sum_probs=53.8

Q ss_pred             eeeeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCC-EEEEEEEcCCCC
Q psy2514          11 IKGTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRG-TFTRDYKKTIGA   70 (71)
Q Consensus        11 ~~~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~-~~~l~i~Dt~G~   70 (71)
                      ..+|++++|..+|||+|+++||+.+-|...|..|+|.+|..+.+..++ .+.+.+|||||+
T Consensus        19 ~aiK~vivGng~VGKssmiqryCkgifTkdykktIgvdflerqi~v~~Edvr~mlWdtagq   79 (246)
T KOG4252|consen   19 RAIKFVIVGNGSVGKSSMIQRYCKGIFTKDYKKTIGVDFLERQIKVLIEDVRSMLWDTAGQ   79 (246)
T ss_pred             hhEEEEEECCCccchHHHHHHHhccccccccccccchhhhhHHHHhhHHHHHHHHHHhccc
Confidence            469999999999999999999999999999999999999877776654 567789999996

>PF08477 Miro: Miro-like protein; InterPro: IPR013684 Mitochondrial Rho proteins (Miro-1, Q8IXI2 from SWISSPROT and Miro-2, Q8IXI1 from SWISSPROT) are atypical Rho GTPases

Probab=99.40  E-value=3.2e-12  Score=68.45  Aligned_cols=57  Identities=25%  Similarity=0.419  Sum_probs=40.9

Q ss_pred             eEEEEeCCCCCHHHHHHHHHhCcCC--CCccCCcceeeEEEEEEeCC-EEEEEEEcCCCC
Q psy2514          14 TVVIVGNGAVGKSSMIQRYCRGTFT--RDYKKTIGVKSSMIQRYCRG-TFTRDYKKTIGA   70 (71)
Q Consensus        14 ki~v~G~~~vGKtsl~~~~~~~~f~--~~~~~t~~~~~~~~~~~~~~-~~~l~i~Dt~G~   70 (71)
                      ||+++|++++|||||+++++.+.+.  ..+.++.+..+......... ...+++||++|.
T Consensus         1 kI~V~G~~g~GKTsLi~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~d~~g~   60 (119)
T PF08477_consen    1 KIVVLGDSGVGKTSLIRRLCGGEFPDNSVPEETSEITIGVDVIVVDGDRQSLQFWDFGGQ   60 (119)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHSS--------SSTTSCEEEEEEEETTEEEEEEEEEESSS
T ss_pred             CEEEECcCCCCHHHHHHHHhcCCCcccccccccCCCcEEEEEEEecCCceEEEEEecCcc
Confidence            7999999999999999999998887  23445555556655565555 456999999874

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.

>cd04153 Arl5_Arl8 Arl5/Arl8 subfamily

Probab=99.40  E-value=1.5e-12  Score=74.08  Aligned_cols=56  Identities=20%  Similarity=0.226  Sum_probs=46.0

Q ss_pred             eeeeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCCEEEEEEEcCCCC
Q psy2514          11 IKGTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRGTFTRDYKKTIGA   70 (71)
Q Consensus        11 ~~~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~   70 (71)
                      ..+|++++|++++|||||+.++..++|.. +.||++.++..  ...+ .+.+.+|||+|.
T Consensus        14 ~~~kv~~~G~~~~GKTsl~~~l~~~~~~~-~~~t~~~~~~~--~~~~-~~~~~l~D~~G~   69 (174)
T cd04153          14 KEYKVIIVGLDNAGKTTILYQFLLGEVVH-TSPTIGSNVEE--IVYK-NIRFLMWDIGGQ   69 (174)
T ss_pred             CccEEEEECCCCCCHHHHHHHHccCCCCC-cCCccccceEE--EEEC-CeEEEEEECCCC
Confidence            46899999999999999999999988875 67999876532  3223 588999999995

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.

>cd04151 Arl1 Arl1 subfamily

Probab=99.38  E-value=2.5e-12  Score=71.87  Aligned_cols=53  Identities=19%  Similarity=0.233  Sum_probs=42.7

Q ss_pred             eEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCCEEEEEEEcCCCC
Q psy2514          14 TVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRGTFTRDYKKTIGA   70 (71)
Q Consensus        14 ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~   70 (71)
                      |++++|++++|||+|+.++..+.+.. +.||++.++.  .+.. ..+.+++|||+|.
T Consensus         1 kv~lvG~~~~GKTsl~~~l~~~~~~~-~~~t~~~~~~--~~~~-~~~~~~i~Dt~G~   53 (158)
T cd04151           1 RILILGLDNAGKTTILYRLQLGEVVT-TIPTIGFNVE--TVTY-KNLKFQVWDLGGQ   53 (158)
T ss_pred             CEEEECCCCCCHHHHHHHHccCCCcC-cCCccCcCeE--EEEE-CCEEEEEEECCCC
Confidence            68999999999999999998888764 6789886653  2222 4578999999995

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.

>cd01850 CDC_Septin CDC/Septin

Probab=99.36  E-value=1.1e-11  Score=75.61  Aligned_cols=59  Identities=24%  Similarity=0.334  Sum_probs=47.0

Q ss_pred             eeeeEEEEeCCCCCHHHHHHHHHhCcCCCC----------ccCCcceeeEEEEEEeCC-EEEEEEEcCCC
Q psy2514          11 IKGTVVIVGNGAVGKSSMIQRYCRGTFTRD----------YKKTIGVKSSMIQRYCRG-TFTRDYKKTIG   69 (71)
Q Consensus        11 ~~~ki~v~G~~~vGKtsl~~~~~~~~f~~~----------~~~t~~~~~~~~~~~~~~-~~~l~i~Dt~G   69 (71)
                      ..++++++|++|+|||||+.++....+...          +.+|+........+..++ ++.+.+|||+|
T Consensus         3 ~~f~I~vvG~sg~GKSTliN~L~~~~~~~~~~~~~~~~~~~~~T~~i~~~~~~i~~~g~~~~l~iiDTpG   72 (276)
T cd01850           3 FQFNIMVVGESGLGKSTFINTLFNTKLIPSDYPPDPAEEHIDKTVEIKSSKAEIEENGVKLKLTVIDTPG   72 (276)
T ss_pred             cEEEEEEEcCCCCCHHHHHHHHHcCCCccccCCCCccccccCCceEEEEEEEEEEECCEEEEEEEEecCC
Confidence            468999999999999999999998776543          456666666555555555 78999999998

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.

>cd04171 SelB SelB subfamily

Probab=99.35  E-value=4.5e-12  Score=70.57  Aligned_cols=57  Identities=12%  Similarity=0.139  Sum_probs=39.8

Q ss_pred             eEEEEeCCCCCHHHHHHHHHh---CcCCCCccCCcceeeEEEEEEeCCEEEEEEEcCCCC
Q psy2514          14 TVVIVGNGAVGKSSMIQRYCR---GTFTRDYKKTIGVKSSMIQRYCRGTFTRDYKKTIGA   70 (71)
Q Consensus        14 ki~v~G~~~vGKtsl~~~~~~---~~f~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~   70 (71)
                      .++++|+++||||||+.++..   +.+..++.+++..+.........+...+++|||+|.
T Consensus         2 ~i~i~G~~~~GKssl~~~l~~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~DtpG~   61 (164)
T cd04171           2 IIGTAGHIDHGKTTLIKALTGIETDRLPEEKKRGITIDLGFAYLDLPSGKRLGFIDVPGH   61 (164)
T ss_pred             EEEEEecCCCCHHHHHHHHhCcccccchhhhccCceEEeeeEEEEecCCcEEEEEECCCh
Confidence            478999999999999999985   445544445444444333344442467999999995

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

>KOG0096|consensus

Probab=99.35  E-value=3e-12  Score=74.40  Aligned_cols=61  Identities=28%  Similarity=0.498  Sum_probs=52.4

Q ss_pred             ceeeeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEe-CCEEEEEEEcCCCC
Q psy2514          10 SIKGTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYC-RGTFTRDYKKTIGA   70 (71)
Q Consensus        10 ~~~~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~-~~~~~l~i~Dt~G~   70 (71)
                      -..+|++++|+.+.|||++..|.+.++|...|.||+|.+...-.... .+++.++.|||+|.
T Consensus         8 ~~~fklvlvGdgg~gKtt~vkr~ltgeFe~~y~at~Gv~~~pl~f~tn~g~irf~~wdtagq   69 (216)
T KOG0096|consen    8 GLTFKLVLVGDGGTGKTTFVKRHLTGEFEKTYPATLGVEVHPLLFDTNRGQIRFNVWDTAGQ   69 (216)
T ss_pred             cceEEEEEecCCcccccchhhhhhcccceecccCcceeEEeeeeeecccCcEEEEeeecccc
Confidence            35799999999999999999999999999999999998765444433 35799999999985

>PRK04213 GTP-binding protein; Provisional

Probab=99.34  E-value=6.1e-12  Score=72.78  Aligned_cols=55  Identities=16%  Similarity=0.149  Sum_probs=42.1

Q ss_pred             ceeeeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCCEEEEEEEcCCC
Q psy2514          10 SIKGTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRGTFTRDYKKTIG   69 (71)
Q Consensus        10 ~~~~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G   69 (71)
                      ...++++++|.++||||||++++..+.+...+.|++.  +.......+   .+.+|||+|
T Consensus         7 ~~~~~i~i~G~~~~GKSsLin~l~~~~~~~~~~~~~t--~~~~~~~~~---~~~l~Dt~G   61 (201)
T PRK04213          7 DRKPEIVFVGRSNVGKSTLVRELTGKKVRVGKRPGVT--RKPNHYDWG---DFILTDLPG   61 (201)
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHhCCCCccCCCCcee--eCceEEeec---ceEEEeCCc
Confidence            3568999999999999999999998887766666554  333333333   589999998

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

Probab=99.34  E-value=9e-12  Score=71.21  Aligned_cols=62  Identities=19%  Similarity=0.087  Sum_probs=44.9

Q ss_pred             cccCceeeeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCCEEEEEEEcCCC
Q psy2514           6 VLRGSIKGTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRGTFTRDYKKTIG   69 (71)
Q Consensus         6 ~~~~~~~~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G   69 (71)
                      ...+....+++++|++++|||||+.++....+...+.++.+..........++  .+.+|||+|
T Consensus        12 ~~~~~~~~~i~ivG~~~~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~--~~~liDtpG   73 (179)
T TIGR03598        12 QLPPDDGPEIAFAGRSNVGKSSLINALTNRKKLARTSKTPGRTQLINFFEVND--GFRLVDLPG   73 (179)
T ss_pred             hCCCCCCCEEEEEcCCCCCHHHHHHHHhCCCCcccccCCCCcceEEEEEEeCC--cEEEEeCCC
Confidence            34556789999999999999999999998876555556655433222222233  588999998

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.

>PRK00454 engB GTP-binding protein YsxC; Reviewed

Probab=99.33  E-value=9.7e-12  Score=71.41  Aligned_cols=59  Identities=19%  Similarity=0.071  Sum_probs=44.9

Q ss_pred             CceeeeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCCEEEEEEEcCCC
Q psy2514           9 GSIKGTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRGTFTRDYKKTIG   69 (71)
Q Consensus         9 ~~~~~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G   69 (71)
                      .+...+++++|++++|||||+.+++.+.+...+.++.+..........  ...+.+|||+|
T Consensus        21 ~~~~~~v~ivG~~~~GKSsli~~l~~~~~~~~~~~~~~~t~~~~~~~~--~~~l~l~DtpG   79 (196)
T PRK00454         21 PDDGPEIAFAGRSNVGKSSLINALTNRKNLARTSKTPGRTQLINFFEV--NDKLRLVDLPG   79 (196)
T ss_pred             CCCCCEEEEEcCCCCCHHHHHHHHhCCCCcccccCCCCceeEEEEEec--CCeEEEeCCCC
Confidence            456789999999999999999999988776667777764333222221  36789999999

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

Probab=99.33  E-value=7.3e-12  Score=69.74  Aligned_cols=53  Identities=17%  Similarity=0.230  Sum_probs=42.3

Q ss_pred             eEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCCEEEEEEEcCCCC
Q psy2514          14 TVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRGTFTRDYKKTIGA   70 (71)
Q Consensus        14 ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~   70 (71)
                      |++++|.+++|||||++++..+.+ ..+.+|++..+.  .+..+ .+.+++||++|.
T Consensus         1 ki~iiG~~~~GKssli~~~~~~~~-~~~~~t~~~~~~--~~~~~-~~~~~i~D~~G~   53 (158)
T cd00878           1 RILILGLDGAGKTTILYKLKLGEV-VTTIPTIGFNVE--TVEYK-NVSFTVWDVGGQ   53 (158)
T ss_pred             CEEEEcCCCCCHHHHHHHHhcCCC-CCCCCCcCcceE--EEEEC-CEEEEEEECCCC
Confidence            689999999999999999998874 457888886543  33333 578999999985

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

>cd00879 Sar1 Sar1 subfamily

Probab=99.32  E-value=1.3e-11  Score=70.79  Aligned_cols=57  Identities=11%  Similarity=0.100  Sum_probs=45.4

Q ss_pred             ceeeeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCCEEEEEEEcCCCC
Q psy2514          10 SIKGTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRGTFTRDYKKTIGA   70 (71)
Q Consensus        10 ~~~~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~   70 (71)
                      ....|++++|++++|||||+.++..+.+. .|.||.+...  ..+..++ +.+.+||++|.
T Consensus        17 ~~~~ki~ilG~~~~GKStLi~~l~~~~~~-~~~~T~~~~~--~~i~~~~-~~~~l~D~~G~   73 (190)
T cd00879          17 NKEAKILFLGLDNAGKTTLLHMLKDDRLA-QHVPTLHPTS--EELTIGN-IKFKTFDLGGH   73 (190)
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHhcCCCc-ccCCccCcce--EEEEECC-EEEEEEECCCC
Confidence            44699999999999999999999988874 5788887543  3344443 77899999985

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.

>cd04160 Arfrp1 Arfrp1 subfamily

Probab=99.32  E-value=7.8e-12  Score=70.11  Aligned_cols=54  Identities=15%  Similarity=0.180  Sum_probs=41.3

Q ss_pred             eEEEEeCCCCCHHHHHHHHHhC------cCCCCccCCcceeeEEEEEEeCCEEEEEEEcCCCC
Q psy2514          14 TVVIVGNGAVGKSSMIQRYCRG------TFTRDYKKTIGVKSSMIQRYCRGTFTRDYKKTIGA   70 (71)
Q Consensus        14 ki~v~G~~~vGKtsl~~~~~~~------~f~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~   70 (71)
                      +++++|++++|||||+.++...      .+...+.||++.++..  +..+ ...+.+|||+|.
T Consensus         1 ~i~~vG~~~~GKstLi~~l~~~~~~~~~~~~~~~~~t~~~~~~~--~~~~-~~~~~l~Dt~G~   60 (167)
T cd04160           1 SVLILGLDNAGKTTFLEQLKTLFSKYKGLPPSKITPTVGLNIGT--IEVG-NARLKFWDLGGQ   60 (167)
T ss_pred             CEEEEecCCCCHHHHHHHHhhhcccccCCcccccCCccccceEE--EEEC-CEEEEEEECCCC
Confidence            5899999999999999998753      2244677888877643  3333 478999999984

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.

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

Probab=99.32  E-value=1.3e-11  Score=70.96  Aligned_cols=58  Identities=10%  Similarity=0.063  Sum_probs=45.0

Q ss_pred             CceeeeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCCEEEEEEEcCCCC
Q psy2514           9 GSIKGTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRGTFTRDYKKTIGA   70 (71)
Q Consensus         9 ~~~~~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~   70 (71)
                      ....+|++++|.+++|||||+.++..+.+. .+.||.+...  ..+..+ .+++.+|||+|.
T Consensus        14 ~~~~~~i~ivG~~~~GKTsli~~l~~~~~~-~~~~t~~~~~--~~~~~~-~~~~~~~D~~G~   71 (184)
T smart00178       14 WNKHAKILFLGLDNAGKTTLLHMLKNDRLA-QHQPTQHPTS--EELAIG-NIKFTTFDLGGH   71 (184)
T ss_pred             ccccCEEEEECCCCCCHHHHHHHHhcCCCc-ccCCccccce--EEEEEC-CEEEEEEECCCC
Confidence            355699999999999999999999988775 4567777533  333333 478999999985

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

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

Probab=99.31  E-value=1.5e-11  Score=69.02  Aligned_cols=54  Identities=24%  Similarity=0.145  Sum_probs=37.7

Q ss_pred             eEEEEeCCCCCHHHHHHHHHhCcCCCCccC--CcceeeEEEEEEeCCEEEEEEEcCCCC
Q psy2514          14 TVVIVGNGAVGKSSMIQRYCRGTFTRDYKK--TIGVKSSMIQRYCRGTFTRDYKKTIGA   70 (71)
Q Consensus        14 ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~--t~~~~~~~~~~~~~~~~~l~i~Dt~G~   70 (71)
                      +++++|++++|||||++++..+.+.....+  |..  ........ +.+.+.+|||+|.
T Consensus         2 ~i~~~G~~~~GKssli~~l~~~~~~~~~~~~~t~~--~~~~~~~~-~~~~~~i~Dt~G~   57 (168)
T cd01897           2 TLVIAGYPNVGKSSLVNKLTRAKPEVAPYPFTTKS--LFVGHFDY-KYLRWQVIDTPGL   57 (168)
T ss_pred             eEEEEcCCCCCHHHHHHHHhcCCCccCCCCCcccc--eeEEEEcc-CceEEEEEECCCc
Confidence            689999999999999999998877533222  222  22222211 3478999999994

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.

>cd01878 HflX HflX subfamily

Probab=99.28  E-value=1.6e-11  Score=71.23  Aligned_cols=59  Identities=19%  Similarity=0.130  Sum_probs=41.9

Q ss_pred             ceeeeEEEEeCCCCCHHHHHHHHHhCcCCCC--ccCCcceeeEEEEEEeCCEEEEEEEcCCCC
Q psy2514          10 SIKGTVVIVGNGAVGKSSMIQRYCRGTFTRD--YKKTIGVKSSMIQRYCRGTFTRDYKKTIGA   70 (71)
Q Consensus        10 ~~~~ki~v~G~~~vGKtsl~~~~~~~~f~~~--~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~   70 (71)
                      +..++|+++|++|||||||++++..+.+...  +.+|..  .....+..++...+.+|||+|-
T Consensus        39 ~~~~~I~iiG~~g~GKStLl~~l~~~~~~~~~~~~~t~~--~~~~~~~~~~~~~~~i~Dt~G~   99 (204)
T cd01878          39 SGIPTVALVGYTNAGKSTLFNALTGADVYAEDQLFATLD--PTTRRLRLPDGREVLLTDTVGF   99 (204)
T ss_pred             cCCCeEEEECCCCCCHHHHHHHHhcchhccCCccceecc--ceeEEEEecCCceEEEeCCCcc
Confidence            4468999999999999999999998765322  334443  3333344444447899999984

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.

>TIGR02528 EutP ethanolamine utilization protein, EutP

Probab=99.27  E-value=6.2e-12  Score=69.13  Aligned_cols=44  Identities=25%  Similarity=0.318  Sum_probs=35.4

Q ss_pred             eEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCCEEEEEEEcCCCC
Q psy2514          14 TVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRGTFTRDYKKTIGA   70 (71)
Q Consensus        14 ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~   70 (71)
                      |++++|+++||||||++++..+.+  .+.+|++.++..           .+|||+|.
T Consensus         2 kv~liG~~~vGKSsL~~~l~~~~~--~~~~t~~~~~~~-----------~~iDt~G~   45 (142)
T TIGR02528         2 RIMFIGSVGCGKTTLTQALQGEEI--LYKKTQAVEYND-----------GAIDTPGE   45 (142)
T ss_pred             eEEEECCCCCCHHHHHHHHcCCcc--ccccceeEEEcC-----------eeecCchh
Confidence            899999999999999999998776  356776655532           57899884

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.

>KOG1673|consensus

Probab=99.27  E-value=3.5e-12  Score=72.48  Aligned_cols=63  Identities=21%  Similarity=0.376  Sum_probs=58.3

Q ss_pred             cCceeeeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCC-EEEEEEEcCCCC
Q psy2514           8 RGSIKGTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRG-TFTRDYKKTIGA   70 (71)
Q Consensus         8 ~~~~~~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~-~~~l~i~Dt~G~   70 (71)
                      ++...+|+-++||+.+|||||+..|.++++.++|..+.|++|-.+++..++ .+.+.|||..|+
T Consensus        16 ~n~Vslkv~llGD~qiGKTs~mvkYV~~~~de~~~q~~GvN~mdkt~~i~~t~IsfSIwdlgG~   79 (205)
T KOG1673|consen   16 SNLVSLKVGLLGDAQIGKTSLMVKYVQNEYDEEYTQTLGVNFMDKTVSIRGTDISFSIWDLGGQ   79 (205)
T ss_pred             ccceEEEEEeecccccCceeeehhhhcchhHHHHHHHhCccceeeEEEecceEEEEEEEecCCc
Confidence            455689999999999999999999999999999999999999999999987 889999999885

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

Probab=99.26  E-value=1.7e-11  Score=70.85  Aligned_cols=58  Identities=16%  Similarity=0.251  Sum_probs=42.6

Q ss_pred             eeEEEEeCCCCCHHHHHHHHHh--CcCCCCc------------cCCcceeeEEEEEEe-CCEEEEEEEcCCCC
Q psy2514          13 GTVVIVGNGAVGKSSMIQRYCR--GTFTRDY------------KKTIGVKSSMIQRYC-RGTFTRDYKKTIGA   70 (71)
Q Consensus        13 ~ki~v~G~~~vGKtsl~~~~~~--~~f~~~~------------~~t~~~~~~~~~~~~-~~~~~l~i~Dt~G~   70 (71)
                      -+++++|++++|||||+.+++.  +.|...+            .++.+..+....... .+.+.+.+|||+|.
T Consensus         3 r~i~ivG~~~~GKTsL~~~l~~~~~~~~~~~~~~~~~~~~~~~e~~~g~t~~~~~~~~~~~~~~~~l~DtpG~   75 (194)
T cd01891           3 RNIAIIAHVDHGKTTLVDALLKQSGTFRENEEVEERVMDSNDLERERGITILAKNTAVTYKDTKINIVDTPGH   75 (194)
T ss_pred             cEEEEEecCCCCHHHHHHHHHHHcCCCCccCcccccccccchhHHhcccccccceeEEEECCEEEEEEECCCc
Confidence            4799999999999999999997  6776543            234555554443333 34688999999995

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

>cd04155 Arl3 Arl3 subfamily

Probab=99.25  E-value=6.7e-11  Score=66.69  Aligned_cols=57  Identities=18%  Similarity=0.274  Sum_probs=44.5

Q ss_pred             ceeeeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCCEEEEEEEcCCCC
Q psy2514          10 SIKGTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRGTFTRDYKKTIGA   70 (71)
Q Consensus        10 ~~~~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~   70 (71)
                      ...++++++|++|+|||||+.++....+. .+.||.|.++  ..+..++ ..+.+||++|.
T Consensus        12 ~~~~~v~i~G~~g~GKStLl~~l~~~~~~-~~~~t~g~~~--~~i~~~~-~~~~~~D~~G~   68 (173)
T cd04155          12 SEEPRILILGLDNAGKTTILKQLASEDIS-HITPTQGFNI--KTVQSDG-FKLNVWDIGGQ   68 (173)
T ss_pred             CCccEEEEEccCCCCHHHHHHHHhcCCCc-ccCCCCCcce--EEEEECC-EEEEEEECCCC
Confidence            44799999999999999999999887665 4678888543  3343444 77999999985

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.

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

Probab=99.24  E-value=4.9e-11  Score=66.75  Aligned_cols=57  Identities=12%  Similarity=0.148  Sum_probs=42.5

Q ss_pred             eEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeC--CEEEEEEEcCCCC
Q psy2514          14 TVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCR--GTFTRDYKKTIGA   70 (71)
Q Consensus        14 ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~--~~~~l~i~Dt~G~   70 (71)
                      .++++|++++|||||++++..+.+...+.++...++.......+  ....+.+|||+|.
T Consensus         2 ~i~iiG~~~~GKtsli~~l~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~iiDtpG~   60 (168)
T cd01887           2 VVTVMGHVDHGKTTLLDKIRKTNVAAGEAGGITQHIGAFEVPAEVLKIPGITFIDTPGH   60 (168)
T ss_pred             EEEEEecCCCCHHHHHHHHHhcccccccCCCeEEeeccEEEecccCCcceEEEEeCCCc
Confidence            48999999999999999999988876655555444433333333  3578999999984

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.

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

Probab=99.22  E-value=5.4e-11  Score=68.09  Aligned_cols=58  Identities=19%  Similarity=0.316  Sum_probs=47.1

Q ss_pred             CceeeeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCCEEEEEEEcCCCC
Q psy2514           9 GSIKGTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRGTFTRDYKKTIGA   70 (71)
Q Consensus         9 ~~~~~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~   70 (71)
                      .....||+++|..++|||++++++..+.+.. +.||.|.+  ...+..++ +.+++||..|+
T Consensus        11 ~~~~~~ililGl~~sGKTtll~~l~~~~~~~-~~pT~g~~--~~~i~~~~-~~~~~~d~gG~   68 (175)
T PF00025_consen   11 KKKEIKILILGLDGSGKTTLLNRLKNGEISE-TIPTIGFN--IEEIKYKG-YSLTIWDLGGQ   68 (175)
T ss_dssp             TTSEEEEEEEESTTSSHHHHHHHHHSSSEEE-EEEESSEE--EEEEEETT-EEEEEEEESSS
T ss_pred             cCcEEEEEEECCCccchHHHHHHhhhccccc-cCcccccc--cceeeeCc-EEEEEEecccc
Confidence            3678999999999999999999998776654 78999954  45555554 78999999886

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 ....

>cd01890 LepA LepA subfamily

Probab=99.21  E-value=8.8e-11  Score=66.52  Aligned_cols=57  Identities=14%  Similarity=0.152  Sum_probs=39.7

Q ss_pred             eEEEEeCCCCCHHHHHHHHHhC-------cCCCCccCCc------ceeeEEEEEE------eCCEEEEEEEcCCCC
Q psy2514          14 TVVIVGNGAVGKSSMIQRYCRG-------TFTRDYKKTI------GVKSSMIQRY------CRGTFTRDYKKTIGA   70 (71)
Q Consensus        14 ki~v~G~~~vGKtsl~~~~~~~-------~f~~~~~~t~------~~~~~~~~~~------~~~~~~l~i~Dt~G~   70 (71)
                      +++++|++++|||||+.+++..       .+...+.++.      |..+..+...      .+..+.+.+|||+|.
T Consensus         2 ni~~vG~~~~GKssL~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~g~t~~~~~~~~~~~~~~~~~~~~~l~Dt~G~   77 (179)
T cd01890           2 NFSIIAHIDHGKSTLADRLLELTGTVSKREMKEQVLDSMDLERERGITIKAQTVRLNYKAKDGQEYLLNLIDTPGH   77 (179)
T ss_pred             cEEEEeecCCCHHHHHHHHHHHhCCCCcCCCceEeccCChhHHHCCCeEecceEEEEEecCCCCcEEEEEEECCCC
Confidence            5899999999999999999863       2333444433      4445443322      234788999999994

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.

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

Probab=99.21  E-value=4.5e-11  Score=66.24  Aligned_cols=53  Identities=17%  Similarity=0.137  Sum_probs=40.8

Q ss_pred             EEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCCEEEEEEEcCCCC
Q psy2514          17 IVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRGTFTRDYKKTIGA   70 (71)
Q Consensus        17 v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~   70 (71)
                      ++|.+++|||||+.++....+...+.|++..++....+..++ ..+.+|||+|.
T Consensus         1 l~G~~~~GKssl~~~~~~~~~~~~~~~~~t~~~~~~~~~~~~-~~~~liDtpG~   53 (158)
T cd01879           1 LVGNPNVGKTTLFNALTGARQKVGNWPGVTVEKKEGRFKLGG-KEIEIVDLPGT   53 (158)
T ss_pred             CCCCCCCCHHHHHHHHhcCcccccCCCCcccccceEEEeeCC-eEEEEEECCCc
Confidence            479999999999999998766555556666666555565555 57999999984

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.

>TIGR00450 mnmE_trmE_thdF tRNA modification GTPase TrmE

Probab=99.20  E-value=1.4e-10  Score=74.63  Aligned_cols=58  Identities=22%  Similarity=0.161  Sum_probs=44.5

Q ss_pred             eeeeEEEEeCCCCCHHHHHHHHHhCc--CCCCccCCcceeeEEEEEEeCCEEEEEEEcCCCC
Q psy2514          11 IKGTVVIVGNGAVGKSSMIQRYCRGT--FTRDYKKTIGVKSSMIQRYCRGTFTRDYKKTIGA   70 (71)
Q Consensus        11 ~~~ki~v~G~~~vGKtsl~~~~~~~~--f~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~   70 (71)
                      ..+|++++|+++||||||+++++...  +..++ |.+..++....+..++ ..+.+|||+|.
T Consensus       202 ~g~kVvIvG~~nvGKSSLiN~L~~~~~aivs~~-pgtTrd~~~~~i~~~g-~~v~l~DTaG~  261 (442)
T TIGR00450       202 DGFKLAIVGSPNVGKSSLLNALLKQDRAIVSDI-KGTTRDVVEGDFELNG-ILIKLLDTAGI  261 (442)
T ss_pred             cCCEEEEECCCCCcHHHHHHHHhCCCCcccCCC-CCcEEEEEEEEEEECC-EEEEEeeCCCc
Confidence            45899999999999999999999764  34444 5555566666666665 56789999994

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.

>TIGR03156 GTP_HflX GTP-binding protein HflX

Probab=99.19  E-value=9e-11  Score=73.66  Aligned_cols=58  Identities=19%  Similarity=0.113  Sum_probs=43.0

Q ss_pred             eeeeEEEEeCCCCCHHHHHHHHHhCcCCC-Cc-cCCcceeeEEEEEEeCCEEEEEEEcCCCC
Q psy2514          11 IKGTVVIVGNGAVGKSSMIQRYCRGTFTR-DY-KKTIGVKSSMIQRYCRGTFTRDYKKTIGA   70 (71)
Q Consensus        11 ~~~ki~v~G~~~vGKtsl~~~~~~~~f~~-~~-~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~   70 (71)
                      ..++++++|.+++|||||+++++...+.. ++ .+|.  ++....+...+...+.+|||+|-
T Consensus       188 ~~~~ValvG~~NvGKSSLln~L~~~~~~v~~~~~tT~--d~~~~~i~~~~~~~i~l~DT~G~  247 (351)
T TIGR03156       188 DVPTVALVGYTNAGKSTLFNALTGADVYAADQLFATL--DPTTRRLDLPDGGEVLLTDTVGF  247 (351)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhCCceeeccCCcccc--CCEEEEEEeCCCceEEEEecCcc
Confidence            44899999999999999999999876532 22 3443  45556666644467899999994

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).

>PRK15494 era GTPase Era; Provisional

Probab=99.18  E-value=1.7e-10  Score=72.07  Aligned_cols=58  Identities=17%  Similarity=0.098  Sum_probs=41.7

Q ss_pred             ceeeeEEEEeCCCCCHHHHHHHHHhCcCCC---CccCCcceeeEEEEEEeCCEEEEEEEcCCCC
Q psy2514          10 SIKGTVVIVGNGAVGKSSMIQRYCRGTFTR---DYKKTIGVKSSMIQRYCRGTFTRDYKKTIGA   70 (71)
Q Consensus        10 ~~~~ki~v~G~~~vGKtsl~~~~~~~~f~~---~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~   70 (71)
                      ....+++++|.++||||||+++++...+..   .+.+|.  ++....+..++ ..+.+|||+|.
T Consensus        50 ~k~~kV~ivG~~nvGKSTLin~l~~~k~~ivs~k~~tTr--~~~~~~~~~~~-~qi~~~DTpG~  110 (339)
T PRK15494         50 QKTVSVCIIGRPNSGKSTLLNRIIGEKLSIVTPKVQTTR--SIITGIITLKD-TQVILYDTPGI  110 (339)
T ss_pred             cceeEEEEEcCCCCCHHHHHHHHhCCceeeccCCCCCcc--CcEEEEEEeCC-eEEEEEECCCc
Confidence            456799999999999999999999877642   222333  33334444444 56899999995

>KOG0073|consensus

Probab=99.18  E-value=9.9e-11  Score=66.79  Aligned_cols=57  Identities=18%  Similarity=0.284  Sum_probs=48.1

Q ss_pred             ceeeeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCCEEEEEEEcCCCC
Q psy2514          10 SIKGTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRGTFTRDYKKTIGA   70 (71)
Q Consensus        10 ~~~~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~   70 (71)
                      +..++|.++|..++|||++..++.... .+...||.|  |..++...++ +.++|||..|+
T Consensus        14 erE~riLiLGLdNsGKTti~~kl~~~~-~~~i~pt~g--f~Iktl~~~~-~~L~iwDvGGq   70 (185)
T KOG0073|consen   14 EREVRILILGLDNSGKTTIVKKLLGED-TDTISPTLG--FQIKTLEYKG-YTLNIWDVGGQ   70 (185)
T ss_pred             hheeEEEEEecCCCCchhHHHHhcCCC-ccccCCccc--eeeEEEEecc-eEEEEEEcCCc
Confidence            348999999999999999999997655 666789999  6667776665 89999999986

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

Probab=99.16  E-value=1.6e-10  Score=67.64  Aligned_cols=56  Identities=13%  Similarity=0.184  Sum_probs=40.7

Q ss_pred             eEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEe-CCEEEEEEEcCCCC
Q psy2514          14 TVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYC-RGTFTRDYKKTIGA   70 (71)
Q Consensus        14 ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~-~~~~~l~i~Dt~G~   70 (71)
                      +++++|++++|||+|+.++..+.+...+.++ ..++....... +....+.+|||+|.
T Consensus         2 ~vll~G~~~sGKTsL~~~l~~~~~~~t~~s~-~~~~~~~~~~~~~~~~~~~l~D~pG~   58 (203)
T cd04105           2 TVLLLGPSDSGKTALFTKLTTGKYRSTVTSI-EPNVATFILNSEGKGKKFRLVDVPGH   58 (203)
T ss_pred             eEEEEcCCCCCHHHHHHHHhcCCCCCccCcE-eecceEEEeecCCCCceEEEEECCCC
Confidence            5899999999999999999999887766444 33333222211 23577999999985

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

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

Probab=99.15  E-value=4.2e-10  Score=62.03  Aligned_cols=56  Identities=21%  Similarity=0.081  Sum_probs=40.0

Q ss_pred             eeEEEEeCCCCCHHHHHHHHHhCcCC-CCccCCcceeeEEEEEEeCCEEEEEEEcCCC
Q psy2514          13 GTVVIVGNGAVGKSSMIQRYCRGTFT-RDYKKTIGVKSSMIQRYCRGTFTRDYKKTIG   69 (71)
Q Consensus        13 ~ki~v~G~~~vGKtsl~~~~~~~~f~-~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G   69 (71)
                      ++++++|++++|||||+.++....+. ....++...++.......+ ...+.+|||.|
T Consensus         2 ~~i~l~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~i~DtpG   58 (157)
T cd04164           2 IKVVIVGKPNVGKSSLLNALAGRDRAIVSDIAGTTRDVIEESIDIG-GIPVRLIDTAG   58 (157)
T ss_pred             cEEEEECCCCCCHHHHHHHHHCCceEeccCCCCCccceEEEEEEeC-CEEEEEEECCC
Confidence            58999999999999999999876642 1223444444544444444 46789999998

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.

>cd01876 YihA_EngB The YihA (EngB) subfamily

Probab=99.14  E-value=2.2e-10  Score=63.47  Aligned_cols=54  Identities=20%  Similarity=0.153  Sum_probs=41.0

Q ss_pred             eEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCCEEEEEEEcCCC
Q psy2514          14 TVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRGTFTRDYKKTIG   69 (71)
Q Consensus        14 ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G   69 (71)
                      +++++|++|+|||||++.+.++.+.....++.+..........+.  .+.+|||.|
T Consensus         1 ~i~l~G~~g~GKTtL~~~l~~~~~~~~~~~~~~~t~~~~~~~~~~--~~~~~D~~g   54 (170)
T cd01876           1 EIAFAGRSNVGKSSLINALTNRKKLARTSKTPGKTQLINFFNVND--KFRLVDLPG   54 (170)
T ss_pred             CEEEEcCCCCCHHHHHHHHhcCCceeeecCCCCcceeEEEEEccC--eEEEecCCC
Confidence            478999999999999999997777666667766544444443333  889999987

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.

>cd04163 Era Era subfamily

Probab=99.14  E-value=4.1e-10  Score=62.19  Aligned_cols=58  Identities=22%  Similarity=0.264  Sum_probs=38.5

Q ss_pred             eeeEEEEeCCCCCHHHHHHHHHhCcCCCCc-cCCcceeeEEEEEEeCCEEEEEEEcCCCC
Q psy2514          12 KGTVVIVGNGAVGKSSMIQRYCRGTFTRDY-KKTIGVKSSMIQRYCRGTFTRDYKKTIGA   70 (71)
Q Consensus        12 ~~ki~v~G~~~vGKtsl~~~~~~~~f~~~~-~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~   70 (71)
                      ..+++++|.+|+|||||++++....+.... .+... ..............+.+|||+|.
T Consensus         3 ~~~i~~~G~~g~GKttl~~~l~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~liDtpG~   61 (168)
T cd04163           3 SGFVAIVGRPNVGKSTLLNALVGQKISIVSPKPQTT-RNRIRGIYTDDDAQIIFVDTPGI   61 (168)
T ss_pred             eeEEEEECCCCCCHHHHHHHHhCCceEeccCCCCce-eceEEEEEEcCCeEEEEEECCCC
Confidence            578999999999999999999876543211 11111 12222333344578999999984

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.

>KOG0070|consensus

Probab=99.13  E-value=6.1e-11  Score=68.35  Aligned_cols=58  Identities=19%  Similarity=0.251  Sum_probs=50.0

Q ss_pred             CceeeeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCCEEEEEEEcCCCC
Q psy2514           9 GSIKGTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRGTFTRDYKKTIGA   70 (71)
Q Consensus         9 ~~~~~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~   70 (71)
                      ...+.+|+++|..++|||++++++..+++... .||+|  |....+... .+.+.+||..|+
T Consensus        14 ~~~e~~IlmlGLD~AGKTTILykLk~~E~vtt-vPTiG--fnVE~v~yk-n~~f~vWDvGGq   71 (181)
T KOG0070|consen   14 GKKEMRILMVGLDAAGKTTILYKLKLGEIVTT-VPTIG--FNVETVEYK-NISFTVWDVGGQ   71 (181)
T ss_pred             CcceEEEEEEeccCCCceeeeEeeccCCcccC-CCccc--cceeEEEEc-ceEEEEEecCCC
Confidence            55689999999999999999999999998876 89999  555666666 589999999997

>cd01898 Obg Obg subfamily

Probab=99.13  E-value=2.1e-10  Score=64.36  Aligned_cols=55  Identities=18%  Similarity=0.115  Sum_probs=35.6

Q ss_pred             eEEEEeCCCCCHHHHHHHHHhCcCCC-Cc-cCCcceeeEEEEEEeCCEEEEEEEcCCCC
Q psy2514          14 TVVIVGNGAVGKSSMIQRYCRGTFTR-DY-KKTIGVKSSMIQRYCRGTFTRDYKKTIGA   70 (71)
Q Consensus        14 ki~v~G~~~vGKtsl~~~~~~~~f~~-~~-~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~   70 (71)
                      .|+++|.+++|||||++++....... .+ .+|+.  .....+..++...+.+|||+|.
T Consensus         2 ~v~ivG~~~~GKStl~~~l~~~~~~v~~~~~~t~~--~~~~~~~~~~~~~~~l~DtpG~   58 (170)
T cd01898           2 DVGLVGLPNAGKSTLLSAISNAKPKIADYPFTTLV--PNLGVVRVDDGRSFVVADIPGL   58 (170)
T ss_pred             CeEEECCCCCCHHHHHHHHhcCCccccCCCccccC--CcceEEEcCCCCeEEEEecCcc
Confidence            58999999999999999998654321 11 12221  1122233344458999999993

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.

>PRK03003 GTP-binding protein Der; Reviewed

Probab=99.12  E-value=3.7e-10  Score=73.06  Aligned_cols=58  Identities=24%  Similarity=0.190  Sum_probs=43.8

Q ss_pred             eeeeEEEEeCCCCCHHHHHHHHHhCcCC-CCccCCcceeeEEEEEEeCCEEEEEEEcCCC
Q psy2514          11 IKGTVVIVGNGAVGKSSMIQRYCRGTFT-RDYKKTIGVKSSMIQRYCRGTFTRDYKKTIG   69 (71)
Q Consensus        11 ~~~ki~v~G~~~vGKtsl~~~~~~~~f~-~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G   69 (71)
                      ...|++++|.++||||||+++++...+. .+..|++..++....+..++ ..+.+|||+|
T Consensus       210 ~~~kI~iiG~~nvGKSSLin~l~~~~~~~~s~~~gtT~d~~~~~~~~~~-~~~~l~DTaG  268 (472)
T PRK03003        210 GPRRVALVGKPNVGKSSLLNKLAGEERSVVDDVAGTTVDPVDSLIELGG-KTWRFVDTAG  268 (472)
T ss_pred             cceEEEEECCCCCCHHHHHHHHhCCCcccccCCCCccCCcceEEEEECC-EEEEEEECCC
Confidence            4589999999999999999999987652 23445566666655555555 3467999999

>cd01889 SelB_euk SelB subfamily

Probab=99.09  E-value=3.7e-10  Score=65.15  Aligned_cols=58  Identities=16%  Similarity=0.127  Sum_probs=38.5

Q ss_pred             eeEEEEeCCCCCHHHHHHHHHhC----cCCCCc-----cCCcceeeEEEEEE-----------eCCEEEEEEEcCCCC
Q psy2514          13 GTVVIVGNGAVGKSSMIQRYCRG----TFTRDY-----KKTIGVKSSMIQRY-----------CRGTFTRDYKKTIGA   70 (71)
Q Consensus        13 ~ki~v~G~~~vGKtsl~~~~~~~----~f~~~~-----~~t~~~~~~~~~~~-----------~~~~~~l~i~Dt~G~   70 (71)
                      ++++++|++++|||||+.+++..    .+...+     ..|++..+....+.           ....+.+.+|||+|.
T Consensus         1 ~~i~i~G~~~~GKstLi~~l~~~~~~~~~~~~~~e~~~g~T~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~DtpG~   78 (192)
T cd01889           1 VNVGVLGHVDSGKTSLAKALSEIASTAAFDKNPQSQERGITLDLGFSSFYVDKPKHLRELINPGEENLQITLVDCPGH   78 (192)
T ss_pred             CeEEEEecCCCCHHHHHHHHHhccchhhhccCHHHHHcCCeeeecceEEEecccccccccccccccCceEEEEECCCc
Confidence            47999999999999999999862    222221     24445444333332           122578999999984

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

>PRK05291 trmE tRNA modification GTPase TrmE; Reviewed

Probab=99.08  E-value=8.4e-10  Score=71.15  Aligned_cols=58  Identities=22%  Similarity=0.133  Sum_probs=43.2

Q ss_pred             eeeeEEEEeCCCCCHHHHHHHHHhCcC--CCCccCCcceeeEEEEEEeCCEEEEEEEcCCCC
Q psy2514          11 IKGTVVIVGNGAVGKSSMIQRYCRGTF--TRDYKKTIGVKSSMIQRYCRGTFTRDYKKTIGA   70 (71)
Q Consensus        11 ~~~ki~v~G~~~vGKtsl~~~~~~~~f--~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~   70 (71)
                      ..++++++|.+++|||||++++.....  ..++ |....++....+..++ ..+.+|||+|-
T Consensus       214 ~~~kV~ivG~~nvGKSSLln~L~~~~~a~v~~~-~gtT~d~~~~~i~~~g-~~i~l~DT~G~  273 (449)
T PRK05291        214 EGLKVVIAGRPNVGKSSLLNALLGEERAIVTDI-AGTTRDVIEEHINLDG-IPLRLIDTAGI  273 (449)
T ss_pred             cCCEEEEECCCCCCHHHHHHHHhCCCCcccCCC-CCcccccEEEEEEECC-eEEEEEeCCCC
Confidence            358999999999999999999997654  3333 4444456655565555 57899999993

>PRK00093 GTP-binding protein Der; Reviewed

Probab=99.05  E-value=1e-09  Score=70.00  Aligned_cols=56  Identities=23%  Similarity=0.140  Sum_probs=41.6

Q ss_pred             eeEEEEeCCCCCHHHHHHHHHhCcC--CCCccCCcceeeEEEEEEeCCEEEEEEEcCCCC
Q psy2514          13 GTVVIVGNGAVGKSSMIQRYCRGTF--TRDYKKTIGVKSSMIQRYCRGTFTRDYKKTIGA   70 (71)
Q Consensus        13 ~ki~v~G~~~vGKtsl~~~~~~~~f--~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~   70 (71)
                      .+|+++|.++||||||++++.....  ..+ .|.+..+........++ ..+.+|||+|.
T Consensus         2 ~~I~ivG~~~vGKStL~n~l~~~~~~~v~~-~~~~t~d~~~~~~~~~~-~~~~liDT~G~   59 (435)
T PRK00093          2 PVVAIVGRPNVGKSTLFNRLTGKRDAIVAD-TPGVTRDRIYGEAEWLG-REFILIDTGGI   59 (435)
T ss_pred             CEEEEECCCCCCHHHHHHHHhCCCceeeCC-CCCCcccceEEEEEECC-cEEEEEECCCC
Confidence            5899999999999999999997653  333 34444445545555555 78999999984

>PRK03003 GTP-binding protein Der; Reviewed

Probab=99.04  E-value=1.8e-09  Score=69.87  Aligned_cols=59  Identities=19%  Similarity=0.095  Sum_probs=42.3

Q ss_pred             eeeeEEEEeCCCCCHHHHHHHHHhCcCC-CCccCCcceeeEEEEEEeCCEEEEEEEcCCCC
Q psy2514          11 IKGTVVIVGNGAVGKSSMIQRYCRGTFT-RDYKKTIGVKSSMIQRYCRGTFTRDYKKTIGA   70 (71)
Q Consensus        11 ~~~ki~v~G~~~vGKtsl~~~~~~~~f~-~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~   70 (71)
                      ...+|+++|.++||||||+++++.+.+. ....|.+..+........++ ..+.+|||+|.
T Consensus        37 ~~~~V~IvG~~nvGKSSL~nrl~~~~~~~v~~~~gvT~d~~~~~~~~~~-~~~~l~DT~G~   96 (472)
T PRK03003         37 PLPVVAVVGRPNVGKSTLVNRILGRREAVVEDVPGVTRDRVSYDAEWNG-RRFTVVDTGGW   96 (472)
T ss_pred             CCCEEEEEcCCCCCHHHHHHHHhCcCcccccCCCCCCEeeEEEEEEECC-cEEEEEeCCCc
Confidence            3478999999999999999999976642 23345554455444444444 45889999993

>cd01895 EngA2 EngA2 subfamily

Probab=99.03  E-value=1.8e-09  Score=60.14  Aligned_cols=58  Identities=19%  Similarity=0.100  Sum_probs=38.6

Q ss_pred             eeeEEEEeCCCCCHHHHHHHHHhCcCC-CCccCCcceeeEEEEEEeCCEEEEEEEcCCCC
Q psy2514          12 KGTVVIVGNGAVGKSSMIQRYCRGTFT-RDYKKTIGVKSSMIQRYCRGTFTRDYKKTIGA   70 (71)
Q Consensus        12 ~~ki~v~G~~~vGKtsl~~~~~~~~f~-~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~   70 (71)
                      .++++++|++++|||||+.++....+. ....+....+........++ ..+.+|||+|.
T Consensus         2 ~~~i~i~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~iiDtpG~   60 (174)
T cd01895           2 PIRIAIIGRPNVGKSSLVNALLGEERVIVSDIAGTTRDSIDVPFEYDG-KKYTLIDTAGI   60 (174)
T ss_pred             CcEEEEEcCCCCCHHHHHHHHhCccceeccCCCCCccCceeeEEEECC-eeEEEEECCCC
Confidence            478999999999999999999876532 22233333333333333343 45789999983

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.

>cd01857 HSR1_MMR1 HSR1/MMR1

Probab=99.03  E-value=1.3e-09  Score=60.40  Aligned_cols=53  Identities=25%  Similarity=0.219  Sum_probs=36.4

Q ss_pred             eEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCCEEEEEEEcCCC
Q psy2514          14 TVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRGTFTRDYKKTIG   69 (71)
Q Consensus        14 ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G   69 (71)
                      +++++|.+++||||+++++....+.. .....|.......+..++  .+.||||+|
T Consensus        85 ~~~~~G~~~vGKstlin~l~~~~~~~-~~~~~~~~~~~~~~~~~~--~~~i~DtpG  137 (141)
T cd01857          85 TIGLVGYPNVGKSSLINALVGKKKVS-VSATPGKTKHFQTIFLTP--TITLCDCPG  137 (141)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCCcee-eCCCCCcccceEEEEeCC--CEEEEECCC
Confidence            89999999999999999999776642 222222222233333333  479999998

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.

>PRK11058 GTPase HflX; Provisional

Probab=99.02  E-value=9.8e-10  Score=70.54  Aligned_cols=58  Identities=17%  Similarity=0.159  Sum_probs=40.6

Q ss_pred             eeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCCEEEEEEEcCCCC
Q psy2514          13 GTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRGTFTRDYKKTIGA   70 (71)
Q Consensus        13 ~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~   70 (71)
                      .+++++|.+++|||||++++....+.....|....+.....+...+...+.+|||+|.
T Consensus       198 p~ValVG~~NaGKSSLlN~Lt~~~~~v~~~~~tTld~~~~~i~l~~~~~~~l~DTaG~  255 (426)
T PRK11058        198 PTVSLVGYTNAGKSTLFNRITEARVYAADQLFATLDPTLRRIDVADVGETVLADTVGF  255 (426)
T ss_pred             CEEEEECCCCCCHHHHHHHHhCCceeeccCCCCCcCCceEEEEeCCCCeEEEEecCcc
Confidence            5899999999999999999997665332223333345544555554336789999994

>KOG4423|consensus

Probab=99.02  E-value=6.6e-13  Score=77.10  Aligned_cols=61  Identities=26%  Similarity=0.369  Sum_probs=54.9

Q ss_pred             ceeeeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCC--EEEEEEEcCCCC
Q psy2514          10 SIKGTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRG--TFTRDYKKTIGA   70 (71)
Q Consensus        10 ~~~~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~--~~~l~i~Dt~G~   70 (71)
                      ...+|+.++|+.++|||+++.||....|...|..|+|.+|..++...+.  .+++++||.+|+
T Consensus        23 ~hL~k~lVig~~~vgkts~i~ryv~~nfs~~yRAtIgvdfalkVl~wdd~t~vRlqLwdIagQ   85 (229)
T KOG4423|consen   23 EHLFKVLVIGDLGVGKTSSIKRYVHQNFSYHYRATIGVDFALKVLQWDDKTIVRLQLWDIAGQ   85 (229)
T ss_pred             hhhhhhheeeeccccchhHHHHHHHHHHHHHHHHHHhHHHHHHHhccChHHHHHHHHhcchhh
Confidence            4468999999999999999999999999999999999999988887765  567899999985

>cd01859 MJ1464 MJ1464

Probab=99.01  E-value=3e-09  Score=59.61  Aligned_cols=56  Identities=23%  Similarity=0.150  Sum_probs=40.0

Q ss_pred             eeeeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCCEEEEEEEcCCC
Q psy2514          11 IKGTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRGTFTRDYKKTIG   69 (71)
Q Consensus        11 ~~~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G   69 (71)
                      ...+++++|.+++|||++++++..+. ...+.++.|..........+  ..+.+|||+|
T Consensus       100 ~~~~~~~ig~~~~Gkssl~~~l~~~~-~~~~~~~~~~t~~~~~~~~~--~~~~~~DtpG  155 (156)
T cd01859         100 KEGKVGVVGYPNVGKSSIINALKGRH-SASTSPSPGYTKGEQLVKIT--SKIYLLDTPG  155 (156)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhCCC-ccccCCCCCeeeeeEEEEcC--CCEEEEECcC
Confidence            45788999999999999999998544 34456777754332222222  3689999998

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.

>cd04104 p47_IIGP_like p47 (47-kDa) family

Probab=99.01  E-value=9.7e-10  Score=63.93  Aligned_cols=58  Identities=17%  Similarity=0.118  Sum_probs=37.8

Q ss_pred             eeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcce-eeEEE--EEEeCCEEEEEEEcCCCC
Q psy2514          13 GTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGV-KSSMI--QRYCRGTFTRDYKKTIGA   70 (71)
Q Consensus        13 ~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~-~~~~~--~~~~~~~~~l~i~Dt~G~   70 (71)
                      +|++++|++|+|||||++.+....+.....++++. +....  .+.......+.+|||+|.
T Consensus         2 ~kI~i~G~~g~GKSSLin~L~g~~~~~~~~~~~~~~~~t~~~~~~~~~~~~~l~l~DtpG~   62 (197)
T cd04104           2 LNIAVTGESGAGKSSFINALRGVGHEEEGAAPTGVVETTMKRTPYPHPKFPNVTLWDLPGI   62 (197)
T ss_pred             eEEEEECCCCCCHHHHHHHHhccCCCCCCccccCccccccCceeeecCCCCCceEEeCCCC
Confidence            68999999999999999999986665444444441 11111  111112236899999883

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

>KOG0071|consensus

Probab=98.99  E-value=1.6e-09  Score=60.89  Aligned_cols=57  Identities=14%  Similarity=0.177  Sum_probs=46.9

Q ss_pred             ceeeeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCCEEEEEEEcCCCC
Q psy2514          10 SIKGTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRGTFTRDYKKTIGA   70 (71)
Q Consensus        10 ~~~~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~   70 (71)
                      .++++++++|..++|||++++.+.-++.. ...||+|  |.++++...+ +++++||..|+
T Consensus        15 ~KE~~ilmlGLd~aGKTtiLyKLkl~~~~-~~ipTvG--FnvetVtykN-~kfNvwdvGGq   71 (180)
T KOG0071|consen   15 NKEMRILMLGLDAAGKTTILYKLKLGQSV-TTIPTVG--FNVETVTYKN-VKFNVWDVGGQ   71 (180)
T ss_pred             cccceEEEEecccCCceehhhHHhcCCCc-ccccccc--eeEEEEEeee-eEEeeeeccCc
Confidence            45799999999999999999999876654 4679999  5666666555 88999999886

>cd00882 Ras_like_GTPase Ras-like GTPase superfamily

Probab=98.99  E-value=2.1e-09  Score=57.84  Aligned_cols=53  Identities=26%  Similarity=0.418  Sum_probs=41.2

Q ss_pred             EEeCCCCCHHHHHHHHHhCcC-CCCccCCcceeeEEEEEEeC-CEEEEEEEcCCCC
Q psy2514          17 IVGNGAVGKSSMIQRYCRGTF-TRDYKKTIGVKSSMIQRYCR-GTFTRDYKKTIGA   70 (71)
Q Consensus        17 v~G~~~vGKtsl~~~~~~~~f-~~~~~~t~~~~~~~~~~~~~-~~~~l~i~Dt~G~   70 (71)
                      ++|.+++|||||+.++..... ...+.++. .++........ ....+.+||+.|.
T Consensus         1 iiG~~~~GKStl~~~l~~~~~~~~~~~~t~-~~~~~~~~~~~~~~~~~~l~D~~g~   55 (157)
T cd00882           1 VVGDSGVGKTSLLNRLLGGEFVPEEYETTI-IDFYSKTIEVDGKKVKLQIWDTAGQ   55 (157)
T ss_pred             CCCcCCCcHHHHHHHHHhCCcCCcccccch-hheeeEEEEECCEEEEEEEEecCCh
Confidence            479999999999999998777 56666777 66655555443 3788999999883

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

>KOG0074|consensus

Probab=98.98  E-value=3.1e-09  Score=59.77  Aligned_cols=60  Identities=18%  Similarity=0.237  Sum_probs=50.6

Q ss_pred             cCceeeeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCCEEEEEEEcCCCC
Q psy2514           8 RGSIKGTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRGTFTRDYKKTIGA   70 (71)
Q Consensus         8 ~~~~~~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~   70 (71)
                      +.+..+++.++|-.++|||+++.++.... +....||-|  |..+.+..++.+++++||..|+
T Consensus        13 ~t~rEirilllGldnAGKTT~LKqL~sED-~~hltpT~G--Fn~k~v~~~g~f~LnvwDiGGq   72 (185)
T KOG0074|consen   13 RTRREIRILLLGLDNAGKTTFLKQLKSED-PRHLTPTNG--FNTKKVEYDGTFHLNVWDIGGQ   72 (185)
T ss_pred             CCcceEEEEEEecCCCcchhHHHHHccCC-hhhccccCC--cceEEEeecCcEEEEEEecCCc
Confidence            45678999999999999999999886544 445678888  7778888899999999999885

>cd01856 YlqF YlqF

Probab=98.98  E-value=3.1e-09  Score=60.57  Aligned_cols=58  Identities=21%  Similarity=0.137  Sum_probs=40.3

Q ss_pred             ceeeeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCCEEEEEEEcCCCC
Q psy2514          10 SIKGTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRGTFTRDYKKTIGA   70 (71)
Q Consensus        10 ~~~~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~   70 (71)
                      +..++++++|.+++||||+++++....+.. ..+..+..+....+..+  ..+.++||+|=
T Consensus       113 ~~~~~~~~~G~~~vGKstlin~l~~~~~~~-~~~~~~~T~~~~~~~~~--~~~~~iDtpG~  170 (171)
T cd01856         113 PRGIRAMVVGIPNVGKSTLINRLRGKKVAK-VGNKPGVTKGIQWIKIS--PGIYLLDTPGI  170 (171)
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHhCCCcee-ecCCCCEEeeeEEEEec--CCEEEEECCCC
Confidence            345799999999999999999999877642 23333333333333333  35789999983

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.

>TIGR00436 era GTP-binding protein Era

Probab=98.98  E-value=2.5e-09  Score=64.89  Aligned_cols=55  Identities=20%  Similarity=0.176  Sum_probs=38.4

Q ss_pred             eEEEEeCCCCCHHHHHHHHHhCcCC--CCccCCcceeeEEEEEEeCCEEEEEEEcCCCC
Q psy2514          14 TVVIVGNGAVGKSSMIQRYCRGTFT--RDYKKTIGVKSSMIQRYCRGTFTRDYKKTIGA   70 (71)
Q Consensus        14 ki~v~G~~~vGKtsl~~~~~~~~f~--~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~   70 (71)
                      +++++|.++||||||++++....+.  .....|+.. .. ..+...+...+.+|||+|-
T Consensus         2 ~V~liG~pnvGKSTLln~L~~~~~~~vs~~~~TTr~-~i-~~i~~~~~~qii~vDTPG~   58 (270)
T TIGR00436         2 FVAILGRPNVGKSTLLNQLHGQKISITSPKAQTTRN-RI-SGIHTTGASQIIFIDTPGF   58 (270)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCcEeecCCCCCcccC-cE-EEEEEcCCcEEEEEECcCC
Confidence            6899999999999999999987653  233334443 22 2333334456899999984

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

>KOG3883|consensus

Probab=98.97  E-value=3e-09  Score=60.50  Aligned_cols=59  Identities=22%  Similarity=0.225  Sum_probs=48.0

Q ss_pred             eeeeEEEEeCCCCCHHHHHHHHHhCcCC--CCccCCcceeeEEEEEEeCC-EEEEEEEcCCC
Q psy2514          11 IKGTVVIVGNGAVGKSSMIQRYCRGTFT--RDYKKTIGVKSSMIQRYCRG-TFTRDYKKTIG   69 (71)
Q Consensus        11 ~~~ki~v~G~~~vGKtsl~~~~~~~~f~--~~~~~t~~~~~~~~~~~~~~-~~~l~i~Dt~G   69 (71)
                      ...|++++|--+||||+++.+++.++-.  .++.||+.+-|....-..++ +-.+.++||+|
T Consensus         8 k~~kVvVcG~k~VGKTaileQl~yg~~~~~~e~~pTiEDiY~~svet~rgarE~l~lyDTaG   69 (198)
T KOG3883|consen    8 KVCKVVVCGMKSVGKTAILEQLLYGNHVPGTELHPTIEDIYVASVETDRGAREQLRLYDTAG   69 (198)
T ss_pred             cceEEEEECCccccHHHHHHHHHhccCCCCCccccchhhheeEeeecCCChhheEEEeeccc
Confidence            4689999999999999999999865443  46889999877666555555 66799999998

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

Probab=98.97  E-value=1.1e-09  Score=61.52  Aligned_cols=52  Identities=17%  Similarity=0.143  Sum_probs=34.1

Q ss_pred             EEeCCCCCHHHHHHHHHhCcC-CCCcc-CCcceeeEEEEEEeCCEEEEEEEcCCCC
Q psy2514          17 IVGNGAVGKSSMIQRYCRGTF-TRDYK-KTIGVKSSMIQRYCRGTFTRDYKKTIGA   70 (71)
Q Consensus        17 v~G~~~vGKtsl~~~~~~~~f-~~~~~-~t~~~~~~~~~~~~~~~~~l~i~Dt~G~   70 (71)
                      ++|++++|||||++++....+ ..++. +|....+  .....++...+.+|||+|-
T Consensus         1 iiG~~~~GKStll~~l~~~~~~~~~~~~~t~~~~~--~~~~~~~~~~~~i~DtpG~   54 (176)
T cd01881           1 LVGLPNVGKSTLLNALTNAKPKVANYPFTTLEPNL--GVVEVPDGARIQVADIPGL   54 (176)
T ss_pred             CCCCCCCcHHHHHHHHhcCCccccCCCceeecCcc--eEEEcCCCCeEEEEecccc
Confidence            479999999999999998764 23332 2333222  2233342467899999983

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

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

Probab=98.94  E-value=1.2e-08  Score=54.53  Aligned_cols=54  Identities=22%  Similarity=0.145  Sum_probs=35.6

Q ss_pred             eEEEEeCCCCCHHHHHHHHHhCcC--CCCccCCcceeeEEEEEEeCCEEEEEEEcCCC
Q psy2514          14 TVVIVGNGAVGKSSMIQRYCRGTF--TRDYKKTIGVKSSMIQRYCRGTFTRDYKKTIG   69 (71)
Q Consensus        14 ki~v~G~~~vGKtsl~~~~~~~~f--~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G   69 (71)
                      +|+++|.+++|||||++.++....  .....++... ........++ ..+.++||.|
T Consensus         1 ~V~iiG~~~~GKSTlin~l~~~~~~~~~~~~~~T~~-~~~~~~~~~~-~~~~~vDtpG   56 (116)
T PF01926_consen    1 RVAIIGRPNVGKSTLINALTGKKLAKVSNIPGTTRD-PVYGQFEYNN-KKFILVDTPG   56 (116)
T ss_dssp             EEEEEESTTSSHHHHHHHHHTSTSSEESSSTTSSSS-EEEEEEEETT-EEEEEEESSS
T ss_pred             CEEEECCCCCCHHHHHHHHhccccccccccccceee-eeeeeeeece-eeEEEEeCCC
Confidence            689999999999999999997533  2223333332 2333344444 3446999988

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 ....

>TIGR03594 GTPase_EngA ribosome-associated GTPase EngA

Probab=98.94  E-value=4.5e-09  Score=66.92  Aligned_cols=54  Identities=24%  Similarity=0.164  Sum_probs=38.2

Q ss_pred             eEEEEeCCCCCHHHHHHHHHhCcC--CCCccCCcceeeEEEEEEeCCEEEEEEEcCCC
Q psy2514          14 TVVIVGNGAVGKSSMIQRYCRGTF--TRDYKKTIGVKSSMIQRYCRGTFTRDYKKTIG   69 (71)
Q Consensus        14 ki~v~G~~~vGKtsl~~~~~~~~f--~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G   69 (71)
                      +++++|.++||||||++++.....  ..++ |.+..+........++ ..+.+|||+|
T Consensus         1 ~i~ivG~~nvGKStL~n~l~~~~~~~v~~~-~g~t~d~~~~~~~~~~-~~~~liDTpG   56 (429)
T TIGR03594         1 VVAIVGRPNVGKSTLFNRLTGKRDAIVSDT-PGVTRDRKYGDAEWGG-REFILIDTGG   56 (429)
T ss_pred             CEEEECCCCCCHHHHHHHHhCCCcceecCC-CCcccCceEEEEEECC-eEEEEEECCC
Confidence            589999999999999999997653  2333 3333344444444444 4699999999

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.

>cd01894 EngA1 EngA1 subfamily

Probab=98.94  E-value=2.9e-09  Score=58.73  Aligned_cols=53  Identities=23%  Similarity=0.156  Sum_probs=35.6

Q ss_pred             EEEeCCCCCHHHHHHHHHhCc--CCCCccCCcceeeEEEEEEeCCEEEEEEEcCCCC
Q psy2514          16 VIVGNGAVGKSSMIQRYCRGT--FTRDYKKTIGVKSSMIQRYCRGTFTRDYKKTIGA   70 (71)
Q Consensus        16 ~v~G~~~vGKtsl~~~~~~~~--f~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~   70 (71)
                      +++|.+++|||||+.++....  +...+.++. .+........++ ..+.+|||+|-
T Consensus         1 ~l~G~~~~GKssl~~~l~~~~~~~~~~~~~~t-~~~~~~~~~~~~-~~~~i~DtpG~   55 (157)
T cd01894           1 AIVGRPNVGKSTLFNRLTGRRDAIVEDTPGVT-RDRIYGEAEWGG-REFILIDTGGI   55 (157)
T ss_pred             CccCCCCCCHHHHHHHHhCCcEEeecCCCCce-eCceeEEEEECC-eEEEEEECCCC
Confidence            478999999999999999764  333443333 333333333333 67999999983

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.

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

Probab=98.93  E-value=1.3e-08  Score=62.48  Aligned_cols=59  Identities=15%  Similarity=0.322  Sum_probs=38.5

Q ss_pred             eeeeEEEEeCCCCCHHHHHHHHHhCcCCCCc----------cCCcceeeEEEEEEeCC-EEEEEEEcCCC
Q psy2514          11 IKGTVVIVGNGAVGKSSMIQRYCRGTFTRDY----------KKTIGVKSSMIQRYCRG-TFTRDYKKTIG   69 (71)
Q Consensus        11 ~~~ki~v~G~~~vGKtsl~~~~~~~~f~~~~----------~~t~~~~~~~~~~~~~~-~~~l~i~Dt~G   69 (71)
                      ..++++|+|++|+|||||++.+.........          .++..+.-....+..++ ++.+.++||.|
T Consensus         3 ~~fnImVvG~sG~GKTTFIntL~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~l~e~~~~l~LtiiDTpG   72 (281)
T PF00735_consen    3 FNFNIMVVGESGLGKTTFINTLFNSDIISEDSSIPPPSASISRTLEIEERTVELEENGVKLNLTIIDTPG   72 (281)
T ss_dssp             EEEEEEEEECTTSSHHHHHHHHHTSS---------S------SCEEEEEEEEEEEETCEEEEEEEEEEC-
T ss_pred             ceEEEEEECCCCCCHHHHHHHHHhcccccccccccccccccccccceeeEEEEeccCCcceEEEEEeCCC
Confidence            4689999999999999999999875543321          12333333333344455 78899999987

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.

>TIGR00487 IF-2 translation initiation factor IF-2

Probab=98.92  E-value=6.2e-09  Score=69.10  Aligned_cols=60  Identities=15%  Similarity=0.104  Sum_probs=45.4

Q ss_pred             eeeeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCCEEEEEEEcCCCC
Q psy2514          11 IKGTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRGTFTRDYKKTIGA   70 (71)
Q Consensus        11 ~~~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~   70 (71)
                      ...+++++|..++|||||+.++....+...+.+.+..++....+..++...+.+|||+|.
T Consensus        86 r~p~V~I~Ghvd~GKTSLl~~l~~~~v~~~e~~GIT~~ig~~~v~~~~~~~i~~iDTPGh  145 (587)
T TIGR00487        86 RPPVVTIMGHVDHGKTSLLDSIRKTKVAQGEAGGITQHIGAYHVENEDGKMITFLDTPGH  145 (587)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHhCCcccccCCceeecceEEEEEECCCcEEEEEECCCC
Confidence            347899999999999999999998888776666555554444444443337899999984

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.

>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=98.92  E-value=9.7e-09  Score=61.32  Aligned_cols=55  Identities=20%  Similarity=0.206  Sum_probs=37.1

Q ss_pred             eEEEEeCCCCCHHHHHHHHHhCcC-CCCccCCcceeeEEEEEEeCCEEEEEEEcCCCC
Q psy2514          14 TVVIVGNGAVGKSSMIQRYCRGTF-TRDYKKTIGVKSSMIQRYCRGTFTRDYKKTIGA   70 (71)
Q Consensus        14 ki~v~G~~~vGKtsl~~~~~~~~f-~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~   70 (71)
                      +++++|.+++|||||++++..... ..+|..+. .+.....+..++ ..+++|||+|.
T Consensus         2 ~v~lvG~~~~GKStLl~~Ltg~~~~v~~~~~tT-~~~~~g~~~~~~-~~i~l~DtpG~   57 (233)
T cd01896           2 RVALVGFPSVGKSTLLSKLTNTKSEVAAYEFTT-LTCVPGVLEYKG-AKIQLLDLPGI   57 (233)
T ss_pred             EEEEECCCCCCHHHHHHHHHCCCccccCCCCcc-ccceEEEEEECC-eEEEEEECCCc
Confidence            689999999999999999986542 23333222 222333333444 67899999984

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.

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

Probab=98.92  E-value=7.8e-09  Score=58.72  Aligned_cols=57  Identities=16%  Similarity=0.049  Sum_probs=40.3

Q ss_pred             eeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCCEEEEEEEcCCCC
Q psy2514          13 GTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRGTFTRDYKKTIGA   70 (71)
Q Consensus        13 ~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~   70 (71)
                      ++|+++|.++||||+|+++++..+..-...|.+-.+...-.+..++ ..++++|+.|.
T Consensus         1 i~ialvG~PNvGKStLfN~Ltg~~~~v~n~pG~Tv~~~~g~~~~~~-~~~~lvDlPG~   57 (156)
T PF02421_consen    1 IRIALVGNPNVGKSTLFNALTGAKQKVGNWPGTTVEKKEGIFKLGD-QQVELVDLPGI   57 (156)
T ss_dssp             -EEEEEESTTSSHHHHHHHHHTTSEEEEESTTSSSEEEEEEEEETT-EEEEEEE----
T ss_pred             CEEEEECCCCCCHHHHHHHHHCCCceecCCCCCCeeeeeEEEEecC-ceEEEEECCCc
Confidence            4799999999999999999997665433346666666665666556 78999999984

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 ....

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

Probab=98.91  E-value=1e-08  Score=63.70  Aligned_cols=60  Identities=25%  Similarity=0.399  Sum_probs=39.0

Q ss_pred             cCceeeeEEEEeCCCCCHHHHHHHHHhCcC--CCCccCCcceeeEEEEEEeCCEEEEEEEcCCC
Q psy2514           8 RGSIKGTVVIVGNGAVGKSSMIQRYCRGTF--TRDYKKTIGVKSSMIQRYCRGTFTRDYKKTIG   69 (71)
Q Consensus         8 ~~~~~~ki~v~G~~~vGKtsl~~~~~~~~f--~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G   69 (71)
                      .+...++|+++|.+||||||++++++....  ...+.+ .+..-.......+ ...+.++||+|
T Consensus        34 ~~~~~~rIllvGktGVGKSSliNsIlG~~v~~vs~f~s-~t~~~~~~~~~~~-G~~l~VIDTPG   95 (313)
T TIGR00991        34 EDVSSLTILVMGKGGVGKSSTVNSIIGERIATVSAFQS-EGLRPMMVSRTRA-GFTLNIIDTPG   95 (313)
T ss_pred             ccccceEEEEECCCCCCHHHHHHHHhCCCcccccCCCC-cceeEEEEEEEEC-CeEEEEEECCC
Confidence            345679999999999999999999996543  222222 1111111112223 47899999998

>PRK09518 bifunctional cytidylate kinase/GTPase Der; Reviewed

Probab=98.91  E-value=6.7e-09  Score=70.09  Aligned_cols=57  Identities=23%  Similarity=0.159  Sum_probs=40.9

Q ss_pred             eeeeEEEEeCCCCCHHHHHHHHHhCcC--CCCccCCcceeeEEEEEEeCCEEEEEEEcCCC
Q psy2514          11 IKGTVVIVGNGAVGKSSMIQRYCRGTF--TRDYKKTIGVKSSMIQRYCRGTFTRDYKKTIG   69 (71)
Q Consensus        11 ~~~ki~v~G~~~vGKtsl~~~~~~~~f--~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G   69 (71)
                      ...|++++|.++||||||+++++..++  ..++.+|. .+.....+..++ ..+.+|||+|
T Consensus       449 ~~~kI~ivG~~nvGKSSLin~l~~~~~~~v~~~~gtT-~d~~~~~~~~~~-~~~~liDTaG  507 (712)
T PRK09518        449 GLRRVALVGRPNVGKSSLLNQLTHEERAVVNDLAGTT-RDPVDEIVEIDG-EDWLFIDTAG  507 (712)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhCccccccCCCCCCC-cCcceeEEEECC-CEEEEEECCC
Confidence            358999999999999999999998764  34444444 444444444444 2456999998

>TIGR03594 GTPase_EngA ribosome-associated GTPase EngA

Probab=98.89  E-value=1.3e-08  Score=64.79  Aligned_cols=57  Identities=23%  Similarity=0.134  Sum_probs=39.7

Q ss_pred             eeeeEEEEeCCCCCHHHHHHHHHhCcC--CCCccCCcceeeEEEEEEeCCEEEEEEEcCCC
Q psy2514          11 IKGTVVIVGNGAVGKSSMIQRYCRGTF--TRDYKKTIGVKSSMIQRYCRGTFTRDYKKTIG   69 (71)
Q Consensus        11 ~~~ki~v~G~~~vGKtsl~~~~~~~~f--~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G   69 (71)
                      ..++++++|.+++|||||+++++....  ...+..|. .+.....+..++ ..+.+|||+|
T Consensus       171 ~~~~v~ivG~~~~GKSsLin~l~~~~~~~~~~~~gtt-~~~~~~~~~~~~-~~~~liDT~G  229 (429)
T TIGR03594       171 GPIKIAIIGRPNVGKSTLVNALLGEERVIVSDIAGTT-RDSIDIPFERNG-KKYLLIDTAG  229 (429)
T ss_pred             CceEEEEECCCCCCHHHHHHHHHCCCeeecCCCCCce-ECcEeEEEEECC-cEEEEEECCC
Confidence            458999999999999999999997653  23333333 333333343444 3788999999

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.

>PRK00089 era GTPase Era; Reviewed

Probab=98.88  E-value=1.3e-08  Score=62.14  Aligned_cols=58  Identities=22%  Similarity=0.200  Sum_probs=38.6

Q ss_pred             eeeeEEEEeCCCCCHHHHHHHHHhCcCCC-CccC-CcceeeEEEEEEeCCEEEEEEEcCCCC
Q psy2514          11 IKGTVVIVGNGAVGKSSMIQRYCRGTFTR-DYKK-TIGVKSSMIQRYCRGTFTRDYKKTIGA   70 (71)
Q Consensus        11 ~~~ki~v~G~~~vGKtsl~~~~~~~~f~~-~~~~-t~~~~~~~~~~~~~~~~~l~i~Dt~G~   70 (71)
                      ..-.|+++|.+++|||||+++++...+.. ...| |... . ...+...+...+.+|||.|-
T Consensus         4 ~~g~V~iiG~pn~GKSTLin~L~g~~~~~vs~~~~tt~~-~-i~~i~~~~~~qi~~iDTPG~   63 (292)
T PRK00089          4 KSGFVAIVGRPNVGKSTLLNALVGQKISIVSPKPQTTRH-R-IRGIVTEDDAQIIFVDTPGI   63 (292)
T ss_pred             eeEEEEEECCCCCCHHHHHHHHhCCceeecCCCCCcccc-c-EEEEEEcCCceEEEEECCCC
Confidence            45679999999999999999998776532 1122 2221 1 22222234478999999983

>TIGR01393 lepA GTP-binding protein LepA

Probab=98.87  E-value=1.3e-08  Score=67.66  Aligned_cols=59  Identities=15%  Similarity=0.134  Sum_probs=41.6

Q ss_pred             eeeEEEEeCCCCCHHHHHHHHHhC-------cCCCCccCC------cceeeEEEEEEe------CCEEEEEEEcCCCC
Q psy2514          12 KGTVVIVGNGAVGKSSMIQRYCRG-------TFTRDYKKT------IGVKSSMIQRYC------RGTFTRDYKKTIGA   70 (71)
Q Consensus        12 ~~ki~v~G~~~vGKtsl~~~~~~~-------~f~~~~~~t------~~~~~~~~~~~~------~~~~~l~i~Dt~G~   70 (71)
                      .-+++++|..++|||||+.+++..       .+...+..+      .|..+....+..      +..+.+++|||+|.
T Consensus         3 iRNi~IIGh~d~GKTTL~~rLl~~~g~i~~~~~~~~~~D~~~~ErerGiTi~~~~v~~~~~~~~g~~~~l~liDTPG~   80 (595)
T TIGR01393         3 IRNFSIIAHIDHGKSTLADRLLEYTGAISEREMREQVLDSMDLERERGITIKAQAVRLNYKAKDGETYVLNLIDTPGH   80 (595)
T ss_pred             eeEEEEECCCCCCHHHHHHHHHHHcCCCccccccccccCCChHHHhcCCCeeeeEEEEEEEcCCCCEEEEEEEECCCc
Confidence            357999999999999999999864       233334332      366555443322      33689999999995

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.

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

Probab=98.87  E-value=2e-08  Score=60.64  Aligned_cols=59  Identities=19%  Similarity=0.215  Sum_probs=38.9

Q ss_pred             CceeeeEEEEeCCCCCHHHHHHHHHhCcCCC--CccCCcceeeEEEEEEeCCEEEEEEEcCCC
Q psy2514           9 GSIKGTVVIVGNGAVGKSSMIQRYCRGTFTR--DYKKTIGVKSSMIQRYCRGTFTRDYKKTIG   69 (71)
Q Consensus         9 ~~~~~ki~v~G~~~vGKtsl~~~~~~~~f~~--~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G   69 (71)
                      ....++|+++|.+|+||||+++.+.......  .+.++.. .........+ ...+.+|||.|
T Consensus        28 ~~~~~~IllvG~tGvGKSSliNaLlg~~~~~v~~~~~~T~-~~~~~~~~~~-g~~i~vIDTPG   88 (249)
T cd01853          28 LDFSLTILVLGKTGVGKSSTINSIFGERKAATSAFQSETL-RVREVSGTVD-GFKLNIIDTPG   88 (249)
T ss_pred             ccCCeEEEEECCCCCcHHHHHHHHhCCCCcccCCCCCceE-EEEEEEEEEC-CeEEEEEECCC
Confidence            4567999999999999999999999765422  2222222 1221222223 36789999988

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.

>cd01899 Ygr210 Ygr210 subfamily

Probab=98.86  E-value=4.9e-09  Score=65.24  Aligned_cols=56  Identities=14%  Similarity=0.221  Sum_probs=38.6

Q ss_pred             EEEEeCCCCCHHHHHHHHHhCcCC------CCccCCcceeeEEEE---------------EEeC--CEEEEEEEcCCCC
Q psy2514          15 VVIVGNGAVGKSSMIQRYCRGTFT------RDYKKTIGVKSSMIQ---------------RYCR--GTFTRDYKKTIGA   70 (71)
Q Consensus        15 i~v~G~~~vGKtsl~~~~~~~~f~------~~~~~t~~~~~~~~~---------------~~~~--~~~~l~i~Dt~G~   70 (71)
                      +.++|.++||||||+++++...+.      ..+.|++|..+....               ...+  +.+.+++|||||-
T Consensus         1 i~ivG~pnvGKStLfn~lt~~~~~~~~~pftT~~p~~g~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~v~i~l~D~aGl   79 (318)
T cd01899           1 IGLVGKPNAGKSTFFNAATLADVEIANYPFTTIDPNVGVGYVRVECPCKELGVSCNPRYGKCIDGKRYVPVELIDVAGL   79 (318)
T ss_pred             CEEECCCCCCHHHHHHHHhCCCCcccCCCCccccceeEEEEEecCCCchhhhhhhcccccccccCcCcceEEEEECCCC
Confidence            468999999999999999987643      234566665543221               0012  2367999999994

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.

>COG0486 ThdF Predicted GTPase [General function prediction only]

Probab=98.85  E-value=1.6e-08  Score=65.17  Aligned_cols=57  Identities=23%  Similarity=0.162  Sum_probs=44.0

Q ss_pred             eeeeEEEEeCCCCCHHHHHHHHHhCcC--CCCccCCcceeeEEEEEEeCCEEEEEEEcCCC
Q psy2514          11 IKGTVVIVGNGAVGKSSMIQRYCRGTF--TRDYKKTIGVKSSMIQRYCRGTFTRDYKKTIG   69 (71)
Q Consensus        11 ~~~ki~v~G~~~vGKtsl~~~~~~~~f--~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G   69 (71)
                      ..+|++++|.|+||||||++.++..+-  ..+. |.+-.|.....+..++ +.+.+.||||
T Consensus       216 ~G~kvvIiG~PNvGKSSLLNaL~~~d~AIVTdI-~GTTRDviee~i~i~G-~pv~l~DTAG  274 (454)
T COG0486         216 EGLKVVIIGRPNVGKSSLLNALLGRDRAIVTDI-AGTTRDVIEEDINLNG-IPVRLVDTAG  274 (454)
T ss_pred             cCceEEEECCCCCcHHHHHHHHhcCCceEecCC-CCCccceEEEEEEECC-EEEEEEecCC
Confidence            458999999999999999999996433  3344 4444466666666677 8899999998

>PRK09518 bifunctional cytidylate kinase/GTPase Der; Reviewed

Probab=98.85  E-value=2.2e-08  Score=67.61  Aligned_cols=61  Identities=21%  Similarity=0.166  Sum_probs=41.0

Q ss_pred             CceeeeEEEEeCCCCCHHHHHHHHHhCcCCC-CccCCcceeeEEEEEEeCCEEEEEEEcCCCC
Q psy2514           9 GSIKGTVVIVGNGAVGKSSMIQRYCRGTFTR-DYKKTIGVKSSMIQRYCRGTFTRDYKKTIGA   70 (71)
Q Consensus         9 ~~~~~ki~v~G~~~vGKtsl~~~~~~~~f~~-~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~   70 (71)
                      +....+|+++|.++||||||+++++...+.. ...|.+..+........++ ..+.+|||+|-
T Consensus       272 ~~~~~~V~IvG~~nvGKSSL~n~l~~~~~~iv~~~pGvT~d~~~~~~~~~~-~~~~liDT~G~  333 (712)
T PRK09518        272 PKAVGVVAIVGRPNVGKSTLVNRILGRREAVVEDTPGVTRDRVSYDAEWAG-TDFKLVDTGGW  333 (712)
T ss_pred             cccCcEEEEECCCCCCHHHHHHHHhCCCceeecCCCCeeEEEEEEEEEECC-EEEEEEeCCCc
Confidence            4456789999999999999999999765421 2234444343333333333 57889999993

>cd00881 GTP_translation_factor GTP translation factor family

Probab=98.84  E-value=2.8e-08  Score=56.30  Aligned_cols=56  Identities=21%  Similarity=0.172  Sum_probs=37.5

Q ss_pred             eEEEEeCCCCCHHHHHHHHHhCcCCCCccCCc----------------ceeeEEEEEEeCCEEEEEEEcCCCC
Q psy2514          14 TVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTI----------------GVKSSMIQRYCRGTFTRDYKKTIGA   70 (71)
Q Consensus        14 ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~----------------~~~~~~~~~~~~~~~~l~i~Dt~G~   70 (71)
                      +|+++|++++|||||++++....+...+.++.                ..+........ ....+.+|||+|.
T Consensus         1 ~v~v~G~~~~GKStlln~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~liDtpG~   72 (189)
T cd00881           1 NVGIAGHVDHGKTTLTERLLYVTGDIERDGTVEETFLDVLKEERERGITIKSGVATFEW-PDRRVNFIDTPGH   72 (189)
T ss_pred             CEEEEeCCCCCHHHHHHHHHHhcCCCCcCCceecccccCCHHHHHcCCCeecceEEEee-CCEEEEEEeCCCc
Confidence            47899999999999999999887765442222                11111122222 2468999999984

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.

>smart00010 small_GTPase Small GTPase of the Ras superfamily; ill-defined subfamily

Probab=98.84  E-value=7.3e-09  Score=55.33  Aligned_cols=34  Identities=32%  Similarity=0.340  Sum_probs=29.8

Q ss_pred             eeEEEEeCCCCCHHHHHHHHHhCcCCCCcc-CCcc
Q psy2514          13 GTVVIVGNGAVGKSSMIQRYCRGTFTRDYK-KTIG   46 (71)
Q Consensus        13 ~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~-~t~~   46 (71)
                      +|++++|+.++|||+|+.|+....|...+. +|++
T Consensus         1 ~kvv~~G~~gvGKt~l~~~~~~~~~~~~~~~~t~~   35 (124)
T smart00010        1 FKVVGIGDSGVGKVGKSARFVQFPFDYVPTVFTIG   35 (124)
T ss_pred             CEEEEECCCChhHHHHHHHHhcCCccccCceehhh
Confidence            589999999999999999999888876666 6766

SMART predicts Ras-like small GTPases of the ARF, RAB, RAN, RAS, and SAR subfamilies. Others that could not be classified in this way are predicted to be members of the small GTPase superfamily without predictions of the subfamily.

>TIGR00475 selB selenocysteine-specific elongation factor SelB

Probab=98.83  E-value=2.1e-08  Score=66.57  Aligned_cols=57  Identities=9%  Similarity=0.176  Sum_probs=44.9

Q ss_pred             eeEEEEeCCCCCHHHHHHHHHh---CcCCCCccCCcceeeEEEEEEeCCEEEEEEEcCCCC
Q psy2514          13 GTVVIVGNGAVGKSSMIQRYCR---GTFTRDYKKTIGVKSSMIQRYCRGTFTRDYKKTIGA   70 (71)
Q Consensus        13 ~ki~v~G~~~vGKtsl~~~~~~---~~f~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~   70 (71)
                      +.|+++|..++|||||+.++..   +.+++++.+++..++....+..++ ..+.+|||+|.
T Consensus         1 ~~I~iiG~~d~GKTTLi~aLtg~~~d~~~eE~~rGiTid~~~~~~~~~~-~~v~~iDtPGh   60 (581)
T TIGR00475         1 MIIATAGHVDHGKTTLLKALTGIAADRLPEEKKRGMTIDLGFAYFPLPD-YRLGFIDVPGH   60 (581)
T ss_pred             CEEEEECCCCCCHHHHHHHHhCccCcCChhHhcCCceEEeEEEEEEeCC-EEEEEEECCCH
Confidence            3588999999999999999985   556666777777776655555555 88999999983

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.

>PRK00093 GTP-binding protein Der; Reviewed

Probab=98.82  E-value=3.9e-08  Score=62.87  Aligned_cols=58  Identities=21%  Similarity=0.084  Sum_probs=39.1

Q ss_pred             eeeeEEEEeCCCCCHHHHHHHHHhCc-CCCCccCCcceeeEEEEEEeCCEEEEEEEcCCC
Q psy2514          11 IKGTVVIVGNGAVGKSSMIQRYCRGT-FTRDYKKTIGVKSSMIQRYCRGTFTRDYKKTIG   69 (71)
Q Consensus        11 ~~~ki~v~G~~~vGKtsl~~~~~~~~-f~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G   69 (71)
                      ..++++++|.+++|||||+.+++... ......|.+..+........++ ..+.+|||+|
T Consensus       172 ~~~~v~ivG~~n~GKStlin~ll~~~~~~~~~~~gtt~~~~~~~~~~~~-~~~~lvDT~G  230 (435)
T PRK00093        172 EPIKIAIIGRPNVGKSSLINALLGEERVIVSDIAGTTRDSIDTPFERDG-QKYTLIDTAG  230 (435)
T ss_pred             cceEEEEECCCCCCHHHHHHHHhCCCceeecCCCCceEEEEEEEEEECC-eeEEEEECCC
Confidence            46999999999999999999998654 2222333333333333333333 5578999998

>cd04167 Snu114p Snu114p subfamily

Probab=98.79  E-value=2.2e-08  Score=58.80  Aligned_cols=57  Identities=19%  Similarity=0.216  Sum_probs=36.8

Q ss_pred             eEEEEeCCCCCHHHHHHHHHhCcCCCC-----------c------cCCcceeeEEEEEE------eCCEEEEEEEcCCCC
Q psy2514          14 TVVIVGNGAVGKSSMIQRYCRGTFTRD-----------Y------KKTIGVKSSMIQRY------CRGTFTRDYKKTIGA   70 (71)
Q Consensus        14 ki~v~G~~~vGKtsl~~~~~~~~f~~~-----------~------~~t~~~~~~~~~~~------~~~~~~l~i~Dt~G~   70 (71)
                      +++++|..++|||+|+.+++...+...           +      ....+..+......      .+..+.+++|||+|.
T Consensus         2 nv~iiG~~~~GKTtL~~~l~~~~~~~~~~~~~~~~~~~~~d~~~~e~~~giti~~~~~~~~~~~~~~~~~~i~iiDtpG~   81 (213)
T cd04167           2 NVAIAGHLHHGKTSLLDMLIEQTHDLTPSGKDGWKPLRYTDIRKDEQERGISIKSSPISLVLPDSKGKSYLFNIIDTPGH   81 (213)
T ss_pred             cEEEEcCCCCCHHHHHHHHHHhcCCCcccccccCCceeECCCCHHHHHcCccccccceeEEEEcCCCCEEEEEEEECCCC
Confidence            589999999999999999986543321           0      11222222222221      134688999999985

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.

>cd00880 Era_like Era (E

Probab=98.78  E-value=1.9e-08  Score=54.75  Aligned_cols=54  Identities=13%  Similarity=-0.023  Sum_probs=35.0

Q ss_pred             EEeCCCCCHHHHHHHHHhCcCC-CCccCCcceeeEEEEEEeCCEEEEEEEcCCCC
Q psy2514          17 IVGNGAVGKSSMIQRYCRGTFT-RDYKKTIGVKSSMIQRYCRGTFTRDYKKTIGA   70 (71)
Q Consensus        17 v~G~~~vGKtsl~~~~~~~~f~-~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~   70 (71)
                      ++|..|+|||||+.++....+. ....+....+.............+.+|||+|-
T Consensus         1 i~G~~gsGKstl~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Dt~g~   55 (163)
T cd00880           1 LFGRTNAGKSSLLNALLGQEVAIVSPVPGTTTDPVEYVWELGPLGPVVLIDTPGI   55 (163)
T ss_pred             CcCCCCCCHHHHHHHHhCccccccCCCCCcEECCeEEEEEecCCCcEEEEECCCC
Confidence            4799999999999999876544 22222222223333333343578999999983

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

>TIGR02729 Obg_CgtA Obg family GTPase CgtA

Probab=98.77  E-value=5.1e-08  Score=60.94  Aligned_cols=58  Identities=19%  Similarity=0.140  Sum_probs=38.5

Q ss_pred             eeeeEEEEeCCCCCHHHHHHHHHhCcC-CCCcc-CCcceeeEEEEEEeCCEEEEEEEcCCCC
Q psy2514          11 IKGTVVIVGNGAVGKSSMIQRYCRGTF-TRDYK-KTIGVKSSMIQRYCRGTFTRDYKKTIGA   70 (71)
Q Consensus        11 ~~~ki~v~G~~~vGKtsl~~~~~~~~f-~~~~~-~t~~~~~~~~~~~~~~~~~l~i~Dt~G~   70 (71)
                      ....|.++|.+++|||||++++..... ..+|. .|..  ...-.+..++...+.+|||+|.
T Consensus       156 ~~adV~lvG~pnaGKSTLl~~lt~~~~~va~y~fTT~~--p~ig~v~~~~~~~~~i~D~PGl  215 (329)
T TIGR02729       156 LLADVGLVGLPNAGKSTLISAVSAAKPKIADYPFTTLV--PNLGVVRVDDGRSFVIADIPGL  215 (329)
T ss_pred             ccccEEEEcCCCCCHHHHHHHHhcCCccccCCCCCccC--CEEEEEEeCCceEEEEEeCCCc
Confidence            347899999999999999999986542 22232 2222  2222233444577899999984

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.

>PRK09602 translation-associated GTPase; Reviewed

Probab=98.77  E-value=4.9e-08  Score=62.35  Aligned_cols=57  Identities=21%  Similarity=0.305  Sum_probs=39.0

Q ss_pred             eeEEEEeCCCCCHHHHHHHHHhCcCCC-Cc-----cCCcceeeEEEEE---------------EeCC--EEEEEEEcCCC
Q psy2514          13 GTVVIVGNGAVGKSSMIQRYCRGTFTR-DY-----KKTIGVKSSMIQR---------------YCRG--TFTRDYKKTIG   69 (71)
Q Consensus        13 ~ki~v~G~~~vGKtsl~~~~~~~~f~~-~~-----~~t~~~~~~~~~~---------------~~~~--~~~l~i~Dt~G   69 (71)
                      +++.++|.++||||||+++++..++.. +|     .|++|..+.....               ..++  ...+++|||+|
T Consensus         2 ~kigivG~pnvGKSTlfn~Lt~~~~~~~~y~f~t~~p~~g~~~v~~~~~~~r~~~~~~~~~~~~~~~~~~~~i~i~D~aG   81 (396)
T PRK09602          2 ITIGLVGKPNVGKSTFFNAATLADVEIANYPFTTIDPNVGVAYVRVECPCKELGVKCNPRNGKCIDGTRFIPVELIDVAG   81 (396)
T ss_pred             cEEEEECCCCCCHHHHHHHHhCCcccccCCCCcceeeeeeeeeeccCCchhhhhhhhccccccccCCcceeeEEEEEcCC
Confidence            689999999999999999999776642 33     3555543321100               0111  36799999998

>TIGR00437 feoB ferrous iron transporter FeoB

Probab=98.75  E-value=4.1e-08  Score=65.31  Aligned_cols=51  Identities=20%  Similarity=0.130  Sum_probs=39.7

Q ss_pred             eCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCCEEEEEEEcCCCC
Q psy2514          19 GNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRGTFTRDYKKTIGA   70 (71)
Q Consensus        19 G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~   70 (71)
                      |+++||||||++++....+...+.|++..+.....+..++ .++++|||+|.
T Consensus         1 G~pNvGKSSL~N~Ltg~~~~v~n~pG~Tv~~~~~~i~~~~-~~i~lvDtPG~   51 (591)
T TIGR00437         1 GNPNVGKSTLFNALTGANQTVGNWPGVTVEKKEGKLGFQG-EDIEIVDLPGI   51 (591)
T ss_pred             CCCCCCHHHHHHHHhCCCCeecCCCCeEEEEEEEEEEECC-eEEEEEECCCc
Confidence            8899999999999998777555567777676665555554 45899999995

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.

>PRK09554 feoB ferrous iron transport protein B; Reviewed

Probab=98.74  E-value=8e-08  Score=65.57  Aligned_cols=58  Identities=16%  Similarity=0.113  Sum_probs=39.1

Q ss_pred             eeeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCCEEEEEEEcCCCC
Q psy2514          12 KGTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRGTFTRDYKKTIGA   70 (71)
Q Consensus        12 ~~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~   70 (71)
                      ..+++++|.++||||||++++...+..-...|.+..+...... ..+...+++|||+|.
T Consensus         3 ~~~IaLvG~pNvGKSTLfN~Ltg~~~~vgn~pGvTve~k~g~~-~~~~~~i~lvDtPG~   60 (772)
T PRK09554          3 KLTIGLIGNPNSGKTTLFNQLTGARQRVGNWAGVTVERKEGQF-STTDHQVTLVDLPGT   60 (772)
T ss_pred             ceEEEEECCCCCCHHHHHHHHhCCCCccCCCCCceEeeEEEEE-EcCceEEEEEECCCc
Confidence            4789999999999999999998655432222333323222222 234578999999984

>PRK05306 infB translation initiation factor IF-2; Validated

Probab=98.70  E-value=1.1e-07  Score=65.00  Aligned_cols=59  Identities=19%  Similarity=0.146  Sum_probs=42.9

Q ss_pred             eeeeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCCEEEEEEEcCCCC
Q psy2514          11 IKGTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRGTFTRDYKKTIGA   70 (71)
Q Consensus        11 ~~~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~   70 (71)
                      ....|+++|..++|||||+.++....+.....+.+..+.....+..++ ..+.+|||+|.
T Consensus       289 R~pvV~ImGhvd~GKTSLl~~Lr~~~v~~~e~~GIT~~iga~~v~~~~-~~ItfiDTPGh  347 (787)
T PRK05306        289 RPPVVTIMGHVDHGKTSLLDAIRKTNVAAGEAGGITQHIGAYQVETNG-GKITFLDTPGH  347 (787)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHhCCccccccCceeeeccEEEEEECC-EEEEEEECCCC
Confidence            447899999999999999999998877665444443333333344444 67899999984

>CHL00189 infB translation initiation factor 2; Provisional

Probab=98.69  E-value=8.5e-08  Score=65.18  Aligned_cols=60  Identities=15%  Similarity=0.148  Sum_probs=42.0

Q ss_pred             eeeeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCccee--eEEEEEEe-CCEEEEEEEcCCCC
Q psy2514          11 IKGTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVK--SSMIQRYC-RGTFTRDYKKTIGA   70 (71)
Q Consensus        11 ~~~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~--~~~~~~~~-~~~~~l~i~Dt~G~   70 (71)
                      ....|+++|..++|||||+.++....+.....+++..+  ........ +....+.+|||+|.
T Consensus       243 r~p~V~IvGhvdvGKTSLld~L~~~~~~~~e~~GiTq~i~~~~v~~~~~~~~~kItfiDTPGh  305 (742)
T CHL00189        243 RPPIVTILGHVDHGKTTLLDKIRKTQIAQKEAGGITQKIGAYEVEFEYKDENQKIVFLDTPGH  305 (742)
T ss_pred             cCCEEEEECCCCCCHHHHHHHHHhccCccccCCccccccceEEEEEEecCCceEEEEEECCcH
Confidence            44789999999999999999999887765544333322  22222222 23688999999984

>PF04670 Gtr1_RagA: Gtr1/RagA G protein conserved region; InterPro: IPR006762 GTR1 was first identified in Saccharomyces cerevisiae (Baker's yeast) as a suppressor of a mutation in RCC1

Probab=98.68  E-value=5.5e-08  Score=58.35  Aligned_cols=55  Identities=18%  Similarity=0.184  Sum_probs=32.4

Q ss_pred             eEEEEeCCCCCHHHHHHHHHhCcCCCC---ccCCcceeeEEEEEEeCCEEEEEEEcCCCC
Q psy2514          14 TVVIVGNGAVGKSSMIQRYCRGTFTRD---YKKTIGVKSSMIQRYCRGTFTRDYKKTIGA   70 (71)
Q Consensus        14 ki~v~G~~~vGKtsl~~~~~~~~f~~~---~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~   70 (71)
                      |++++|.+++||||+......+--+.+   -.||+..+  ...+...+-+.+++||..|+
T Consensus         1 KiLLmG~~~SGKTSi~~vIF~~~~p~dT~~L~~T~~ve--~~~v~~~~~~~l~iwD~pGq   58 (232)
T PF04670_consen    1 KILLMGPRRSGKTSIRSVIFHKYSPRDTLRLEPTIDVE--KSHVRFLSFLPLNIWDCPGQ   58 (232)
T ss_dssp             EEEEEESTTSSHHHHHHHHHS---GGGGGG-----SEE--EEEEECTTSCEEEEEEE-SS
T ss_pred             CEEEEcCCCCChhhHHHHHHcCCCchhccccCCcCCce--EEEEecCCCcEEEEEEcCCc
Confidence            799999999999997665544333322   23555533  23333355679999999986

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.

>COG3596 Predicted GTPase [General function prediction only]

Probab=98.68  E-value=1.7e-08  Score=61.78  Aligned_cols=61  Identities=21%  Similarity=0.195  Sum_probs=38.9

Q ss_pred             CceeeeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCCEEEEEEEcCCC
Q psy2514           9 GSIKGTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRGTFTRDYKKTIG   69 (71)
Q Consensus         9 ~~~~~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G   69 (71)
                      ....+++++.|..|+||||+++.+..++..+--.-.++.+.........+.-.+.+|||.|
T Consensus        36 ~~~pvnvLi~G~TG~GKSSliNALF~~~~~~v~~vg~~t~~~~~~~~~~~~~~l~lwDtPG   96 (296)
T COG3596          36 EKEPVNVLLMGATGAGKSSLINALFQGEVKEVSKVGVGTDITTRLRLSYDGENLVLWDTPG   96 (296)
T ss_pred             ccCceeEEEecCCCCcHHHHHHHHHhccCceeeecccCCCchhhHHhhccccceEEecCCC
Confidence            4456899999999999999999998765543221122222222222222225589999987

>PRK12299 obgE GTPase CgtA; Reviewed

Probab=98.67  E-value=1.4e-07  Score=59.16  Aligned_cols=58  Identities=19%  Similarity=0.146  Sum_probs=37.8

Q ss_pred             eeeeEEEEeCCCCCHHHHHHHHHhCcC-CCCcc-CCcceeeEEEEEEeCCEEEEEEEcCCCC
Q psy2514          11 IKGTVVIVGNGAVGKSSMIQRYCRGTF-TRDYK-KTIGVKSSMIQRYCRGTFTRDYKKTIGA   70 (71)
Q Consensus        11 ~~~ki~v~G~~~vGKtsl~~~~~~~~f-~~~~~-~t~~~~~~~~~~~~~~~~~l~i~Dt~G~   70 (71)
                      ....|.++|.+++|||||++++..... ..+|. .|+.  ...-.+...+...+.+||++|-
T Consensus       157 ~~adVglVG~PNaGKSTLln~ls~a~~~va~ypfTT~~--p~~G~v~~~~~~~~~i~D~PGl  216 (335)
T PRK12299        157 LLADVGLVGLPNAGKSTLISAVSAAKPKIADYPFTTLH--PNLGVVRVDDYKSFVIADIPGL  216 (335)
T ss_pred             ccCCEEEEcCCCCCHHHHHHHHHcCCCccCCCCCceeC--ceEEEEEeCCCcEEEEEeCCCc
Confidence            346789999999999999999986432 22332 2332  2223333334456899999984

>PRK10218 GTP-binding protein; Provisional

Probab=98.66  E-value=1.9e-07  Score=62.40  Aligned_cols=59  Identities=17%  Similarity=0.278  Sum_probs=44.1

Q ss_pred             eeeEEEEeCCCCCHHHHHHHHHh--CcCCCCc------------cCCcceeeEEEEEEe-CCEEEEEEEcCCCC
Q psy2514          12 KGTVVIVGNGAVGKSSMIQRYCR--GTFTRDY------------KKTIGVKSSMIQRYC-RGTFTRDYKKTIGA   70 (71)
Q Consensus        12 ~~ki~v~G~~~vGKtsl~~~~~~--~~f~~~~------------~~t~~~~~~~~~~~~-~~~~~l~i~Dt~G~   70 (71)
                      ..+|+++|..++|||||+.+++.  +.|...+            ..+.|..+..+.... .+.+++++|||+|.
T Consensus         5 iRnIaIiGh~d~GKTTLv~~Ll~~~g~~~~~~~~~~~v~D~~~~E~erGiTi~~~~~~i~~~~~~inliDTPG~   78 (607)
T PRK10218          5 LRNIAIIAHVDHGKTTLVDKLLQQSGTFDSRAETQERVMDSNDLEKERGITILAKNTAIKWNDYRINIVDTPGH   78 (607)
T ss_pred             ceEEEEECCCCCcHHHHHHHHHHhcCCcccccccceeeeccccccccCceEEEEEEEEEecCCEEEEEEECCCc
Confidence            47899999999999999999996  5554432            345666666554444 34689999999985

>PRK12296 obgE GTPase CgtA; Reviewed

Probab=98.64  E-value=2.1e-07  Score=61.03  Aligned_cols=56  Identities=21%  Similarity=0.170  Sum_probs=37.9

Q ss_pred             eeeeEEEEeCCCCCHHHHHHHHHhCcCC-CCcc-CCcceeeEEEEEEeCCEEEEEEEcCCC
Q psy2514          11 IKGTVVIVGNGAVGKSSMIQRYCRGTFT-RDYK-KTIGVKSSMIQRYCRGTFTRDYKKTIG   69 (71)
Q Consensus        11 ~~~ki~v~G~~~vGKtsl~~~~~~~~f~-~~~~-~t~~~~~~~~~~~~~~~~~l~i~Dt~G   69 (71)
                      ...+|+++|.+++|||||++++...... .+|. +|+.  ...-.+..++ ..+.+|||+|
T Consensus       158 ~~adV~LVG~PNAGKSTLln~Ls~akpkIadypfTTl~--P~lGvv~~~~-~~f~laDtPG  215 (500)
T PRK12296        158 SVADVGLVGFPSAGKSSLISALSAAKPKIADYPFTTLV--PNLGVVQAGD-TRFTVADVPG  215 (500)
T ss_pred             ccceEEEEEcCCCCHHHHHHHHhcCCccccccCccccc--ceEEEEEECC-eEEEEEECCC
Confidence            3478999999999999999999865432 2332 2322  2223333344 6789999998

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

Probab=98.62  E-value=2e-07  Score=58.91  Aligned_cols=63  Identities=19%  Similarity=0.291  Sum_probs=48.3

Q ss_pred             ccCceeeeEEEEeCCCCCHHHHHHHHHhCcCCCC----------ccCCcceeeEEEEEEeCC-EEEEEEEcCCC
Q psy2514           7 LRGSIKGTVVIVGNGAVGKSSMIQRYCRGTFTRD----------YKKTIGVKSSMIQRYCRG-TFTRDYKKTIG   69 (71)
Q Consensus         7 ~~~~~~~ki~v~G~~~vGKtsl~~~~~~~~f~~~----------~~~t~~~~~~~~~~~~~~-~~~l~i~Dt~G   69 (71)
                      .+....+.++++|++|.|||+|++.++......+          ..|++.+.+....+..++ ++.+++.||.|
T Consensus        18 ~k~Gi~f~im~~G~sG~GKttfiNtL~~~~l~~~~~~~~~~~~~~~~~~~i~~~~~~l~e~~~~~~l~vIDtpG   91 (373)
T COG5019          18 SKKGIDFTIMVVGESGLGKTTFINTLFGTSLVDETEIDDIRAEGTSPTLEIKITKAELEEDGFHLNLTVIDTPG   91 (373)
T ss_pred             HhcCCceEEEEecCCCCchhHHHHhhhHhhccCCCCccCcccccCCcceEEEeeeeeeecCCeEEEEEEeccCC
Confidence            3446679999999999999999999987644332          346666666666666666 88899999987

>PRK15467 ethanolamine utilization protein EutP; Provisional

Probab=98.62  E-value=5.3e-08  Score=54.94  Aligned_cols=45  Identities=24%  Similarity=0.355  Sum_probs=30.1

Q ss_pred             eEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCCEEEEEEEcCCCC
Q psy2514          14 TVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRGTFTRDYKKTIGA   70 (71)
Q Consensus        14 ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~   70 (71)
                      +|+++|.+++|||||++++. +.+.. ..++.+..+.       ..   .+|||+|.
T Consensus         3 ~i~~iG~~~~GKstl~~~l~-~~~~~-~~~~~~v~~~-------~~---~~iDtpG~   47 (158)
T PRK15467          3 RIAFVGAVGAGKTTLFNALQ-GNYTL-ARKTQAVEFN-------DK---GDIDTPGE   47 (158)
T ss_pred             EEEEECCCCCCHHHHHHHHc-CCCcc-CccceEEEEC-------CC---CcccCCcc
Confidence            79999999999999999965 44432 1233333221       11   37999995

>PRK12297 obgE GTPase CgtA; Reviewed

Probab=98.61  E-value=2.4e-07  Score=59.73  Aligned_cols=57  Identities=18%  Similarity=0.084  Sum_probs=37.0

Q ss_pred             eeeEEEEeCCCCCHHHHHHHHHhCcCC-CCcc-CCcceeeEEEEEEeCCEEEEEEEcCCCC
Q psy2514          12 KGTVVIVGNGAVGKSSMIQRYCRGTFT-RDYK-KTIGVKSSMIQRYCRGTFTRDYKKTIGA   70 (71)
Q Consensus        12 ~~ki~v~G~~~vGKtsl~~~~~~~~f~-~~~~-~t~~~~~~~~~~~~~~~~~l~i~Dt~G~   70 (71)
                      ...|.++|.++||||||+++++..... .+|. .|....+  -.+..++...+.+||++|-
T Consensus       158 ~adVglVG~pNaGKSTLLn~Lt~ak~kIa~ypfTTl~Pnl--G~v~~~~~~~~~laD~PGl  216 (424)
T PRK12297        158 LADVGLVGFPNVGKSTLLSVVSNAKPKIANYHFTTLVPNL--GVVETDDGRSFVMADIPGL  216 (424)
T ss_pred             cCcEEEEcCCCCCHHHHHHHHHcCCCccccCCcceeceEE--EEEEEeCCceEEEEECCCC
Confidence            358999999999999999999865421 2222 2333222  2233333466899999983

>cd01852 AIG1 AIG1 (avrRpt2-induced gene 1)

Probab=98.60  E-value=3.3e-07  Score=53.15  Aligned_cols=56  Identities=16%  Similarity=0.124  Sum_probs=35.4

Q ss_pred             eeEEEEeCCCCCHHHHHHHHHhCcC-CCCc-cCCcceeeEEEEEEeCCEEEEEEEcCCC
Q psy2514          13 GTVVIVGNGAVGKSSMIQRYCRGTF-TRDY-KKTIGVKSSMIQRYCRGTFTRDYKKTIG   69 (71)
Q Consensus        13 ~ki~v~G~~~vGKtsl~~~~~~~~f-~~~~-~~t~~~~~~~~~~~~~~~~~l~i~Dt~G   69 (71)
                      .+|+++|.+|+||||+++.++..+. .... .+..-.+........++ ..+.++||.|
T Consensus         1 ~~i~lvG~~g~GKSsl~N~ilg~~~~~~~~~~~~~T~~~~~~~~~~~~-~~i~viDTPG   58 (196)
T cd01852           1 LRLVLVGKTGAGKSATGNTILGREVFESKLSASSVTKTCQKESAVWDG-RRVNVIDTPG   58 (196)
T ss_pred             CEEEEECCCCCCHHHHHHHhhCCCccccccCCCCcccccceeeEEECC-eEEEEEECcC
Confidence            3689999999999999999996543 2221 11111122222222333 5789999988

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).

>TIGR03596 GTPase_YlqF ribosome biogenesis GTP-binding protein YlqF

Probab=98.58  E-value=3.9e-07  Score=55.61  Aligned_cols=57  Identities=23%  Similarity=0.181  Sum_probs=37.1

Q ss_pred             eeeeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCCEEEEEEEcCCCC
Q psy2514          11 IKGTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRGTFTRDYKKTIGA   70 (71)
Q Consensus        11 ~~~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~   70 (71)
                      ..++++++|.++||||||++++........ .+..|.......+..+.  .+.++||.|-
T Consensus       117 ~~~~~~~vG~~nvGKSslin~l~~~~~~~~-~~~~g~T~~~~~~~~~~--~~~l~DtPG~  173 (276)
T TIGR03596       117 RPIRAMIVGIPNVGKSTLINRLAGKKVAKV-GNRPGVTKGQQWIKLSD--GLELLDTPGI  173 (276)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHhCCCcccc-CCCCCeecceEEEEeCC--CEEEEECCCc
Confidence            358899999999999999999986553321 12222222223333332  4689999984

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.

>cd01858 NGP_1 NGP-1

Probab=98.57  E-value=5.6e-07  Score=50.56  Aligned_cols=56  Identities=18%  Similarity=0.058  Sum_probs=34.2

Q ss_pred             eeeeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCCEEEEEEEcCCC
Q psy2514          11 IKGTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRGTFTRDYKKTIG   69 (71)
Q Consensus        11 ~~~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G   69 (71)
                      ....++++|.++||||||++++....... ..++-|..-....+..++  .+.+.||+|
T Consensus       101 ~~~~v~~~G~~nvGKStliN~l~~~~~~~-~~~~~g~T~~~~~~~~~~--~~~liDtPG  156 (157)
T cd01858         101 KQISVGFIGYPNVGKSSIINTLRSKKVCK-VAPIPGETKVWQYITLMK--RIYLIDCPG  156 (157)
T ss_pred             cceEEEEEeCCCCChHHHHHHHhcCCcee-eCCCCCeeEeEEEEEcCC--CEEEEECcC
Confidence            35788899999999999999998654322 112222111111122222  367999998

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.

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

Probab=98.56  E-value=7.9e-07  Score=52.40  Aligned_cols=56  Identities=16%  Similarity=0.136  Sum_probs=33.8

Q ss_pred             eeEEEEeCCCCCHHHHHHHHHhCcCCCCcc--CCcceeeEEEEEEeCCEEEEEEEcCCC
Q psy2514          13 GTVVIVGNGAVGKSSMIQRYCRGTFTRDYK--KTIGVKSSMIQRYCRGTFTRDYKKTIG   69 (71)
Q Consensus        13 ~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~--~t~~~~~~~~~~~~~~~~~l~i~Dt~G   69 (71)
                      ++|+++|.+|+||||+.+.++.........  .+.-..........++ ..+.++||.|
T Consensus         1 l~IlllG~tGsGKSs~~N~ilg~~~f~~~~~~~~~t~~~~~~~~~~~g-~~v~VIDTPG   58 (212)
T PF04548_consen    1 LRILLLGKTGSGKSSLGNSILGKEVFKSGSSAKSVTQECQKYSGEVDG-RQVTVIDTPG   58 (212)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHTSS-SS--TTTSS--SS-EEEEEEETT-EEEEEEE--S
T ss_pred             CEEEEECCCCCCHHHHHHHHhcccceeeccccCCcccccceeeeeecc-eEEEEEeCCC
Confidence            479999999999999999998654433221  1122223333344455 6688999987

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 ....

>PRK09563 rbgA GTPase YlqF; Reviewed

Probab=98.54  E-value=8.3e-07  Score=54.49  Aligned_cols=57  Identities=21%  Similarity=0.184  Sum_probs=37.3

Q ss_pred             eeeeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCCEEEEEEEcCCCC
Q psy2514          11 IKGTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRGTFTRDYKKTIGA   70 (71)
Q Consensus        11 ~~~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~   70 (71)
                      ..++++++|.++|||||+++++...+... ..+..|.......+..+.  .+.++||.|=
T Consensus       120 ~~~~~~~~G~pnvGKSsliN~l~~~~~~~-~~~~~g~T~~~~~~~~~~--~~~l~DtPGi  176 (287)
T PRK09563        120 RAIRAMIIGIPNVGKSTLINRLAGKKIAK-TGNRPGVTKAQQWIKLGK--GLELLDTPGI  176 (287)
T ss_pred             CceEEEEECCCCCCHHHHHHHHhcCCccc-cCCCCCeEEEEEEEEeCC--cEEEEECCCc
Confidence            45899999999999999999998765422 122223222222333333  4779999984

>KOG1707|consensus

Probab=98.53  E-value=1.3e-07  Score=62.57  Aligned_cols=58  Identities=16%  Similarity=0.145  Sum_probs=43.2

Q ss_pred             ceeeeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCCEEEEEEEcCC
Q psy2514          10 SIKGTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRGTFTRDYKKTI   68 (71)
Q Consensus        10 ~~~~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~   68 (71)
                      ...++|+++||.|||||||+..++.++|+++. |.+...+..+.-.....+...|.||.
T Consensus         7 ~kdVRIvliGD~G~GKtSLImSL~~eef~~~V-P~rl~~i~IPadvtPe~vpt~ivD~s   64 (625)
T KOG1707|consen    7 LKDVRIVLIGDEGVGKTSLIMSLLEEEFVDAV-PRRLPRILIPADVTPENVPTSIVDTS   64 (625)
T ss_pred             ccceEEEEECCCCccHHHHHHHHHhhhccccc-cccCCccccCCccCcCcCceEEEecc
Confidence            45699999999999999999999999999864 55544454443333344557788874

>KOG2655|consensus

Probab=98.51  E-value=5.9e-07  Score=56.86  Aligned_cols=63  Identities=21%  Similarity=0.328  Sum_probs=45.6

Q ss_pred             cCceeeeEEEEeCCCCCHHHHHHHHHhCcCCCC---------ccCCcceeeEEEEEEeCC-EEEEEEEcCCCC
Q psy2514           8 RGSIKGTVVIVGNGAVGKSSMIQRYCRGTFTRD---------YKKTIGVKSSMIQRYCRG-TFTRDYKKTIGA   70 (71)
Q Consensus         8 ~~~~~~ki~v~G~~~vGKtsl~~~~~~~~f~~~---------~~~t~~~~~~~~~~~~~~-~~~l~i~Dt~G~   70 (71)
                      +....|.++++|++|.|||+|++.+....+..+         ...|+.+......+..++ .+.|++.||.|.
T Consensus        17 KkG~~ftlmvvG~sGlGKsTfiNsLf~~~l~~~~~~~~~~~~~~~t~~i~~~~~~iee~g~~l~LtvidtPGf   89 (366)
T KOG2655|consen   17 KKGFDFTLMVVGESGLGKSTFINSLFLTDLSGNREVPGASERIKETVEIESTKVEIEENGVKLNLTVIDTPGF   89 (366)
T ss_pred             hcCCceEEEEecCCCccHHHHHHHHHhhhccCCcccCCcccCccccceeeeeeeeecCCCeEEeeEEeccCCC
Confidence            345569999999999999999999776655432         223555555555555555 788999999874

>cd01855 YqeH YqeH

Probab=98.49  E-value=6e-07  Score=51.80  Aligned_cols=25  Identities=36%  Similarity=0.575  Sum_probs=21.8

Q ss_pred             eeeEEEEeCCCCCHHHHHHHHHhCc
Q psy2514          12 KGTVVIVGNGAVGKSSMIQRYCRGT   36 (71)
Q Consensus        12 ~~ki~v~G~~~vGKtsl~~~~~~~~   36 (71)
                      ...++++|.++||||||++.+....
T Consensus       127 ~~~~~~~G~~nvGKStliN~l~~~~  151 (190)
T cd01855         127 GGDVYVVGATNVGKSTLINALLKKD  151 (190)
T ss_pred             CCcEEEEcCCCCCHHHHHHHHHHhc
Confidence            3579999999999999999998643

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.

>KOG0075|consensus

Probab=98.49  E-value=4.4e-08  Score=55.47  Aligned_cols=57  Identities=23%  Similarity=0.327  Sum_probs=48.2

Q ss_pred             eeeeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCCEEEEEEEcCCCC
Q psy2514          11 IKGTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRGTFTRDYKKTIGA   70 (71)
Q Consensus        11 ~~~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~   70 (71)
                      .+..+.++|...+|||+|......+.|.+...||+|  |..+.+. .+.+.+.+||..|+
T Consensus        19 ~emel~lvGLq~sGKtt~Vn~ia~g~~~edmiptvG--fnmrk~t-kgnvtiklwD~gGq   75 (186)
T KOG0075|consen   19 EEMELSLVGLQNSGKTTLVNVIARGQYLEDMIPTVG--FNMRKVT-KGNVTIKLWDLGGQ   75 (186)
T ss_pred             heeeEEEEeeccCCcceEEEEEeeccchhhhccccc--ceeEEec-cCceEEEEEecCCC
Confidence            357889999999999999999999999999999999  5555554 34588999999886

>KOG1191|consensus

Probab=98.49  E-value=5.1e-07  Score=58.94  Aligned_cols=57  Identities=25%  Similarity=0.239  Sum_probs=40.8

Q ss_pred             eeeeEEEEeCCCCCHHHHHHHHHhCcCC--CCccCCcceeeEEEEEEeCCEEEEEEEcCCC
Q psy2514          11 IKGTVVIVGNGAVGKSSMIQRYCRGTFT--RDYKKTIGVKSSMIQRYCRGTFTRDYKKTIG   69 (71)
Q Consensus        11 ~~~ki~v~G~~~vGKtsl~~~~~~~~f~--~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G   69 (71)
                      ..++++++|.++||||||++.+...+-.  ....-|+. |-.-..+..++ +.+.+.||||
T Consensus       267 ~gl~iaIvGrPNvGKSSLlNaL~~~drsIVSpv~GTTR-Daiea~v~~~G-~~v~L~DTAG  325 (531)
T KOG1191|consen  267 SGLQIAIVGRPNVGKSSLLNALSREDRSIVSPVPGTTR-DAIEAQVTVNG-VPVRLSDTAG  325 (531)
T ss_pred             cCCeEEEEcCCCCCHHHHHHHHhcCCceEeCCCCCcch-hhheeEeecCC-eEEEEEeccc
Confidence            3489999999999999999999976542  23333444 33333444455 8889999998

>cd04168 TetM_like Tet(M)-like subfamily

Probab=98.47  E-value=1.1e-06  Score=52.70  Aligned_cols=21  Identities=14%  Similarity=0.279  Sum_probs=19.1

Q ss_pred             eEEEEeCCCCCHHHHHHHHHh
Q psy2514          14 TVVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus        14 ki~v~G~~~vGKtsl~~~~~~   34 (71)
                      +++++|..++|||||+.+++.
T Consensus         1 ni~i~G~~~~GKTtL~~~ll~   21 (237)
T cd04168           1 NIGILAHVDAGKTTLTESLLY   21 (237)
T ss_pred             CEEEEcCCCCCHHHHHHHHHH
Confidence            478999999999999999985

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.

>PRK12317 elongation factor 1-alpha; Reviewed

Probab=98.47  E-value=9.5e-07  Score=56.65  Aligned_cols=25  Identities=20%  Similarity=0.339  Sum_probs=22.6

Q ss_pred             CceeeeEEEEeCCCCCHHHHHHHHH
Q psy2514           9 GSIKGTVVIVGNGAVGKSSMIQRYC   33 (71)
Q Consensus         9 ~~~~~ki~v~G~~~vGKtsl~~~~~   33 (71)
                      +...++++++|..++|||||+.+++
T Consensus         3 ~k~~~~v~iiGh~d~GKSTL~~~Ll   27 (425)
T PRK12317          3 EKPHLNLAVIGHVDHGKSTLVGRLL   27 (425)
T ss_pred             CCCEEEEEEECCCCCChHHHHHHHH
Confidence            4557999999999999999999988

>cd04178 Nucleostemin_like Nucleostemin-like

Probab=98.46  E-value=1.2e-06  Score=50.41  Aligned_cols=54  Identities=26%  Similarity=0.185  Sum_probs=35.8

Q ss_pred             eeeEEEEeCCCCCHHHHHHHHHhCcC-CCCccCCcceeeEEEEEEeCCEEEEEEEcCCC
Q psy2514          12 KGTVVIVGNGAVGKSSMIQRYCRGTF-TRDYKKTIGVKSSMIQRYCRGTFTRDYKKTIG   69 (71)
Q Consensus        12 ~~ki~v~G~~~vGKtsl~~~~~~~~f-~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G   69 (71)
                      .++++++|.+++|||||++++....- .....|.+-  .....+..+.  .+.++||.|
T Consensus       117 ~~~~~~vG~pnvGKSslin~l~~~~~~~~~~~pg~T--~~~~~~~~~~--~~~l~DtPG  171 (172)
T cd04178         117 SITVGVVGFPNVGKSSLINSLKRSRACNVGATPGVT--KSMQEVHLDK--KVKLLDSPG  171 (172)
T ss_pred             CcEEEEEcCCCCCHHHHHHHHhCcccceecCCCCeE--cceEEEEeCC--CEEEEECcC
Confidence            37999999999999999999986543 222223322  2223333332  478999988

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

>PTZ00099 rab6; Provisional

Probab=98.45  E-value=6.4e-07  Score=51.47  Aligned_cols=37  Identities=24%  Similarity=0.315  Sum_probs=31.4

Q ss_pred             hCcCCCCccCCcceeeEEEEEEeCC-EEEEEEEcCCCC
Q psy2514          34 RGTFTRDYKKTIGVKSSMIQRYCRG-TFTRDYKKTIGA   70 (71)
Q Consensus        34 ~~~f~~~~~~t~~~~~~~~~~~~~~-~~~l~i~Dt~G~   70 (71)
                      .+.|.++|.||+|.+|..+.+..++ .+.+.||||+|.
T Consensus         2 ~~~F~~~~~~Tig~~~~~~~~~~~~~~v~l~iwDt~G~   39 (176)
T PTZ00099          2 YDTFDNNYQSTIGIDFLSKTLYLDEGPVRLQLWDTAGQ   39 (176)
T ss_pred             CCCcCCCCCCccceEEEEEEEEECCEEEEEEEEECCCh
Confidence            3578889999999999887776655 889999999995

>PRK12298 obgE GTPase CgtA; Reviewed

Probab=98.45  E-value=1.3e-06  Score=55.89  Aligned_cols=58  Identities=19%  Similarity=0.096  Sum_probs=37.0

Q ss_pred             eeeEEEEeCCCCCHHHHHHHHHhCcC-CCCccCCcceeeEEEEEEeCCEEEEEEEcCCCC
Q psy2514          12 KGTVVIVGNGAVGKSSMIQRYCRGTF-TRDYKKTIGVKSSMIQRYCRGTFTRDYKKTIGA   70 (71)
Q Consensus        12 ~~ki~v~G~~~vGKtsl~~~~~~~~f-~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~   70 (71)
                      ...|.++|.+++|||||++++...+. ...|.-|+-. ...-.+..++...+.++||.|-
T Consensus       159 iadValVG~PNaGKSTLln~Lt~~k~~vs~~p~TT~~-p~~Giv~~~~~~~i~~vDtPGi  217 (390)
T PRK12298        159 LADVGLLGLPNAGKSTFIRAVSAAKPKVADYPFTTLV-PNLGVVRVDDERSFVVADIPGL  217 (390)
T ss_pred             cccEEEEcCCCCCHHHHHHHHhCCcccccCCCCCccC-cEEEEEEeCCCcEEEEEeCCCc
Confidence            34799999999999999999986443 2233222221 2222233344456889999884

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

Probab=98.44  E-value=6.7e-07  Score=59.68  Aligned_cols=58  Identities=14%  Similarity=0.155  Sum_probs=38.1

Q ss_pred             eeEEEEeCCCCCHHHHHHHHHhCcCCCC----ccCCcceeeEEEEEEeC--------CE-----EEEEEEcCCCC
Q psy2514          13 GTVVIVGNGAVGKSSMIQRYCRGTFTRD----YKKTIGVKSSMIQRYCR--------GT-----FTRDYKKTIGA   70 (71)
Q Consensus        13 ~ki~v~G~~~vGKtsl~~~~~~~~f~~~----~~~t~~~~~~~~~~~~~--------~~-----~~l~i~Dt~G~   70 (71)
                      .-|+++|.+++|||||+.++....+...    +.+++|..+........        .+     ..+.+|||+|.
T Consensus         5 piV~IiG~~d~GKTSLln~l~~~~v~~~e~ggiTq~iG~~~v~~~~~~~~~~~~~~~~~v~~~~~~l~~iDTpG~   79 (590)
T TIGR00491         5 PIVSVLGHVDHGKTTLLDKIRGSAVAKREAGGITQHIGATEIPMDVIEGICGDLLKKFKIRLKIPGLLFIDTPGH   79 (590)
T ss_pred             CEEEEECCCCCCHHHHHHHHhccccccccCCceecccCeeEeeeccccccccccccccccccccCcEEEEECCCc
Confidence            3589999999999999999998877543    33455544432211110        01     13889999984

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.

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

Probab=98.44  E-value=1.3e-06  Score=56.02  Aligned_cols=26  Identities=19%  Similarity=0.198  Sum_probs=23.1

Q ss_pred             CceeeeEEEEeCCCCCHHHHHHHHHh
Q psy2514           9 GSIKGTVVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus         9 ~~~~~ki~v~G~~~vGKtsl~~~~~~   34 (71)
                      +...++++++|..++|||||+.+++.
T Consensus         4 ~~~~~~v~i~Ghvd~GKSTL~~~ll~   29 (426)
T TIGR00483         4 EKEHINVAFIGHVDHGKSTTVGHLLY   29 (426)
T ss_pred             CCceeEEEEEeccCCcHHHHHHHHHH
Confidence            45569999999999999999999985

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.

>PRK05433 GTP-binding protein LepA; Provisional

Probab=98.43  E-value=1.2e-06  Score=58.52  Aligned_cols=60  Identities=17%  Similarity=0.146  Sum_probs=39.0

Q ss_pred             eeeeEEEEeCCCCCHHHHHHHHHhC--cCC-----CCc------cCCcceeeEEEEEE------eCCEEEEEEEcCCCC
Q psy2514          11 IKGTVVIVGNGAVGKSSMIQRYCRG--TFT-----RDY------KKTIGVKSSMIQRY------CRGTFTRDYKKTIGA   70 (71)
Q Consensus        11 ~~~ki~v~G~~~vGKtsl~~~~~~~--~f~-----~~~------~~t~~~~~~~~~~~------~~~~~~l~i~Dt~G~   70 (71)
                      ..-+++++|..++|||||+.+++..  .+.     ..+      ....|..+......      .+..+.+++|||+|.
T Consensus         6 ~iRNi~IiGhvd~GKTTL~~rLl~~tg~i~~~~~~~~~lD~~~~ErerGiTi~~~~v~~~~~~~dg~~~~lnLiDTPGh   84 (600)
T PRK05433          6 NIRNFSIIAHIDHGKSTLADRLIELTGTLSEREMKAQVLDSMDLERERGITIKAQAVRLNYKAKDGETYILNLIDTPGH   84 (600)
T ss_pred             cCCEEEEECCCCCCHHHHHHHHHHhcCCCcccccccccccCchHHhhcCCcccccEEEEEEEccCCCcEEEEEEECCCc
Confidence            3468999999999999999999852  221     111      12334444332221      233689999999994

>cd04169 RF3 RF3 subfamily

Probab=98.42  E-value=1.9e-06  Score=52.59  Aligned_cols=22  Identities=18%  Similarity=0.369  Sum_probs=19.8

Q ss_pred             eeEEEEeCCCCCHHHHHHHHHh
Q psy2514          13 GTVVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus        13 ~ki~v~G~~~vGKtsl~~~~~~   34 (71)
                      -+++++|.+++|||||+.+++.
T Consensus         3 Rni~ivGh~~~GKTTL~e~ll~   24 (267)
T cd04169           3 RTFAIISHPDAGKTTLTEKLLL   24 (267)
T ss_pred             cEEEEEcCCCCCHHHHHHHHHH
Confidence            4689999999999999999874

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.

>COG1160 Predicted GTPases [General function prediction only]

Probab=98.42  E-value=1e-06  Score=56.91  Aligned_cols=58  Identities=22%  Similarity=0.072  Sum_probs=40.5

Q ss_pred             eeeeEEEEeCCCCCHHHHHHHHHhCcC-CCCccCCcceeeEEEEEEeCCEEEEEEEcCCC
Q psy2514          11 IKGTVVIVGNGAVGKSSMIQRYCRGTF-TRDYKKTIGVKSSMIQRYCRGTFTRDYKKTIG   69 (71)
Q Consensus        11 ~~~ki~v~G~~~vGKtsl~~~~~~~~f-~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G   69 (71)
                      ..+|++++|-++||||||+++++..+- .-+..|.+-.|.....+..++ -++.+.||||
T Consensus       177 ~~ikiaiiGrPNvGKSsLiN~ilgeeR~Iv~~~aGTTRD~I~~~~e~~~-~~~~liDTAG  235 (444)
T COG1160         177 DPIKIAIIGRPNVGKSSLINAILGEERVIVSDIAGTTRDSIDIEFERDG-RKYVLIDTAG  235 (444)
T ss_pred             CceEEEEEeCCCCCchHHHHHhccCceEEecCCCCccccceeeeEEECC-eEEEEEECCC
Confidence            359999999999999999999996432 222334444444445555444 4578999998

>KOG1423|consensus

Probab=98.41  E-value=2.1e-06  Score=53.71  Aligned_cols=60  Identities=18%  Similarity=0.189  Sum_probs=42.1

Q ss_pred             CceeeeEEEEeCCCCCHHHHHHHHHhCcCCCC-cc-CCcceeeEEEEEEeCCEEEEEEEcCCCC
Q psy2514           9 GSIKGTVVIVGNGAVGKSSMIQRYCRGTFTRD-YK-KTIGVKSSMIQRYCRGTFTRDYKKTIGA   70 (71)
Q Consensus         9 ~~~~~ki~v~G~~~vGKtsl~~~~~~~~f~~~-~~-~t~~~~~~~~~~~~~~~~~l~i~Dt~G~   70 (71)
                      ..+...++++|.++||||+|.++.+......- .. -|+.  ...--+...++..+.++||.|.
T Consensus        69 ~~k~L~vavIG~PNvGKStLtN~mig~kv~~vS~K~~TTr--~~ilgi~ts~eTQlvf~DTPGl  130 (379)
T KOG1423|consen   69 AQKSLYVAVIGAPNVGKSTLTNQMIGQKVSAVSRKVHTTR--HRILGIITSGETQLVFYDTPGL  130 (379)
T ss_pred             cceEEEEEEEcCCCcchhhhhhHhhCCcccccccccccee--eeeeEEEecCceEEEEecCCcc
Confidence            35679999999999999999999997665431 11 1111  2223334466789999999985

>TIGR00490 aEF-2 translation elongation factor aEF-2

Probab=98.40  E-value=1e-06  Score=59.79  Aligned_cols=61  Identities=18%  Similarity=0.231  Sum_probs=41.5

Q ss_pred             ceeeeEEEEeCCCCCHHHHHHHHHhC---------------cCCCC---ccCCcceeeEEEEE-EeCCEEEEEEEcCCCC
Q psy2514          10 SIKGTVVIVGNGAVGKSSMIQRYCRG---------------TFTRD---YKKTIGVKSSMIQR-YCRGTFTRDYKKTIGA   70 (71)
Q Consensus        10 ~~~~ki~v~G~~~vGKtsl~~~~~~~---------------~f~~~---~~~t~~~~~~~~~~-~~~~~~~l~i~Dt~G~   70 (71)
                      ....+|+++|..++|||||+.+++..               .|...   +..|+...+..... ...+.+.+++|||+|.
T Consensus        17 ~~irnI~ivGh~~~GKTTL~~~ll~~~g~i~~~~~~~~~~~d~~~~e~~rg~Ti~~~~~~~~~~~~~~~~~i~liDTPG~   96 (720)
T TIGR00490        17 KFIRNIGIVAHIDHGKTTLSDNLLAGAGMISEELAGQQLYLDFDEQEQERGITINAANVSMVHEYEGNEYLINLIDTPGH   96 (720)
T ss_pred             ccccEEEEEEeCCCCHHHHHHHHHHHcCCCchhcCCceeecCCCHHHHhhcchhhcccceeEEeecCCceEEEEEeCCCc
Confidence            45689999999999999999999752               22221   23455544433222 2244789999999985

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.

>PTZ00258 GTP-binding protein; Provisional

Probab=98.38  E-value=1.7e-06  Score=55.34  Aligned_cols=28  Identities=29%  Similarity=0.385  Sum_probs=23.8

Q ss_pred             ceeeeEEEEeCCCCCHHHHHHHHHhCcC
Q psy2514          10 SIKGTVVIVGNGAVGKSSMIQRYCRGTF   37 (71)
Q Consensus        10 ~~~~ki~v~G~~~vGKtsl~~~~~~~~f   37 (71)
                      ...+++.++|.+++|||||++.+....-
T Consensus        19 ~~~~kvgIVG~PNvGKSTLfnaLt~~~~   46 (390)
T PTZ00258         19 GNNLKMGIVGLPNVGKSTTFNALCKQQV   46 (390)
T ss_pred             CCCcEEEEECCCCCChHHHHHHHhcCcc
Confidence            4568999999999999999999976543

>PRK09601 GTP-binding protein YchF; Reviewed

Probab=98.37  E-value=2.2e-06  Score=54.47  Aligned_cols=24  Identities=29%  Similarity=0.333  Sum_probs=22.0

Q ss_pred             eeEEEEeCCCCCHHHHHHHHHhCc
Q psy2514          13 GTVVIVGNGAVGKSSMIQRYCRGT   36 (71)
Q Consensus        13 ~ki~v~G~~~vGKtsl~~~~~~~~   36 (71)
                      +++.++|.+++|||||++++....
T Consensus         3 ~~vgIVG~PNvGKSTLfnaLt~~~   26 (364)
T PRK09601          3 LKCGIVGLPNVGKSTLFNALTKAG   26 (364)
T ss_pred             cEEEEECCCCCCHHHHHHHHhCCC
Confidence            689999999999999999998755

>KOG1547|consensus

Probab=98.37  E-value=1.3e-06  Score=53.31  Aligned_cols=63  Identities=21%  Similarity=0.301  Sum_probs=45.5

Q ss_pred             ccCceeeeEEEEeCCCCCHHHHHHHHHhCcCCC---------CccCCcceeeEEEEEEeCC-EEEEEEEcCCC
Q psy2514           7 LRGSIKGTVVIVGNGAVGKSSMIQRYCRGTFTR---------DYKKTIGVKSSMIQRYCRG-TFTRDYKKTIG   69 (71)
Q Consensus         7 ~~~~~~~ki~v~G~~~vGKtsl~~~~~~~~f~~---------~~~~t~~~~~~~~~~~~~~-~~~l~i~Dt~G   69 (71)
                      |+....|+|+++|.+|.|||++++.+...+...         .+..|+.......++..++ +.++++.||.|
T Consensus        41 mk~GF~FNIMVVgqSglgkstlinTlf~s~v~~~s~~~~~~~p~pkT~eik~~thvieE~gVklkltviDTPG  113 (336)
T KOG1547|consen   41 MKTGFDFNIMVVGQSGLGKSTLINTLFKSHVSDSSSSDNSAEPIPKTTEIKSITHVIEEKGVKLKLTVIDTPG  113 (336)
T ss_pred             HhccCceEEEEEecCCCCchhhHHHHHHHHHhhccCCCcccCcccceEEEEeeeeeeeecceEEEEEEecCCC
Confidence            455678999999999999999999766433322         2334555555556666566 77899999987

>cd01900 YchF YchF subfamily

Probab=98.36  E-value=1.5e-06  Score=53.29  Aligned_cols=23  Identities=30%  Similarity=0.421  Sum_probs=19.9

Q ss_pred             EEEEeCCCCCHHHHHHHHHhCcC
Q psy2514          15 VVIVGNGAVGKSSMIQRYCRGTF   37 (71)
Q Consensus        15 i~v~G~~~vGKtsl~~~~~~~~f   37 (71)
                      +.++|.+++|||||++.++....
T Consensus         1 igivG~PN~GKSTLfn~Lt~~~~   23 (274)
T cd01900           1 IGIVGLPNVGKSTLFNALTKAGA   23 (274)
T ss_pred             CeEeCCCCCcHHHHHHHHhCCCC
Confidence            46899999999999999987554

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.

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

Probab=98.36  E-value=1.4e-06  Score=52.81  Aligned_cols=21  Identities=19%  Similarity=0.480  Sum_probs=18.9

Q ss_pred             eEEEEeCCCCCHHHHHHHHHh
Q psy2514          14 TVVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus        14 ki~v~G~~~vGKtsl~~~~~~   34 (71)
                      +++++|.+++|||||+.+++.
T Consensus         1 ni~ivG~~gsGKStL~~~Ll~   21 (268)
T cd04170           1 NIALVGHSGSGKTTLAEALLY   21 (268)
T ss_pred             CEEEECCCCCCHHHHHHHHHH
Confidence            478999999999999999874

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

>KOG3859|consensus

Probab=98.35  E-value=1.2e-06  Score=54.34  Aligned_cols=63  Identities=13%  Similarity=0.238  Sum_probs=45.9

Q ss_pred             ccCceeeeEEEEeCCCCCHHHHHHHHHhCcCCCC----ccCCcceeeEEEEEEeCC-EEEEEEEcCCC
Q psy2514           7 LRGSIKGTVVIVGNGAVGKSSMIQRYCRGTFTRD----YKKTIGVKSSMIQRYCRG-TFTRDYKKTIG   69 (71)
Q Consensus         7 ~~~~~~~ki~v~G~~~vGKtsl~~~~~~~~f~~~----~~~t~~~~~~~~~~~~~~-~~~l~i~Dt~G   69 (71)
                      .+....|+|+.+|+.|.|||+|+..+.+-.|...    ..|++...-....+...+ +.++.|+||.|
T Consensus        37 v~~GF~FNilCvGETg~GKsTLmdtLFNt~f~~~p~~H~~~~V~L~~~TyelqEsnvrlKLtiv~tvG  104 (406)
T KOG3859|consen   37 VSQGFCFNILCVGETGLGKSTLMDTLFNTKFESEPSTHTLPNVKLQANTYELQESNVRLKLTIVDTVG  104 (406)
T ss_pred             HhcCceEEEEEeccCCccHHHHHHHHhccccCCCCCccCCCCceeecchhhhhhcCeeEEEEEEeecc
Confidence            4456789999999999999999999988777653    235555333333333334 78899999987

>cd04166 CysN_ATPS CysN_ATPS subfamily

Probab=98.33  E-value=2.7e-06  Score=49.87  Aligned_cols=21  Identities=29%  Similarity=0.363  Sum_probs=19.0

Q ss_pred             eEEEEeCCCCCHHHHHHHHHh
Q psy2514          14 TVVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus        14 ki~v~G~~~vGKtsl~~~~~~   34 (71)
                      +++++|.+++|||||+.+++.
T Consensus         1 ~i~iiG~~~~GKStL~~~Ll~   21 (208)
T cd04166           1 RFLTCGSVDDGKSTLIGRLLY   21 (208)
T ss_pred             CEEEEECCCCCHHHHHHHHHH
Confidence            589999999999999999874

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.

>COG1161 Predicted GTPases [General function prediction only]

Probab=98.31  E-value=3.6e-06  Score=52.62  Aligned_cols=55  Identities=24%  Similarity=0.189  Sum_probs=36.7

Q ss_pred             eeeeEEEEeCCCCCHHHHHHHHHhCcCC-CCccCCcceeeEEEEEEeCCEEEEEEEcCCC
Q psy2514          11 IKGTVVIVGNGAVGKSSMIQRYCRGTFT-RDYKKTIGVKSSMIQRYCRGTFTRDYKKTIG   69 (71)
Q Consensus        11 ~~~ki~v~G~~~vGKtsl~~~~~~~~f~-~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G   69 (71)
                      ...++.++|-++|||||++++++...-. ....|  |..-..+.+..+.  .+.++||.|
T Consensus       131 ~~~~v~vvG~PNVGKSslIN~L~~k~~~~~s~~P--G~Tk~~q~i~~~~--~i~LlDtPG  186 (322)
T COG1161         131 RKIRVGVVGYPNVGKSTLINRLLGKKVAKTSNRP--GTTKGIQWIKLDD--GIYLLDTPG  186 (322)
T ss_pred             cceEEEEEcCCCCcHHHHHHHHhcccceeeCCCC--ceecceEEEEcCC--CeEEecCCC
Confidence            3478999999999999999999976542 22334  4222223332222  388999988

>COG1159 Era GTPase [General function prediction only]

Probab=98.28  E-value=4.2e-06  Score=51.77  Aligned_cols=59  Identities=19%  Similarity=0.176  Sum_probs=41.1

Q ss_pred             ceeeeEEEEeCCCCCHHHHHHHHHhCcCC-CCccCCcceeeEEEEEEeCCEEEEEEEcCCC
Q psy2514          10 SIKGTVVIVGNGAVGKSSMIQRYCRGTFT-RDYKKTIGVKSSMIQRYCRGTFTRDYKKTIG   69 (71)
Q Consensus        10 ~~~~ki~v~G~~~vGKtsl~~~~~~~~f~-~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G   69 (71)
                      ...-.++++|.++||||+|+++++..+.. -+..|.+-. ...+-+...+..++-+.||.|
T Consensus         4 ~ksGfVaIiGrPNvGKSTLlN~l~G~KisIvS~k~QTTR-~~I~GI~t~~~~QiIfvDTPG   63 (298)
T COG1159           4 FKSGFVAIIGRPNVGKSTLLNALVGQKISIVSPKPQTTR-NRIRGIVTTDNAQIIFVDTPG   63 (298)
T ss_pred             ceEEEEEEEcCCCCcHHHHHHHHhcCceEeecCCcchhh-hheeEEEEcCCceEEEEeCCC
Confidence            34567899999999999999999976553 122232221 234455555578888999988

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

Probab=98.28  E-value=5.6e-06  Score=56.19  Aligned_cols=57  Identities=19%  Similarity=0.281  Sum_probs=36.9

Q ss_pred             eeeeEEEEeCCCCCHHHHHHHHHhCc-CCCC-ccCCcceeeEEEEEEeCCEEEEEEEcCCC
Q psy2514          11 IKGTVVIVGNGAVGKSSMIQRYCRGT-FTRD-YKKTIGVKSSMIQRYCRGTFTRDYKKTIG   69 (71)
Q Consensus        11 ~~~ki~v~G~~~vGKtsl~~~~~~~~-f~~~-~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G   69 (71)
                      ..++|+++|.+|+||||+++.++... |... +.+.+.. ........+ ...+.++||.|
T Consensus       117 fslrIvLVGKTGVGKSSLINSILGekvf~vss~~~~TTr-~~ei~~~id-G~~L~VIDTPG  175 (763)
T TIGR00993       117 FSLNILVLGKSGVGKSATINSIFGEVKFSTDAFGMGTTS-VQEIEGLVQ-GVKIRVIDTPG  175 (763)
T ss_pred             cceEEEEECCCCCCHHHHHHHHhccccccccCCCCCceE-EEEEEEEEC-CceEEEEECCC
Confidence            45789999999999999999998754 4322 2122221 111111223 36789999988

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.

>COG1160 Predicted GTPases [General function prediction only]

Probab=98.27  E-value=2.7e-06  Score=55.06  Aligned_cols=55  Identities=24%  Similarity=0.154  Sum_probs=37.6

Q ss_pred             eeEEEEeCCCCCHHHHHHHHHhCcC--CCCccCCcceeeEEEEEEeCCEEEEEEEcCCC
Q psy2514          13 GTVVIVGNGAVGKSSMIQRYCRGTF--TRDYKKTIGVKSSMIQRYCRGTFTRDYKKTIG   69 (71)
Q Consensus        13 ~ki~v~G~~~vGKtsl~~~~~~~~f--~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G   69 (71)
                      ..|+++|-++||||||.+|++....  .+++.-++.+.. .......+ ..+.+.||+|
T Consensus         4 ~~VAIVGRPNVGKSTLFNRL~g~r~AIV~D~pGvTRDr~-y~~~~~~~-~~f~lIDTgG   60 (444)
T COG1160           4 PVVAIVGRPNVGKSTLFNRLTGRRIAIVSDTPGVTRDRI-YGDAEWLG-REFILIDTGG   60 (444)
T ss_pred             CEEEEECCCCCcHHHHHHHHhCCeeeEeecCCCCccCCc-cceeEEcC-ceEEEEECCC
Confidence            5799999999999999999996544  445444444322 23333333 3488999988

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

Probab=98.27  E-value=2e-06  Score=48.33  Aligned_cols=44  Identities=20%  Similarity=0.295  Sum_probs=31.4

Q ss_pred             eeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCC
Q psy2514          13 GTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRG   58 (71)
Q Consensus        13 ~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~   58 (71)
                      -|++++|..++|||+|++++...+.  .|.-|-.+.|..+.+...+
T Consensus         2 krimliG~~g~GKTTL~q~L~~~~~--~~~KTq~i~~~~~~IDTPG   45 (143)
T PF10662_consen    2 KRIMLIGPSGSGKTTLAQALNGEEI--RYKKTQAIEYYDNTIDTPG   45 (143)
T ss_pred             ceEEEECCCCCCHHHHHHHHcCCCC--CcCccceeEecccEEECCh
Confidence            4899999999999999999987665  4555655555544443333

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

>PRK10512 selenocysteinyl-tRNA-specific translation factor; Provisional

Probab=98.26  E-value=5.3e-06  Score=55.68  Aligned_cols=54  Identities=13%  Similarity=0.132  Sum_probs=36.3

Q ss_pred             eEEEEeCCCCCHHHHHHHHHh---CcCCCCc--cCCcceeeEEEEEEeCCEEEEEEEcCCC
Q psy2514          14 TVVIVGNGAVGKSSMIQRYCR---GTFTRDY--KKTIGVKSSMIQRYCRGTFTRDYKKTIG   69 (71)
Q Consensus        14 ki~v~G~~~vGKtsl~~~~~~---~~f~~~~--~~t~~~~~~~~~~~~~~~~~l~i~Dt~G   69 (71)
                      -+.++|..++|||||+.++..   +.+.++.  ..|+...|.  .....+...+.+|||+|
T Consensus         2 ii~~~GhvdhGKTtLi~aLtg~~~dr~~eE~~rGiTI~l~~~--~~~~~~g~~i~~IDtPG   60 (614)
T PRK10512          2 IIATAGHVDHGKTTLLQAITGVNADRLPEEKKRGMTIDLGYA--YWPQPDGRVLGFIDVPG   60 (614)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCCCccchhcccCCceEEeeeE--EEecCCCcEEEEEECCC
Confidence            478899999999999999984   4555554  344433332  22222334589999998

>COG0218 Predicted GTPase [General function prediction only]

Probab=98.25  E-value=7.5e-06  Score=48.23  Aligned_cols=61  Identities=18%  Similarity=0.082  Sum_probs=39.0

Q ss_pred             ccCceeeeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCCEEEEEEEcCCC
Q psy2514           7 LRGSIKGTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRGTFTRDYKKTIG   69 (71)
Q Consensus         7 ~~~~~~~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G   69 (71)
                      ..++...-|+++|-++||||||++.+++.+--.....|.|..-..+-...++.  +.+.|..|
T Consensus        19 ~P~~~~~EIaF~GRSNVGKSSlIN~l~~~k~LArtSktPGrTq~iNff~~~~~--~~lVDlPG   79 (200)
T COG0218          19 YPEDDLPEIAFAGRSNVGKSSLINALTNQKNLARTSKTPGRTQLINFFEVDDE--LRLVDLPG   79 (200)
T ss_pred             CCCCCCcEEEEEccCcccHHHHHHHHhCCcceeecCCCCCccceeEEEEecCc--EEEEeCCC
Confidence            34556678999999999999999999985532223344443333333444443  56777655

>TIGR01394 TypA_BipA GTP-binding protein TypA/BipA

Probab=98.25  E-value=4e-06  Score=56.05  Aligned_cols=57  Identities=16%  Similarity=0.251  Sum_probs=38.0

Q ss_pred             eEEEEeCCCCCHHHHHHHHHh--CcCCCCc------------cCCcceeeEEEEEEe-CCEEEEEEEcCCCC
Q psy2514          14 TVVIVGNGAVGKSSMIQRYCR--GTFTRDY------------KKTIGVKSSMIQRYC-RGTFTRDYKKTIGA   70 (71)
Q Consensus        14 ki~v~G~~~vGKtsl~~~~~~--~~f~~~~------------~~t~~~~~~~~~~~~-~~~~~l~i~Dt~G~   70 (71)
                      +|+++|..++|||||+.+++.  +.|....            ....|+.+..+.... .+.+++++|||+|.
T Consensus         3 NIaIiGHvd~GKTTLv~~LL~~sg~~~~~~~v~~~~~D~~~~ErerGiTI~~~~~~v~~~~~kinlIDTPGh   74 (594)
T TIGR01394         3 NIAIIAHVDHGKTTLVDALLKQSGTFRANEAVAERVMDSNDLERERGITILAKNTAIRYNGTKINIVDTPGH   74 (594)
T ss_pred             EEEEEcCCCCCHHHHHHHHHHhcCCCcccccceeecccCchHHHhCCccEEeeeEEEEECCEEEEEEECCCH
Confidence            689999999999999999985  4554321            122344443332222 23588999999984

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.

>TIGR00485 EF-Tu translation elongation factor TU

Probab=98.24  E-value=6.4e-06  Score=52.54  Aligned_cols=27  Identities=15%  Similarity=0.170  Sum_probs=23.7

Q ss_pred             ccCceeeeEEEEeCCCCCHHHHHHHHH
Q psy2514           7 LRGSIKGTVVIVGNGAVGKSSMIQRYC   33 (71)
Q Consensus         7 ~~~~~~~ki~v~G~~~vGKtsl~~~~~   33 (71)
                      -+....++++++|..++|||+|+.+++
T Consensus         7 ~~~~~~~~i~i~Ghvd~GKStL~~~L~   33 (394)
T TIGR00485         7 ERTKPHVNIGTIGHVDHGKTTLTAAIT   33 (394)
T ss_pred             cCCCceEEEEEEeecCCCHHHHHHHHH
Confidence            445667999999999999999999986

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.

>COG1084 Predicted GTPase [General function prediction only]

Probab=98.23  E-value=9.6e-06  Score=50.93  Aligned_cols=59  Identities=25%  Similarity=0.231  Sum_probs=38.3

Q ss_pred             eeeeEEEEeCCCCCHHHHHHHHHhCcC-CCCccCCcceeeEEEEEEeCCEEEEEEEcCCCCC
Q psy2514          11 IKGTVVIVGNGAVGKSSMIQRYCRGTF-TRDYKKTIGVKSSMIQRYCRGTFTRDYKKTIGAL   71 (71)
Q Consensus        11 ~~~ki~v~G~~~vGKtsl~~~~~~~~f-~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~~   71 (71)
                      ....+++.|.++||||||+..+...+- ..+|.-|+- ....-.+ ..+-..+++.||.|=|
T Consensus       167 ~~pTivVaG~PNVGKSSlv~~lT~AkpEvA~YPFTTK-~i~vGhf-e~~~~R~QvIDTPGlL  226 (346)
T COG1084         167 DLPTIVVAGYPNVGKSSLVRKLTTAKPEVAPYPFTTK-GIHVGHF-ERGYLRIQVIDTPGLL  226 (346)
T ss_pred             CCCeEEEecCCCCcHHHHHHHHhcCCCccCCCCcccc-ceeEeee-ecCCceEEEecCCccc
Confidence            457899999999999999999986543 233432221 1211111 1234689999999854

>cd01849 YlqF_related_GTPase YlqF-related GTPases

Probab=98.19  E-value=9.5e-06  Score=45.50  Aligned_cols=55  Identities=20%  Similarity=0.063  Sum_probs=34.9

Q ss_pred             eeeeEEEEeCCCCCHHHHHHHHHhCcC-CCCccCCcceeeEEEEEEeCCEEEEEEEcCCC
Q psy2514          11 IKGTVVIVGNGAVGKSSMIQRYCRGTF-TRDYKKTIGVKSSMIQRYCRGTFTRDYKKTIG   69 (71)
Q Consensus        11 ~~~ki~v~G~~~vGKtsl~~~~~~~~f-~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G   69 (71)
                      ....++++|.+++||||+++.+....- .....|....+..  ....+  ..+.+.||.|
T Consensus        99 ~~~~~~~~G~~~~GKstlin~l~~~~~~~~~~~~~~t~~~~--~~~~~--~~~~liDtPG  154 (155)
T cd01849          99 KSITVGVIGYPNVGKSSVINALLNKLKLKVGNVPGTTTSQQ--EVKLD--NKIKLLDTPG  154 (155)
T ss_pred             cCcEEEEEccCCCCHHHHHHHHHccccccccCCCCcccceE--EEEec--CCEEEEECCC
Confidence            457899999999999999999986542 2222222221221  12222  3488999988

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.

>PRK04004 translation initiation factor IF-2; Validated

Probab=98.17  E-value=9e-06  Score=54.36  Aligned_cols=25  Identities=20%  Similarity=0.393  Sum_probs=21.6

Q ss_pred             eeEEEEeCCCCCHHHHHHHHHhCcC
Q psy2514          13 GTVVIVGNGAVGKSSMIQRYCRGTF   37 (71)
Q Consensus        13 ~ki~v~G~~~vGKtsl~~~~~~~~f   37 (71)
                      ..|+++|..++|||||+.++....+
T Consensus         7 p~V~i~Gh~~~GKTSLl~~l~~~~v   31 (586)
T PRK04004          7 PIVVVLGHVDHGKTTLLDKIRGTAV   31 (586)
T ss_pred             cEEEEECCCCCCHHHHHHHHhCccc
Confidence            4699999999999999999976544

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

Probab=98.15  E-value=5.4e-06  Score=53.25  Aligned_cols=30  Identities=17%  Similarity=0.182  Sum_probs=25.3

Q ss_pred             ccccCceeeeEEEEeCCCCCHHHHHHHHHh
Q psy2514           5 WVLRGSIKGTVVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus         5 ~~~~~~~~~ki~v~G~~~vGKtsl~~~~~~   34 (71)
                      |+.++...++++++|..++|||||+.++..
T Consensus         2 ~~~~~~~~~ni~v~Gh~d~GKSTL~~~L~~   31 (411)
T PRK04000          2 MWEKVQPEVNIGMVGHVDHGKTTLVQALTG   31 (411)
T ss_pred             CcccCCCcEEEEEEccCCCCHHHHHHHhhC
Confidence            445667789999999999999999988853

>PRK13351 elongation factor G; Reviewed

Probab=98.14  E-value=6e-06  Score=55.83  Aligned_cols=58  Identities=16%  Similarity=0.058  Sum_probs=38.3

Q ss_pred             ceeeeEEEEeCCCCCHHHHHHHHHhCc-------------CCC-------CccCCcceeeEEEEEEeCCEEEEEEEcCCC
Q psy2514          10 SIKGTVVIVGNGAVGKSSMIQRYCRGT-------------FTR-------DYKKTIGVKSSMIQRYCRGTFTRDYKKTIG   69 (71)
Q Consensus        10 ~~~~ki~v~G~~~vGKtsl~~~~~~~~-------------f~~-------~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G   69 (71)
                      ....+++++|..++|||||+.+++...             +..       ++..|+...+  ..+.. +.+.+++|||+|
T Consensus         6 ~~irni~iiG~~~~GKTtL~~~ll~~~g~~~~~~~v~~~~~~~d~~~~e~~r~~ti~~~~--~~~~~-~~~~i~liDtPG   82 (687)
T PRK13351          6 MQIRNIGILAHIDAGKTTLTERILFYTGKIHKMGEVEDGTTVTDWMPQEQERGITIESAA--TSCDW-DNHRINLIDTPG   82 (687)
T ss_pred             ccccEEEEECCCCCcchhHHHHHHHhcCCccccccccCCcccCCCCHHHHhcCCCcccce--EEEEE-CCEEEEEEECCC
Confidence            346899999999999999999998421             111       1233443322  22222 357899999998


Q ss_pred             C
Q psy2514          70 A   70 (71)
Q Consensus        70 ~   70 (71)
                      .
T Consensus        83 ~   83 (687)
T PRK13351         83 H   83 (687)
T ss_pred             c
Confidence            5

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

Probab=98.13  E-value=2.1e-05  Score=48.12  Aligned_cols=21  Identities=19%  Similarity=0.294  Sum_probs=18.8

Q ss_pred             eEEEEeCCCCCHHHHHHHHHh
Q psy2514          14 TVVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus        14 ki~v~G~~~vGKtsl~~~~~~   34 (71)
                      +++++|.+++|||||+.+++.
T Consensus         1 nv~ivGh~~~GKTtL~~~Ll~   21 (270)
T cd01886           1 NIGIIAHIDAGKTTTTERILY   21 (270)
T ss_pred             CEEEEcCCCCCHHHHHHHHHH
Confidence            478999999999999999873

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

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

Probab=98.11  E-value=1.2e-06  Score=50.93  Aligned_cols=57  Identities=14%  Similarity=0.173  Sum_probs=31.6

Q ss_pred             eeeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCCEEEEEEEcCCCC
Q psy2514          12 KGTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRGTFTRDYKKTIGA   70 (71)
Q Consensus        12 ~~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~   70 (71)
                      .-.++++|++++|||+|..++..+.+...+.+ +..... ........-.+.+.|+.|.
T Consensus         3 ~~~vlL~Gps~SGKTaLf~~L~~~~~~~T~tS-~e~n~~-~~~~~~~~~~~~lvD~PGH   59 (181)
T PF09439_consen    3 RPTVLLVGPSGSGKTALFSQLVNGKTVPTVTS-MENNIA-YNVNNSKGKKLRLVDIPGH   59 (181)
T ss_dssp             --EEEEE-STTSSHHHHHHHHHHSS---B----SSEEEE-CCGSSTCGTCECEEEETT-
T ss_pred             CceEEEEcCCCCCHHHHHHHHhcCCcCCeecc-ccCCce-EEeecCCCCEEEEEECCCc
Confidence            34689999999999999999999977654332 232221 1111122345788888773

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

>CHL00071 tufA elongation factor Tu

Probab=98.11  E-value=2.6e-05  Score=50.08  Aligned_cols=34  Identities=15%  Similarity=0.092  Sum_probs=27.1

Q ss_pred             CcccccccCceeeeEEEEeCCCCCHHHHHHHHHh
Q psy2514           1 MLNLWVLRGSIKGTVVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus         1 m~~~~~~~~~~~~ki~v~G~~~vGKtsl~~~~~~   34 (71)
                      |..+.-.++...++++++|..++|||||+.+++.
T Consensus         1 ~~~~~~~~~~~~~~i~i~Gh~d~GKSTL~~~Ll~   34 (409)
T CHL00071          1 MAREKFERKKPHVNIGTIGHVDHGKTTLTAAITM   34 (409)
T ss_pred             CchhhccCCCCeEEEEEECCCCCCHHHHHHHHHH
Confidence            3334444556679999999999999999999985

>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=98.09  E-value=4e-06  Score=47.96  Aligned_cols=23  Identities=39%  Similarity=0.550  Sum_probs=20.3

Q ss_pred             eeEEEEeCCCCCHHHHHHHHHhC
Q psy2514          13 GTVVIVGNGAVGKSSMIQRYCRG   35 (71)
Q Consensus        13 ~ki~v~G~~~vGKtsl~~~~~~~   35 (71)
                      --++++|.+|||||||++.+...
T Consensus        36 k~~vl~G~SGvGKSSLiN~L~~~   58 (161)
T PF03193_consen   36 KTSVLLGQSGVGKSSLINALLPE   58 (161)
T ss_dssp             SEEEEECSTTSSHHHHHHHHHTS
T ss_pred             CEEEEECCCCCCHHHHHHHHHhh
Confidence            45788999999999999999865

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.

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

Probab=98.09  E-value=2.5e-05  Score=52.69  Aligned_cols=57  Identities=21%  Similarity=0.278  Sum_probs=40.5

Q ss_pred             eeeEEEEeCCCCCHHHHHHHHHhCc-CCCCccCCcceeeEEEEEEeCCEEEEEEEcCCCC
Q psy2514          12 KGTVVIVGNGAVGKSSMIQRYCRGT-FTRDYKKTIGVKSSMIQRYCRGTFTRDYKKTIGA   70 (71)
Q Consensus        12 ~~ki~v~G~~~vGKtsl~~~~~~~~-f~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~   70 (71)
                      +.+++++|+++||||+|.++++..+ ...++ |.+-++-+.-....++ .++++.|..|.
T Consensus         3 ~~~valvGNPNvGKTtlFN~LTG~~q~VgNw-pGvTVEkkeg~~~~~~-~~i~ivDLPG~   60 (653)
T COG0370           3 KLTVALVGNPNVGKTTLFNALTGANQKVGNW-PGVTVEKKEGKLKYKG-HEIEIVDLPGT   60 (653)
T ss_pred             cceEEEecCCCccHHHHHHHHhccCceecCC-CCeeEEEEEEEEEecC-ceEEEEeCCCc
Confidence            4569999999999999999999643 34444 6666555544444444 34889998874

>PRK12735 elongation factor Tu; Reviewed

Probab=98.08  E-value=2.5e-05  Score=49.93  Aligned_cols=29  Identities=17%  Similarity=0.194  Sum_probs=25.0

Q ss_pred             cccCceeeeEEEEeCCCCCHHHHHHHHHh
Q psy2514           6 VLRGSIKGTVVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus         6 ~~~~~~~~ki~v~G~~~vGKtsl~~~~~~   34 (71)
                      -.+....++++++|..++|||||+.+++.
T Consensus         6 ~~~~~~~~~i~iiGhvd~GKSTL~~~L~~   34 (396)
T PRK12735          6 FERTKPHVNVGTIGHVDHGKTTLTAAITK   34 (396)
T ss_pred             cCCCCCeEEEEEECcCCCCHHHHHHHHHH
Confidence            34556779999999999999999999985

>TIGR00503 prfC peptide chain release factor 3

Probab=98.08  E-value=2.2e-05  Score=51.99  Aligned_cols=61  Identities=15%  Similarity=0.184  Sum_probs=39.5

Q ss_pred             ceeeeEEEEeCCCCCHHHHHHHHHh-CcCCC-------------------CccCCcceeeEEEEEEe-CCEEEEEEEcCC
Q psy2514          10 SIKGTVVIVGNGAVGKSSMIQRYCR-GTFTR-------------------DYKKTIGVKSSMIQRYC-RGTFTRDYKKTI   68 (71)
Q Consensus        10 ~~~~ki~v~G~~~vGKtsl~~~~~~-~~f~~-------------------~~~~t~~~~~~~~~~~~-~~~~~l~i~Dt~   68 (71)
                      ....+++++|..++|||||+.+++. .....                   ......|+.+....... .+.+.+++|||+
T Consensus         9 ~~~RniaiiGh~~aGKTTL~e~Ll~~~g~i~~~g~v~~~g~~~~t~~D~~~~E~~rgisi~~~~~~~~~~~~~inliDTP   88 (527)
T TIGR00503         9 DKRRTFAIISHPDAGKTTITEKVLLYGGAIQTAGAVKGRGSQRHAKSDWMEMEKQRGISITTSVMQFPYRDCLVNLLDTP   88 (527)
T ss_pred             ccCCEEEEEcCCCCCHHHHHHHHHHhCCCccccceeccccccccccCCCCHHHHhcCCcEEEEEEEEeeCCeEEEEEECC
Confidence            4567999999999999999999863 21111                   01122344444433333 346889999999


Q ss_pred             CC
Q psy2514          69 GA   70 (71)
Q Consensus        69 G~   70 (71)
                      |.
T Consensus        89 G~   90 (527)
T TIGR00503        89 GH   90 (527)
T ss_pred             Ch
Confidence            84

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.

>PRK00741 prfC peptide chain release factor 3; Provisional

Probab=98.08  E-value=1e-05  Score=53.47  Aligned_cols=61  Identities=16%  Similarity=0.225  Sum_probs=38.1

Q ss_pred             ceeeeEEEEeCCCCCHHHHHHHHHh--CcCC---------------CC---ccCCcceeeEEEEEEe-CCEEEEEEEcCC
Q psy2514          10 SIKGTVVIVGNGAVGKSSMIQRYCR--GTFT---------------RD---YKKTIGVKSSMIQRYC-RGTFTRDYKKTI   68 (71)
Q Consensus        10 ~~~~ki~v~G~~~vGKtsl~~~~~~--~~f~---------------~~---~~~t~~~~~~~~~~~~-~~~~~l~i~Dt~   68 (71)
                      ....+++++|..++|||||+.+++.  +...               .+   .....|..+....... .+.+.+++|||+
T Consensus         8 ~~~Rni~IiGh~daGKTTL~e~Ll~~~g~i~~~g~v~~~~~~~~~~~D~~~~E~~rgiSi~~~~~~~~~~~~~inliDTP   87 (526)
T PRK00741          8 AKRRTFAIISHPDAGKTTLTEKLLLFGGAIQEAGTVKGRKSGRHATSDWMEMEKQRGISVTSSVMQFPYRDCLINLLDTP   87 (526)
T ss_pred             hcCCEEEEECCCCCCHHHHHHHHHHhCCCccccceeeccccCccccCCCcHHHHhhCCceeeeeEEEEECCEEEEEEECC
Confidence            3457999999999999999999873  1110               00   0112233333333322 235889999999


Q ss_pred             CC
Q psy2514          69 GA   70 (71)
Q Consensus        69 G~   70 (71)
                      |.
T Consensus        88 G~   89 (526)
T PRK00741         88 GH   89 (526)
T ss_pred             Cc
Confidence            84

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

Probab=98.06  E-value=1.8e-05  Score=46.23  Aligned_cols=22  Identities=23%  Similarity=0.344  Sum_probs=19.1

Q ss_pred             eeEEEEeCCCCCHHHHHHHHHh
Q psy2514          13 GTVVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus        13 ~ki~v~G~~~vGKtsl~~~~~~   34 (71)
                      +++.++|..++|||+|+..+..
T Consensus         1 ~~i~~~g~~~~GKttL~~~l~~   22 (203)
T cd01888           1 INIGTIGHVAHGKSTLVKALSG   22 (203)
T ss_pred             CEEEEECCCCCCHHHHHHHHhC
Confidence            3688999999999999998853

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

>PRK12288 GTPase RsgA; Reviewed

Probab=98.04  E-value=7.8e-06  Score=51.63  Aligned_cols=22  Identities=36%  Similarity=0.555  Sum_probs=19.6

Q ss_pred             EEEEeCCCCCHHHHHHHHHhCc
Q psy2514          15 VVIVGNGAVGKSSMIQRYCRGT   36 (71)
Q Consensus        15 i~v~G~~~vGKtsl~~~~~~~~   36 (71)
                      ++++|.+|||||||++++....
T Consensus       208 ~~~vG~sgVGKSTLiN~Ll~~~  229 (347)
T PRK12288        208 SIFVGQSGVGKSSLINALLPEA  229 (347)
T ss_pred             EEEECCCCCCHHHHHHHhcccc
Confidence            6899999999999999998543

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

Probab=98.02  E-value=2.7e-05  Score=46.03  Aligned_cols=20  Identities=25%  Similarity=0.444  Sum_probs=18.2

Q ss_pred             eEEEEeCCCCCHHHHHHHHH
Q psy2514          14 TVVIVGNGAVGKSSMIQRYC   33 (71)
Q Consensus        14 ki~v~G~~~vGKtsl~~~~~   33 (71)
                      +++++|..++|||+|+.+++
T Consensus         1 nv~i~Gh~~~GKttL~~~ll   20 (219)
T cd01883           1 NLVVIGHVDAGKSTTTGHLL   20 (219)
T ss_pred             CEEEecCCCCChHHHHHHHH
Confidence            47899999999999999886

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

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

Probab=98.02  E-value=1.9e-05  Score=47.02  Aligned_cols=60  Identities=17%  Similarity=0.085  Sum_probs=40.1

Q ss_pred             eeeeEEEEeCCCCCHHHHHHHHHhC--cCCCC---ccCCcceeeEEEEEEeCCEEEEEEEcCCCC
Q psy2514          11 IKGTVVIVGNGAVGKSSMIQRYCRG--TFTRD---YKKTIGVKSSMIQRYCRGTFTRDYKKTIGA   70 (71)
Q Consensus        11 ~~~ki~v~G~~~vGKtsl~~~~~~~--~f~~~---~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~   70 (71)
                      ...-|.++|..++|||+|++++...  .|.-.   ...|.|+-.............+-+.||.|.
T Consensus         6 ~v~vvsv~G~~~sGKS~llN~l~~~~~~f~~~~~~~~~T~gi~~~~~~~~~~~~~~v~~lDteG~   70 (224)
T cd01851           6 PVAVVSVFGPQSSGKSFLLNHLFGTLSGFDVMDTSQQTTKGIWMWSVPFKLGKEHAVLLLDTEGT   70 (224)
T ss_pred             CEEEEEEECCCCCCHHHHHHHHhCCCCCeEecCCCCCCccceEEEeccccCCCcceEEEEecCCc
Confidence            3466889999999999999999987  66432   234455433222222223567899999885

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

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

Probab=98.02  E-value=9e-06  Score=51.88  Aligned_cols=25  Identities=24%  Similarity=0.348  Sum_probs=21.0

Q ss_pred             ceeeeEEEEeCCCCCHHHHHHHHHh
Q psy2514          10 SIKGTVVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus        10 ~~~~ki~v~G~~~vGKtsl~~~~~~   34 (71)
                      ...++|+|.|++|+|||||++.+..
T Consensus        33 ~~~l~IaV~G~sGsGKSSfINalrG   57 (376)
T PF05049_consen   33 NAPLNIAVTGESGSGKSSFINALRG   57 (376)
T ss_dssp             H--EEEEEEESTTSSHHHHHHHHTT
T ss_pred             cCceEEEEECCCCCCHHHHHHHHhC
Confidence            3568999999999999999999864

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.

>PRK12289 GTPase RsgA; Reviewed

Probab=97.99  E-value=2.2e-05  Score=49.71  Aligned_cols=21  Identities=43%  Similarity=0.653  Sum_probs=19.3

Q ss_pred             EEEEeCCCCCHHHHHHHHHhC
Q psy2514          15 VVIVGNGAVGKSSMIQRYCRG   35 (71)
Q Consensus        15 i~v~G~~~vGKtsl~~~~~~~   35 (71)
                      ++++|.+|||||||++.+..+
T Consensus       175 ~v~iG~SgVGKSSLIN~L~~~  195 (352)
T PRK12289        175 TVVAGPSGVGKSSLINRLIPD  195 (352)
T ss_pred             EEEEeCCCCCHHHHHHHHcCc
Confidence            799999999999999999854

>TIGR03597 GTPase_YqeH ribosome biogenesis GTPase YqeH

Probab=97.95  E-value=3.3e-05  Score=48.91  Aligned_cols=23  Identities=39%  Similarity=0.561  Sum_probs=21.1

Q ss_pred             eeEEEEeCCCCCHHHHHHHHHhC
Q psy2514          13 GTVVIVGNGAVGKSSMIQRYCRG   35 (71)
Q Consensus        13 ~ki~v~G~~~vGKtsl~~~~~~~   35 (71)
                      .+++++|.++||||||++++...
T Consensus       155 ~~v~~vG~~nvGKStliN~l~~~  177 (360)
T TIGR03597       155 KDVYVVGVTNVGKSSLINKLLKQ  177 (360)
T ss_pred             CeEEEECCCCCCHHHHHHHHHhh
Confidence            58999999999999999999864

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.

>TIGR00157 ribosome small subunit-dependent GTPase A

Probab=97.95  E-value=3.9e-05  Score=46.28  Aligned_cols=23  Identities=35%  Similarity=0.449  Sum_probs=20.3

Q ss_pred             eeEEEEeCCCCCHHHHHHHHHhC
Q psy2514          13 GTVVIVGNGAVGKSSMIQRYCRG   35 (71)
Q Consensus        13 ~ki~v~G~~~vGKtsl~~~~~~~   35 (71)
                      ..++++|.+|||||||++++...
T Consensus       121 ~~~~~~G~sgvGKStLiN~L~~~  143 (245)
T TIGR00157       121 RISVFAGQSGVGKSSLINALDPS  143 (245)
T ss_pred             CEEEEECCCCCCHHHHHHHHhhh
Confidence            36789999999999999999864

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

>PRK12736 elongation factor Tu; Reviewed

Probab=97.95  E-value=5.3e-05  Score=48.44  Aligned_cols=28  Identities=14%  Similarity=0.200  Sum_probs=24.1

Q ss_pred             ccCceeeeEEEEeCCCCCHHHHHHHHHh
Q psy2514           7 LRGSIKGTVVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus         7 ~~~~~~~ki~v~G~~~vGKtsl~~~~~~   34 (71)
                      .+....++++++|..++|||||+.+++.
T Consensus         7 ~~~k~~~ni~i~Ghvd~GKSTL~~~L~~   34 (394)
T PRK12736          7 DRSKPHVNIGTIGHVDHGKTTLTAAITK   34 (394)
T ss_pred             ccCCCeeEEEEEccCCCcHHHHHHHHHh
Confidence            3455679999999999999999999874

>cd01854 YjeQ_engC YjeQ/EngC

Probab=97.94  E-value=1.4e-05  Score=49.24  Aligned_cols=25  Identities=36%  Similarity=0.453  Sum_probs=21.3

Q ss_pred             eeEEEEeCCCCCHHHHHHHHHhCcC
Q psy2514          13 GTVVIVGNGAVGKSSMIQRYCRGTF   37 (71)
Q Consensus        13 ~ki~v~G~~~vGKtsl~~~~~~~~f   37 (71)
                      ..++++|.+|+|||||++.+.....
T Consensus       162 k~~~~~G~sg~GKSTlin~l~~~~~  186 (287)
T cd01854         162 KTSVLVGQSGVGKSTLINALLPDLD  186 (287)
T ss_pred             ceEEEECCCCCCHHHHHHHHhchhh
Confidence            4689999999999999999886443

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.

>PLN03126 Elongation factor Tu; Provisional

Probab=97.93  E-value=7.5e-05  Score=49.00  Aligned_cols=26  Identities=12%  Similarity=0.139  Sum_probs=23.1

Q ss_pred             CceeeeEEEEeCCCCCHHHHHHHHHh
Q psy2514           9 GSIKGTVVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus         9 ~~~~~ki~v~G~~~vGKtsl~~~~~~   34 (71)
                      ....++++++|..++|||+|+.+++.
T Consensus        78 ~k~~~ni~iiGhvd~GKSTLi~~Ll~  103 (478)
T PLN03126         78 KKPHVNIGTIGHVDHGKTTLTAALTM  103 (478)
T ss_pred             cCCeeEEEEECCCCCCHHHHHHHHHH
Confidence            45568999999999999999999984

>COG2229 Predicted GTPase [General function prediction only]

Probab=97.93  E-value=5.2e-05  Score=44.17  Aligned_cols=61  Identities=16%  Similarity=0.200  Sum_probs=42.9

Q ss_pred             cCceeeeEEEEeCCCCCHHHHHHHHHhCcC--------CCCcc----CCcceeeEEEEEEeCCEEEEEEEcCCCC
Q psy2514           8 RGSIKGTVVIVGNGAVGKSSMIQRYCRGTF--------TRDYK----KTIGVKSSMIQRYCRGTFTRDYKKTIGA   70 (71)
Q Consensus         8 ~~~~~~ki~v~G~~~vGKtsl~~~~~~~~f--------~~~~~----~t~~~~~~~~~~~~~~~~~l~i~Dt~G~   70 (71)
                      ......||++.|+.++|||+++++..+...        ..++.    .|+..||-.-  ..++...+.++||.|+
T Consensus         6 ~k~~~~KIvv~G~~~agKtTfv~~~s~k~~v~t~~~~~~~s~k~kr~tTva~D~g~~--~~~~~~~v~LfgtPGq   78 (187)
T COG2229           6 NKMIETKIVVIGPVGAGKTTFVRALSDKPLVITEADASSVSGKGKRPTTVAMDFGSI--ELDEDTGVHLFGTPGQ   78 (187)
T ss_pred             ccccceeEEEEcccccchhhHHHHhhccccceeeccccccccccccceeEeecccce--EEcCcceEEEecCCCc
Confidence            445679999999999999999999987664        11222    3455555332  2344577899999986

>PRK13796 GTPase YqeH; Provisional

Probab=97.93  E-value=3.5e-05  Score=48.89  Aligned_cols=24  Identities=38%  Similarity=0.541  Sum_probs=21.1

Q ss_pred             eeeEEEEeCCCCCHHHHHHHHHhC
Q psy2514          12 KGTVVIVGNGAVGKSSMIQRYCRG   35 (71)
Q Consensus        12 ~~ki~v~G~~~vGKtsl~~~~~~~   35 (71)
                      ..++.++|.++||||||++++...
T Consensus       160 ~~~v~vvG~~NvGKSTLiN~L~~~  183 (365)
T PRK13796        160 GRDVYVVGVTNVGKSTLINRIIKE  183 (365)
T ss_pred             CCeEEEEcCCCCcHHHHHHHHHhh
Confidence            357899999999999999999853

>PF00009 GTP_EFTU: Elongation factor Tu GTP binding domain; InterPro: IPR000795 Elongation factors belong to a family of proteins that promote the GTP-dependent binding of aminoacyl tRNA to the A site of ribosomes during protein biosynthesis, and catalyse the translocation of the synthesised protein chain from the A to the P site

Probab=97.92  E-value=1.2e-05  Score=46.28  Aligned_cols=24  Identities=17%  Similarity=0.336  Sum_probs=21.3

Q ss_pred             eeeEEEEeCCCCCHHHHHHHHHhC
Q psy2514          12 KGTVVIVGNGAVGKSSMIQRYCRG   35 (71)
Q Consensus        12 ~~ki~v~G~~~vGKtsl~~~~~~~   35 (71)
                      ..+|+++|..++|||+|+.++...
T Consensus         3 ~~~I~i~G~~~sGKTTL~~~L~~~   26 (188)
T PF00009_consen    3 IRNIAIIGHVDSGKTTLLGALLGK   26 (188)
T ss_dssp             EEEEEEEESTTSSHHHHHHHHHHH
T ss_pred             EEEEEEECCCCCCcEeechhhhhh
Confidence            478999999999999999998843

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 ....

>TIGR00484 EF-G translation elongation factor EF-G

Probab=97.92  E-value=5.6e-05  Score=51.31  Aligned_cols=60  Identities=15%  Similarity=0.181  Sum_probs=37.4

Q ss_pred             ceeeeEEEEeCCCCCHHHHHHHHHh--CcCC--CCc--------------cCCcceeeEEEEEEeCCEEEEEEEcCCCC
Q psy2514          10 SIKGTVVIVGNGAVGKSSMIQRYCR--GTFT--RDY--------------KKTIGVKSSMIQRYCRGTFTRDYKKTIGA   70 (71)
Q Consensus        10 ~~~~ki~v~G~~~vGKtsl~~~~~~--~~f~--~~~--------------~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~   70 (71)
                      ....+++++|..++|||||+.+++.  +...  ...              ...+..+.....+..+ ...+.+|||+|.
T Consensus         8 ~~irni~iiG~~~~GKsTL~~~ll~~~g~~~~~~~~~~g~~~~D~~~~e~~rgiti~~~~~~~~~~-~~~i~liDTPG~   85 (689)
T TIGR00484         8 NRFRNIGISAHIDAGKTTTTERILFYTGRIHKIGEVHDGAATMDWMEQEKERGITITSAATTVFWK-GHRINIIDTPGH   85 (689)
T ss_pred             ccccEEEEECCCCCCHHHHHHHHHHhCCCccccccccCCccccCCCHHHHhcCCCEecceEEEEEC-CeEEEEEECCCC
Confidence            3456999999999999999999973  1110  000              1122222233333333 478999999984

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.

>cd01884 EF_Tu EF-Tu subfamily

Probab=97.89  E-value=7.9e-05  Score=43.57  Aligned_cols=23  Identities=17%  Similarity=0.267  Sum_probs=20.8

Q ss_pred             eeeEEEEeCCCCCHHHHHHHHHh
Q psy2514          12 KGTVVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus        12 ~~ki~v~G~~~vGKtsl~~~~~~   34 (71)
                      .++++++|..++|||+|+.+++.
T Consensus         2 ~~ni~iiGh~~~GKTTL~~~Ll~   24 (195)
T cd01884           2 HVNVGTIGHVDHGKTTLTAAITK   24 (195)
T ss_pred             cEEEEEECCCCCCHHHHHHHHHH
Confidence            47899999999999999999875

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.

>COG1163 DRG Predicted GTPase [General function prediction only]

Probab=97.88  E-value=7.4e-05  Score=47.15  Aligned_cols=60  Identities=23%  Similarity=0.206  Sum_probs=38.3

Q ss_pred             cCceeeeEEEEeCCCCCHHHHHHHHHhCcC-CCCccCCcceeeEEEEEEeCCEEEEEEEcCCC
Q psy2514           8 RGSIKGTVVIVGNGAVGKSSMIQRYCRGTF-TRDYKKTIGVKSSMIQRYCRGTFTRDYKKTIG   69 (71)
Q Consensus         8 ~~~~~~ki~v~G~~~vGKtsl~~~~~~~~f-~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G   69 (71)
                      .+.--..++++|.++||||||+..+.+-.. ..+|.-|+- .-.--++..++ ..+++.|+.|
T Consensus        59 ~KsGda~v~lVGfPsvGKStLL~~LTnt~seva~y~FTTl-~~VPG~l~Y~g-a~IQild~Pg  119 (365)
T COG1163          59 KKSGDATVALVGFPSVGKSTLLNKLTNTKSEVADYPFTTL-EPVPGMLEYKG-AQIQLLDLPG  119 (365)
T ss_pred             eccCCeEEEEEcCCCccHHHHHHHHhCCCccccccCceec-ccccceEeecC-ceEEEEcCcc
Confidence            344457899999999999999999985332 234433322 12222333344 6788999865

>PRK00098 GTPase RsgA; Reviewed

Probab=97.87  E-value=2.1e-05  Score=48.59  Aligned_cols=24  Identities=25%  Similarity=0.479  Sum_probs=20.5

Q ss_pred             eeEEEEeCCCCCHHHHHHHHHhCc
Q psy2514          13 GTVVIVGNGAVGKSSMIQRYCRGT   36 (71)
Q Consensus        13 ~ki~v~G~~~vGKtsl~~~~~~~~   36 (71)
                      ..++++|.+|||||||++.+....
T Consensus       165 k~~~~~G~sgvGKStlin~l~~~~  188 (298)
T PRK00098        165 KVTVLAGQSGVGKSTLLNALAPDL  188 (298)
T ss_pred             ceEEEECCCCCCHHHHHHHHhCCc
Confidence            458899999999999999998543

>cd01885 EF2 EF2 (for archaea and eukarya)

Probab=97.86  E-value=6.6e-05  Score=44.81  Aligned_cols=21  Identities=14%  Similarity=0.306  Sum_probs=19.1

Q ss_pred             eEEEEeCCCCCHHHHHHHHHh
Q psy2514          14 TVVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus        14 ki~v~G~~~vGKtsl~~~~~~   34 (71)
                      +++++|..+.|||+|+.+++.
T Consensus         2 NvaiiGhvd~GKTTL~d~Ll~   22 (222)
T cd01885           2 NICIIAHVDHGKTTLSDSLLA   22 (222)
T ss_pred             eEEEECCCCCCHHHHHHHHHH
Confidence            589999999999999999874

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

>PF03266 NTPase_1: NTPase; InterPro: IPR004948 This entry represents a family of nucleoside-triphosphatases which have activity towards ATP, GTP, CTP, TTP and UTP and may hydrolyse nucleoside diphosphates with lower efficiency []

Probab=97.86  E-value=4.1e-05  Score=43.95  Aligned_cols=51  Identities=16%  Similarity=0.159  Sum_probs=31.1

Q ss_pred             eEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCC-EEEEEEEcC
Q psy2514          14 TVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRG-TFTRDYKKT   67 (71)
Q Consensus        14 ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~-~~~l~i~Dt   67 (71)
                      ++++-|++|+|||+++.+++..- .....+.-|  |....+..++ .+-+.+.|.
T Consensus         1 ~i~iTG~pG~GKTTll~k~i~~l-~~~~~~v~G--f~t~evr~~g~r~GF~iv~l   52 (168)
T PF03266_consen    1 HIFITGPPGVGKTTLLKKVIEEL-KKKGLPVGG--FYTEEVRENGRRIGFDIVDL   52 (168)
T ss_dssp             EEEEES-TTSSHHHHHHHHHHHH-HHTCGGEEE--EEEEEEETTSSEEEEEEEET
T ss_pred             CEEEECcCCCCHHHHHHHHHHHh-hccCCccce--EEeecccCCCceEEEEEEEC
Confidence            68899999999999999987422 111223444  5555544443 555555554

It includes proteins from bacteria to human, and the function was determined first in a hyperthermophilic bacterium to be an NTPase []. The structure of one member-sequence represents a variation of the RecA fold, and implies that the function might be that of a DNA/RNA modifying enzyme []. The sequence carries both a Walker A and Walker B motif which together are characteristic of ATPases or GTPases. The protein exhibits an increased expression profile in human liver cholangiocarcinoma when compared to normal tissue [].; GO: 0005524 ATP binding, 0016740 transferase activity, 0019204 nucleotide phosphatase activity; PDB: 1YE8_A 2I3B_A.

>TIGR03680 eif2g_arch translation initiation factor 2 subunit gamma

Probab=97.82  E-value=6.6e-05  Score=48.18  Aligned_cols=24  Identities=17%  Similarity=0.253  Sum_probs=21.4

Q ss_pred             eeeeEEEEeCCCCCHHHHHHHHHh
Q psy2514          11 IKGTVVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus        11 ~~~ki~v~G~~~vGKtsl~~~~~~   34 (71)
                      ..++++++|..++|||||+.++..
T Consensus         3 ~~~~i~iiG~~~~GKSTL~~~Lt~   26 (406)
T TIGR03680         3 PEVNIGMVGHVDHGKTTLTKALTG   26 (406)
T ss_pred             ceEEEEEEccCCCCHHHHHHHHhC
Confidence            468999999999999999988863

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

>PRK00049 elongation factor Tu; Reviewed

Probab=97.81  E-value=0.00015  Score=46.50  Aligned_cols=28  Identities=18%  Similarity=0.200  Sum_probs=24.3

Q ss_pred             ccCceeeeEEEEeCCCCCHHHHHHHHHh
Q psy2514           7 LRGSIKGTVVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus         7 ~~~~~~~ki~v~G~~~vGKtsl~~~~~~   34 (71)
                      -+....++++++|..++|||||+.+++.
T Consensus         7 ~~~~~~~ni~iiGhvd~GKSTL~~~L~~   34 (396)
T PRK00049          7 ERTKPHVNVGTIGHVDHGKTTLTAAITK   34 (396)
T ss_pred             cCCCCEEEEEEEeECCCCHHHHHHHHHH
Confidence            3456679999999999999999999885

>PRK14738 gmk guanylate kinase; Provisional

Probab=97.81  E-value=4.7e-05  Score=44.75  Aligned_cols=35  Identities=31%  Similarity=0.524  Sum_probs=26.0

Q ss_pred             CcccccccCc-eeeeEEEEeCCCCCHHHHHHHHHhC
Q psy2514           1 MLNLWVLRGS-IKGTVVIVGNGAVGKSSMIQRYCRG   35 (71)
Q Consensus         1 m~~~~~~~~~-~~~ki~v~G~~~vGKtsl~~~~~~~   35 (71)
                      |.|++..+++ ...-++++|.+|+|||+++..+...
T Consensus         1 ~~~~~~~~~~~~~~~ivi~GpsG~GK~tl~~~L~~~   36 (206)
T PRK14738          1 MMNPWLFNKPAKPLLVVISGPSGVGKDAVLARMRER   36 (206)
T ss_pred             CCCccccCCCCCCeEEEEECcCCCCHHHHHHHHHhc
Confidence            5566665544 4456678899999999999998753

>PF13207 AAA_17: AAA domain; PDB: 3AKC_A 3AKE_A 3AKD_A 2QL6_G 2QT1_A 2QSZ_A 2QSY_A 2QT0_A 2QG6_A 2P0E_A

Probab=97.76  E-value=4.6e-05  Score=40.71  Aligned_cols=22  Identities=23%  Similarity=0.457  Sum_probs=19.5

Q ss_pred             eEEEEeCCCCCHHHHHHHHHhC
Q psy2514          14 TVVIVGNGAVGKSSMIQRYCRG   35 (71)
Q Consensus        14 ki~v~G~~~vGKtsl~~~~~~~   35 (71)
                      .|++.|.+|+|||+++..+...
T Consensus         1 vI~I~G~~gsGKST~a~~La~~   22 (121)
T PF13207_consen    1 VIIISGPPGSGKSTLAKELAER   22 (121)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHH
T ss_pred             CEEEECCCCCCHHHHHHHHHHH
Confidence            4789999999999999988864

...

>PRK12739 elongation factor G; Reviewed

Probab=97.74  E-value=0.00023  Score=48.47  Aligned_cols=25  Identities=16%  Similarity=0.190  Sum_probs=21.9

Q ss_pred             ceeeeEEEEeCCCCCHHHHHHHHHh
Q psy2514          10 SIKGTVVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus        10 ~~~~ki~v~G~~~vGKtsl~~~~~~   34 (71)
                      ....+++++|..++|||||+.+++.
T Consensus         6 ~~irni~iiGh~~~GKsTL~~~ll~   30 (691)
T PRK12739          6 EKTRNIGIMAHIDAGKTTTTERILY   30 (691)
T ss_pred             cCeeEEEEECCCCCCHHHHHHHHHH
Confidence            3467899999999999999999974

>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=97.72  E-value=0.00041  Score=38.87  Aligned_cols=33  Identities=24%  Similarity=0.317  Sum_probs=26.0

Q ss_pred             EEEEeCCCCCHHHHHHHHHhCc-CCCCccCCcce
Q psy2514          15 VVIVGNGAVGKSSMIQRYCRGT-FTRDYKKTIGV   47 (71)
Q Consensus        15 i~v~G~~~vGKtsl~~~~~~~~-f~~~~~~t~~~   47 (71)
                      |+++|..++|||||++.++... ++....|+...
T Consensus         1 V~v~G~~ssGKSTliNaLlG~~ilp~~~~~~T~~   34 (168)
T PF00350_consen    1 VAVVGQFSSGKSTLINALLGRPILPSGVGPCTAV   34 (168)
T ss_dssp             EEEEEBTTSSHHHHHHHHHTSS-SSSSSSSTTSS
T ss_pred             CEEEcCCCCCHHHHHHHHHhcccCcccccccccc
Confidence            6899999999999999999877 44445556554

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 ....

>COG1618 Predicted nucleotide kinase [Nucleotide transport and metabolism]

Probab=97.71  E-value=0.00023  Score=41.07  Aligned_cols=56  Identities=13%  Similarity=0.148  Sum_probs=37.5

Q ss_pred             ceeeeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCC-EEEEEEEcCC
Q psy2514          10 SIKGTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRG-TFTRDYKKTI   68 (71)
Q Consensus        10 ~~~~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~-~~~l~i~Dt~   68 (71)
                      ...+|+.+-|.+|+|||+++.+..+.--...  -+++ -|....+..++ .+=+.|.|.+
T Consensus         3 ~~~mki~ITG~PGvGKtTl~~ki~e~L~~~g--~kvg-Gf~t~EVR~gGkR~GF~Ivdl~   59 (179)
T COG1618           3 KMAMKIFITGRPGVGKTTLVLKIAEKLREKG--YKVG-GFITPEVREGGKRIGFKIVDLA   59 (179)
T ss_pred             CcceEEEEeCCCCccHHHHHHHHHHHHHhcC--ceee-eEEeeeeecCCeEeeeEEEEcc
Confidence            3458999999999999999998875332222  2233 25555555554 5667777765

>COG0563 Adk Adenylate kinase and related kinases [Nucleotide transport and metabolism]

Probab=97.70  E-value=4.3e-05  Score=44.27  Aligned_cols=23  Identities=22%  Similarity=0.486  Sum_probs=20.8

Q ss_pred             eeEEEEeCCCCCHHHHHHHHHhC
Q psy2514          13 GTVVIVGNGAVGKSSMIQRYCRG   35 (71)
Q Consensus        13 ~ki~v~G~~~vGKtsl~~~~~~~   35 (71)
                      .+++++|.||+||||++.++...
T Consensus         1 ~riiilG~pGaGK~T~A~~La~~   23 (178)
T COG0563           1 MRILILGPPGAGKSTLAKKLAKK   23 (178)
T ss_pred             CeEEEECCCCCCHHHHHHHHHHH
Confidence            37999999999999999999876

>PLN03127 Elongation factor Tu; Provisional

Probab=97.69  E-value=0.00028  Score=45.99  Aligned_cols=26  Identities=19%  Similarity=0.216  Sum_probs=22.6

Q ss_pred             cCceeeeEEEEeCCCCCHHHHHHHHH
Q psy2514           8 RGSIKGTVVIVGNGAVGKSSMIQRYC   33 (71)
Q Consensus         8 ~~~~~~ki~v~G~~~vGKtsl~~~~~   33 (71)
                      +....++++++|..++|||||+.++.
T Consensus        57 ~~k~~~ni~iiGhvd~GKSTL~~~L~   82 (447)
T PLN03127         57 RTKPHVNVGTIGHVDHGKTTLTAAIT   82 (447)
T ss_pred             cCCceEEEEEECcCCCCHHHHHHHHH
Confidence            34566899999999999999999886

>cd04165 GTPBP1_like GTPBP1-like

Probab=97.68  E-value=5.7e-05  Score=45.04  Aligned_cols=26  Identities=31%  Similarity=0.547  Sum_probs=23.2

Q ss_pred             eEEEEeCCCCCHHHHHHHHHhCcCCC
Q psy2514          14 TVVIVGNGAVGKSSMIQRYCRGTFTR   39 (71)
Q Consensus        14 ki~v~G~~~vGKtsl~~~~~~~~f~~   39 (71)
                      |++++|+.++|||||+.++..+.|..
T Consensus         1 ~v~~~G~~~~GKttl~~~~~~~~~~~   26 (224)
T cd04165           1 RVAVVGNVDAGKSTLLGVLTQGELDN   26 (224)
T ss_pred             CEEEECCCCCCHHHHHHHHHhCCcCC
Confidence            68899999999999999999877754

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

>PRK08118 topology modulation protein; Reviewed

Probab=97.67  E-value=6e-05  Score=43.08  Aligned_cols=22  Identities=23%  Similarity=0.631  Sum_probs=19.7

Q ss_pred             eeEEEEeCCCCCHHHHHHHHHh
Q psy2514          13 GTVVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus        13 ~ki~v~G~~~vGKtsl~~~~~~   34 (71)
                      .+|+|+|.+|+|||++...+..
T Consensus         2 ~rI~I~G~~GsGKSTlak~L~~   23 (167)
T PRK08118          2 KKIILIGSGGSGKSTLARQLGE   23 (167)
T ss_pred             cEEEEECCCCCCHHHHHHHHHH
Confidence            4799999999999999998874

>TIGR00092 GTP-binding protein YchF

Probab=97.66  E-value=0.00026  Score=45.27  Aligned_cols=25  Identities=28%  Similarity=0.089  Sum_probs=22.2

Q ss_pred             eeEEEEeCCCCCHHHHHHHHHhCcC
Q psy2514          13 GTVVIVGNGAVGKSSMIQRYCRGTF   37 (71)
Q Consensus        13 ~ki~v~G~~~vGKtsl~~~~~~~~f   37 (71)
                      +|+.++|.+++|||+|.+.+....-
T Consensus         3 lk~GivGlPn~GKSTlfnaLT~~~~   27 (368)
T TIGR00092         3 LSGGIVGLPNVGKSTLFAATTNLLG   27 (368)
T ss_pred             ceEEEECCCCCChHHHHHHHhCCCc
Confidence            7899999999999999998886654

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.

>TIGR02034 CysN sulfate adenylyltransferase, large subunit

Probab=97.66  E-value=0.00016  Score=46.49  Aligned_cols=21  Identities=29%  Similarity=0.322  Sum_probs=19.5

Q ss_pred             eeEEEEeCCCCCHHHHHHHHH
Q psy2514          13 GTVVIVGNGAVGKSSMIQRYC   33 (71)
Q Consensus        13 ~ki~v~G~~~vGKtsl~~~~~   33 (71)
                      ++++++|..++|||||+.+++
T Consensus         1 ~~~~~vGhvd~GKSTL~~~ll   21 (406)
T TIGR02034         1 LRFLTCGSVDDGKSTLIGRLL   21 (406)
T ss_pred             CeEEEECCCCCCchhhhHHHH
Confidence            479999999999999999987

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).

>PRK07261 topology modulation protein; Provisional

Probab=97.65  E-value=6.7e-05  Score=42.97  Aligned_cols=21  Identities=24%  Similarity=0.585  Sum_probs=19.1

Q ss_pred             eEEEEeCCCCCHHHHHHHHHh
Q psy2514          14 TVVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus        14 ki~v~G~~~vGKtsl~~~~~~   34 (71)
                      +|+++|.+|+|||+|+..+..
T Consensus         2 ri~i~G~~GsGKSTla~~l~~   22 (171)
T PRK07261          2 KIAIIGYSGSGKSTLARKLSQ   22 (171)
T ss_pred             EEEEEcCCCCCHHHHHHHHHH
Confidence            789999999999999998764

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

Probab=97.62  E-value=0.00026  Score=47.76  Aligned_cols=25  Identities=24%  Similarity=0.214  Sum_probs=22.3

Q ss_pred             ceeeeEEEEeCCCCCHHHHHHHHHh
Q psy2514          10 SIKGTVVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus        10 ~~~~ki~v~G~~~vGKtsl~~~~~~   34 (71)
                      +..++++++|..++|||||+.+++.
T Consensus        22 ~~~~~i~iiGh~~~GKSTL~~~Ll~   46 (632)
T PRK05506         22 KSLLRFITCGSVDDGKSTLIGRLLY   46 (632)
T ss_pred             CCeeEEEEECCCCCChHHHHHHHHH
Confidence            4568999999999999999999885

>KOG0705|consensus

Probab=97.61  E-value=4.2e-05  Score=51.18  Aligned_cols=61  Identities=21%  Similarity=0.221  Sum_probs=50.9

Q ss_pred             CceeeeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCCEEEEEEEcCCCC
Q psy2514           9 GSIKGTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRGTFTRDYKKTIGA   70 (71)
Q Consensus         9 ~~~~~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~   70 (71)
                      .-..+|+-++|+.+.|||+|++||+.+.|..+. .+.+..|...++.+.+...+-|.|-+|.
T Consensus        27 sipelk~givg~~~sgktalvhr~ltgty~~~e-~~e~~~~kkE~vv~gqs~lLlirdeg~~   87 (749)
T KOG0705|consen   27 SIPELKLGIVGTSQSGKTALVHRYLTGTYTQDE-SPEGGRFKKEVVVDGQSHLLLIRDEGGH   87 (749)
T ss_pred             ccchhheeeeecccCCceeeeeeeccceecccc-CCcCccceeeEEeeccceEeeeecccCC
Confidence            345789999999999999999999999998754 5556678888887777888999998774

>PF13671 AAA_33: AAA domain; PDB: 1LTQ_A 2IA5_K 1RC8_A 1LY1_A 1RRC_A 1RPZ_A 3ZVM_A 1YJ5_A 3ZVL_A 3U7E_B

Probab=97.61  E-value=8.5e-05  Score=40.66  Aligned_cols=19  Identities=26%  Similarity=0.611  Sum_probs=17.7

Q ss_pred             EEEEeCCCCCHHHHHHHHH
Q psy2514          15 VVIVGNGAVGKSSMIQRYC   33 (71)
Q Consensus        15 i~v~G~~~vGKtsl~~~~~   33 (71)
                      ++++|.+|+|||+++.++.
T Consensus         2 ii~~G~pgsGKSt~a~~l~   20 (143)
T PF13671_consen    2 IILCGPPGSGKSTLAKRLA   20 (143)
T ss_dssp             EEEEESTTSSHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHH
Confidence            6889999999999999987

...

>PTZ00141 elongation factor 1- alpha; Provisional

Probab=97.60  E-value=0.00046  Score=45.00  Aligned_cols=26  Identities=19%  Similarity=0.244  Sum_probs=22.7

Q ss_pred             CceeeeEEEEeCCCCCHHHHHHHHHh
Q psy2514           9 GSIKGTVVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus         9 ~~~~~ki~v~G~~~vGKtsl~~~~~~   34 (71)
                      ....++++++|..++|||+|+.+++.
T Consensus         4 ~k~~~nv~i~Ghvd~GKSTL~~~Ll~   29 (446)
T PTZ00141          4 EKTHINLVVIGHVDSGKSTTTGHLIY   29 (446)
T ss_pred             CCceEEEEEEecCCCCHHHHHHHHHH
Confidence            34568999999999999999998875

>COG1162 Predicted GTPases [General function prediction only]

Probab=97.60  E-value=6.5e-05  Score=46.77  Aligned_cols=21  Identities=33%  Similarity=0.588  Sum_probs=18.6

Q ss_pred             eEEEEeCCCCCHHHHHHHHHh
Q psy2514          14 TVVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus        14 ki~v~G~~~vGKtsl~~~~~~   34 (71)
                      -.+++|.+|||||||++++..
T Consensus       166 ~svl~GqSGVGKSSLiN~L~p  186 (301)
T COG1162         166 ITVLLGQSGVGKSTLINALLP  186 (301)
T ss_pred             eEEEECCCCCcHHHHHHhhCc
Confidence            567889999999999999874

>PF07728 AAA_5: AAA domain (dynein-related subfamily); InterPro: IPR011704 The ATPases Associated to a variety of cellular Activities (AAA) are a family distinguished by a highly conserved module of 230 amino acids []

Probab=97.59  E-value=9.7e-05  Score=40.49  Aligned_cols=20  Identities=25%  Similarity=0.544  Sum_probs=18.1

Q ss_pred             EEEEeCCCCCHHHHHHHHHh
Q psy2514          15 VVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus        15 i~v~G~~~vGKtsl~~~~~~   34 (71)
                      ++++|++|+|||++++.++.
T Consensus         2 vlL~G~~G~GKt~l~~~la~   21 (139)
T PF07728_consen    2 VLLVGPPGTGKTTLARELAA   21 (139)
T ss_dssp             EEEEESSSSSHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHH
Confidence            78999999999999998774

The highly conserved nature of this module across taxa suggests that it has a key cellular role. Members of the family are involved in diverse cellular functions including gene expression, peroxisome assembly and vesicle mediated transport. Although the role of this ATPase AAA domain is not, as yet, clear, the AAA+ superfamily of proteins to which the AAA ATPases belong has a chaperone-like function in the assembly, operation or disassembly of proteins []. This ATPase domain includes some proteins not detected by the IPR003959 from INTERPRO model.; GO: 0005524 ATP binding, 0016887 ATPase activity; PDB: 3NBX_X 4AKI_A 4AI6_B 4AKH_A 4AKG_A 3QMZ_A 3VKH_A 3VKG_A.

>PRK05124 cysN sulfate adenylyltransferase subunit 1; Provisional

Probab=97.59  E-value=0.00038  Score=45.67  Aligned_cols=26  Identities=23%  Similarity=0.202  Sum_probs=22.9

Q ss_pred             CceeeeEEEEeCCCCCHHHHHHHHHh
Q psy2514           9 GSIKGTVVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus         9 ~~~~~ki~v~G~~~vGKtsl~~~~~~   34 (71)
                      ....++++++|..++|||+|+.+++.
T Consensus        24 ~~~~~~i~iiGhvdaGKSTL~~~LL~   49 (474)
T PRK05124         24 HKSLLRFLTCGSVDDGKSTLIGRLLH   49 (474)
T ss_pred             ccCceEEEEECCCCCChHHHHHHHHH
Confidence            35569999999999999999999874

>KOG1491|consensus

Probab=97.58  E-value=0.00036  Score=44.40  Aligned_cols=63  Identities=17%  Similarity=0.091  Sum_probs=40.6

Q ss_pred             ccCceeeeEEEEeCCCCCHHHHHHHHHhCcCCCCccC--CcceeeEEEEEEe------------CC--EEEEEEEcCCC
Q psy2514           7 LRGSIKGTVVIVGNGAVGKSSMIQRYCRGTFTRDYKK--TIGVKSSMIQRYC------------RG--TFTRDYKKTIG   69 (71)
Q Consensus         7 ~~~~~~~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~--t~~~~~~~~~~~~------------~~--~~~l~i~Dt~G   69 (71)
                      .+....+|+-+||.++||||++.+.+.+........|  |+..+-....+.+            .+  +..++++|.||
T Consensus        15 gR~~~~lkiGIVGlPNvGKST~fnalT~~~a~~~NfPF~TIdPn~a~V~v~d~Rfd~l~~~Y~~~~~vpa~l~v~DIAG   93 (391)
T KOG1491|consen   15 GRDGNNLKIGIVGLPNVGKSTFFNALTKSKAGAANFPFCTIDPNEARVEVPDSRFDLLCPIYGPKSKVPAFLTVYDIAG   93 (391)
T ss_pred             cCCCCcceeeEeeCCCCchHHHHHHHhcCCCCccCCCcceeccccceeecCchHHHHHHHhcCCcceeeeeEEEEeecc
Confidence            3455678999999999999999999987655433222  3332222111111            12  56789999987

>cd01882 BMS1 Bms1

Probab=97.57  E-value=0.00035  Score=41.59  Aligned_cols=56  Identities=14%  Similarity=0.147  Sum_probs=34.1

Q ss_pred             eeeeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCCEEEEEEEcCCCC
Q psy2514          11 IKGTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRGTFTRDYKKTIGA   70 (71)
Q Consensus        11 ~~~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~   70 (71)
                      ....++++|.+++|||+|++.+....-........|. +   .+...+...+.++||.|.
T Consensus        38 ~~~~i~ivG~~~~GKstl~~~l~~~~~~~~~~~~~g~-i---~i~~~~~~~i~~vDtPg~   93 (225)
T cd01882          38 PPLVVAVVGPPGVGKTTLIKSLVKNYTKQNISDIKGP-I---TVVTGKKRRLTFIECPND   93 (225)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHhhcccCcccccccc-E---EEEecCCceEEEEeCCch
Confidence            3477899999999999999888753211111111221 1   112224566788999874

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.

>PF00004 AAA: ATPase family associated with various cellular activities (AAA); InterPro: IPR003959 AAA ATPases (ATPases Associated with diverse cellular Activities) form a large protein family and play a number of roles in the cell including cell-cycle regulation, protein proteolysis and disaggregation, organelle biogenesis and intracellular transport

Probab=97.53  E-value=0.00012  Score=39.21  Aligned_cols=21  Identities=14%  Similarity=0.382  Sum_probs=18.5

Q ss_pred             EEEEeCCCCCHHHHHHHHHhC
Q psy2514          15 VVIVGNGAVGKSSMIQRYCRG   35 (71)
Q Consensus        15 i~v~G~~~vGKtsl~~~~~~~   35 (71)
                      +++.|++|+|||++++.++..
T Consensus         1 ill~G~~G~GKT~l~~~la~~   21 (132)
T PF00004_consen    1 ILLHGPPGTGKTTLARALAQY   21 (132)
T ss_dssp             EEEESSTTSSHHHHHHHHHHH
T ss_pred             CEEECcCCCCeeHHHHHHHhh
Confidence            578999999999999988753

Some of them function as molecular chaperones, subunits of proteolytic complexes or independent proteases (FtsH, Lon). They also act as DNA helicases and transcription factors []. AAA ATPases belong to the AAA+ superfamily of ringshaped P-loop NTPases, which act via the energy-dependent unfolding of macromolecules [, ]. There are six major clades of AAA domains (proteasome subunits, metalloproteases, domains D1 and D2 of ATPases with two AAA domains, the MSP1/katanin/spastin group and BCS1 and it homologues), as well as a number of deeply branching minor clades []. They assemble into oligomeric assemblies (often hexamers) that form a ring-shaped structure with a central pore. These proteins produce a molecular motor that couples ATP binding and hydrolysis to changes in conformational states that act upon a target substrate, either translocating or remodelling it []. They are found in all living organisms and share the common feature of the presence of a highly conserved AAA domain called the AAA module. This domain is responsible for ATP binding and hydrolysis. It contains 200-250 residues, among them there are two classical motifs, Walker A (GX4GKT) and Walker B (HyDE) []. The functional variety seen between AAA ATPases is in part due to their extensive number of accessory domains and factors, and to their variable organisation within oligomeric assemblies, in addition to changes in key functional residues within the ATPase domain itself. More information about these proteins can be found at Protein of the Month: AAA ATPases [].; GO: 0005524 ATP binding; PDB: 3H4M_A 1NSF_A 1D2N_A 1HQY_E 1DO0_E 1DO2_C 1G4B_E 1HT1_F 1G4A_F 1HT2_G ....

>PRK00007 elongation factor G; Reviewed

Probab=97.51  E-value=0.00061  Score=46.48  Aligned_cols=60  Identities=15%  Similarity=0.199  Sum_probs=37.7

Q ss_pred             ceeeeEEEEeCCCCCHHHHHHHHHh--CcCCC----------------CccCCcceeeEEEEEEeCCEEEEEEEcCCCC
Q psy2514          10 SIKGTVVIVGNGAVGKSSMIQRYCR--GTFTR----------------DYKKTIGVKSSMIQRYCRGTFTRDYKKTIGA   70 (71)
Q Consensus        10 ~~~~ki~v~G~~~vGKtsl~~~~~~--~~f~~----------------~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~   70 (71)
                      ....+++++|..++|||||+.+++.  +....                +....+..+.....+..+ ...+++.||+|-
T Consensus         8 ~~Irni~iiG~~~~GKsTL~~~ll~~~g~~~~~g~v~~~~~~~D~~~~E~~rg~ti~~~~~~~~~~-~~~~~liDTPG~   85 (693)
T PRK00007          8 ERYRNIGIMAHIDAGKTTTTERILFYTGVNHKIGEVHDGAATMDWMEQEQERGITITSAATTCFWK-DHRINIIDTPGH   85 (693)
T ss_pred             cceeEEEEECCCCCCHHHHHHHHHHhcCCccccccccCCcccCCCCHHHHhCCCCEeccEEEEEEC-CeEEEEEeCCCc
Confidence            3467999999999999999999973  21100                012222222323333333 467999999983

>PF13521 AAA_28: AAA domain; PDB: 1LW7_A

Probab=97.51  E-value=8.8e-05  Score=41.81  Aligned_cols=22  Identities=27%  Similarity=0.552  Sum_probs=17.3

Q ss_pred             eEEEEeCCCCCHHHHHHHHHhC
Q psy2514          14 TVVIVGNGAVGKSSMIQRYCRG   35 (71)
Q Consensus        14 ki~v~G~~~vGKtsl~~~~~~~   35 (71)
                      ||++.|.+++|||+|+..+...
T Consensus         1 rI~i~G~~stGKTTL~~~L~~~   22 (163)
T PF13521_consen    1 RIVITGGPSTGKTTLIEALAAR   22 (163)
T ss_dssp             -EEEE--TTSHHHHHHHHHHHH
T ss_pred             CEEEECCCCCCHHHHHHHHHHc
Confidence            7999999999999999988754

>TIGR02836 spore_IV_A stage IV sporulation protein A

Probab=97.51  E-value=0.0005  Score=45.02  Aligned_cols=26  Identities=23%  Similarity=0.276  Sum_probs=23.1

Q ss_pred             ceeeeEEEEeCCCCCHHHHHHHHHhC
Q psy2514          10 SIKGTVVIVGNGAVGKSSMIQRYCRG   35 (71)
Q Consensus        10 ~~~~ki~v~G~~~vGKtsl~~~~~~~   35 (71)
                      .-.+-+.++|...+|||||+++|+..
T Consensus        15 ~G~IyIGvvGpvrtGKSTfIn~fm~q   40 (492)
T TIGR02836        15 QGDIYIGVVGPVRTGKSTFIKKFMEL   40 (492)
T ss_pred             CCcEEEEEEcCCCCChHHHHHHHHhh
Confidence            34578999999999999999999977

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.

>KOG1707|consensus

Probab=97.49  E-value=0.00057  Score=45.91  Aligned_cols=52  Identities=15%  Similarity=0.203  Sum_probs=45.0

Q ss_pred             ccCceeeeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCC
Q psy2514           7 LRGSIKGTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRG   58 (71)
Q Consensus         7 ~~~~~~~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~   58 (71)
                      ...+.-+.+.++|+.++|||.+++.|..+.+..++..+....+..+.+...+
T Consensus       420 ~~~R~Vf~C~V~G~k~~GKs~lL~sflgr~~~~~~~~~~~~~~avn~v~~~g  471 (625)
T KOG1707|consen  420 QTDRKVFQCFVVGPKNCGKSALLQSFLGRSMSDNNTGTTKPRYAVNSVEVKG  471 (625)
T ss_pred             cccceeeeEEEEcCCcCchHHHHHHHhccccccccccCCCCceeeeeeeecc
Confidence            4466789999999999999999999999999888888888888887776655

>KOG0072|consensus

Probab=97.48  E-value=2.2e-05  Score=44.54  Aligned_cols=57  Identities=19%  Similarity=0.219  Sum_probs=43.4

Q ss_pred             ceeeeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCCEEEEEEEcCCCC
Q psy2514          10 SIKGTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRGTFTRDYKKTIGA   70 (71)
Q Consensus        10 ~~~~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~   70 (71)
                      ....+++++|..|+|||++..|..-++... ..||+|.  ....+.. +..++++||-.|.
T Consensus        16 e~e~rililgldGaGkttIlyrlqvgevvt-tkPtigf--nve~v~y-KNLk~~vwdLggq   72 (182)
T KOG0072|consen   16 EREMRILILGLDGAGKTTILYRLQVGEVVT-TKPTIGF--NVETVPY-KNLKFQVWDLGGQ   72 (182)
T ss_pred             ccceEEEEeeccCCCeeEEEEEcccCcccc-cCCCCCc--Ccccccc-ccccceeeEccCc
Confidence            367899999999999999999988777654 5799984  4444443 4477889997663

>KOG0076|consensus

Probab=97.47  E-value=9.3e-05  Score=43.07  Aligned_cols=59  Identities=14%  Similarity=0.197  Sum_probs=40.7

Q ss_pred             CceeeeEEEEeCCCCCHHHHHHHHHhC---cC----CCCccCCcceeeEEEEEEeCCEEEEEEEcCCCC
Q psy2514           9 GSIKGTVVIVGNGAVGKSSMIQRYCRG---TF----TRDYKKTIGVKSSMIQRYCRGTFTRDYKKTIGA   70 (71)
Q Consensus         9 ~~~~~ki~v~G~~~vGKtsl~~~~~~~---~f----~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~   70 (71)
                      ....+.++++|...+|||+|+...-..   .+    +..-.||+|.+.-  ++..+ ...+.+||-.|+
T Consensus        14 ~Ke~y~vlIlgldnAGKttfLe~~Kt~~~~~~~~l~~~ki~~tvgLnig--~i~v~-~~~l~fwdlgGQ   79 (197)
T KOG0076|consen   14 KKEDYSVLILGLDNAGKTTFLEALKTDFSKAYGGLNPSKITPTVGLNIG--TIEVC-NAPLSFWDLGGQ   79 (197)
T ss_pred             hhhhhhheeeccccCCchhHHHHHHHHHHhhhcCCCHHHeecccceeec--ceeec-cceeEEEEcCCh
Confidence            344588999999999999999865421   11    1235688886543  33334 467899999885

>PF13191 AAA_16: AAA ATPase domain; PDB: 2V1U_A

Probab=97.46  E-value=0.00014  Score=41.16  Aligned_cols=24  Identities=17%  Similarity=0.405  Sum_probs=16.1

Q ss_pred             eeeeEEEEeCCCCCHHHHHHHHHh
Q psy2514          11 IKGTVVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus        11 ~~~ki~v~G~~~vGKtsl~~~~~~   34 (71)
                      ..--+++.|++|+|||+++.++..
T Consensus        23 ~~~~~ll~G~~G~GKT~ll~~~~~   46 (185)
T PF13191_consen   23 SPRNLLLTGESGSGKTSLLRALLD   46 (185)
T ss_dssp             ----EEE-B-TTSSHHHHHHHHHH
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHH
Confidence            346789999999999999998764

>COG1116 TauB ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]

Probab=97.46  E-value=0.00013  Score=44.30  Aligned_cols=21  Identities=29%  Similarity=0.491  Sum_probs=18.2

Q ss_pred             eEEEEeCCCCCHHHHHHHHHh
Q psy2514          14 TVVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus        14 ki~v~G~~~vGKtsl~~~~~~   34 (71)
                      -++++|++|||||+|++-...
T Consensus        31 fvsilGpSGcGKSTLLriiAG   51 (248)
T COG1116          31 FVAILGPSGCGKSTLLRLIAG   51 (248)
T ss_pred             EEEEECCCCCCHHHHHHHHhC
Confidence            478899999999999987764

>PF13401 AAA_22: AAA domain; PDB: 2QBY_B 1FNN_B 1W5T_A 1W5S_B

Probab=97.46  E-value=0.00018  Score=38.71  Aligned_cols=24  Identities=33%  Similarity=0.541  Sum_probs=18.4

Q ss_pred             eeEEEEeCCCCCHHHHHHHHHhCc
Q psy2514          13 GTVVIVGNGAVGKSSMIQRYCRGT   36 (71)
Q Consensus        13 ~ki~v~G~~~vGKtsl~~~~~~~~   36 (71)
                      --+++.|++|+|||+++.++....
T Consensus         5 ~~~~i~G~~G~GKT~~~~~~~~~~   28 (131)
T PF13401_consen    5 RILVISGPPGSGKTTLIKRLARQL   28 (131)
T ss_dssp             --EEEEE-TTSSHHHHHHHHHHHH
T ss_pred             cccEEEcCCCCCHHHHHHHHHHHh
Confidence            347889999999999999998643

>KOG3886|consensus

Probab=97.44  E-value=5.1e-05  Score=46.12  Aligned_cols=59  Identities=17%  Similarity=0.158  Sum_probs=35.8

Q ss_pred             eeeEEEEeCCCCCHHHHHHHHHhCcCC-CCccCCcceeeEEEEEEeCCEEEEEEEcCCCC
Q psy2514          12 KGTVVIVGNGAVGKSSMIQRYCRGTFT-RDYKKTIGVKSSMIQRYCRGTFTRDYKKTIGA   70 (71)
Q Consensus        12 ~~ki~v~G~~~vGKtsl~~~~~~~~f~-~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~   70 (71)
                      .-|++++|.+|+||||+-.-+..+... +...++-.+|+.......-+..-+++||..|+
T Consensus         4 ~kKvlLMGrsGsGKsSmrsiiF~ny~a~D~~rlg~tidveHsh~RflGnl~LnlwDcGgq   63 (295)
T KOG3886|consen    4 KKKVLLMGRSGSGKSSMRSIIFANYIARDTRRLGATIDVEHSHVRFLGNLVLNLWDCGGQ   63 (295)
T ss_pred             cceEEEeccCCCCccccchhhhhhhhhhhhhccCCcceeeehhhhhhhhheeehhccCCc
Confidence            468999999999999975544322211 11123333344443333345577999999885

>PF05783 DLIC: Dynein light intermediate chain (DLIC); InterPro: IPR022780 This entry consists of several eukaryotic dynein light intermediate chain proteins

Probab=97.43  E-value=0.00068  Score=44.63  Aligned_cols=57  Identities=18%  Similarity=0.223  Sum_probs=40.9

Q ss_pred             ceeeeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeC---CEEEEEEEcCCC
Q psy2514          10 SIKGTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCR---GTFTRDYKKTIG   69 (71)
Q Consensus        10 ~~~~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~---~~~~l~i~Dt~G   69 (71)
                      ...-.|+|+|+.++|||+|+.++...   +.+.++.+.+|..-.+.++   ...++.+|--.|
T Consensus        23 ~~~k~vlvlG~~~~GKttli~~L~~~---e~~~~~~aLeYty~~v~d~~~dd~~rl~vw~L~g   82 (472)
T PF05783_consen   23 PSEKSVLVLGDKGSGKTTLIARLQGI---EDPKKGLALEYTYLDVKDEDRDDLARLNVWELDG   82 (472)
T ss_pred             CCCceEEEEeCCCCchHHHHHHhhcc---CCCCCCcccceEEEeeccCcCCcCceeeEEEcCC
Confidence            34578999999999999999998643   3467888888865444443   235677875544

The light intermediate chains (LICs) of cytoplasmic dynein consist of multiple isoforms, which undergo post-translational modification to produce a large number of species. DLIC1 is known to be involved in assembly, organisation, and function of centrosomes and mitotic spindles when bound to pericentrin [, ]. DLIC2 is a subunit of cytoplasmic dynein 2 that may play a role in maintaining Golgi organisation by binding cytoplasmic dynein 2 to its Golgi-associated cargo [].

>PF05729 NACHT: NACHT domain

Probab=97.43  E-value=0.00016  Score=40.03  Aligned_cols=21  Identities=24%  Similarity=0.507  Sum_probs=18.6

Q ss_pred             EEEEeCCCCCHHHHHHHHHhC
Q psy2514          15 VVIVGNGAVGKSSMIQRYCRG   35 (71)
Q Consensus        15 i~v~G~~~vGKtsl~~~~~~~   35 (71)
                      +++.|++|+|||+++.+++..
T Consensus         3 l~I~G~~G~GKStll~~~~~~   23 (166)
T PF05729_consen    3 LWISGEPGSGKSTLLRKLAQQ   23 (166)
T ss_pred             EEEECCCCCChHHHHHHHHHH
Confidence            688999999999999988753

>PRK06217 hypothetical protein; Validated

Probab=97.40  E-value=0.00022  Score=41.07  Aligned_cols=23  Identities=13%  Similarity=0.215  Sum_probs=20.4

Q ss_pred             eeEEEEeCCCCCHHHHHHHHHhC
Q psy2514          13 GTVVIVGNGAVGKSSMIQRYCRG   35 (71)
Q Consensus        13 ~ki~v~G~~~vGKtsl~~~~~~~   35 (71)
                      .+|+++|.+|+|||++..++...
T Consensus         2 ~~I~i~G~~GsGKSTla~~L~~~   24 (183)
T PRK06217          2 MRIHITGASGSGTTTLGAALAER   24 (183)
T ss_pred             eEEEEECCCCCCHHHHHHHHHHH
Confidence            47999999999999999988754

>KOG2485|consensus

Probab=97.40  E-value=0.00051  Score=43.14  Aligned_cols=62  Identities=23%  Similarity=0.177  Sum_probs=38.0

Q ss_pred             CceeeeEEEEeCCCCCHHHHHHHHHhCcCCCC------ccCCcceeeEEEEEEeCCEEEEEEEcCCCCC
Q psy2514           9 GSIKGTVVIVGNGAVGKSSMIQRYCRGTFTRD------YKKTIGVKSSMIQRYCRGTFTRDYKKTIGAL   71 (71)
Q Consensus         9 ~~~~~ki~v~G~~~vGKtsl~~~~~~~~f~~~------~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~~   71 (71)
                      ....+.+.++|-++||||||+...........      ..|.+-..........+++ .+.+.||.|.|
T Consensus       140 ~~~~~~vmVvGvPNVGKSsLINa~r~~~Lrk~k~a~vG~~pGVT~~V~~~iri~~rp-~vy~iDTPGil  207 (335)
T KOG2485|consen  140 LNSEYNVMVVGVPNVGKSSLINALRNVHLRKKKAARVGAEPGVTRRVSERIRISHRP-PVYLIDTPGIL  207 (335)
T ss_pred             cCCceeEEEEcCCCCChHHHHHHHHHHHhhhccceeccCCCCceeeehhheEeccCC-ceEEecCCCcC
Confidence            34578999999999999999997654322221      2233332332222222332 37889999875

>smart00382 AAA ATPases associated with a variety of cellular activities

Probab=97.40  E-value=0.00031  Score=37.20  Aligned_cols=26  Identities=23%  Similarity=0.370  Sum_probs=21.8

Q ss_pred             eeEEEEeCCCCCHHHHHHHHHhCcCC
Q psy2514          13 GTVVIVGNGAVGKSSMIQRYCRGTFT   38 (71)
Q Consensus        13 ~ki~v~G~~~vGKtsl~~~~~~~~f~   38 (71)
                      -.+++.|++|+|||+++..++..-..
T Consensus         3 ~~~~l~G~~G~GKTtl~~~l~~~~~~   28 (148)
T smart00382        3 EVILIVGPPGSGKTTLARALARELGP   28 (148)
T ss_pred             CEEEEECCCCCcHHHHHHHHHhccCC
Confidence            46889999999999999998865544

AAA - ATPases associated with a variety of cellular activities. This profile/alignment only detects a fraction of this vast family. The poorly conserved N-terminal helix is missing from the alignment.

>TIGR00235 udk uridine kinase

Probab=97.39  E-value=0.00032  Score=41.10  Aligned_cols=26  Identities=15%  Similarity=0.199  Sum_probs=21.6

Q ss_pred             CceeeeEEEEeCCCCCHHHHHHHHHh
Q psy2514           9 GSIKGTVVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus         9 ~~~~~ki~v~G~~~vGKtsl~~~~~~   34 (71)
                      ++...-+.++|.+|+|||+|+..+..
T Consensus         3 ~~~g~vi~I~G~sGsGKSTl~~~l~~   28 (207)
T TIGR00235         3 KPKGIIIGIGGGSGSGKTTVARKIYE   28 (207)
T ss_pred             CCCeEEEEEECCCCCCHHHHHHHHHH
Confidence            44557788999999999999988764

Model contains a number of longer eukaryotic proteins and starts bringing in phosphoribulokinase hits at scores of 160 and below

>COG3839 MalK ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]

Probab=97.32  E-value=0.00022  Score=45.07  Aligned_cols=22  Identities=27%  Similarity=0.474  Sum_probs=18.9

Q ss_pred             EEEEeCCCCCHHHHHHHHHhCc
Q psy2514          15 VVIVGNGAVGKSSMIQRYCRGT   36 (71)
Q Consensus        15 i~v~G~~~vGKtsl~~~~~~~~   36 (71)
                      ++++|++|||||++++-++.=+
T Consensus        32 ~vllGPSGcGKSTlLr~IAGLe   53 (338)
T COG3839          32 VVLLGPSGCGKSTLLRMIAGLE   53 (338)
T ss_pred             EEEECCCCCCHHHHHHHHhCCC
Confidence            7888999999999999887533

>KOG0077|consensus

Probab=97.30  E-value=0.00047  Score=39.98  Aligned_cols=36  Identities=14%  Similarity=0.254  Sum_probs=28.1

Q ss_pred             ceeeeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcc
Q psy2514          10 SIKGTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIG   46 (71)
Q Consensus        10 ~~~~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~   46 (71)
                      .+.-|++++|-.++|||+|++.+.++... ++.||.-
T Consensus        18 kK~gKllFlGLDNAGKTTLLHMLKdDrl~-qhvPTlH   53 (193)
T KOG0077|consen   18 KKFGKLLFLGLDNAGKTTLLHMLKDDRLG-QHVPTLH   53 (193)
T ss_pred             ccCceEEEEeecCCchhhHHHHHcccccc-ccCCCcC
Confidence            34579999999999999999988776654 4566654

>PRK10078 ribose 1,5-bisphosphokinase; Provisional

Probab=97.30  E-value=0.00028  Score=40.69  Aligned_cols=22  Identities=18%  Similarity=0.377  Sum_probs=19.3

Q ss_pred             eEEEEeCCCCCHHHHHHHHHhC
Q psy2514          14 TVVIVGNGAVGKSSMIQRYCRG   35 (71)
Q Consensus        14 ki~v~G~~~vGKtsl~~~~~~~   35 (71)
                      .++++|.+|+||||+++.+...
T Consensus         4 ~i~l~G~sGsGKsTl~~~l~~~   25 (186)
T PRK10078          4 LIWLMGPSGSGKDSLLAALRQR   25 (186)
T ss_pred             EEEEECCCCCCHHHHHHHHhcc
Confidence            5889999999999999988653

>TIGR02322 phosphon_PhnN phosphonate metabolism protein/1,5-bisphosphokinase (PRPP-forming) PhnN

Probab=97.30  E-value=0.00031  Score=40.03  Aligned_cols=22  Identities=18%  Similarity=0.371  Sum_probs=18.9

Q ss_pred             eEEEEeCCCCCHHHHHHHHHhC
Q psy2514          14 TVVIVGNGAVGKSSMIQRYCRG   35 (71)
Q Consensus        14 ki~v~G~~~vGKtsl~~~~~~~   35 (71)
                      .++++|.+|+|||+++..+...
T Consensus         3 ~~~i~G~sGsGKttl~~~l~~~   24 (179)
T TIGR02322         3 LIYVVGPSGAGKDTLLDYARAR   24 (179)
T ss_pred             EEEEECCCCCCHHHHHHHHHHH
Confidence            4789999999999999987653

Members of this family resemble PhnN of phosphonate utilization operons, where different such operons confer the ability to use somewhat different profiles of C-P bond-containing compounds (see PubMed:15231805), including phosphites as well as phosphonates. PhnN in E. coli shows considerable homology to guanylate kinases (EC 2.7.4.8), and has actually been shown to act as a ribose 1,5-bisphosphokinase (PRPP forming). This suggests an analogous kinase reaction for phosphonate metabolism, converting 5-phosphoalpha-1-(methylphosphono)ribose to methylphosphono-PRPP.

>cd02019 NK Nucleoside/nucleotide kinase (NK) is a protein superfamily consisting of multiple families of enzymes that share structural similarity and are functionally related to the catalysis of the reversible phosphate group transfer from nucleoside triphosphates to nucleosides/nucleotides, nucleoside monophosphates, or sugars

Probab=97.30  E-value=0.0004  Score=34.17  Aligned_cols=21  Identities=24%  Similarity=0.517  Sum_probs=18.2

Q ss_pred             EEEEeCCCCCHHHHHHHHHhC
Q psy2514          15 VVIVGNGAVGKSSMIQRYCRG   35 (71)
Q Consensus        15 i~v~G~~~vGKtsl~~~~~~~   35 (71)
                      +++.|.+|+|||++.+.+...
T Consensus         2 i~i~G~~gsGKst~~~~l~~~   22 (69)
T cd02019           2 IAITGGSGSGKSTVAKKLAEQ   22 (69)
T ss_pred             EEEECCCCCCHHHHHHHHHHH
Confidence            678899999999999988754

Members of this family play a wide variety of essential roles in nucleotide metabolism, the biosynthesis of coenzymes and aromatic compounds, as well as the metabolism of sugar and sulfate.

>cd00071 GMPK Guanosine monophosphate kinase (GMPK, EC 2

Probab=97.29  E-value=0.00033  Score=38.78  Aligned_cols=21  Identities=33%  Similarity=0.662  Sum_probs=18.4

Q ss_pred             EEEEeCCCCCHHHHHHHHHhC
Q psy2514          15 VVIVGNGAVGKSSMIQRYCRG   35 (71)
Q Consensus        15 i~v~G~~~vGKtsl~~~~~~~   35 (71)
                      ++++|++|+|||+++..+...
T Consensus         2 i~i~GpsGsGKstl~~~L~~~   22 (137)
T cd00071           2 IVLSGPSGVGKSTLLKRLLEE   22 (137)
T ss_pred             EEEECCCCCCHHHHHHHHHhc
Confidence            578999999999999988753

7.4.8), also known as guanylate kinase (GKase), catalyzes the reversible phosphoryl transfer from adenosine triphosphate (ATP) to guanosine monophosphate (GMP) to yield adenosine diphosphate (ADP) and guanosine diphosphate (GDP). It plays an essential role in the biosynthesis of guanosine triphosphate (GTP). This enzyme is also important for the activation of some antiviral and anticancer agents, such as acyclovir, ganciclovir, carbovir, and thiopurines.

>PRK05480 uridine/cytidine kinase; Provisional

Probab=97.29  E-value=0.00045  Score=40.38  Aligned_cols=25  Identities=16%  Similarity=0.214  Sum_probs=21.3

Q ss_pred             ceeeeEEEEeCCCCCHHHHHHHHHh
Q psy2514          10 SIKGTVVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus        10 ~~~~ki~v~G~~~vGKtsl~~~~~~   34 (71)
                      .....|.+.|.+|+|||+|+..+..
T Consensus         4 ~~~~iI~I~G~sGsGKTTl~~~l~~   28 (209)
T PRK05480          4 KKPIIIGIAGGSGSGKTTVASTIYE   28 (209)
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHH
Confidence            3467899999999999999988764

>PRK12740 elongation factor G; Reviewed

Probab=97.29  E-value=0.00059  Score=46.21  Aligned_cols=52  Identities=19%  Similarity=0.256  Sum_probs=30.5

Q ss_pred             EeCCCCCHHHHHHHHHhCc--CCC--C--------------ccCCcceeeEEEEEEeCCEEEEEEEcCCCC
Q psy2514          18 VGNGAVGKSSMIQRYCRGT--FTR--D--------------YKKTIGVKSSMIQRYCRGTFTRDYKKTIGA   70 (71)
Q Consensus        18 ~G~~~vGKtsl~~~~~~~~--f~~--~--------------~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~   70 (71)
                      +|..++|||+|+.+++...  ...  +              ....+.+.........+ .+.+++|||+|.
T Consensus         1 ig~~~~GKTTL~~~Ll~~~g~i~~~~~~~~~~~~~d~~~~e~~rgiTi~~~~~~~~~~-~~~i~liDtPG~   70 (668)
T PRK12740          1 VGHSGAGKTTLTEAILFYTGAIHRIGEVEDGTTTMDFMPEERERGISITSAATTCEWK-GHKINLIDTPGH   70 (668)
T ss_pred             CCCCCCcHHHHHHHHHHhcCCCccCccccCCcccCCCChHHHhcCCCeeeceEEEEEC-CEEEEEEECCCc
Confidence            5889999999999996321  100  0              11222222222333333 478999999985

>cd00009 AAA The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold

Probab=97.29  E-value=0.00035  Score=37.42  Aligned_cols=25  Identities=12%  Similarity=0.300  Sum_probs=20.9

Q ss_pred             eeeEEEEeCCCCCHHHHHHHHHhCc
Q psy2514          12 KGTVVIVGNGAVGKSSMIQRYCRGT   36 (71)
Q Consensus        12 ~~ki~v~G~~~vGKtsl~~~~~~~~   36 (71)
                      ..-+++.|++|+|||+++..+...-
T Consensus        19 ~~~v~i~G~~G~GKT~l~~~i~~~~   43 (151)
T cd00009          19 PKNLLLYGPPGTGKTTLARAIANEL   43 (151)
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHHh
Confidence            3468899999999999999887644

The ASCE division also includes ABC, RecA-like, VirD4-like, PilT-like, and SF1/2 helicases. Members of the AAA+ ATPases function as molecular chaperons, ATPase subunits of proteases, helicases, or nucleic-acid stimulated ATPases. The AAA+ proteins contain several distinct features in addition to the conserved alpha-beta-alpha core domain structure and the Walker A and B motifs of the P-loop NTPases.

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

Probab=97.28  E-value=0.0013  Score=42.17  Aligned_cols=26  Identities=27%  Similarity=0.319  Sum_probs=22.6

Q ss_pred             eeeEEEEeCCCCCHHHHHHHHHhCcC
Q psy2514          12 KGTVVIVGNGAVGKSSMIQRYCRGTF   37 (71)
Q Consensus        12 ~~ki~v~G~~~vGKtsl~~~~~~~~f   37 (71)
                      .+++-++|.|+||||||.+.+....-
T Consensus         2 ~l~~GIVGlPNVGKSTlFnAlT~~~a   27 (372)
T COG0012           2 SLKIGIVGLPNVGKSTLFNALTKAGA   27 (372)
T ss_pred             CceeEEecCCCCcHHHHHHHHHcCCc
Confidence            47899999999999999999886553

>PLN00043 elongation factor 1-alpha; Provisional

Probab=97.26  E-value=0.0022  Score=41.94  Aligned_cols=25  Identities=20%  Similarity=0.331  Sum_probs=21.8

Q ss_pred             ceeeeEEEEeCCCCCHHHHHHHHHh
Q psy2514          10 SIKGTVVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus        10 ~~~~ki~v~G~~~vGKtsl~~~~~~   34 (71)
                      ...++++++|..+.|||+|+.+++.
T Consensus         5 k~~~ni~i~Ghvd~GKSTL~g~Ll~   29 (447)
T PLN00043          5 KVHINIVVIGHVDSGKSTTTGHLIY   29 (447)
T ss_pred             CceEEEEEEecCCCCHHHHHHHHHH
Confidence            4568899999999999999998873

>PF00005 ABC_tran: ABC transporter This structure is on hold until Dec 1999; InterPro: IPR003439 ABC transporters belong to the ATP-Binding Cassette (ABC) superfamily, which uses the hydrolysis of ATP to energise diverse biological systems

Probab=97.26  E-value=0.00043  Score=37.68  Aligned_cols=23  Identities=30%  Similarity=0.486  Sum_probs=19.3

Q ss_pred             eeeEEEEeCCCCCHHHHHHHHHh
Q psy2514          12 KGTVVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus        12 ~~ki~v~G~~~vGKtsl~~~~~~   34 (71)
                      .-.++++|.+|+|||+|+..+..
T Consensus        11 g~~~~i~G~nGsGKStLl~~l~g   33 (137)
T PF00005_consen   11 GEIVAIVGPNGSGKSTLLKALAG   33 (137)
T ss_dssp             TSEEEEEESTTSSHHHHHHHHTT
T ss_pred             CCEEEEEccCCCccccceeeecc
Confidence            34688999999999999987654

ABC transporters minimally consist of two conserved regions: a highly conserved ATP binding cassette (ABC) and a less conserved transmembrane domain (TMD). These can be found on the same protein or on two different ones. Most ABC transporters function as a dimer and therefore are constituted of four domains, two ABC modules and two TMDs. ABC transporters are involved in the export or import of a wide variety of substrates ranging from small ions to macromolecules. The major function of ABC import systems is to provide essential nutrients to bacteria. They are found only in prokaryotes and their four constitutive domains are usually encoded by independent polypeptides (two ABC proteins and two TMD proteins). Prokaryotic importers require additional extracytoplasmic binding proteins (one or more per systems) for function. In contrast, export systems are involved in the extrusion of noxious substances, the export of extracellular toxins and the targeting of membrane components. They are found in all living organisms and in general the TMD is fused to the ABC module in a variety of combinations. Some eukaryotic exporters encode the four domains on the same polypeptide chain []. The ABC module (approximately two hundred amino acid residues) is known to bind and hydrolyse ATP, thereby coupling transport to ATP hydrolysis in a large number of biological processes. The cassette is duplicated in several subfamilies. Its primary sequence is highly conserved, displaying a typical phosphate-binding loop: Walker A, and a magnesium binding site: Walker B. Besides these two regions, three other conserved motifs are present in the ABC cassette: the switch region which contains a histidine loop, postulated to polarise the attaching water molecule for hydrolysis, the signature conserved motif (LSGGQ) specific to the ABC transporter, and the Q-motif (between Walker A and the signature), which interacts with the gamma phosphate through a water bond. The Walker A, Walker B, Q-loop and switch region form the nucleotide binding site [, , ]. The 3D structure of a monomeric ABC module adopts a stubby L-shape with two distinct arms. ArmI (mainly beta-strand) contains Walker A and Walker B. The important residues for ATP hydrolysis and/or binding are located in the P-loop. The ATP-binding pocket is located at the extremity of armI. The perpendicular armII contains mostly the alpha helical subdomain with the signature motif. It only seems to be required for structural integrity of the ABC module. ArmII is in direct contact with the TMD. The hinge between armI and armII contains both the histidine loop and the Q-loop, making contact with the gamma phosphate of the ATP molecule. ATP hydrolysis leads to a conformational change that could facilitate ADP release. In the dimer the two ABC cassettes contact each other through hydrophobic interactions at the antiparallel beta-sheet of armI by a two-fold axis [, , , , , ]. The ATP-Binding Cassette (ABC) superfamily forms one of the largest of all protein families with a diversity of physiological functions []. Several studies have shown that there is a correlation between the functional characterisation and the phylogenetic classification of the ABC cassette [, ]. More than 50 subfamilies have been described based on a phylogenetic and functional classification [, , ]; (for further information see http://www.tcdb.org/tcdb/index.php?tc=3.A.1). On the basis of sequence similarities a family of related ATP-binding proteins has been characterised [, , , , ]. The proteins belonging to this family also contain one or two copies of the 'A' consensus sequence [] or the 'P-loop' [] (see IPR001687 from INTERPRO).; GO: 0005524 ATP binding, 0016887 ATPase activity; PDB: 3NHB_A 3NH9_A 3NHA_A 3NH6_A 1VCI_A 1V43_A 2YZ2_B 2PMK_A 2FFA_A 1XEF_D ....

>PF13238 AAA_18: AAA domain; PDB: 3IIK_A 3IIJ_A 3IIL_A 1RKB_A 3IIM_A 2AXP_A 3KB2_A 1KHT_A 1NKS_A 3H86_C

Probab=97.25  E-value=0.00048  Score=36.76  Aligned_cols=21  Identities=19%  Similarity=0.332  Sum_probs=18.0

Q ss_pred             EEEEeCCCCCHHHHHHHHHhC
Q psy2514          15 VVIVGNGAVGKSSMIQRYCRG   35 (71)
Q Consensus        15 i~v~G~~~vGKtsl~~~~~~~   35 (71)
                      |++.|.+|+|||+++..+...
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            678999999999999877644

...

>PRK03839 putative kinase; Provisional

Probab=97.23  E-value=0.00044  Score=39.55  Aligned_cols=22  Identities=23%  Similarity=0.421  Sum_probs=19.3

Q ss_pred             eEEEEeCCCCCHHHHHHHHHhC
Q psy2514          14 TVVIVGNGAVGKSSMIQRYCRG   35 (71)
Q Consensus        14 ki~v~G~~~vGKtsl~~~~~~~   35 (71)
                      +|+++|.+|+|||++..++...
T Consensus         2 ~I~l~G~pGsGKsT~~~~La~~   23 (180)
T PRK03839          2 IIAITGTPGVGKTTVSKLLAEK   23 (180)
T ss_pred             EEEEECCCCCCHHHHHHHHHHH
Confidence            5899999999999999988753

>TIGR00150 HI0065_YjeE ATPase, YjeE family

Probab=97.22  E-value=0.0018  Score=36.03  Aligned_cols=23  Identities=26%  Similarity=0.540  Sum_probs=20.0

Q ss_pred             eeEEEEeCCCCCHHHHHHHHHhC
Q psy2514          13 GTVVIVGNGAVGKSSMIQRYCRG   35 (71)
Q Consensus        13 ~ki~v~G~~~vGKtsl~~~~~~~   35 (71)
                      --+++.|+.|+|||+|++.++..
T Consensus        23 ~~i~l~G~lGaGKTtl~~~l~~~   45 (133)
T TIGR00150        23 TVVLLKGDLGAGKTTLVQGLLQG   45 (133)
T ss_pred             CEEEEEcCCCCCHHHHHHHHHHH
Confidence            35889999999999999988864

Members of this family have a conserved nucleotide-binding motif GXXGXGKT and a nucleotide-binding fold. Member protein YjeE of Haemophilus influenzae (HI0065) was shown to have ATPase activity.

>PRK14737 gmk guanylate kinase; Provisional

Probab=97.21  E-value=0.00044  Score=40.22  Aligned_cols=23  Identities=26%  Similarity=0.290  Sum_probs=20.0

Q ss_pred             eeEEEEeCCCCCHHHHHHHHHhC
Q psy2514          13 GTVVIVGNGAVGKSSMIQRYCRG   35 (71)
Q Consensus        13 ~ki~v~G~~~vGKtsl~~~~~~~   35 (71)
                      .=++++|++|+||++|+.+++..
T Consensus         5 ~~ivl~GpsG~GK~tl~~~l~~~   27 (186)
T PRK14737          5 KLFIISSVAGGGKSTIIQALLEE   27 (186)
T ss_pred             eEEEEECCCCCCHHHHHHHHHhc
Confidence            34889999999999999999864

>COG1126 GlnQ ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]

Probab=97.21  E-value=0.00055  Score=41.23  Aligned_cols=25  Identities=28%  Similarity=0.384  Sum_probs=20.4

Q ss_pred             eeeEEEEeCCCCCHHHHHHHHHhCc
Q psy2514          12 KGTVVIVGNGAVGKSSMIQRYCRGT   36 (71)
Q Consensus        12 ~~ki~v~G~~~vGKtsl~~~~~~~~   36 (71)
                      .=.++++|++|+|||+|++.+..-+
T Consensus        28 Gevv~iiGpSGSGKSTlLRclN~LE   52 (240)
T COG1126          28 GEVVVIIGPSGSGKSTLLRCLNGLE   52 (240)
T ss_pred             CCEEEEECCCCCCHHHHHHHHHCCc
Confidence            3468899999999999999886544

>PLN00116 translation elongation factor EF-2 subunit; Provisional

Probab=97.20  E-value=0.00094  Score=46.55  Aligned_cols=27  Identities=11%  Similarity=0.183  Sum_probs=23.3

Q ss_pred             cCceeeeEEEEeCCCCCHHHHHHHHHh
Q psy2514           8 RGSIKGTVVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus         8 ~~~~~~ki~v~G~~~vGKtsl~~~~~~   34 (71)
                      +.....+|+++|..++|||||+.+++.
T Consensus        15 ~~~~Irni~iiGhvd~GKTTL~~~Ll~   41 (843)
T PLN00116         15 KKHNIRNMSVIAHVDHGKSTLTDSLVA   41 (843)
T ss_pred             CccCccEEEEEcCCCCCHHHHHHHHHH
Confidence            345567999999999999999999884

>TIGR03263 guanyl_kin guanylate kinase

Probab=97.20  E-value=0.00042  Score=39.44  Aligned_cols=22  Identities=32%  Similarity=0.555  Sum_probs=19.3

Q ss_pred             eEEEEeCCCCCHHHHHHHHHhC
Q psy2514          14 TVVIVGNGAVGKSSMIQRYCRG   35 (71)
Q Consensus        14 ki~v~G~~~vGKtsl~~~~~~~   35 (71)
                      .++++|.+|+|||+++..+...
T Consensus         3 ii~l~G~~GsGKsTl~~~L~~~   24 (180)
T TIGR03263         3 LIVISGPSGVGKSTLVKALLEE   24 (180)
T ss_pred             EEEEECCCCCCHHHHHHHHHcc
Confidence            4789999999999999988763

Members of this family are the enzyme guanylate kinase, also called GMP kinase. This enzyme transfers a phosphate from ATP to GMP, yielding ADP and GDP.

>PRK10751 molybdopterin-guanine dinucleotide biosynthesis protein B; Provisional

Probab=97.20  E-value=0.00059  Score=39.50  Aligned_cols=22  Identities=14%  Similarity=0.327  Sum_probs=19.1

Q ss_pred             eeEEEEeCCCCCHHHHHHHHHh
Q psy2514          13 GTVVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus        13 ~ki~v~G~~~vGKtsl~~~~~~   34 (71)
                      .-+.++|.+|+|||+|+.++..
T Consensus         7 ~ii~ivG~sgsGKTTLi~~li~   28 (173)
T PRK10751          7 PLLAIAAWSGTGKTTLLKKLIP   28 (173)
T ss_pred             eEEEEECCCCChHHHHHHHHHH
Confidence            4678899999999999998874

>PF13173 AAA_14: AAA domain

Probab=97.20  E-value=0.00043  Score=37.69  Aligned_cols=24  Identities=17%  Similarity=0.589  Sum_probs=20.4

Q ss_pred             eEEEEeCCCCCHHHHHHHHHhCcC
Q psy2514          14 TVVIVGNGAVGKSSMIQRYCRGTF   37 (71)
Q Consensus        14 ki~v~G~~~vGKtsl~~~~~~~~f   37 (71)
                      -+++.|..+||||+++.+++....
T Consensus         4 ~~~l~G~R~vGKTtll~~~~~~~~   27 (128)
T PF13173_consen    4 IIILTGPRGVGKTTLLKQLAKDLL   27 (128)
T ss_pred             eEEEECCCCCCHHHHHHHHHHHhc
Confidence            467889999999999999986544

>PRK14530 adenylate kinase; Provisional

Probab=97.19  E-value=0.0005  Score=40.49  Aligned_cols=21  Identities=14%  Similarity=0.396  Sum_probs=19.0

Q ss_pred             eEEEEeCCCCCHHHHHHHHHh
Q psy2514          14 TVVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus        14 ki~v~G~~~vGKtsl~~~~~~   34 (71)
                      +|+++|.+|+|||++..+++.
T Consensus         5 ~I~i~G~pGsGKsT~~~~La~   25 (215)
T PRK14530          5 RILLLGAPGAGKGTQSSNLAE   25 (215)
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            799999999999999998863

>PRK14532 adenylate kinase; Provisional

Probab=97.18  E-value=0.00051  Score=39.46  Aligned_cols=21  Identities=24%  Similarity=0.499  Sum_probs=19.1

Q ss_pred             eEEEEeCCCCCHHHHHHHHHh
Q psy2514          14 TVVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus        14 ki~v~G~~~vGKtsl~~~~~~   34 (71)
                      +++++|.+|+|||++..++..
T Consensus         2 ~i~~~G~pGsGKsT~a~~la~   22 (188)
T PRK14532          2 NLILFGPPAAGKGTQAKRLVE   22 (188)
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            689999999999999998874

>COG3842 PotA ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]

Probab=97.18  E-value=0.00055  Score=43.58  Aligned_cols=22  Identities=18%  Similarity=0.400  Sum_probs=18.7

Q ss_pred             EEEEeCCCCCHHHHHHHHHhCc
Q psy2514          15 VVIVGNGAVGKSSMIQRYCRGT   36 (71)
Q Consensus        15 i~v~G~~~vGKtsl~~~~~~~~   36 (71)
                      ++++|++||||||+++.++.=+
T Consensus        34 ~~lLGPSGcGKTTlLR~IAGfe   55 (352)
T COG3842          34 VTLLGPSGCGKTTLLRMIAGFE   55 (352)
T ss_pred             EEEECCCCCCHHHHHHHHhCCC
Confidence            6789999999999999887533

>KOG1424|consensus

Probab=97.16  E-value=0.001  Score=44.20  Aligned_cols=55  Identities=24%  Similarity=0.132  Sum_probs=37.9

Q ss_pred             eeeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCCEEEEEEEcCCC
Q psy2514          12 KGTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRGTFTRDYKKTIG   69 (71)
Q Consensus        12 ~~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G   69 (71)
                      .+.|-+||-++|||||.|+.+...+-.. ...|-|-.-..+++....  .+.++|+.|
T Consensus       314 ~vtVG~VGYPNVGKSSTINaLvG~KkVs-VS~TPGkTKHFQTi~ls~--~v~LCDCPG  368 (562)
T KOG1424|consen  314 VVTVGFVGYPNVGKSSTINALVGRKKVS-VSSTPGKTKHFQTIFLSP--SVCLCDCPG  368 (562)
T ss_pred             eeEEEeecCCCCchhHHHHHHhcCceee-eecCCCCcceeEEEEcCC--CceecCCCC
Confidence            5788999999999999999999766543 445656432223443333  356788877

>PF01637 Arch_ATPase: Archaeal ATPase; InterPro: IPR011579 This domain has been found in a number of bacterial and archaeal proteins, all of which contain a conserved P-loop motif that is involved in binding ATP

Probab=97.16  E-value=0.0006  Score=39.61  Aligned_cols=25  Identities=16%  Similarity=0.438  Sum_probs=20.9

Q ss_pred             eeeEEEEeCCCCCHHHHHHHHHhCc
Q psy2514          12 KGTVVIVGNGAVGKSSMIQRYCRGT   36 (71)
Q Consensus        12 ~~ki~v~G~~~vGKtsl~~~~~~~~   36 (71)
                      ..-+++.|+.|+|||+|+..+....
T Consensus        20 ~~~~~l~G~rg~GKTsLl~~~~~~~   44 (234)
T PF01637_consen   20 SQHILLYGPRGSGKTSLLKEFINEL   44 (234)
T ss_dssp             SSEEEEEESTTSSHHHHHHHHHHHC
T ss_pred             CcEEEEEcCCcCCHHHHHHHHHHHh
Confidence            3567788999999999999988644

; GO: 0005524 ATP binding; PDB: 2FNA_A 2QEN_A.

>PF03205 MobB: Molybdopterin guanine dinucleotide synthesis protein B; PDB: 2F1R_B 1P9N_A 1NP6_B 2NPI_A 1XJC_A

Probab=97.15  E-value=0.00067  Score=37.86  Aligned_cols=21  Identities=29%  Similarity=0.552  Sum_probs=18.5

Q ss_pred             eEEEEeCCCCCHHHHHHHHHh
Q psy2514          14 TVVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus        14 ki~v~G~~~vGKtsl~~~~~~   34 (71)
                      .+.++|..++|||+|+..++.
T Consensus         2 vv~VvG~~~sGKTTl~~~Li~   22 (140)
T PF03205_consen    2 VVQVVGPKNSGKTTLIRKLIN   22 (140)
T ss_dssp             EEEEEESTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            478999999999999998764

>PRK00300 gmk guanylate kinase; Provisional

Probab=97.15  E-value=0.00053  Score=39.80  Aligned_cols=24  Identities=21%  Similarity=0.368  Sum_probs=20.1

Q ss_pred             eeeEEEEeCCCCCHHHHHHHHHhC
Q psy2514          12 KGTVVIVGNGAVGKSSMIQRYCRG   35 (71)
Q Consensus        12 ~~ki~v~G~~~vGKtsl~~~~~~~   35 (71)
                      .--++++|.+|+|||+|+..+...
T Consensus         5 g~~i~i~G~sGsGKstl~~~l~~~   28 (205)
T PRK00300          5 GLLIVLSGPSGAGKSTLVKALLER   28 (205)
T ss_pred             CCEEEEECCCCCCHHHHHHHHHhh
Confidence            345899999999999999988753

>TIGR00101 ureG urease accessory protein UreG

Probab=97.15  E-value=0.00065  Score=39.88  Aligned_cols=23  Identities=22%  Similarity=0.372  Sum_probs=20.5

Q ss_pred             eeEEEEeCCCCCHHHHHHHHHhC
Q psy2514          13 GTVVIVGNGAVGKSSMIQRYCRG   35 (71)
Q Consensus        13 ~ki~v~G~~~vGKtsl~~~~~~~   35 (71)
                      +++.++|..|+|||+++.++...
T Consensus         2 ~~i~i~G~~GsGKTTll~~l~~~   24 (199)
T TIGR00101         2 LKIGVAGPVGSGKTALIEALTRA   24 (199)
T ss_pred             eEEEEECCCCCCHHHHHHHHHHh
Confidence            68999999999999999988753

This model represents UreG, a GTP hydrolase that acts in the assembly of the nickel metallocenter of urease. It is found only in urease-positive species, although some urease-positive species (e.g. Bacillus subtilis) lack this protein. A similar protein, hypB, is an accessory protein for expression of hydrogenase, which also uses nickel.

>PRK13695 putative NTPase; Provisional

Probab=97.14  E-value=0.00063  Score=38.77  Aligned_cols=22  Identities=23%  Similarity=0.431  Sum_probs=19.2

Q ss_pred             eeEEEEeCCCCCHHHHHHHHHh
Q psy2514          13 GTVVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus        13 ~ki~v~G~~~vGKtsl~~~~~~   34 (71)
                      +|+++.|++|+|||+|+..+..
T Consensus         1 ~~i~ltG~~G~GKTTll~~i~~   22 (174)
T PRK13695          1 MKIGITGPPGVGKTTLVLKIAE   22 (174)
T ss_pred             CEEEEECCCCCCHHHHHHHHHH
Confidence            4799999999999999998653

>PRK14531 adenylate kinase; Provisional

Probab=97.13  E-value=0.00065  Score=39.11  Aligned_cols=23  Identities=26%  Similarity=0.557  Sum_probs=20.0

Q ss_pred             eeeEEEEeCCCCCHHHHHHHHHh
Q psy2514          12 KGTVVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus        12 ~~ki~v~G~~~vGKtsl~~~~~~   34 (71)
                      +.+++++|.+|+|||++..++..
T Consensus         2 ~~~i~i~G~pGsGKsT~~~~la~   24 (183)
T PRK14531          2 KQRLLFLGPPGAGKGTQAARLCA   24 (183)
T ss_pred             CcEEEEECCCCCCHHHHHHHHHH
Confidence            35799999999999999988764

>COG1117 PstB ABC-type phosphate transport system, ATPase component [Inorganic ion transport and metabolism]

Probab=97.12  E-value=0.00043  Score=41.75  Aligned_cols=21  Identities=24%  Similarity=0.539  Sum_probs=17.6

Q ss_pred             eEEEEeCCCCCHHHHHHHHHh
Q psy2514          14 TVVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus        14 ki~v~G~~~vGKtsl~~~~~~   34 (71)
                      --.++|++|||||+|++.+-.
T Consensus        35 VTAlIGPSGcGKST~LR~lNR   55 (253)
T COG1117          35 VTALIGPSGCGKSTLLRCLNR   55 (253)
T ss_pred             eEEEECCCCcCHHHHHHHHHh
Confidence            346789999999999998763

>KOG3905|consensus

Probab=97.12  E-value=0.001  Score=42.52  Aligned_cols=56  Identities=18%  Similarity=0.189  Sum_probs=39.3

Q ss_pred             eeeeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeC---CEEEEEEEcCCC
Q psy2514          11 IKGTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCR---GTFTRDYKKTIG   69 (71)
Q Consensus        11 ~~~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~---~~~~l~i~Dt~G   69 (71)
                      ..-.++++|+.++|||+|+.++-..+   .+.+..|.+|..-.+.++   +..++.+|--.|
T Consensus        51 sgk~VlvlGdn~sGKtsLi~klqg~e---~~KkgsgLeY~yl~V~de~RDd~tr~~VWiLDG  109 (473)
T KOG3905|consen   51 SGKNVLVLGDNGSGKTSLISKLQGSE---TVKKGSGLEYLYLHVHDEDRDDLTRCNVWILDG  109 (473)
T ss_pred             CCCeEEEEccCCCchhHHHHHhhccc---ccCCCCCcceEEEecccccchhhhhcceEEecC
Confidence            45689999999999999999986544   466777777765444432   245667775444

>TIGR01360 aden_kin_iso1 adenylate kinase, isozyme 1 subfamily

Probab=97.12  E-value=0.00057  Score=38.94  Aligned_cols=21  Identities=24%  Similarity=0.431  Sum_probs=18.7

Q ss_pred             eeEEEEeCCCCCHHHHHHHHH
Q psy2514          13 GTVVIVGNGAVGKSSMIQRYC   33 (71)
Q Consensus        13 ~ki~v~G~~~vGKtsl~~~~~   33 (71)
                      -.++++|.+|+|||+++.++.
T Consensus         4 ~ii~i~G~~GsGKsTl~~~l~   24 (188)
T TIGR01360         4 KIIFIVGGPGSGKGTQCEKIV   24 (188)
T ss_pred             cEEEEECCCCCCHHHHHHHHH
Confidence            367889999999999999887

Members of this family are adenylate kinase, EC 2.7.4.3. This clade is found only in eukaryotes and includes human adenylate kinase isozyme 1 (myokinase). Within the adenylate kinase superfamily, this set appears specifically closely related to a subfamily of eukaryotic UMP-CMP kinases (TIGR01359), rather than to the large clade of bacterial, archaeal, and eukaryotic adenylate kinase family members in TIGR01351.

>COG1124 DppF ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]

Probab=97.11  E-value=0.001  Score=40.54  Aligned_cols=23  Identities=30%  Similarity=0.410  Sum_probs=19.3

Q ss_pred             eeeEEEEeCCCCCHHHHHHHHHh
Q psy2514          12 KGTVVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus        12 ~~ki~v~G~~~vGKtsl~~~~~~   34 (71)
                      .=.+.++|++|+|||||.+.++.
T Consensus        33 Ge~lgivGeSGsGKSTL~r~l~G   55 (252)
T COG1124          33 GETLGIVGESGSGKSTLARLLAG   55 (252)
T ss_pred             CCEEEEEcCCCCCHHHHHHHHhc
Confidence            34577899999999999998875

>PF04665 Pox_A32: Poxvirus A32 protein; InterPro: IPR006758 This entry contains uncharacterised proteins belonging to the B354L family which include the pox virus A32 protein

Probab=97.11  E-value=0.00063  Score=41.28  Aligned_cols=24  Identities=25%  Similarity=0.379  Sum_probs=21.0

Q ss_pred             eeeeEEEEeCCCCCHHHHHHHHHh
Q psy2514          11 IKGTVVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus        11 ~~~ki~v~G~~~vGKtsl~~~~~~   34 (71)
                      ..++++++|.+|+|||+++..++.
T Consensus        12 ~~fr~viIG~sGSGKT~li~~lL~   35 (241)
T PF04665_consen   12 DPFRMVIIGKSGSGKTTLIKSLLY   35 (241)
T ss_pred             CCceEEEECCCCCCHHHHHHHHHH
Confidence            458999999999999999887764

This is thought to be an ATPase involved in viral DNA packaging [].

>PRK02496 adk adenylate kinase; Provisional

Probab=97.10  E-value=0.00078  Score=38.62  Aligned_cols=22  Identities=14%  Similarity=0.280  Sum_probs=19.5

Q ss_pred             eeEEEEeCCCCCHHHHHHHHHh
Q psy2514          13 GTVVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus        13 ~ki~v~G~~~vGKtsl~~~~~~   34 (71)
                      .+++++|.+|+|||+++..+..
T Consensus         2 ~~i~i~G~pGsGKst~a~~la~   23 (184)
T PRK02496          2 TRLIFLGPPGAGKGTQAVVLAE   23 (184)
T ss_pred             eEEEEECCCCCCHHHHHHHHHH
Confidence            5799999999999999988764

>cd00820 PEPCK_HprK Phosphoenolpyruvate carboxykinase (PEPCK), a critical gluconeogenic enzyme, catalyzes the first committed step in the diversion of tricarboxylic acid cycle intermediates toward gluconeogenesis

Probab=97.10  E-value=0.00065  Score=36.52  Aligned_cols=21  Identities=24%  Similarity=0.458  Sum_probs=18.5

Q ss_pred             eeEEEEeCCCCCHHHHHHHHH
Q psy2514          13 GTVVIVGNGAVGKSSMIQRYC   33 (71)
Q Consensus        13 ~ki~v~G~~~vGKtsl~~~~~   33 (71)
                      -.++++|++|+|||+|+..+.
T Consensus        16 e~v~I~GpSGsGKSTLl~~l~   36 (107)
T cd00820          16 VGVLITGDSGIGKTELALELI   36 (107)
T ss_pred             EEEEEEcCCCCCHHHHHHHhh
Confidence            457899999999999999876

It catalyzes the reversible decarboxylation and phosphorylation of oxaloacetate to yield phosphoenolpyruvate and carbon dioxide, using a nucleotide molecule (ATP or GTP) for the phosphoryl transfer, and has a strict requirement for divalent metal ions for activity. PEPCK's separate into two phylogenetic groups based on their nucleotide substrate specificity (the ATP-, and GTP-dependent groups).HprK/P, the bifunctional histidine-containing protein kinase/phosphatase, controls the phosphorylation state of the phosphocarrier protein HPr and regulates the utilization of carbon sources by gram-positive bacteria. It catalyzes both the ATP-dependent phosphorylation of HPr and its dephosphorylation by phosphorolysis. PEPCK and the C-terminal catalytic domain of HprK/P are structural

>KOG0090|consensus

Probab=97.08  E-value=0.00041  Score=41.61  Aligned_cols=56  Identities=18%  Similarity=0.213  Sum_probs=35.9

Q ss_pred             ceeeeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCCEEEEEEEcCCC
Q psy2514          10 SIKGTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRGTFTRDYKKTIG   69 (71)
Q Consensus        10 ~~~~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G   69 (71)
                      ...-.++++|.+++|||+|..++..+.+...+ +++..+-.  +...+. ..+++.|-.|
T Consensus        36 s~~~~Vll~Gl~dSGKT~LF~qL~~gs~~~Tv-tSiepn~a--~~r~gs-~~~~LVD~PG   91 (238)
T KOG0090|consen   36 SKQNAVLLVGLSDSGKTSLFTQLITGSHRGTV-TSIEPNEA--TYRLGS-ENVTLVDLPG   91 (238)
T ss_pred             ccCCcEEEEecCCCCceeeeeehhcCCccCee-eeecccee--eEeecC-cceEEEeCCC
Confidence            34467999999999999999999998765433 33332211  111222 2367777766

>PRK13949 shikimate kinase; Provisional

Probab=97.07  E-value=0.00081  Score=38.49  Aligned_cols=21  Identities=24%  Similarity=0.456  Sum_probs=18.7

Q ss_pred             eEEEEeCCCCCHHHHHHHHHh
Q psy2514          14 TVVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus        14 ki~v~G~~~vGKtsl~~~~~~   34 (71)
                      +|+++|.+|+|||++...++.
T Consensus         3 ~I~liG~~GsGKstl~~~La~   23 (169)
T PRK13949          3 RIFLVGYMGAGKTTLGKALAR   23 (169)
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            799999999999999987663

>cd01428 ADK Adenylate kinase (ADK) catalyzes the reversible phosphoryl transfer from adenosine triphosphates (ATP) to adenosine monophosphates (AMP) and to yield adenosine diphosphates (ADP)

Probab=97.07  E-value=0.00068  Score=38.87  Aligned_cols=22  Identities=18%  Similarity=0.475  Sum_probs=19.2

Q ss_pred             eEEEEeCCCCCHHHHHHHHHhC
Q psy2514          14 TVVIVGNGAVGKSSMIQRYCRG   35 (71)
Q Consensus        14 ki~v~G~~~vGKtsl~~~~~~~   35 (71)
                      +|+++|.+|+|||++..++...
T Consensus         1 ~I~i~G~pGsGKst~a~~La~~   22 (194)
T cd01428           1 RILLLGPPGSGKGTQAERLAKK   22 (194)
T ss_pred             CEEEECCCCCCHHHHHHHHHHH
Confidence            5899999999999999988753

This enzyme is required for the biosynthesis of ADP and is essential for homeostasis of adenosine phosphates.

>cd02023 UMPK Uridine monophosphate kinase (UMPK, EC 2

Probab=97.07  E-value=0.00073  Score=39.16  Aligned_cols=20  Identities=20%  Similarity=0.420  Sum_probs=17.5

Q ss_pred             EEEEeCCCCCHHHHHHHHHh
Q psy2514          15 VVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus        15 i~v~G~~~vGKtsl~~~~~~   34 (71)
                      +.+.|.+|+|||++++.+..
T Consensus         2 igi~G~~GsGKSTl~~~l~~   21 (198)
T cd02023           2 IGIAGGSGSGKTTVAEEIIE   21 (198)
T ss_pred             EEEECCCCCCHHHHHHHHHH
Confidence            57899999999999988764

7.1.48), also known as uridine kinase or uridine-cytidine kinase (UCK), catalyzes the reversible phosphoryl transfer from ATP to uridine or cytidine to yield UMP or CMP. In the primidine nucleotide-salvage pathway, this enzyme combined with nucleoside diphosphate kinases further phosphorylates UMP and CMP to form UTP and CTP. This kinase also catalyzes the phosphorylation of several cytotoxic ribonucleoside analogs such as 5-flurrouridine and cyclopentenyl-cytidine.

>COG4525 TauB ABC-type taurine transport system, ATPase component [Inorganic ion transport and metabolism]

Probab=97.05  E-value=0.00066  Score=40.69  Aligned_cols=22  Identities=23%  Similarity=0.484  Sum_probs=18.4

Q ss_pred             eeEEEEeCCCCCHHHHHHHHHh
Q psy2514          13 GTVVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus        13 ~ki~v~G~~~vGKtsl~~~~~~   34 (71)
                      =-++++|++|||||+|++-...
T Consensus        32 e~vv~lGpSGcGKTTLLnl~AG   53 (259)
T COG4525          32 ELVVVLGPSGCGKTTLLNLIAG   53 (259)
T ss_pred             CEEEEEcCCCccHHHHHHHHhc
Confidence            3578999999999999987653

>COG0194 Gmk Guanylate kinase [Nucleotide transport and metabolism]

Probab=97.05  E-value=0.00077  Score=39.55  Aligned_cols=24  Identities=25%  Similarity=0.444  Sum_probs=20.4

Q ss_pred             eeEEEEeCCCCCHHHHHHHHHhCc
Q psy2514          13 GTVVIVGNGAVGKSSMIQRYCRGT   36 (71)
Q Consensus        13 ~ki~v~G~~~vGKtsl~~~~~~~~   36 (71)
                      .-+++.|++|+||||++..+....
T Consensus         5 ~l~vlsgPSG~GKsTl~k~L~~~~   28 (191)
T COG0194           5 LLIVLSGPSGVGKSTLVKALLEDD   28 (191)
T ss_pred             eEEEEECCCCCCHHHHHHHHHhhc
Confidence            457888999999999999988654

>COG1136 SalX ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]

Probab=97.05  E-value=0.00068  Score=40.80  Aligned_cols=21  Identities=33%  Similarity=0.460  Sum_probs=18.2

Q ss_pred             eEEEEeCCCCCHHHHHHHHHh
Q psy2514          14 TVVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus        14 ki~v~G~~~vGKtsl~~~~~~   34 (71)
                      -++++|++|+|||+|++-+..
T Consensus        33 ~vaI~GpSGSGKSTLLniig~   53 (226)
T COG1136          33 FVAIVGPSGSGKSTLLNLLGG   53 (226)
T ss_pred             EEEEECCCCCCHHHHHHHHhc
Confidence            578899999999999997753

>PRK08233 hypothetical protein; Provisional

Probab=97.04  E-value=0.0008  Score=38.14  Aligned_cols=22  Identities=18%  Similarity=0.348  Sum_probs=19.1

Q ss_pred             eeEEEEeCCCCCHHHHHHHHHh
Q psy2514          13 GTVVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus        13 ~ki~v~G~~~vGKtsl~~~~~~   34 (71)
                      .-|++.|.+|+|||+++.++..
T Consensus         4 ~iI~I~G~~GsGKtTla~~L~~   25 (182)
T PRK08233          4 KIITIAAVSGGGKTTLTERLTH   25 (182)
T ss_pred             eEEEEECCCCCCHHHHHHHHHh
Confidence            5677889999999999998874

>PHA00729 NTP-binding motif containing protein

Probab=97.03  E-value=0.00098  Score=40.11  Aligned_cols=23  Identities=26%  Similarity=0.419  Sum_probs=20.5

Q ss_pred             eeEEEEeCCCCCHHHHHHHHHhC
Q psy2514          13 GTVVIVGNGAVGKSSMIQRYCRG   35 (71)
Q Consensus        13 ~ki~v~G~~~vGKtsl~~~~~~~   35 (71)
                      .++++.|.+|+|||+++..+...
T Consensus        18 ~nIlItG~pGvGKT~LA~aLa~~   40 (226)
T PHA00729         18 VSAVIFGKQGSGKTTYALKVARD   40 (226)
T ss_pred             EEEEEECCCCCCHHHHHHHHHHH
Confidence            58999999999999999988753

>KOG3347|consensus

Probab=97.03  E-value=0.00061  Score=39.04  Aligned_cols=25  Identities=20%  Similarity=0.474  Sum_probs=22.2

Q ss_pred             ceeeeEEEEeCCCCCHHHHHHHHHh
Q psy2514          10 SIKGTVVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus        10 ~~~~ki~v~G~~~vGKtsl~~~~~~   34 (71)
                      +...+|++.|-||+|||++..+++.
T Consensus         5 r~~PNILvtGTPG~GKstl~~~lae   29 (176)
T KOG3347|consen    5 RERPNILVTGTPGTGKSTLAERLAE   29 (176)
T ss_pred             hcCCCEEEeCCCCCCchhHHHHHHH
Confidence            5678999999999999999998873

>PTZ00088 adenylate kinase 1; Provisional

Probab=97.03  E-value=0.001  Score=39.94  Aligned_cols=22  Identities=23%  Similarity=0.430  Sum_probs=19.9

Q ss_pred             eeEEEEeCCCCCHHHHHHHHHh
Q psy2514          13 GTVVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus        13 ~ki~v~G~~~vGKtsl~~~~~~   34 (71)
                      ++++++|.+|+|||++..++..
T Consensus         7 mrIvl~G~PGsGK~T~a~~La~   28 (229)
T PTZ00088          7 LKIVLFGAPGVGKGTFAEILSK   28 (229)
T ss_pred             ceEEEECCCCCCHHHHHHHHHH
Confidence            6799999999999999998865

>cd03238 ABC_UvrA The excision repair protein UvrA; Nucleotide excision repair in eubacteria is a process that repairs DNA damage by the removal of a 12-13-mer oligonucleotide containing the lesion

Probab=97.02  E-value=0.00088  Score=38.72  Aligned_cols=24  Identities=25%  Similarity=0.398  Sum_probs=20.0

Q ss_pred             ceeeeEEEEeCCCCCHHHHHHHHH
Q psy2514          10 SIKGTVVIVGNGAVGKSSMIQRYC   33 (71)
Q Consensus        10 ~~~~ki~v~G~~~vGKtsl~~~~~   33 (71)
                      ...-.++++|++|+|||+|++...
T Consensus        19 ~~G~~~~l~G~nG~GKSTLl~~il   42 (176)
T cd03238          19 PLNVLVVVTGVSGSGKSTLVNEGL   42 (176)
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHh
Confidence            344678999999999999998764

Recognition and cleavage of the damaged DNA is a multistep ATP-dependent reaction that requires the UvrA, UvrB, and UvrC proteins. Both UvrA and UvrB are ATPases, with UvrA having two ATP binding sites, which have the characteristic signature of the family of ABC proteins, and UvrB having one ATP binding site that is structurally related to that of helicases.

>COG3638 ABC-type phosphate/phosphonate transport system, ATPase component [Inorganic ion transport and metabolism]

Probab=97.02  E-value=0.00072  Score=41.16  Aligned_cols=21  Identities=29%  Similarity=0.545  Sum_probs=18.2

Q ss_pred             eEEEEeCCCCCHHHHHHHHHh
Q psy2514          14 TVVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus        14 ki~v~G~~~vGKtsl~~~~~~   34 (71)
                      -++++|++|+|||+|++.+..
T Consensus        32 ~VaiIG~SGaGKSTLLR~lng   52 (258)
T COG3638          32 MVAIIGPSGAGKSTLLRSLNG   52 (258)
T ss_pred             EEEEECCCCCcHHHHHHHHhc
Confidence            478899999999999998764

>PF12775 AAA_7: P-loop containing dynein motor region D3; PDB: 4AKI_A 4AI6_B 4AKH_A 4AKG_A 3QMZ_A 3VKH_A 3VKG_A

Probab=97.01  E-value=0.0012  Score=40.59  Aligned_cols=25  Identities=32%  Similarity=0.558  Sum_probs=21.3

Q ss_pred             eeeEEEEeCCCCCHHHHHHHHHhCc
Q psy2514          12 KGTVVIVGNGAVGKSSMIQRYCRGT   36 (71)
Q Consensus        12 ~~ki~v~G~~~vGKtsl~~~~~~~~   36 (71)
                      ..-++++|++|+|||+++..++...
T Consensus        33 ~~pvLl~G~~GtGKT~li~~~l~~l   57 (272)
T PF12775_consen   33 GRPVLLVGPSGTGKTSLIQNFLSSL   57 (272)
T ss_dssp             TEEEEEESSTTSSHHHHHHHHHHCS
T ss_pred             CCcEEEECCCCCchhHHHHhhhccC
Confidence            3568999999999999999988653

>TIGR01351 adk adenylate kinases

Probab=97.01  E-value=0.00081  Score=39.46  Aligned_cols=21  Identities=24%  Similarity=0.469  Sum_probs=18.8

Q ss_pred             eEEEEeCCCCCHHHHHHHHHh
Q psy2514          14 TVVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus        14 ki~v~G~~~vGKtsl~~~~~~   34 (71)
                      +|+++|.+|+|||++..++..
T Consensus         1 rI~i~G~pGsGKsT~a~~La~   21 (210)
T TIGR01351         1 RLVLLGPPGSGKGTQAKRIAE   21 (210)
T ss_pred             CEEEECCCCCCHHHHHHHHHH
Confidence            589999999999999998864

Adenylate kinase (EC 2.7.4.3) converts ATP + AMP to ADP + ADP, that is, uses ATP as a phosphate donor for AMP. Most members of this family are known or believed to be adenylate kinase. However, some members accept other nucleotide triphosphates as donors, may be unable to use ATP, and may fail to complement adenylate kinase mutants. An example of a nucleoside-triphosphate--adenylate kinase (EC 2.7.4.10) is a GTP:AMP phosphotransferase. This family is designated subfamily rather than equivalog for this reason.

>TIGR03015 pepcterm_ATPase putative secretion ATPase, PEP-CTERM locus subfamily

Probab=97.01  E-value=0.00086  Score=40.31  Aligned_cols=22  Identities=23%  Similarity=0.502  Sum_probs=19.4

Q ss_pred             eEEEEeCCCCCHHHHHHHHHhC
Q psy2514          14 TVVIVGNGAVGKSSMIQRYCRG   35 (71)
Q Consensus        14 ki~v~G~~~vGKtsl~~~~~~~   35 (71)
                      .+++.|++|+|||++++.+...
T Consensus        45 ~~~l~G~~G~GKTtl~~~l~~~   66 (269)
T TIGR03015        45 FILITGEVGAGKTTLIRNLLKR   66 (269)
T ss_pred             EEEEEcCCCCCHHHHHHHHHHh
Confidence            5789999999999999988754

Members of this protein are marked as probable ATPases by the nucleotide binding P-loop motif GXXGXGKTT, a motif DEAQ similar to the DEAD/H box of helicases, and extensive homology to ATPases of MSHA-type pilus systems and to GspA proteins associated with type II protein secretion systems.

>PF00910 RNA_helicase: RNA helicase; InterPro: IPR000605 Helicases have been classified in 5 superfamilies (SF1-SF5)

Probab=97.00  E-value=0.00074  Score=35.84  Aligned_cols=20  Identities=25%  Similarity=0.529  Sum_probs=17.2

Q ss_pred             EEEEeCCCCCHHHHHHHHHh
Q psy2514          15 VVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus        15 i~v~G~~~vGKtsl~~~~~~   34 (71)
                      |.+-|++|+|||+++..++.
T Consensus         1 I~i~G~~G~GKS~l~~~l~~   20 (107)
T PF00910_consen    1 IWIYGPPGIGKSTLAKELAK   20 (107)
T ss_pred             CEEECCCCCCHHHHHHHHHH
Confidence            46789999999999998664

All of the proteins bind ATP and, consequently, all of them carry the classical Walker A (phosphate-binding loop or P-loop) and Walker B (Mg2+-binding aspartic acid) motifs. Superfamily 3 consists of helicases encoded mainly by small DNA viruses and some large nucleocytoplasmic DNA viruses [, ]. Small viruses are very dependent on the host-cell machinery to replicate. SF3 helicase in small viruses is associated with an origin-binding domain. By pairing a domain that recognises the ori with a helicase, the virus can bypass the host-cell-based regulation pathway and initiate its own replication. The protein binds to the viral ori leading to origin unwinding. Cellular replication proteins are then recruited to the ori and the viral DNA is replicated. In SF3 helicases the Walker A and Walker B motifs are separated by spacers of rather uniform, and relatively short, length. In addition to the A and B motifs this family is characterised by a third motif (C) which resides between the B motif and the C terminus of the conserved region. This motif consists of an Asn residue preceded by a run of hydrophobic residues []. Several structures of SF3 helicases have been solved []. They all possess the same core alpha/beta fold, consisting of a five-stranded parallel beta sheet flanked on both sides by several alpha helices. In contrast to SF1 and SF2 helicases, which have RecA-like core folds, the strand connectivity within the alpha/beta core domain is that of AAA+ proteins []. The SF3 helicase proteins assemble into a hexameric ring. Some proteins known to contain an SF3 helicase domain are listed below: Polyomavirus large T antigen. It initiates DNA unwinding and replication via interactions with the viral origin of replication. Papillomavirus E1 protein. An ATP-dependent DNA helicase required for initiation of viral DNA replication. Parvovirus Rep/NS1 protein, which is also required for the initiation of viral replication. Poxviridae and other large DNA viruses D5 protein. Bacteriophage DNA primase/helicase protein. Bacterial prophage DNA primase/helicase protein. The entry represents the core alpha/beta fold of the SF3 helicase domain found predominantly in DNA viruses.; GO: 0003723 RNA binding, 0003724 RNA helicase activity

>TIGR01313 therm_gnt_kin carbohydrate kinase, thermoresistant glucokinase family

Probab=97.00  E-value=0.0007  Score=38.03  Aligned_cols=21  Identities=24%  Similarity=0.433  Sum_probs=17.7

Q ss_pred             EEEEeCCCCCHHHHHHHHHhC
Q psy2514          15 VVIVGNGAVGKSSMIQRYCRG   35 (71)
Q Consensus        15 i~v~G~~~vGKtsl~~~~~~~   35 (71)
                      ++++|.+|+|||++...+...
T Consensus         1 i~l~G~~GsGKSTla~~l~~~   21 (163)
T TIGR01313         1 FVLMGVAGSGKSTIASALAHR   21 (163)
T ss_pred             CEEECCCCCCHHHHHHHHHHh
Confidence            468899999999999987643

This model represents a subfamily of proteins that includes thermoresistant and thermosensitve isozymes of gluconate kinase (gluconokinase) in E. coli and other related proteins; members of this family are often named by similarity to the thermostable isozyme. These proteins show homology to shikimate kinases and adenylate kinases but not to gluconate kinases from the FGGY family of carbohydrate kinases.

>TIGR01359 UMP_CMP_kin_fam UMP-CMP kinase family

Probab=96.99  E-value=0.00096  Score=38.05  Aligned_cols=20  Identities=20%  Similarity=0.419  Sum_probs=17.8

Q ss_pred             EEEEeCCCCCHHHHHHHHHh
Q psy2514          15 VVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus        15 i~v~G~~~vGKtsl~~~~~~   34 (71)
                      ++++|.+|+|||++..++..
T Consensus         2 i~i~G~pGsGKst~a~~la~   21 (183)
T TIGR01359         2 VFVLGGPGSGKGTQCAKIVE   21 (183)
T ss_pred             EEEECCCCCCHHHHHHHHHH
Confidence            68899999999999998764

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.

>smart00053 DYNc Dynamin, GTPase

Probab=96.97  E-value=0.0015  Score=39.58  Aligned_cols=26  Identities=27%  Similarity=0.563  Sum_probs=22.7

Q ss_pred             eeeEEEEeCCCCCHHHHHHHHHhCcC
Q psy2514          12 KGTVVIVGNGAVGKSSMIQRYCRGTF   37 (71)
Q Consensus        12 ~~ki~v~G~~~vGKtsl~~~~~~~~f   37 (71)
                      ...++++|+.++||||+++.+....|
T Consensus        26 ~p~i~vvG~~~~GKSt~l~~i~g~~~   51 (240)
T smart00053       26 LPQIAVVGGQSAGKSSVLENFVGRDF   51 (240)
T ss_pred             CCeEEEEcCCCccHHHHHHHHhCCCc
Confidence            45799999999999999999987653

Large GTPases that mediate vesicle trafficking. Dynamin participates in the endocytic uptake of receptors, associated ligands, and plasma membrane following an exocytic event.

>PLN02200 adenylate kinase family protein

Probab=96.95  E-value=0.0016  Score=39.22  Aligned_cols=23  Identities=13%  Similarity=0.251  Sum_probs=20.1

Q ss_pred             eeeEEEEeCCCCCHHHHHHHHHh
Q psy2514          12 KGTVVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus        12 ~~ki~v~G~~~vGKtsl~~~~~~   34 (71)
                      ...++++|.+|+|||+++.++..
T Consensus        43 ~~ii~I~G~PGSGKsT~a~~La~   65 (234)
T PLN02200         43 PFITFVLGGPGSGKGTQCEKIVE   65 (234)
T ss_pred             CEEEEEECCCCCCHHHHHHHHHH
Confidence            36789999999999999988874

>PTZ00416 elongation factor 2; Provisional

Probab=96.95  E-value=0.0028  Score=44.26  Aligned_cols=26  Identities=12%  Similarity=0.149  Sum_probs=22.6

Q ss_pred             CceeeeEEEEeCCCCCHHHHHHHHHh
Q psy2514           9 GSIKGTVVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus         9 ~~~~~ki~v~G~~~vGKtsl~~~~~~   34 (71)
                      .+...+|+++|..++|||||+.+++.
T Consensus        16 ~~~irni~iiGh~d~GKTTL~~~Ll~   41 (836)
T PTZ00416         16 PDQIRNMSVIAHVDHGKSTLTDSLVC   41 (836)
T ss_pred             ccCcCEEEEECCCCCCHHHHHHHHHH
Confidence            34556999999999999999999885

>PRK06547 hypothetical protein; Provisional

Probab=96.94  E-value=0.0014  Score=37.69  Aligned_cols=26  Identities=27%  Similarity=0.326  Sum_probs=21.4

Q ss_pred             CceeeeEEEEeCCCCCHHHHHHHHHh
Q psy2514           9 GSIKGTVVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus         9 ~~~~~ki~v~G~~~vGKtsl~~~~~~   34 (71)
                      ......|++.|.+|+|||++...+..
T Consensus        12 ~~~~~~i~i~G~~GsGKTt~a~~l~~   37 (172)
T PRK06547         12 GGGMITVLIDGRSGSGKTTLAGALAA   37 (172)
T ss_pred             cCCCEEEEEECCCCCCHHHHHHHHHH
Confidence            34457788889999999999998864

>PRK05057 aroK shikimate kinase I; Reviewed

Probab=96.92  E-value=0.0013  Score=37.67  Aligned_cols=22  Identities=23%  Similarity=0.428  Sum_probs=19.6

Q ss_pred             eeEEEEeCCCCCHHHHHHHHHh
Q psy2514          13 GTVVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus        13 ~ki~v~G~~~vGKtsl~~~~~~   34 (71)
                      .+|+++|.+|+|||++...+..
T Consensus         5 ~~I~liG~~GaGKStl~~~La~   26 (172)
T PRK05057          5 RNIFLVGPMGAGKSTIGRQLAQ   26 (172)
T ss_pred             CEEEEECCCCcCHHHHHHHHHH
Confidence            4699999999999999998874

>PRK07429 phosphoribulokinase; Provisional

Probab=96.92  E-value=0.0015  Score=41.12  Aligned_cols=25  Identities=12%  Similarity=0.280  Sum_probs=21.5

Q ss_pred             CceeeeEEEEeCCCCCHHHHHHHHH
Q psy2514           9 GSIKGTVVIVGNGAVGKSSMIQRYC   33 (71)
Q Consensus         9 ~~~~~ki~v~G~~~vGKtsl~~~~~   33 (71)
                      ....+-|.+.|++|+|||++++.+.
T Consensus         5 ~~~~~IIgI~G~SGSGKSTla~~L~   29 (327)
T PRK07429          5 PDRPVLLGVAGDSGCGKTTFLRGLA   29 (327)
T ss_pred             CCCCEEEEEECCCCCCHHHHHHHHH
Confidence            3456899999999999999998876

>PF13555 AAA_29: P-loop containing region of AAA domain

Probab=96.91  E-value=0.0016  Score=31.80  Aligned_cols=21  Identities=24%  Similarity=0.438  Sum_probs=17.6

Q ss_pred             eEEEEeCCCCCHHHHHHHHHh
Q psy2514          14 TVVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus        14 ki~v~G~~~vGKtsl~~~~~~   34 (71)
                      -.++.|+.|+|||+++..+..
T Consensus        25 ~tli~G~nGsGKSTllDAi~~   45 (62)
T PF13555_consen   25 VTLITGPNGSGKSTLLDAIQT   45 (62)
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            378899999999999976653

>cd03255 ABC_MJ0796_Lo1CDE_FtsE This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE)

Probab=96.91  E-value=0.0012  Score=38.66  Aligned_cols=23  Identities=30%  Similarity=0.342  Sum_probs=19.5

Q ss_pred             eeEEEEeCCCCCHHHHHHHHHhC
Q psy2514          13 GTVVIVGNGAVGKSSMIQRYCRG   35 (71)
Q Consensus        13 ~ki~v~G~~~vGKtsl~~~~~~~   35 (71)
                      -.+.++|++|+|||+|++.++.-
T Consensus        31 ~~~~l~G~nGsGKSTLl~~i~Gl   53 (218)
T cd03255          31 EFVAIVGPSGSGKSTLLNILGGL   53 (218)
T ss_pred             CEEEEEcCCCCCHHHHHHHHhCC
Confidence            36789999999999999987643

They are clustered together phylogenetically. MacAB is an exporter that confers resistance to macrolides, while the LolCDE system is not a transporter at all. An FtsE null mutants showed filamentous growth and appeared viable on high salt medium only, indicating a role for FtsE in cell division and/or salt transport. The LolCDE complex catalyses the release of lipoproteins from the cytoplasmic membrane prior to their targeting to the outer membrane.

>KOG1486|consensus

Probab=96.90  E-value=0.0053  Score=38.18  Aligned_cols=59  Identities=19%  Similarity=0.131  Sum_probs=35.9

Q ss_pred             CceeeeEEEEeCCCCCHHHHHHHHHhCcC-CCCccCCcceeeEEEEEEeCCEEEEEEEcCCC
Q psy2514           9 GSIKGTVVIVGNGAVGKSSMIQRYCRGTF-TRDYKKTIGVKSSMIQRYCRGTFTRDYKKTIG   69 (71)
Q Consensus         9 ~~~~~ki~v~G~~~vGKtsl~~~~~~~~f-~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G   69 (71)
                      +.--.+++++|-+.||||+|+..+..-+. ..+|.-|.-. ...-++..++ ..+++.|-.|
T Consensus        59 KsGdaRValIGfPSVGKStlLs~iT~T~SeaA~yeFTTLt-cIpGvi~y~g-a~IQllDLPG  118 (364)
T KOG1486|consen   59 KSGDARVALIGFPSVGKSTLLSKITSTHSEAASYEFTTLT-CIPGVIHYNG-ANIQLLDLPG  118 (364)
T ss_pred             ccCCeEEEEecCCCccHHHHHHHhhcchhhhhceeeeEEE-eecceEEecC-ceEEEecCcc
Confidence            34457899999999999999998875332 2234333321 2222333333 4577777654

>PF00625 Guanylate_kin: Guanylate kinase; InterPro: IPR008144 Guanylate kinase (2

Probab=96.90  E-value=0.0013  Score=37.74  Aligned_cols=20  Identities=35%  Similarity=0.674  Sum_probs=18.3

Q ss_pred             EEEEeCCCCCHHHHHHHHHh
Q psy2514          15 VVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus        15 i~v~G~~~vGKtsl~~~~~~   34 (71)
                      ++++|++|+||++|..+++.
T Consensus         5 ivl~Gpsg~GK~~l~~~L~~   24 (183)
T PF00625_consen    5 IVLVGPSGSGKSTLAKRLIQ   24 (183)
T ss_dssp             EEEESSTTSSHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHH
Confidence            67899999999999999875

7.4.8 from EC) (GK) [] catalyzes the ATP-dependent phosphorylation of GMP into GDP. It is essential for recycling GMP and indirectly, cGMP. In prokaryotes (such as Escherichia coli), lower eukaryotes (such as yeast) and in vertebrates, GK is a highly conserved monomeric protein of about 200 amino acids. GK has been shown [, , ] to be structurally similar to protein A57R (or SalG2R) from various strains of Vaccinia virus. Proteins containing one or more copies of the DHR domain, an SH3 domain as well as a C-terminal GK-like domain, are collectively termed MAGUKs (membrane-associated guanylate kinase homologs) [], and include Drosophila lethal(1)discs large-1 tumor suppressor protein (gene dlg1); mammalian tight junction protein Zo-1; a family of mammalian synaptic proteins that seem to interact with the cytoplasmic tail of NMDA receptor subunits (SAP90/PSD-95, CHAPSYN-110/PSD-93, SAP97/DLG1 and SAP102); vertebrate 55kDa erythrocyte membrane protein (p55); Caenorhabditis elegans protein lin-2; rat protein CASK; and human proteins DLG2 and DLG3. There is an ATP-binding site (P-loop) in the N-terminal section of GK, which is not conserved in the GK-like domain of the above proteins. However these proteins retain the residues known, in GK, to be involved in the binding of GMP.; GO: 0005515 protein binding; PDB: 3UAT_A 3KFV_A 2ANC_F 2F3T_E 2ANB_A 2AN9_A 1S96_A 2F3R_B 3TR0_A 1LVG_A ....

>smart00072 GuKc Guanylate kinase homologues

Probab=96.88  E-value=0.0014  Score=37.79  Aligned_cols=22  Identities=23%  Similarity=0.539  Sum_probs=19.6

Q ss_pred             eEEEEeCCCCCHHHHHHHHHhC
Q psy2514          14 TVVIVGNGAVGKSSMIQRYCRG   35 (71)
Q Consensus        14 ki~v~G~~~vGKtsl~~~~~~~   35 (71)
                      =++++|++|+||++++.+++..
T Consensus         4 ~ivl~Gpsg~GK~tl~~~L~~~   25 (184)
T smart00072        4 PIVLSGPSGVGKGTLLAELIQE   25 (184)
T ss_pred             EEEEECCCCCCHHHHHHHHHhc
Confidence            3789999999999999999866

Active enzymes catalyze ATP-dependent phosphorylation of GMP to GDP. Structure resembles that of adenylate kinase. So-called membrane-associated guanylate kinase homologues (MAGUKs) do not possess guanylate kinase activities; instead at least some possess protein-binding functions.

>cd01120 RecA-like_NTPases RecA-like NTPases

Probab=96.87  E-value=0.0013  Score=36.08  Aligned_cols=21  Identities=14%  Similarity=0.408  Sum_probs=18.1

Q ss_pred             EEEEeCCCCCHHHHHHHHHhC
Q psy2514          15 VVIVGNGAVGKSSMIQRYCRG   35 (71)
Q Consensus        15 i~v~G~~~vGKtsl~~~~~~~   35 (71)
                      +++.|++|+|||+++..++..
T Consensus         2 ~~i~G~~G~GKT~l~~~i~~~   22 (165)
T cd01120           2 ILVFGPTGSGKTTLALQLALN   22 (165)
T ss_pred             eeEeCCCCCCHHHHHHHHHHH
Confidence            678999999999999988643

This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and related DNA transfer proteins involved in type II and type IV secretion.

>PF07724 AAA_2: AAA domain (Cdc48 subfamily); InterPro: IPR013093 ATPases Associated to a variety of cellular Activities (AAA) are a family distinguished by a highly conserved module of 230 amino acids []

Probab=96.87  E-value=0.0019  Score=37.20  Aligned_cols=27  Identities=22%  Similarity=0.407  Sum_probs=21.8

Q ss_pred             eeeeEEEEeCCCCCHHHHHHHHHhCcC
Q psy2514          11 IKGTVVIVGNGAVGKSSMIQRYCRGTF   37 (71)
Q Consensus        11 ~~~ki~v~G~~~vGKtsl~~~~~~~~f   37 (71)
                      +...++++|++|||||.++..+..--+
T Consensus         2 p~~~~ll~GpsGvGKT~la~~la~~l~   28 (171)
T PF07724_consen    2 PKSNFLLAGPSGVGKTELAKALAELLF   28 (171)
T ss_dssp             -SEEEEEESSTTSSHHHHHHHHHHHHT
T ss_pred             CEEEEEEECCCCCCHHHHHHHHHHHhc
Confidence            356789999999999999988875444

The highly conserved nature of this module across taxa suggests that it has a key cellular role. Members of the family are involved in diverse cellular functions including gene expression, peroxisome assembly and vesicle mediated transport. Although the role of ATPase AAA-2 domain is not, as yet, clear, the AAA+ superfamily of proteins to which the AAA ATPases belong has a chaperone-like function in the assembly, operation or disassembly of proteins []. Some of these ATPases function as a chaperone subunit of a proteasome-like degradation complex. This ATPase family includes some proteins not detected by IPR003959 from INTERPRO.; GO: 0005524 ATP binding; PDB: 1R6B_X 1KSF_X 3PXI_C 1KYI_T 1G3I_S 1OFH_B 1OFI_A 1G41_A 1IM2_A 1HQY_E ....

>PRK06762 hypothetical protein; Provisional

Probab=96.87  E-value=0.0014  Score=36.88  Aligned_cols=22  Identities=23%  Similarity=0.481  Sum_probs=18.5

Q ss_pred             eEEEEeCCCCCHHHHHHHHHhC
Q psy2514          14 TVVIVGNGAVGKSSMIQRYCRG   35 (71)
Q Consensus        14 ki~v~G~~~vGKtsl~~~~~~~   35 (71)
                      -+++.|.+|+|||++...+...
T Consensus         4 li~i~G~~GsGKST~A~~L~~~   25 (166)
T PRK06762          4 LIIIRGNSGSGKTTIAKQLQER   25 (166)
T ss_pred             EEEEECCCCCCHHHHHHHHHHH
Confidence            5788999999999999887643

>PRK08099 bifunctional DNA-binding transcriptional repressor/ NMN adenylyltransferase; Provisional

Probab=96.87  E-value=0.0013  Score=42.46  Aligned_cols=28  Identities=29%  Similarity=0.427  Sum_probs=23.7

Q ss_pred             cCceeeeEEEEeCCCCCHHHHHHHHHhC
Q psy2514           8 RGSIKGTVVIVGNGAVGKSSMIQRYCRG   35 (71)
Q Consensus         8 ~~~~~~ki~v~G~~~vGKtsl~~~~~~~   35 (71)
                      ++....+|+++|.+++|||+|+..+...
T Consensus       215 r~~~~~~IvI~G~~gsGKTTL~~~La~~  242 (399)
T PRK08099        215 RPFFVRTVAILGGESSGKSTLVNKLANI  242 (399)
T ss_pred             hhCCCcEEEEEcCCCCCHHHHHHHHHHH
Confidence            4556789999999999999999988753

>cd02021 GntK Gluconate kinase (GntK) catalyzes the phosphoryl transfer from ATP to gluconate

Probab=96.86  E-value=0.0015  Score=36.15  Aligned_cols=21  Identities=24%  Similarity=0.428  Sum_probs=18.1

Q ss_pred             EEEEeCCCCCHHHHHHHHHhC
Q psy2514          15 VVIVGNGAVGKSSMIQRYCRG   35 (71)
Q Consensus        15 i~v~G~~~vGKtsl~~~~~~~   35 (71)
                      +++.|.+|+|||++...+...
T Consensus         2 i~l~G~~GsGKST~a~~l~~~   22 (150)
T cd02021           2 IVVMGVSGSGKSTVGKALAER   22 (150)
T ss_pred             EEEEcCCCCCHHHHHHHHHhh
Confidence            578899999999999987653

The resulting product gluconate-6-phoshate is an important precursor of gluconate metabolism. GntK acts as a dimmer composed of two identical subunits.

>TIGR01526 nadR_NMN_Atrans nicotinamide-nucleotide adenylyltransferase, NadR type

Probab=96.86  E-value=0.0014  Score=41.13  Aligned_cols=23  Identities=30%  Similarity=0.566  Sum_probs=20.6

Q ss_pred             eeeEEEEeCCCCCHHHHHHHHHh
Q psy2514          12 KGTVVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus        12 ~~ki~v~G~~~vGKtsl~~~~~~   34 (71)
                      .-+++++|.+|+|||+|+..+..
T Consensus       162 ~~~~~~~G~~~~gkstl~~~l~~  184 (325)
T TIGR01526       162 VKTVAILGGESTGKSTLVNKLAA  184 (325)
T ss_pred             CcEEEEECCCCCCHHHHHHHHHH
Confidence            45899999999999999998875

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.

>TIGR00960 3a0501s02 Type II (General) Secretory Pathway (IISP) Family protein

Probab=96.85  E-value=0.0014  Score=38.39  Aligned_cols=22  Identities=27%  Similarity=0.472  Sum_probs=19.2

Q ss_pred             eeEEEEeCCCCCHHHHHHHHHh
Q psy2514          13 GTVVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus        13 ~ki~v~G~~~vGKtsl~~~~~~   34 (71)
                      -.+.++|++|+|||+|++-++.
T Consensus        30 e~~~i~G~nGsGKSTLl~~l~G   51 (216)
T TIGR00960        30 EMVFLVGHSGAGKSTFLKLILG   51 (216)
T ss_pred             CEEEEECCCCCCHHHHHHHHhC
Confidence            3678999999999999998775

>cd03264 ABC_drug_resistance_like ABC-type multidrug transport system, ATPase component

Probab=96.85  E-value=0.0012  Score=38.58  Aligned_cols=21  Identities=14%  Similarity=0.379  Sum_probs=19.0

Q ss_pred             eEEEEeCCCCCHHHHHHHHHh
Q psy2514          14 TVVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus        14 ki~v~G~~~vGKtsl~~~~~~   34 (71)
                      .+.++|++|+|||+|++-+..
T Consensus        27 ~~~i~G~nGsGKSTLl~~l~G   47 (211)
T cd03264          27 MYGLLGPNGAGKTTLMRILAT   47 (211)
T ss_pred             cEEEECCCCCCHHHHHHHHhC
Confidence            789999999999999998764

The biological function of this family is not well characterized, but display ABC domains similar to members of ABCA subfamily. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic molecules. The nucleotide binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>PRK00279 adk adenylate kinase; Reviewed

Probab=96.84  E-value=0.0016  Score=38.36  Aligned_cols=21  Identities=14%  Similarity=0.357  Sum_probs=18.8

Q ss_pred             eEEEEeCCCCCHHHHHHHHHh
Q psy2514          14 TVVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus        14 ki~v~G~~~vGKtsl~~~~~~   34 (71)
                      +|+++|.+|+|||++...+..
T Consensus         2 ~I~v~G~pGsGKsT~a~~la~   22 (215)
T PRK00279          2 RLILLGPPGAGKGTQAKFIAE   22 (215)
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            699999999999999887763

>cd01124 KaiC KaiC is a circadian clock protein primarily found in cyanobacteria KaiC is a RecA-like ATPase, having both Walker A and Walker B motifs

Probab=96.84  E-value=0.0015  Score=37.19  Aligned_cols=21  Identities=14%  Similarity=0.403  Sum_probs=18.2

Q ss_pred             EEEEeCCCCCHHHHHHHHHhC
Q psy2514          15 VVIVGNGAVGKSSMIQRYCRG   35 (71)
Q Consensus        15 i~v~G~~~vGKtsl~~~~~~~   35 (71)
                      +++.|++|+|||+|..+++..
T Consensus         2 ~li~G~~G~GKT~l~~~~~~~   22 (187)
T cd01124           2 TLLSGGPGTGKTTFALQFLYA   22 (187)
T ss_pred             EEEEcCCCCCHHHHHHHHHHH
Confidence            578999999999999988753

A related protein is found in archaea.

>cd01128 rho_factor Transcription termination factor rho is a bacterial ATP-dependent RNA/DNA helicase

Probab=96.84  E-value=0.0016  Score=39.60  Aligned_cols=26  Identities=19%  Similarity=0.259  Sum_probs=21.5

Q ss_pred             eeeeEEEEeCCCCCHHHHHHHHHhCc
Q psy2514          11 IKGTVVIVGNGAVGKSSMIQRYCRGT   36 (71)
Q Consensus        11 ~~~ki~v~G~~~vGKtsl~~~~~~~~   36 (71)
                      ..-+++++|++|+|||+|++.+.+..
T Consensus        15 ~Gqr~~I~G~~G~GKTTLlr~I~n~l   40 (249)
T cd01128          15 KGQRGLIVAPPKAGKTTLLQSIANAI   40 (249)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHhcc
Confidence            34588999999999999998877544

It is a homohexamer. Each monomer consists of an N-terminal domain of the OB fold, which is responsible for binding to cysteine rich nucleotides. This alignment is of the C-terminal ATP binding domain.

>TIGR02315 ABC_phnC phosphonate ABC transporter, ATP-binding protein

Probab=96.84  E-value=0.0015  Score=38.93  Aligned_cols=22  Identities=32%  Similarity=0.530  Sum_probs=18.9

Q ss_pred             eeEEEEeCCCCCHHHHHHHHHh
Q psy2514          13 GTVVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus        13 ~ki~v~G~~~vGKtsl~~~~~~   34 (71)
                      =.++++|++|+|||+|++.++.
T Consensus        29 e~~~l~G~nGsGKSTLl~~l~G   50 (243)
T TIGR02315        29 EFVAIIGPSGAGKSTLLRCINR   50 (243)
T ss_pred             CEEEEECCCCCCHHHHHHHHhC
Confidence            3688999999999999987764

Phosphonates are a class of phosphorus-containing organic compound with a stable direct C-P bond rather than a C-O-P linkage. A number of bacterial species have operons, typically about 14 genes in size, with genes for ATP-dependent transport of phosphonates, degradation, and regulation of the expression of the system. Members of this protein family are the ATP-binding cassette component of tripartite ABC transporters of phosphonates.

>TIGR02881 spore_V_K stage V sporulation protein K

Probab=96.83  E-value=0.0018  Score=39.27  Aligned_cols=24  Identities=17%  Similarity=0.257  Sum_probs=20.6

Q ss_pred             eeeeEEEEeCCCCCHHHHHHHHHh
Q psy2514          11 IKGTVVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus        11 ~~~ki~v~G~~~vGKtsl~~~~~~   34 (71)
                      ....+++.|++|+|||++++.+..
T Consensus        41 ~~~~vll~GppGtGKTtlA~~ia~   64 (261)
T TIGR02881        41 QVLHMIFKGNPGTGKTTVARILGK   64 (261)
T ss_pred             CcceEEEEcCCCCCHHHHHHHHHH
Confidence            457899999999999999987754

Members of this protein family are the stage V sporulation protein K (SpoVK), a close homolog of the Rubisco expression protein CbbX (TIGR02880) and a members of the ATPase family associated with various cellular activities (pfam00004). Members are strictly limited to bacterial endospore-forming species, but are not universal in this group and are missing from the Clostridium group.

>cd03226 ABC_cobalt_CbiO_domain2 Domain II of the ABC component of a cobalt transport family found in bacteria, archaea, and eukaryota

Probab=96.82  E-value=0.0016  Score=37.99  Aligned_cols=23  Identities=13%  Similarity=0.320  Sum_probs=19.7

Q ss_pred             eeEEEEeCCCCCHHHHHHHHHhC
Q psy2514          13 GTVVIVGNGAVGKSSMIQRYCRG   35 (71)
Q Consensus        13 ~ki~v~G~~~vGKtsl~~~~~~~   35 (71)
                      -.+.++|++|+|||+|++.++.-
T Consensus        27 e~~~i~G~nGsGKSTLl~~l~Gl   49 (205)
T cd03226          27 EIIALTGKNGAGKTTLAKILAGL   49 (205)
T ss_pred             CEEEEECCCCCCHHHHHHHHhcC
Confidence            46889999999999999987653

The transition metal cobalt is an essential component of many enzymes and must be transported into cells in appropriate amounts when needed. The CbiMNQO family ABC transport system is involved in cobalt transport in association with the cobalamin (vitamin B12) biosynthetic pathways. Most cobalt (Cbi) transport systems possess a separate CbiN component, the cobalt-binding periplasmic protein, and they are encoded by the conserved gene cluster cbiMNQO. Both the CbiM and CbiQ proteins are integral cytoplasmic membrane proteins, and the CbiO protein has the linker peptide and the Walker A and B motifs commonly found in the ATPase components of the ABC-type transport systems.

>COG1120 FepC ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]

Probab=96.82  E-value=0.0014  Score=40.21  Aligned_cols=22  Identities=23%  Similarity=0.374  Sum_probs=18.5

Q ss_pred             eeEEEEeCCCCCHHHHHHHHHh
Q psy2514          13 GTVVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus        13 ~ki~v~G~~~vGKtsl~~~~~~   34 (71)
                      --++++|+.|+|||||++.+..
T Consensus        29 ~i~~iiGpNG~GKSTLLk~l~g   50 (258)
T COG1120          29 EITGILGPNGSGKSTLLKCLAG   50 (258)
T ss_pred             cEEEEECCCCCCHHHHHHHHhc
Confidence            3467889999999999998764

>TIGR02868 CydC thiol reductant ABC exporter, CydC subunit

Probab=96.82  E-value=0.0018  Score=42.61  Aligned_cols=25  Identities=24%  Similarity=0.335  Sum_probs=20.8

Q ss_pred             ceeeeEEEEeCCCCCHHHHHHHHHh
Q psy2514          10 SIKGTVVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus        10 ~~~~ki~v~G~~~vGKtsl~~~~~~   34 (71)
                      +..-+++++|++|+|||||+.-+..
T Consensus       359 ~~G~~vaIvG~SGsGKSTLl~lL~g  383 (529)
T TIGR02868       359 PPGERVAILGPSGSGKSTLLMLLTG  383 (529)
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHhc
Confidence            3456889999999999999987763

The gene pair cydCD encodes an ABC-family transporter in which each gene contains an N-terminal membrane-spanning domain (pfam00664) and a C-terminal ATP-binding domain (pfam00005). In E. coli these genes were discovered as mutants which caused the terminal heme-copper oxidase complex cytochrome bd to fail to assemble. Recent work has shown that the transporter is involved in export of redox-active thiol compounds such as cysteine and glutathione. The linkage to assembly of the cytochrome bd complex is further supported by the conserved operon structure found outside the gammaproteobacteria (cydABCD) containing both the transporter and oxidase genes components. The genes used as the seed members for this model are all either found in the gammproteobacterial context or the CydABCD context. All members of this family scoring above trusted at the time of its creation were from genomes which encode a cytochrome bd complex.

>PRK13947 shikimate kinase; Provisional

Probab=96.82  E-value=0.0018  Score=36.55  Aligned_cols=21  Identities=24%  Similarity=0.457  Sum_probs=18.8

Q ss_pred             eEEEEeCCCCCHHHHHHHHHh
Q psy2514          14 TVVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus        14 ki~v~G~~~vGKtsl~~~~~~   34 (71)
                      +|+++|.+|+|||++...+..
T Consensus         3 ~I~l~G~~GsGKst~a~~La~   23 (171)
T PRK13947          3 NIVLIGFMGTGKTTVGKRVAT   23 (171)
T ss_pred             eEEEEcCCCCCHHHHHHHHHH
Confidence            689999999999999988764

>PRK14528 adenylate kinase; Provisional

Probab=96.82  E-value=0.0018  Score=37.51  Aligned_cols=22  Identities=18%  Similarity=0.513  Sum_probs=19.1

Q ss_pred             eeEEEEeCCCCCHHHHHHHHHh
Q psy2514          13 GTVVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus        13 ~ki~v~G~~~vGKtsl~~~~~~   34 (71)
                      .+++++|.+|+|||++..++..
T Consensus         2 ~~i~i~G~pGsGKtt~a~~la~   23 (186)
T PRK14528          2 KNIIFMGPPGAGKGTQAKILCE   23 (186)
T ss_pred             cEEEEECCCCCCHHHHHHHHHH
Confidence            4689999999999999988763

>cd03225 ABC_cobalt_CbiO_domain1 Domain I of the ABC component of a cobalt transport family found in bacteria, archaea, and eukaryota

Probab=96.80  E-value=0.0017  Score=37.92  Aligned_cols=22  Identities=32%  Similarity=0.468  Sum_probs=19.0

Q ss_pred             eeEEEEeCCCCCHHHHHHHHHh
Q psy2514          13 GTVVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus        13 ~ki~v~G~~~vGKtsl~~~~~~   34 (71)
                      -.+.++|++|+|||+|++-+..
T Consensus        28 ~~~~l~G~nGsGKSTLl~~l~G   49 (211)
T cd03225          28 EFVLIVGPNGSGKSTLLRLLNG   49 (211)
T ss_pred             cEEEEECCCCCCHHHHHHHHhc
Confidence            4578999999999999998764

The transition metal cobalt is an essential component of many enzymes and must be transported into cells in appropriate amounts when needed. This ABC transport system of the CbiMNQO family is involved in cobalt transport in association with the cobalamin (vitamin B12) biosynthetic pathways. Most of cobalt (Cbi) transport systems possess a separate CbiN component, the cobalt-binding periplasmic protein, and they are encoded by the conserved gene cluster cbiMNQO. Both the CbiM and CbiQ proteins are integral cytoplasmic membrane proteins, and the CbiO protein has the linker peptide and the Walker A and B motifs commonly found in the ATPase components of the ABC-type transport systems.

>PRK00625 shikimate kinase; Provisional

Probab=96.80  E-value=0.0019  Score=37.25  Aligned_cols=21  Identities=24%  Similarity=0.425  Sum_probs=18.7

Q ss_pred             eEEEEeCCCCCHHHHHHHHHh
Q psy2514          14 TVVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus        14 ki~v~G~~~vGKtsl~~~~~~   34 (71)
                      +|+++|-+|+|||++...+..
T Consensus         2 ~I~LiG~pGsGKTT~~k~La~   22 (173)
T PRK00625          2 QIFLCGLPTVGKTSFGKALAK   22 (173)
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            589999999999999988764

>PF13479 AAA_24: AAA domain

Probab=96.79  E-value=0.0013  Score=38.85  Aligned_cols=21  Identities=19%  Similarity=0.332  Sum_probs=19.5

Q ss_pred             eeeEEEEeCCCCCHHHHHHHH
Q psy2514          12 KGTVVIVGNGAVGKSSMIQRY   32 (71)
Q Consensus        12 ~~ki~v~G~~~vGKtsl~~~~   32 (71)
                      .+++++-|++|+|||+++..+
T Consensus         3 ~~~~lIyG~~G~GKTt~a~~~   23 (213)
T PF13479_consen    3 PIKILIYGPPGSGKTTLAASL   23 (213)
T ss_pred             ceEEEEECCCCCCHHHHHHhC
Confidence            589999999999999999887

>cd03292 ABC_FtsE_transporter FtsE is a hydrophilic nucleotide-binding protein that binds FtsX to form a heterodimeric ATP-binding cassette (ABC)-type transporter that associates with the bacterial inner membrane

Probab=96.79  E-value=0.0018  Score=37.87  Aligned_cols=22  Identities=27%  Similarity=0.505  Sum_probs=19.1

Q ss_pred             eeEEEEeCCCCCHHHHHHHHHh
Q psy2514          13 GTVVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus        13 ~ki~v~G~~~vGKtsl~~~~~~   34 (71)
                      -.+.++|++|+|||+|++-++.
T Consensus        28 ~~~~i~G~nGsGKSTLl~~l~G   49 (214)
T cd03292          28 EFVFLVGPSGAGKSTLLKLIYK   49 (214)
T ss_pred             CEEEEECCCCCCHHHHHHHHhc
Confidence            3578999999999999998875

The FtsE/X transporter is thought to be involved in cell division and is important for assembly or stability of the septal ring.

>PF00448 SRP54: SRP54-type protein, GTPase domain; InterPro: IPR000897 The signal recognition particle (SRP) is a multimeric protein, which along with its conjugate receptor (SR), is involved in targeting secretory proteins to the rough endoplasmic reticulum (RER) membrane in eukaryotes, or to the plasma membrane in prokaryotes [, ]

Probab=96.78  E-value=0.0019  Score=37.87  Aligned_cols=20  Identities=30%  Similarity=0.619  Sum_probs=17.5

Q ss_pred             eEEEEeCCCCCHHHHHHHHH
Q psy2514          14 TVVIVGNGAVGKSSMIQRYC   33 (71)
Q Consensus        14 ki~v~G~~~vGKtsl~~~~~   33 (71)
                      .++++|+.|||||+.+-++.
T Consensus         3 vi~lvGptGvGKTTt~aKLA   22 (196)
T PF00448_consen    3 VIALVGPTGVGKTTTIAKLA   22 (196)
T ss_dssp             EEEEEESTTSSHHHHHHHHH
T ss_pred             EEEEECCCCCchHhHHHHHH
Confidence            57899999999999888766

SRP recognises the signal sequence of the nascent polypeptide on the ribosome, retards its elongation, and docks the SRP-ribosome-polypeptide complex to the RER membrane via the SR receptor. Eukaryotic SRP consists of six polypeptides (SRP9, SRP14, SRP19, SRP54, SRP68 and SRP72) and a single 300 nucleotide 7S RNA molecule. The RNA component catalyses the interaction of SRP with its SR receptor []. In higher eukaryotes, the SRP complex consists of the Alu domain and the S domain linked by the SRP RNA. The Alu domain consists of a heterodimer of SRP9 and SRP14 bound to the 5' and 3' terminal sequences of SRP RNA. This domain is necessary for retarding the elongation of the nascent polypeptide chain, which gives SRP time to dock the ribosome-polypeptide complex to the RER membrane. In archaea, the SRP complex contains 7S RNA like its eukaryotic counterpart, yet only includes two of the six protein subunits found in the eukarytic complex: SRP19 and SRP54 []. This entry represents the GTPase domain of the 54 kDa SRP54 component, a GTP-binding protein that interacts with the signal sequence when it emerges from the ribosome. SRP54 of the signal recognition particle has a three-domain structure: an N-terminal helical bundle domain, a GTPase domain, and the M-domain that binds the 7s RNA and also binds the signal sequence. The extreme C-terminal region is glycine-rich and lower in complexity and poorly conserved between species. The GTPase domain is evolutionary related to P-loop NTPase domains found in a variety of other proteins []. These proteins include Escherichia coli and Bacillus subtilis ffh protein (P48), which seems to be the prokaryotic counterpart of SRP54; signal recognition particle receptor alpha subunit (docking protein), an integral membrane GTP-binding protein which ensures, in conjunction with SRP, the correct targeting of nascent secretory proteins to the endoplasmic reticulum membrane; bacterial FtsY protein, which is believed to play a similar role to that of the docking protein in eukaryotes; the pilA protein from Neisseria gonorrhoeae, the homologue of ftsY; and bacterial flagellar biosynthesis protein flhF.; GO: 0005525 GTP binding, 0006614 SRP-dependent cotranslational protein targeting to membrane; PDB: 2OG2_A 3B9Q_A 3DM9_B 3DMD_B 3E70_C 3DM5_B 2XXA_C 2J28_9 1ZU5_B 1ZU4_A ....

>cd03260 ABC_PstB_phosphate_transporter Phosphate uptake is of fundamental importance in the cell physiology of bacteria because phosphate is required as a nutrient

Probab=96.78  E-value=0.0019  Score=38.14  Aligned_cols=23  Identities=22%  Similarity=0.408  Sum_probs=19.5

Q ss_pred             eeEEEEeCCCCCHHHHHHHHHhC
Q psy2514          13 GTVVIVGNGAVGKSSMIQRYCRG   35 (71)
Q Consensus        13 ~ki~v~G~~~vGKtsl~~~~~~~   35 (71)
                      -.+.++|++|+|||+|++-+..-
T Consensus        27 e~~~i~G~nGsGKSTLl~~i~G~   49 (227)
T cd03260          27 EITALIGPSGCGKSTLLRLLNRL   49 (227)
T ss_pred             CEEEEECCCCCCHHHHHHHHHhh
Confidence            46789999999999999987653

The Pst system of E. coli comprises four distinct subunits encoded by the pstS, pstA, pstB, and pstC genes. The PstS protein is a phosphate-binding protein located in the periplasmic space. P stA and PstC are hydrophobic and they form the transmembrane portion of the Pst system. PstB is the catalytic subunit, which couples the energy of ATP hydrolysis to the import of phosphate across cellular membranes through the Pst system, often referred as ABC-protein. PstB belongs to one of the largest superfamilies of proteins characterized by a highly conserved adenosine triphosphate (ATP) binding cassette (ABC), which is also a nucleotide binding domain (NBD).

>TIGR03420 DnaA_homol_Hda DnaA regulatory inactivator Hda

Probab=96.78  E-value=0.0017  Score=38.05  Aligned_cols=25  Identities=24%  Similarity=0.399  Sum_probs=20.7

Q ss_pred             eeeeEEEEeCCCCCHHHHHHHHHhC
Q psy2514          11 IKGTVVIVGNGAVGKSSMIQRYCRG   35 (71)
Q Consensus        11 ~~~ki~v~G~~~vGKtsl~~~~~~~   35 (71)
                      ..-.+++.|++|+|||+++..+...
T Consensus        37 ~~~~lll~G~~G~GKT~la~~~~~~   61 (226)
T TIGR03420        37 GDRFLYLWGESGSGKSHLLQAACAA   61 (226)
T ss_pred             CCCeEEEECCCCCCHHHHHHHHHHH
Confidence            3457889999999999999987753

Members of this protein family are Hda (Homologous to DnaA). These proteins are about half the length of DnaA and homologous over length of Hda. In the model species Escherichia coli, the initiation of DNA replication requires DnaA bound to ATP rather than ADP; Hda helps facilitate the conversion of DnaA-ATP to DnaA-ADP.

>TIGR00073 hypB hydrogenase accessory protein HypB

Probab=96.78  E-value=0.0015  Score=38.34  Aligned_cols=26  Identities=12%  Similarity=0.185  Sum_probs=22.0

Q ss_pred             ceeeeEEEEeCCCCCHHHHHHHHHhC
Q psy2514          10 SIKGTVVIVGNGAVGKSSMIQRYCRG   35 (71)
Q Consensus        10 ~~~~ki~v~G~~~vGKtsl~~~~~~~   35 (71)
                      .....+.++|..|+|||+|+.+++..
T Consensus        20 ~~~~~i~~~G~~gsGKTTli~~l~~~   45 (207)
T TIGR00073        20 HGLVVLNFMSSPGSGKTTLIEKLIDN   45 (207)
T ss_pred             cCcEEEEEECCCCCCHHHHHHHHHHH
Confidence            34577899999999999999998853

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

>PRK13540 cytochrome c biogenesis protein CcmA; Provisional

Probab=96.78  E-value=0.0026  Score=36.97  Aligned_cols=24  Identities=17%  Similarity=0.358  Sum_probs=20.0

Q ss_pred             eeeEEEEeCCCCCHHHHHHHHHhC
Q psy2514          12 KGTVVIVGNGAVGKSSMIQRYCRG   35 (71)
Q Consensus        12 ~~ki~v~G~~~vGKtsl~~~~~~~   35 (71)
                      .=.+.++|++|+|||+|++-++.-
T Consensus        27 Ge~~~l~G~nGsGKSTLl~~i~G~   50 (200)
T PRK13540         27 GGLLHLKGSNGAGKTTLLKLIAGL   50 (200)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhcC
Confidence            346889999999999999977653

>PRK04040 adenylate kinase; Provisional

Probab=96.78  E-value=0.0023  Score=37.28  Aligned_cols=23  Identities=26%  Similarity=0.460  Sum_probs=19.6

Q ss_pred             eeEEEEeCCCCCHHHHHHHHHhC
Q psy2514          13 GTVVIVGNGAVGKSSMIQRYCRG   35 (71)
Q Consensus        13 ~ki~v~G~~~vGKtsl~~~~~~~   35 (71)
                      ..+++.|.+|+|||+++..+...
T Consensus         3 ~~i~v~G~pG~GKtt~~~~l~~~   25 (188)
T PRK04040          3 KVVVVTGVPGVGKTTVLNKALEK   25 (188)
T ss_pred             eEEEEEeCCCCCHHHHHHHHHHH
Confidence            46889999999999999987653

>TIGR03608 L_ocin_972_ABC putative bacteriocin export ABC transporter, lactococcin 972 group

Probab=96.78  E-value=0.0026  Score=36.95  Aligned_cols=23  Identities=22%  Similarity=0.290  Sum_probs=19.6

Q ss_pred             eeEEEEeCCCCCHHHHHHHHHhC
Q psy2514          13 GTVVIVGNGAVGKSSMIQRYCRG   35 (71)
Q Consensus        13 ~ki~v~G~~~vGKtsl~~~~~~~   35 (71)
                      =.+.++|++|+|||+|++-++.-
T Consensus        25 e~~~i~G~nGsGKSTLl~~l~G~   47 (206)
T TIGR03608        25 KMYAIIGESGSGKSTLLNIIGLL   47 (206)
T ss_pred             cEEEEECCCCCCHHHHHHHHhcC
Confidence            35889999999999999988753

A gene pair with a fairly wide distribution consists of a polypeptide related to the lactococcin 972 (see TIGR01653) and multiple-membrane-spanning putative immunity protein (see TIGR01654). This model represents a small clade within the ABC transporters that regularly are found adjacent to these bacteriocin system gene pairs and are likely serve as export proteins.

>PF00485 PRK: Phosphoribulokinase / Uridine kinase family; InterPro: IPR006083 Phosphoribulokinase (PRK) 2

Probab=96.77  E-value=0.0021  Score=37.28  Aligned_cols=20  Identities=25%  Similarity=0.542  Sum_probs=17.3

Q ss_pred             EEEEeCCCCCHHHHHHHHHh
Q psy2514          15 VVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus        15 i~v~G~~~vGKtsl~~~~~~   34 (71)
                      |.+.|.+|+|||+|..++..
T Consensus         2 IgI~G~sgSGKTTla~~L~~   21 (194)
T PF00485_consen    2 IGIAGPSGSGKTTLAKRLAQ   21 (194)
T ss_dssp             EEEEESTTSSHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHH
Confidence            57889999999999998763

7.1.19 from EC catalyses the ATP-dependent phosphorylation of ribulose-5-phosphate to ribulose-1,5-phosphate, a key step in the pentose phosphate pathway where carbon dioxide is assimilated by autotrophic organisms []. In general, plant enzymes are light-activated by the thioredoxin/ferredoxin system, while those from photosynthetic bacteria are regulated by a system that has an absolute requirement for NADH. Thioredoxin/ferredoxin regulation is mediated by the reversible oxidation/reduction of sulphydryl and disulphide groups. Uridine kinase (pyrimidine ribonucleoside kinase) is the rate-limiting enzyme in the pyrimidine salvage pathway. It catalyzes the following reaction: ATP + Uridine = ADP + UMP Pantothenate kinase (2.7.1.33 from EC) catalyzes the rate-limiting step in the biosynthesis of coenzyme A, the conversion of pantothenate to D-4'-phosphopantothenate in the presence of ATP. ; GO: 0005524 ATP binding, 0016301 kinase activity, 0008152 metabolic process; PDB: 2ZSE_A 2ZS7_A 3AF0_A 3AVP_A 2ZS9_A 2ZS8_A 3AEZ_A 2ZSB_A 2ZSD_A 2GEV_A ....

>cd03224 ABC_TM1139_LivF_branched LivF (TM1139) is part of the LIV-I bacterial ABC-type two-component transport system that imports neutral, branched-chain amino acids

Probab=96.76  E-value=0.0018  Score=38.07  Aligned_cols=22  Identities=18%  Similarity=0.481  Sum_probs=18.9

Q ss_pred             eeEEEEeCCCCCHHHHHHHHHh
Q psy2514          13 GTVVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus        13 ~ki~v~G~~~vGKtsl~~~~~~   34 (71)
                      =.++++|++|+|||+|+.-+..
T Consensus        27 e~~~i~G~nGsGKSTLl~~l~G   48 (222)
T cd03224          27 EIVALLGRNGAGKTTLLKTIMG   48 (222)
T ss_pred             eEEEEECCCCCCHHHHHHHHhC
Confidence            4688999999999999987654

The E. coli branched-chain amino acid transporter comprises a heterodimer of ABC transporters (LivF and LivG), a heterodimer of six-helix TM domains (LivM and LivH), and one of two alternative soluble periplasmic substrate binding proteins (LivK or LivJ). ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic molecules.

>PRK00131 aroK shikimate kinase; Reviewed

Probab=96.76  E-value=0.0022  Score=35.95  Aligned_cols=22  Identities=23%  Similarity=0.394  Sum_probs=19.1

Q ss_pred             eeEEEEeCCCCCHHHHHHHHHh
Q psy2514          13 GTVVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus        13 ~ki~v~G~~~vGKtsl~~~~~~   34 (71)
                      ..|+++|.+|+|||++...+..
T Consensus         5 ~~i~l~G~~GsGKstla~~La~   26 (175)
T PRK00131          5 PNIVLIGFMGAGKSTIGRLLAK   26 (175)
T ss_pred             CeEEEEcCCCCCHHHHHHHHHH
Confidence            4789999999999999887764

>cd03269 ABC_putative_ATPase This subfamily is involved in drug resistance, nodulation, lipid transport, and bacteriocin and lantibiotic immunity

Probab=96.76  E-value=0.0019  Score=37.72  Aligned_cols=23  Identities=17%  Similarity=0.219  Sum_probs=19.6

Q ss_pred             eeEEEEeCCCCCHHHHHHHHHhC
Q psy2514          13 GTVVIVGNGAVGKSSMIQRYCRG   35 (71)
Q Consensus        13 ~ki~v~G~~~vGKtsl~~~~~~~   35 (71)
                      -.+.++|++|+|||+|+.-++.-
T Consensus        27 ~~~~i~G~nGsGKSTLl~~l~G~   49 (210)
T cd03269          27 EIFGLLGPNGAGKTTTIRMILGI   49 (210)
T ss_pred             cEEEEECCCCCCHHHHHHHHhCC
Confidence            45789999999999999988753

In eubacteria and archaea, the typical organization consists of one ABC and one or two IMs. Eukaryote systems of the ABCA subfamily display ABC domains strongly similar to this family. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides and more complex organic molecules. The nucleotide binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region in addition to the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>cd00227 CPT Chloramphenicol (Cm) phosphotransferase (CPT)

Probab=96.76  E-value=0.0019  Score=36.83  Aligned_cols=22  Identities=23%  Similarity=0.391  Sum_probs=19.1

Q ss_pred             eEEEEeCCCCCHHHHHHHHHhC
Q psy2514          14 TVVIVGNGAVGKSSMIQRYCRG   35 (71)
Q Consensus        14 ki~v~G~~~vGKtsl~~~~~~~   35 (71)
                      -+++.|.+|+|||++.+.+...
T Consensus         4 ~i~l~G~~gsGKst~a~~l~~~   25 (175)
T cd00227           4 IIILNGGSSAGKSSIARALQSV   25 (175)
T ss_pred             EEEEECCCCCCHHHHHHHHHHh
Confidence            4889999999999999988754

Cm-inactivating enzyme; modifies the primary (C-3) hydroxyl of the antibiotic. Related structurally to shikimate kinase II.

>TIGR01166 cbiO cobalt transport protein ATP-binding subunit

Probab=96.76  E-value=0.0017  Score=37.41  Aligned_cols=22  Identities=18%  Similarity=0.430  Sum_probs=18.8

Q ss_pred             eeEEEEeCCCCCHHHHHHHHHh
Q psy2514          13 GTVVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus        13 ~ki~v~G~~~vGKtsl~~~~~~   34 (71)
                      -.+.++|++|+|||+|++.+..
T Consensus        19 e~~~i~G~nGsGKSTLl~~i~G   40 (190)
T TIGR01166        19 EVLALLGANGAGKSTLLLHLNG   40 (190)
T ss_pred             CEEEEECCCCCCHHHHHHHHhC
Confidence            3578999999999999987764

This model describes the ATP binding subunit of the multisubunit cobalt transporter in bacteria and its equivalents in archaea. The model is restricted to ATP subunit that is a part of the cobalt transporter, which belongs to the ABC transporter superfamily (ATP Binding Cassette). The model excludes ATP binding subunit that are associated with other transporters belonging to ABC transporter superfamily. This superfamily includes two groups, one which catalyze the uptake of small molecules, including ions from the external milieu and the other group which is engaged in the efflux of small molecular weight compounds and ions from within the cell. Energy derived from the hydrolysis of ATP drive the both the process of uptake and efflux.

>cd00464 SK Shikimate kinase (SK) is the fifth enzyme in the shikimate pathway, a seven-step biosynthetic pathway which converts erythrose-4-phosphate to chorismic acid, found in bacteria, fungi and plants

Probab=96.75  E-value=0.0019  Score=35.65  Aligned_cols=21  Identities=19%  Similarity=0.426  Sum_probs=18.3

Q ss_pred             eEEEEeCCCCCHHHHHHHHHh
Q psy2514          14 TVVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus        14 ki~v~G~~~vGKtsl~~~~~~   34 (71)
                      .|+++|.+|+|||++...+..
T Consensus         1 ~i~l~G~~GsGKstla~~la~   21 (154)
T cd00464           1 NIVLIGMMGAGKTTVGRLLAK   21 (154)
T ss_pred             CEEEEcCCCCCHHHHHHHHHH
Confidence            378999999999999998763

Chorismic acid is a important intermediate in the synthesis of aromatic compounds, such as aromatic amino acids, p-aminobenzoic acid, folate and ubiquinone. Shikimate kinase catalyses the phosphorylation of the 3-hydroxyl group of shikimic acid using ATP.

>cd01131 PilT Pilus retraction ATPase PilT

Probab=96.75  E-value=0.0019  Score=37.73  Aligned_cols=20  Identities=25%  Similarity=0.429  Sum_probs=17.6

Q ss_pred             EEEEeCCCCCHHHHHHHHHh
Q psy2514          15 VVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus        15 i~v~G~~~vGKtsl~~~~~~   34 (71)
                      +++.|++|+|||+++..++.
T Consensus         4 ilI~GptGSGKTTll~~ll~   23 (198)
T cd01131           4 VLVTGPTGSGKSTTLAAMID   23 (198)
T ss_pred             EEEECCCCCCHHHHHHHHHH
Confidence            68899999999999987664

PilT is a nucleotide binding protein responsible for the retraction of type IV pili, likely by pili disassembly. This retraction provides the force required for travel of bacteria in low water environments by a mechanism known as twitching motility.

>cd03261 ABC_Org_Solvent_Resistant ABC (ATP-binding cassette) transport system involved in resistant to organic solvents; ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic molecules

Probab=96.75  E-value=0.0019  Score=38.38  Aligned_cols=22  Identities=23%  Similarity=0.454  Sum_probs=19.1

Q ss_pred             eeEEEEeCCCCCHHHHHHHHHh
Q psy2514          13 GTVVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus        13 ~ki~v~G~~~vGKtsl~~~~~~   34 (71)
                      =.+.++|++|+|||+|++.+..
T Consensus        27 e~~~l~G~nGsGKSTLl~~l~G   48 (235)
T cd03261          27 EILAIIGPSGSGKSTLLRLIVG   48 (235)
T ss_pred             CEEEEECCCCCCHHHHHHHHhC
Confidence            3578999999999999998874

The nucleotide binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>TIGR02673 FtsE cell division ATP-binding protein FtsE

Probab=96.75  E-value=0.0019  Score=37.74  Aligned_cols=22  Identities=14%  Similarity=0.374  Sum_probs=18.9

Q ss_pred             eeEEEEeCCCCCHHHHHHHHHh
Q psy2514          13 GTVVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus        13 ~ki~v~G~~~vGKtsl~~~~~~   34 (71)
                      -.+.++|++|+|||+|++-++.
T Consensus        29 ~~~~l~G~nGsGKSTLl~~i~G   50 (214)
T TIGR02673        29 EFLFLTGPSGAGKTTLLKLLYG   50 (214)
T ss_pred             CEEEEECCCCCCHHHHHHHHhC
Confidence            3578999999999999987764

This model describes FtsE, a member of the ABC transporter ATP-binding protein family. This protein, and its permease partner FtsX, localize to the division site. In a number of species, the ftsEX gene pair is located next to FtsY, the signal recognition particle-docking protein.

>cd01130 VirB11-like_ATPase Type IV secretory pathway component VirB11, and related ATPases

Probab=96.74  E-value=0.0022  Score=37.07  Aligned_cols=23  Identities=17%  Similarity=0.462  Sum_probs=19.9

Q ss_pred             eeeEEEEeCCCCCHHHHHHHHHh
Q psy2514          12 KGTVVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus        12 ~~ki~v~G~~~vGKtsl~~~~~~   34 (71)
                      .-.++++|++|+|||++++.++.
T Consensus        25 g~~i~I~G~tGSGKTTll~aL~~   47 (186)
T cd01130          25 RKNILISGGTGSGKTTLLNALLA   47 (186)
T ss_pred             CCEEEEECCCCCCHHHHHHHHHh
Confidence            45789999999999999988764

The homohexamer, VirB11 is one of eleven Vir proteins, which are required for T-pilus biogenesis and virulence in the transfer of T-DNA from the Ti (tumor-inducing) plasmid of bacterial to plant cells. The pilus is a fibrous cell surface organelle, which mediates adhesion between bacteria during conjugative transfer or between bacteria and host eukaryotic cells during infection. VirB11- related ATPases include the archaeal flagella biosynthesis protein and the pilus assembly proteins CpaF/TadA and TrbB. This alignment contains the C-terminal domain, which is the ATPase.

>cd03262 ABC_HisP_GlnQ_permeases HisP and GlnQ are the ATP-binding components of the bacterial periplasmic histidine and glutamine permeases, repectively

Probab=96.74  E-value=0.002  Score=37.64  Aligned_cols=22  Identities=32%  Similarity=0.492  Sum_probs=19.2

Q ss_pred             eeEEEEeCCCCCHHHHHHHHHh
Q psy2514          13 GTVVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus        13 ~ki~v~G~~~vGKtsl~~~~~~   34 (71)
                      -.+.++|++|+|||+|++.++.
T Consensus        27 ~~~~l~G~nGsGKSTLl~~l~G   48 (213)
T cd03262          27 EVVVIIGPSGSGKSTLLRCINL   48 (213)
T ss_pred             CEEEEECCCCCCHHHHHHHHhC
Confidence            3678999999999999998874

Histidine permease is a multisubunit complex containing the HisQ and HisM integral membrane subunits and two copies of HisP. HisP has properties intermediate between those of integral and peripheral membrane proteins and is accessible from both sides of the membrane, presumably by its interaction with HisQ and HisM. The two HisP subunits form a homodimer within the complex. The domain structure of the amino acid uptake systems is typical for prokaryote extracellular solute binding protein-dependent uptake systems. All of the amino acid uptake systems also have at least one, and in a few cases, two extracellular solute binding proteins located in the periplasm of Gram-negative bacteria, or attached to the cell membrane of Gram-positive bacteria. The best-studied member of the PAAT (polar amino acid transport) family is the HisJQM

>PRK14526 adenylate kinase; Provisional

Probab=96.73  E-value=0.0022  Score=38.06  Aligned_cols=21  Identities=19%  Similarity=0.392  Sum_probs=18.7

Q ss_pred             eEEEEeCCCCCHHHHHHHHHh
Q psy2514          14 TVVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus        14 ki~v~G~~~vGKtsl~~~~~~   34 (71)
                      +++++|.+|+|||+++..+..
T Consensus         2 ~i~l~G~pGsGKsT~a~~La~   22 (211)
T PRK14526          2 KLVFLGPPGSGKGTIAKILSN   22 (211)
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            689999999999999987763

>cd03266 ABC_NatA_sodium_exporter NatA is the ATPase component of a bacterial ABC-type Na+ transport system called NatAB, which catalyzes ATP-dependent electrogenic Na+ extrusion without mechanically coupled proton or K+ uptake

Probab=96.73  E-value=0.002  Score=37.76  Aligned_cols=22  Identities=14%  Similarity=0.327  Sum_probs=19.1

Q ss_pred             eeEEEEeCCCCCHHHHHHHHHh
Q psy2514          13 GTVVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus        13 ~ki~v~G~~~vGKtsl~~~~~~   34 (71)
                      =.+.++|++|+|||+|++-+..
T Consensus        32 e~~~i~G~nGsGKSTLl~~l~G   53 (218)
T cd03266          32 EVTGLLGPNGAGKTTTLRMLAG   53 (218)
T ss_pred             cEEEEECCCCCCHHHHHHHHhC
Confidence            4578999999999999987765

NatB possess six putative membrane spanning regions at its C-terminus. In B. subtilus, NatAB is inducible by agents such as ethanol and protonophores, which lower the protonmotive force across the membrane. The closest sequence similarity to NatA is exhibited by DrrA of the two-component daunomycin- and doxorubicin-efflux system. Hence, the functional NatAB is presumably assembled with two copies of a single ATP-binding protein and a single intergral membrane protein.

>COG1936 Predicted nucleotide kinase (related to CMP and AMP kinases) [Nucleotide transport and metabolism]

Probab=96.73  E-value=0.002  Score=37.52  Aligned_cols=21  Identities=24%  Similarity=0.354  Sum_probs=19.0

Q ss_pred             eeEEEEeCCCCCHHHHHHHHH
Q psy2514          13 GTVVIVGNGAVGKSSMIQRYC   33 (71)
Q Consensus        13 ~ki~v~G~~~vGKtsl~~~~~   33 (71)
                      .+|++.|-||+||||++.++.
T Consensus         1 m~I~ITGTPGvGKTT~~~~L~   21 (180)
T COG1936           1 MLIAITGTPGVGKTTVCKLLR   21 (180)
T ss_pred             CeEEEeCCCCCchHHHHHHHH
Confidence            378999999999999999887

>cd03222 ABC_RNaseL_inhibitor The ABC ATPase RNase L inhibitor (RLI) is a key enzyme in ribosomal biogenesis, formation of translation preinitiation complexes, and assembly of HIV capsids

Probab=96.73  E-value=0.0027  Score=36.73  Aligned_cols=23  Identities=22%  Similarity=0.374  Sum_probs=19.4

Q ss_pred             eeeEEEEeCCCCCHHHHHHHHHh
Q psy2514          12 KGTVVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus        12 ~~ki~v~G~~~vGKtsl~~~~~~   34 (71)
                      .-.+.++|++|+|||+|++-+..
T Consensus        25 Ge~~~l~G~nGsGKSTLl~~l~G   47 (177)
T cd03222          25 GEVIGIVGPNGTGKTTAVKILAG   47 (177)
T ss_pred             CCEEEEECCCCChHHHHHHHHHc
Confidence            34688999999999999997764

RLI's are not transport proteins, and thus cluster with a group of soluble proteins that lack the transmembrane components commonly found in other members of the family. Structurally, RLI's have an N-terminal Fe-S domain and two nucleotide-binding domains, which are arranged to form two composite active sites in their interface cleft. RLI is one of the most conserved enzymes between archaea and eukaryotes with a sequence identity more than 48%. The high degree of evolutionary conservation suggests that RLI performs a central role in archaeal and eukaryotic physiology.

>cd02025 PanK Pantothenate kinase (PanK) catalyzes the phosphorylation of pantothenic acid to form 4'-phosphopantothenic, which is the first of five steps in coenzyme A (CoA) biosynthetic pathway

Probab=96.72  E-value=0.0019  Score=38.47  Aligned_cols=20  Identities=35%  Similarity=0.376  Sum_probs=17.1

Q ss_pred             EEEEeCCCCCHHHHHHHHHh
Q psy2514          15 VVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus        15 i~v~G~~~vGKtsl~~~~~~   34 (71)
                      +.+.|.+|+|||+++..+..
T Consensus         2 igI~G~sGSGKTTla~~L~~   21 (220)
T cd02025           2 IGIAGSVAVGKSTTARVLQA   21 (220)
T ss_pred             EEeeCCCCCCHHHHHHHHHH
Confidence            56889999999999987763

The reaction carried out by this enzyme is a key regulatory point in CoA biosynthesis.

>COG4619 ABC-type uncharacterized transport system, ATPase component [General function prediction only]

Probab=96.72  E-value=0.002  Score=37.89  Aligned_cols=24  Identities=21%  Similarity=0.367  Sum_probs=19.6

Q ss_pred             eeeeEEEEeCCCCCHHHHHHHHHh
Q psy2514          11 IKGTVVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus        11 ~~~ki~v~G~~~vGKtsl~~~~~~   34 (71)
                      ..=.+.+.|++|||||+|+...+.
T Consensus        28 ~Ge~iaitGPSG~GKStllk~va~   51 (223)
T COG4619          28 AGEFIAITGPSGCGKSTLLKIVAS   51 (223)
T ss_pred             CCceEEEeCCCCccHHHHHHHHHh
Confidence            334577889999999999998874

>cd03293 ABC_NrtD_SsuB_transporters NrtD and SsuB are the ATP-binding subunits of the bacterial ABC-type nitrate and sulfonate transport systems, respectively

Probab=96.72  E-value=0.0021  Score=37.83  Aligned_cols=23  Identities=26%  Similarity=0.377  Sum_probs=19.3

Q ss_pred             eeEEEEeCCCCCHHHHHHHHHhC
Q psy2514          13 GTVVIVGNGAVGKSSMIQRYCRG   35 (71)
Q Consensus        13 ~ki~v~G~~~vGKtsl~~~~~~~   35 (71)
                      -.+.++|++|+|||+|++.++.-
T Consensus        31 ~~~~i~G~nGsGKSTLl~~l~Gl   53 (220)
T cd03293          31 EFVALVGPSGCGKSTLLRIIAGL   53 (220)
T ss_pred             cEEEEECCCCCCHHHHHHHHhCC
Confidence            35789999999999999887643

ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic molecules. The nucleotide binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>cd03257 ABC_NikE_OppD_transporters The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE)

Probab=96.72  E-value=0.0029  Score=37.26  Aligned_cols=23  Identities=26%  Similarity=0.329  Sum_probs=19.7

Q ss_pred             eeEEEEeCCCCCHHHHHHHHHhC
Q psy2514          13 GTVVIVGNGAVGKSSMIQRYCRG   35 (71)
Q Consensus        13 ~ki~v~G~~~vGKtsl~~~~~~~   35 (71)
                      -.+.++|++|+|||+|+.-+..-
T Consensus        32 e~~~i~G~nGsGKSTLl~~l~G~   54 (228)
T cd03257          32 ETLGLVGESGSGKSTLARAILGL   54 (228)
T ss_pred             CEEEEECCCCCCHHHHHHHHhCC
Confidence            46899999999999999987753

The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane components (NikB and NikC), and two ATPase (NikD and NikE). The NikABCDE transporter is synthesized under anaerobic conditions to meet the increased demand for nickel resulting from hydrogenase synthesis. The molecular mechanism of nickel uptake in many bacteria and most archaea is not known. Many other members of this ABC family are also involved in the uptake of dipeptides and oligopeptides. The oligopeptide transport system (Opp) is a five-component ABC transport composed of a membrane-anchored substrate binding proteins (SRP), OppA, two transmembrane proteins, OppB and OppC, and two ATP-binding domains, OppD and OppF.

>cd03218 ABC_YhbG The ABC transporters belonging to the YhbG family are similar to members of the Mj1267_LivG family, which is involved in the transport of branched-chain amino acids

Probab=96.71  E-value=0.0021  Score=38.02  Aligned_cols=23  Identities=17%  Similarity=0.200  Sum_probs=19.6

Q ss_pred             eeEEEEeCCCCCHHHHHHHHHhC
Q psy2514          13 GTVVIVGNGAVGKSSMIQRYCRG   35 (71)
Q Consensus        13 ~ki~v~G~~~vGKtsl~~~~~~~   35 (71)
                      =.+.++|++|+|||+|++.+..-
T Consensus        27 e~~~l~G~nGsGKSTLl~~l~Gl   49 (232)
T cd03218          27 EIVGLLGPNGAGKTTTFYMIVGL   49 (232)
T ss_pred             cEEEEECCCCCCHHHHHHHHhCC
Confidence            46889999999999999988753

The genes yhbG and yhbN are located in a single operon and may function together in cell envelope during biogenesis. YhbG is the putative ATP-binding cassette component and YhbN is the putative periplasmic-binding protein. Depletion of each gene product leads to growth arrest, irreversible cell damage and loss of viability in E. coli. The YhbG homolog (NtrA) is essential in Rhizobium meliloti, a symbiotic nitrogen-fixing bacterium.

>PRK13541 cytochrome c biogenesis protein CcmA; Provisional

Probab=96.71  E-value=0.0031  Score=36.51  Aligned_cols=23  Identities=26%  Similarity=0.323  Sum_probs=19.8

Q ss_pred             eeEEEEeCCCCCHHHHHHHHHhC
Q psy2514          13 GTVVIVGNGAVGKSSMIQRYCRG   35 (71)
Q Consensus        13 ~ki~v~G~~~vGKtsl~~~~~~~   35 (71)
                      -.++++|.+|+|||+|++-++.-
T Consensus        27 e~~~l~G~nGsGKSTLl~~l~G~   49 (195)
T PRK13541         27 AITYIKGANGCGKSSLLRMIAGI   49 (195)
T ss_pred             cEEEEECCCCCCHHHHHHHHhcC
Confidence            36789999999999999988754

>cd02027 APSK Adenosine 5'-phosphosulfate kinase (APSK) catalyzes the phosphorylation of adenosine 5'-phosphosulfate to form 3'-phosphoadenosine 5'-phosphosulfate (PAPS)

Probab=96.71  E-value=0.0023  Score=35.83  Aligned_cols=21  Identities=19%  Similarity=0.306  Sum_probs=17.8

Q ss_pred             EEEEeCCCCCHHHHHHHHHhC
Q psy2514          15 VVIVGNGAVGKSSMIQRYCRG   35 (71)
Q Consensus        15 i~v~G~~~vGKtsl~~~~~~~   35 (71)
                      +++.|.+|+|||+++..+...
T Consensus         2 i~i~G~~GsGKSTla~~L~~~   22 (149)
T cd02027           2 IWLTGLSGSGKSTIARALEEK   22 (149)
T ss_pred             EEEEcCCCCCHHHHHHHHHHH
Confidence            678899999999999877643

The end-product PAPS is a biologically "activated" sulfate form important for the assimilation of inorganic sulfate.

>cd03259 ABC_Carb_Solutes_like ABC Carbohydrate and Solute Transporters-like subgroup

Probab=96.71  E-value=0.0022  Score=37.54  Aligned_cols=22  Identities=14%  Similarity=0.404  Sum_probs=18.9

Q ss_pred             eeEEEEeCCCCCHHHHHHHHHh
Q psy2514          13 GTVVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus        13 ~ki~v~G~~~vGKtsl~~~~~~   34 (71)
                      -.+.++|++|+|||+|+.-+..
T Consensus        27 e~~~i~G~nGsGKSTLl~~l~G   48 (213)
T cd03259          27 EFLALLGPSGCGKTTLLRLIAG   48 (213)
T ss_pred             cEEEEECCCCCCHHHHHHHHhC
Confidence            3588999999999999987764

This family is comprised of proteins involved in the transport of apparently unrelated solutes and proteins specific for di- and oligosaccharides and polyols. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides and more complex organic molecules. The nucleotide-binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>cd03256 ABC_PhnC_transporter ABC-type phosphate/phosphonate transport system

Probab=96.70  E-value=0.0019  Score=38.36  Aligned_cols=22  Identities=23%  Similarity=0.436  Sum_probs=19.2

Q ss_pred             eeEEEEeCCCCCHHHHHHHHHh
Q psy2514          13 GTVVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus        13 ~ki~v~G~~~vGKtsl~~~~~~   34 (71)
                      -.+.++|++|+|||+|+..++.
T Consensus        28 e~~~i~G~nGsGKSTLl~~l~G   49 (241)
T cd03256          28 EFVALIGPSGAGKSTLLRCLNG   49 (241)
T ss_pred             CEEEEECCCCCCHHHHHHHHhC
Confidence            3578999999999999998874

Phosphonates are a class of organophosphorus compounds characterized by a chemically stable carbon-to-phosphorus (C-P) bond. Phosphonates are widespread among naturally occurring compounds in all kingdoms of wildlife, but only procaryotic microorganisms are able to cleave this bond. Certain bacteria such as E. coli can use alkylphosphonates as a phosphorus source. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>PRK15177 Vi polysaccharide export ATP-binding protein VexC; Provisional

Probab=96.70  E-value=0.0027  Score=37.46  Aligned_cols=24  Identities=17%  Similarity=0.329  Sum_probs=19.8

Q ss_pred             eeeEEEEeCCCCCHHHHHHHHHhC
Q psy2514          12 KGTVVIVGNGAVGKSSMIQRYCRG   35 (71)
Q Consensus        12 ~~ki~v~G~~~vGKtsl~~~~~~~   35 (71)
                      .-.+.++|++|+|||+|++-++.-
T Consensus        13 Ge~~~l~G~NGsGKSTLlk~i~Gl   36 (213)
T PRK15177         13 HEHIGILAAPGSGKTTLTRLLCGL   36 (213)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCC
Confidence            346789999999999999877653

>COG2262 HflX GTPases [General function prediction only]

Probab=96.70  E-value=0.0074  Score=39.18  Aligned_cols=58  Identities=19%  Similarity=0.130  Sum_probs=37.1

Q ss_pred             ceeeeEEEEeCCCCCHHHHHHHHHhCcCC-CC-ccCCcceeeEEEEEEeCCEEEEEEEcCCC
Q psy2514          10 SIKGTVVIVGNGAVGKSSMIQRYCRGTFT-RD-YKKTIGVKSSMIQRYCRGTFTRDYKKTIG   69 (71)
Q Consensus        10 ~~~~ki~v~G~~~vGKtsl~~~~~~~~f~-~~-~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G   69 (71)
                      .....+.++|-.++|||||++++....-. .+ ...|..  -..+.+...+...+-+-||-|
T Consensus       190 ~~~p~vaLvGYTNAGKSTL~N~LT~~~~~~~d~LFATLd--pttR~~~l~~g~~vlLtDTVG  249 (411)
T COG2262         190 SGIPLVALVGYTNAGKSTLFNALTGADVYVADQLFATLD--PTTRRIELGDGRKVLLTDTVG  249 (411)
T ss_pred             cCCCeEEEEeeccccHHHHHHHHhccCeecccccccccc--CceeEEEeCCCceEEEecCcc
Confidence            34578999999999999999998853322 22 223332  234444455445566778876

>PRK11629 lolD lipoprotein transporter ATP-binding subunit; Provisional

Probab=96.70  E-value=0.0022  Score=38.08  Aligned_cols=22  Identities=27%  Similarity=0.404  Sum_probs=19.2

Q ss_pred             eEEEEeCCCCCHHHHHHHHHhC
Q psy2514          14 TVVIVGNGAVGKSSMIQRYCRG   35 (71)
Q Consensus        14 ki~v~G~~~vGKtsl~~~~~~~   35 (71)
                      .+.++|++|+|||+|++.++.-
T Consensus        37 ~~~l~G~nGsGKSTLl~~l~Gl   58 (233)
T PRK11629         37 MMAIVGSSGSGKSTLLHLLGGL   58 (233)
T ss_pred             EEEEECCCCCCHHHHHHHHhcC
Confidence            5789999999999999988753

>cd03216 ABC_Carb_Monos_I This family represents the domain I of the carbohydrate uptake proteins that transport only monosaccharides (Monos)

Probab=96.70  E-value=0.0034  Score=35.54  Aligned_cols=24  Identities=17%  Similarity=0.306  Sum_probs=19.8

Q ss_pred             eeeEEEEeCCCCCHHHHHHHHHhC
Q psy2514          12 KGTVVIVGNGAVGKSSMIQRYCRG   35 (71)
Q Consensus        12 ~~ki~v~G~~~vGKtsl~~~~~~~   35 (71)
                      .-.+.++|++|+|||+|++-+..-
T Consensus        26 Ge~~~l~G~nGsGKSTLl~~i~G~   49 (163)
T cd03216          26 GEVHALLGENGAGKSTLMKILSGL   49 (163)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCC
Confidence            346789999999999999977653

The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses (such as xylose, arabinose, and ribose), that cannot be broken down to simple sugars by hydrolysis. Pentoses include xylose, arabinose, and ribose. Important hexoses include glucose, galactose, and fructose. In members of the Carb_monos family, the single hydrophobic gene product forms a homodimer while the ABC protein represents a fusion of two nucleotide-binding domains. However, it is assumed that two copies of the ABC domains are present in the assembled transporter.

>cd03265 ABC_DrrA DrrA is the ATP-binding protein component of a bacterial exporter complex that confers resistance to the antibiotics daunorubicin and doxorubicin

Probab=96.69  E-value=0.0022  Score=37.69  Aligned_cols=22  Identities=18%  Similarity=0.335  Sum_probs=19.0

Q ss_pred             eeEEEEeCCCCCHHHHHHHHHh
Q psy2514          13 GTVVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus        13 ~ki~v~G~~~vGKtsl~~~~~~   34 (71)
                      -.+.++|++|+|||+|++-++.
T Consensus        27 e~~~i~G~nGsGKSTLl~~i~G   48 (220)
T cd03265          27 EIFGLLGPNGAGKTTTIKMLTT   48 (220)
T ss_pred             CEEEEECCCCCCHHHHHHHHhC
Confidence            4578999999999999997764

In addition to DrrA, the complex includes an integral membrane protein called DrrB. DrrA belongs to the ABC family of transporters and shares sequence and functional similarities with a protein found in cancer cells called P-glycoprotein. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic molecules. The nucleotide binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region in addition to the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>TIGR02211 LolD_lipo_ex lipoprotein releasing system, ATP-binding protein

Probab=96.69  E-value=0.0032  Score=36.96  Aligned_cols=23  Identities=30%  Similarity=0.401  Sum_probs=19.6

Q ss_pred             eeEEEEeCCCCCHHHHHHHHHhC
Q psy2514          13 GTVVIVGNGAVGKSSMIQRYCRG   35 (71)
Q Consensus        13 ~ki~v~G~~~vGKtsl~~~~~~~   35 (71)
                      -.+.++|++|+|||+|+..++.-
T Consensus        32 ~~~~i~G~nGsGKSTLl~~i~G~   54 (221)
T TIGR02211        32 EIVAIVGSSGSGKSTLLHLLGGL   54 (221)
T ss_pred             cEEEEECCCCCCHHHHHHHHhCC
Confidence            36789999999999999988753

This model represents LolD, a member of the ABC transporter family (pfam00005). LolD is involved in localization of lipoproteins in some bacteria. It works with a transmembrane protein LolC, which in some species is a paralogous pair LolC and LolE. Depending on whether the residue immediately following the new, modified N-terminal Cys residue, the nascent lipoprotein may be carried further by LolA and LolB to the outer membrane, or remain at the inner membrane. The top scoring proteins excluded by this model include homologs from the archaeal genus Methanosarcina.

>PLN02674 adenylate kinase

Probab=96.69  E-value=0.0015  Score=39.69  Aligned_cols=23  Identities=13%  Similarity=0.235  Sum_probs=20.5

Q ss_pred             eeeEEEEeCCCCCHHHHHHHHHh
Q psy2514          12 KGTVVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus        12 ~~ki~v~G~~~vGKtsl~~~~~~   34 (71)
                      ..+++++|.+|+||+++..++..
T Consensus        31 ~~~i~l~G~PGsGKgT~a~~La~   53 (244)
T PLN02674         31 DKRLILIGPPGSGKGTQSPIIKD   53 (244)
T ss_pred             CceEEEECCCCCCHHHHHHHHHH
Confidence            47899999999999999988875

>TIGR00635 ruvB Holliday junction DNA helicase, RuvB subunit

Probab=96.69  E-value=0.0021  Score=39.47  Aligned_cols=23  Identities=13%  Similarity=0.355  Sum_probs=19.9

Q ss_pred             eeEEEEeCCCCCHHHHHHHHHhC
Q psy2514          13 GTVVIVGNGAVGKSSMIQRYCRG   35 (71)
Q Consensus        13 ~ki~v~G~~~vGKtsl~~~~~~~   35 (71)
                      -.+++.|++|+|||+++..+...
T Consensus        31 ~~~ll~Gp~G~GKT~la~~ia~~   53 (305)
T TIGR00635        31 DHLLLYGPPGLGKTTLAHIIANE   53 (305)
T ss_pred             CeEEEECCCCCCHHHHHHHHHHH
Confidence            45899999999999999988753

RuvA specifically binds Holliday junctions as a sandwich of two tetramers and maintains the configuration of the junction. It forms a complex with two hexameric rings of RuvB, the subunit that contains helicase activity. The complex drives ATP-dependent branch migration of the Holliday junction recombination intermediate. The endonuclease RuvC resolves junctions.

>PRK05541 adenylylsulfate kinase; Provisional

Probab=96.69  E-value=0.0024  Score=36.37  Aligned_cols=23  Identities=17%  Similarity=0.267  Sum_probs=19.4

Q ss_pred             eeeEEEEeCCCCCHHHHHHHHHh
Q psy2514          12 KGTVVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus        12 ~~ki~v~G~~~vGKtsl~~~~~~   34 (71)
                      ..-+++.|.+|+|||+++..+..
T Consensus         7 ~~~I~i~G~~GsGKst~a~~l~~   29 (176)
T PRK05541          7 GYVIWITGLAGSGKTTIAKALYE   29 (176)
T ss_pred             CCEEEEEcCCCCCHHHHHHHHHH
Confidence            35789999999999999987653

>cd03116 MobB Molybdenum is an essential trace element in the form of molybdenum cofactor (Moco) which is associated with the metabolism of nitrogen, carbon and sulfur by redox active enzymes

Probab=96.68  E-value=0.0024  Score=36.41  Aligned_cols=21  Identities=19%  Similarity=0.479  Sum_probs=18.8

Q ss_pred             eEEEEeCCCCCHHHHHHHHHh
Q psy2514          14 TVVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus        14 ki~v~G~~~vGKtsl~~~~~~   34 (71)
                      .+.++|.+++|||+++.++..
T Consensus         3 vi~i~G~~gsGKTTli~~L~~   23 (159)
T cd03116           3 VIGFVGYSGSGKTTLLEKLIP   23 (159)
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            578999999999999998874

In E. coli, the synthesis of Moco involves genes from several loci: moa, mob, mod, moe and mog. The mob locus contains mobA and mobB genes. MobB catalyzes the attachment of the guanine dinucleotide to molybdopterin.

>COG0466 Lon ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]

Probab=96.68  E-value=0.0015  Score=44.99  Aligned_cols=22  Identities=27%  Similarity=0.389  Sum_probs=19.1

Q ss_pred             eeeEEEEeCCCCCHHHHHHHHH
Q psy2514          12 KGTVVIVGNGAVGKSSMIQRYC   33 (71)
Q Consensus        12 ~~ki~v~G~~~vGKtsl~~~~~   33 (71)
                      ..-+|++|++|||||||....+
T Consensus       350 GpILcLVGPPGVGKTSLgkSIA  371 (782)
T COG0466         350 GPILCLVGPPGVGKTSLGKSIA  371 (782)
T ss_pred             CcEEEEECCCCCCchhHHHHHH
Confidence            3568999999999999998776

>PRK11248 tauB taurine transporter ATP-binding subunit; Provisional

Probab=96.68  E-value=0.0023  Score=38.72  Aligned_cols=23  Identities=17%  Similarity=0.365  Sum_probs=19.7

Q ss_pred             eeEEEEeCCCCCHHHHHHHHHhC
Q psy2514          13 GTVVIVGNGAVGKSSMIQRYCRG   35 (71)
Q Consensus        13 ~ki~v~G~~~vGKtsl~~~~~~~   35 (71)
                      -.+.++|++|+|||+|++.++.-
T Consensus        28 e~~~i~G~nGsGKSTLl~~l~Gl   50 (255)
T PRK11248         28 ELLVVLGPSGCGKTTLLNLIAGF   50 (255)
T ss_pred             CEEEEECCCCCCHHHHHHHHhCC
Confidence            46889999999999999988753

>cd03263 ABC_subfamily_A The ABCA subfamily mediates the transport of a variety of lipid compounds

Probab=96.67  E-value=0.0021  Score=37.74  Aligned_cols=22  Identities=14%  Similarity=0.336  Sum_probs=19.1

Q ss_pred             eEEEEeCCCCCHHHHHHHHHhC
Q psy2514          14 TVVIVGNGAVGKSSMIQRYCRG   35 (71)
Q Consensus        14 ki~v~G~~~vGKtsl~~~~~~~   35 (71)
                      .+.++|++|+|||+|++-+..-
T Consensus        30 ~~~i~G~nGsGKSTLl~~l~Gl   51 (220)
T cd03263          30 IFGLLGHNGAGKTTTLKMLTGE   51 (220)
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            5889999999999999987753

Mutations of members of ABCA subfamily are associated with human genetic diseases, such as, familial high-density lipoprotein (HDL) deficiency, neonatal surfactant deficiency, degenerative retinopathies, and congenital keratinization disorders. The ABCA1 protein is involved in disorders of cholesterol transport and high-density lipoprotein (HDL) biosynthesis. The ABCA4 (ABCR) protein transports vitamin A derivatives in the outer segments of photoreceptor cells, and therefore, performs a crucial step in the visual cycle. The ABCA genes are not present in yeast. However, evolutionary studies of ABCA genes indicate that they arose as transporters that subsequently duplicated and that certain sets of ABCA genes were lost in different eukaryotic lineages.

>PF05621 TniB: Bacterial TniB protein; InterPro: IPR008868 This family consists of several bacterial TniB NTP-binding proteins

Probab=96.67  E-value=0.0025  Score=39.91  Aligned_cols=26  Identities=31%  Similarity=0.477  Sum_probs=22.5

Q ss_pred             eeeEEEEeCCCCCHHHHHHHHHhCcC
Q psy2514          12 KGTVVIVGNGAVGKSSMIQRYCRGTF   37 (71)
Q Consensus        12 ~~ki~v~G~~~vGKtsl~~~~~~~~f   37 (71)
                      .-.++++|+++.|||+++.+|...+-
T Consensus        61 mp~lLivG~snnGKT~Ii~rF~~~hp   86 (302)
T PF05621_consen   61 MPNLLIVGDSNNGKTMIIERFRRLHP   86 (302)
T ss_pred             CCceEEecCCCCcHHHHHHHHHHHCC
Confidence            36689999999999999999997553

TniB is a probable ATP-binding protein [] which is involved in Tn5053 mercury resistance transposition [].

>cd03258 ABC_MetN_methionine_transporter MetN (also known as YusC) is an ABC-type transporter encoded by metN of the metNPQ operon in Bacillus subtilis that is involved in methionine transport

Probab=96.67  E-value=0.0021  Score=38.06  Aligned_cols=22  Identities=27%  Similarity=0.403  Sum_probs=19.1

Q ss_pred             eeEEEEeCCCCCHHHHHHHHHh
Q psy2514          13 GTVVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus        13 ~ki~v~G~~~vGKtsl~~~~~~   34 (71)
                      =.+.++|++|+|||+|++.++.
T Consensus        32 e~~~l~G~nGsGKSTLl~~l~G   53 (233)
T cd03258          32 EIFGIIGRSGAGKSTLIRCING   53 (233)
T ss_pred             CEEEEECCCCCCHHHHHHHHhC
Confidence            4678999999999999998764

Other members of this system include the MetP permease and the MetQ substrate binding protein. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>cd03219 ABC_Mj1267_LivG_branched The Mj1267/LivG ABC transporter subfamily is involved in the transport of the hydrophobic amino acids leucine, isoleucine and valine

Probab=96.66  E-value=0.0022  Score=38.05  Aligned_cols=22  Identities=14%  Similarity=0.295  Sum_probs=19.0

Q ss_pred             eeEEEEeCCCCCHHHHHHHHHh
Q psy2514          13 GTVVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus        13 ~ki~v~G~~~vGKtsl~~~~~~   34 (71)
                      -.++++|++|+|||+|+.-+..
T Consensus        27 e~~~l~G~nGsGKSTLl~~l~G   48 (236)
T cd03219          27 EIHGLIGPNGAGKTTLFNLISG   48 (236)
T ss_pred             cEEEEECCCCCCHHHHHHHHcC
Confidence            3578999999999999997764

MJ1267 is a branched-chain amino acid transporter with 29% similarity to both the LivF and LivG components of the E. coli branched-chain amino acid transporter. MJ1267 contains an insertion from residues 114 to 123 characteristic of LivG (Leucine-Isoleucine-Valine) homologs. The branched-chain amino acid transporter from E. coli comprises a heterodimer of ABCs (LivF and LivG), a heterodimer of six-helix TM domains (LivM and LivH), and one of two alternative soluble periplasmic substrate binding proteins (LivK or LivJ).

>PRK14529 adenylate kinase; Provisional

Probab=96.66  E-value=0.0026  Score=38.20  Aligned_cols=21  Identities=19%  Similarity=0.283  Sum_probs=18.7

Q ss_pred             eEEEEeCCCCCHHHHHHHHHh
Q psy2514          14 TVVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus        14 ki~v~G~~~vGKtsl~~~~~~   34 (71)
                      +++++|.+|+|||++..++..
T Consensus         2 ~I~l~G~PGsGK~T~a~~La~   22 (223)
T PRK14529          2 NILIFGPNGSGKGTQGALVKK   22 (223)
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            689999999999999987764

>cd02028 UMPK_like Uridine monophosphate kinase_like (UMPK_like) is a family of proteins highly similar to the uridine monophosphate kinase (UMPK, EC 2

Probab=96.66  E-value=0.0025  Score=36.77  Aligned_cols=20  Identities=25%  Similarity=0.468  Sum_probs=17.5

Q ss_pred             EEEEeCCCCCHHHHHHHHHh
Q psy2514          15 VVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus        15 i~v~G~~~vGKtsl~~~~~~   34 (71)
                      +.+.|.+|+|||+|+..+..
T Consensus         2 i~i~G~sgsGKttla~~l~~   21 (179)
T cd02028           2 VGIAGPSGSGKTTFAKKLSN   21 (179)
T ss_pred             EEEECCCCCCHHHHHHHHHH
Confidence            57889999999999998764

7.1.48), also known as uridine kinase or uridine-cytidine kinase (UCK).

>PF06745 KaiC: KaiC; InterPro: IPR014774 This entry represents a domain within bacterial and archaeal proteins, most of which are hypothetical

Probab=96.66  E-value=0.0027  Score=37.53  Aligned_cols=23  Identities=22%  Similarity=0.423  Sum_probs=19.8

Q ss_pred             eeEEEEeCCCCCHHHHHHHHHhC
Q psy2514          13 GTVVIVGNGAVGKSSMIQRYCRG   35 (71)
Q Consensus        13 ~ki~v~G~~~vGKtsl~~~~~~~   35 (71)
                      --+++.|++|+|||+|..+|+.+
T Consensus        20 s~~li~G~~GsGKT~l~~q~l~~   42 (226)
T PF06745_consen   20 SVVLISGPPGSGKTTLALQFLYN   42 (226)
T ss_dssp             SEEEEEESTTSSHHHHHHHHHHH
T ss_pred             cEEEEEeCCCCCcHHHHHHHHHH
Confidence            45788999999999999998843

More than one copy is sometimes found in each protein in this entry. These include KaiC, which is one of the Kai proteins among which direct protein-protein association may be a critical process in the generation of circadian rhythms in cyanobacteria []. The circadian clock protein KaiC, is encoded in the kaiABC operon that controls circadian rhythms and may be universal in Cyanobacteria. Each member contains two copies of this domain, which is also found in other proteins. KaiC performs autophosphorylation and acts as its own transcriptional repressor. RadA/Sms is a highly conserved eubacterial protein that shares sequence similarity with both RecA strand transferase and lon protease. The RadA/Sms family are probable ATP-dependent proteases involved in both DNA repair and degradation of proteins, peptides, glycopeptides. They are classified in as non-peptidase homologues and unassigned peptidases in MEROPS peptidase family S16 (lon protease family, clan SJ). RadA/Sms is involved in recombination and recombinational repair, most likely involving the stabilisation or processing of branched DNA molecules or blocked replication forks because of its genetic redundancy with RecG and RuvABC [].; PDB: 2W0M_A 2ZTS_C 4DUG_B 3K0E_B 3K09_B 3S1A_E 3JZM_E 2GBL_B 3DVL_A 1TF7_C ....

>cd01918 HprK_C HprK/P, the bifunctional histidine-containing protein kinase/phosphatase, controls the phosphorylation state of the phosphocarrier protein HPr and regulates the utilization of carbon sources by gram-positive bacteria

Probab=96.65  E-value=0.0032  Score=35.72  Aligned_cols=25  Identities=24%  Similarity=0.331  Sum_probs=21.0

Q ss_pred             eeeEEEEeCCCCCHHHHHHHHHhCc
Q psy2514          12 KGTVVIVGNGAVGKSSMIQRYCRGT   36 (71)
Q Consensus        12 ~~ki~v~G~~~vGKtsl~~~~~~~~   36 (71)
                      ..-+++.|++|+|||++...+....
T Consensus        14 g~gvLi~G~sG~GKStlal~L~~~g   38 (149)
T cd01918          14 GIGVLITGPSGIGKSELALELIKRG   38 (149)
T ss_pred             CEEEEEEcCCCCCHHHHHHHHHHcC
Confidence            3568999999999999998887653

It catalyzes both the ATP-dependent phosphorylation of Ser-46 of HPr and its dephosphorylation by phosphorolysis. The latter reaction uses inorganic phosphate as substrate and produces pyrophosphate. Phosphoenolpyruvate carboxykinase (PEPCK) and the C-terminal catalytic domain of HprK/P are structurally similar with conserved active site residues suggesting these two phosphotransferases have related functions. The HprK/P N-terminal domain is structurally similar to the N-terminal domains of the MurE and MurF amino acid ligases.

>PF03029 ATP_bind_1: Conserved hypothetical ATP binding protein; InterPro: IPR004130 Members of this family are found in a range of archaea and eukaryotes and have hypothesised ATP binding activity

Probab=96.65  E-value=0.0019  Score=38.99  Aligned_cols=18  Identities=17%  Similarity=0.486  Sum_probs=15.4

Q ss_pred             EEeCCCCCHHHHHHHHHh
Q psy2514          17 IVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus        17 v~G~~~vGKtsl~~~~~~   34 (71)
                      |+|.+|+||||++..+.+
T Consensus         1 ViGpaGSGKTT~~~~~~~   18 (238)
T PF03029_consen    1 VIGPAGSGKTTFCKGLSE   18 (238)
T ss_dssp             -EESTTSSHHHHHHHHHH
T ss_pred             CCCCCCCCHHHHHHHHHH
Confidence            589999999999998764

; GO: 0000166 nucleotide binding; PDB: 1YR7_A 1YRA_B 1YR8_A 1YR6_A 1YR9_A 1YRB_A 2OXR_A.

>PRK11247 ssuB aliphatic sulfonates transport ATP-binding subunit; Provisional

Probab=96.65  E-value=0.0025  Score=38.73  Aligned_cols=22  Identities=27%  Similarity=0.493  Sum_probs=19.2

Q ss_pred             eeEEEEeCCCCCHHHHHHHHHh
Q psy2514          13 GTVVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus        13 ~ki~v~G~~~vGKtsl~~~~~~   34 (71)
                      -.+.++|++|+|||+|++.+..
T Consensus        39 e~~~I~G~NGsGKSTLlk~l~G   60 (257)
T PRK11247         39 QFVAVVGRSGCGKSTLLRLLAG   60 (257)
T ss_pred             CEEEEECCCCCCHHHHHHHHhc
Confidence            4688999999999999998775

>PRK10908 cell division protein FtsE; Provisional

Probab=96.64  E-value=0.0036  Score=36.87  Aligned_cols=22  Identities=23%  Similarity=0.585  Sum_probs=19.2

Q ss_pred             eeEEEEeCCCCCHHHHHHHHHh
Q psy2514          13 GTVVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus        13 ~ki~v~G~~~vGKtsl~~~~~~   34 (71)
                      -.+.++|++|+|||+|++.++.
T Consensus        29 e~~~i~G~nGsGKSTLl~~l~G   50 (222)
T PRK10908         29 EMAFLTGHSGAGKSTLLKLICG   50 (222)
T ss_pred             CEEEEECCCCCCHHHHHHHHhC
Confidence            4678999999999999998764

>cd03301 ABC_MalK_N The N-terminal ATPase domain of the maltose transporter, MalK

Probab=96.64  E-value=0.0033  Score=36.74  Aligned_cols=23  Identities=22%  Similarity=0.352  Sum_probs=19.4

Q ss_pred             eeEEEEeCCCCCHHHHHHHHHhC
Q psy2514          13 GTVVIVGNGAVGKSSMIQRYCRG   35 (71)
Q Consensus        13 ~ki~v~G~~~vGKtsl~~~~~~~   35 (71)
                      -.+.++|++|+|||+|++-++.-
T Consensus        27 e~~~l~G~nGsGKSTLl~~l~G~   49 (213)
T cd03301          27 EFVVLLGPSGCGKTTTLRMIAGL   49 (213)
T ss_pred             cEEEEECCCCCCHHHHHHHHhCC
Confidence            35789999999999999877753

ATP binding cassette (ABC) proteins function from bacteria to human, mediating the translocation of substances into and out of cells or organelles. ABC transporters contain two transmembrane-spanning domains (TMDs) or subunits and two nucleotide binding domains (NBDs) or subunits that couple transport to the hydrolysis of ATP. In the maltose transport system, the periplasmic maltose binding protein (MBP) stimulates the ATPase activity of the membrane-associated transporter, which consists of two transmembrane subunits, MalF and MalG, and two copies of the ATP binding subunit, MalK, and becomes tightly bound to the transporter in the catalytic transition state, ensuring that maltose is passed to the transporter as ATP is hydrolyzed.

>PRK09270 nucleoside triphosphate hydrolase domain-containing protein; Reviewed

Probab=96.64  E-value=0.0034  Score=37.36  Aligned_cols=25  Identities=24%  Similarity=0.243  Sum_probs=21.1

Q ss_pred             ceeeeEEEEeCCCCCHHHHHHHHHh
Q psy2514          10 SIKGTVVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus        10 ~~~~ki~v~G~~~vGKtsl~~~~~~   34 (71)
                      ....-+.+.|.+|+|||+|+..+..
T Consensus        31 ~~~~iigi~G~~GsGKTTl~~~L~~   55 (229)
T PRK09270         31 QRRTIVGIAGPPGAGKSTLAEFLEA   55 (229)
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHH
Confidence            4467889999999999999987763

>TIGR01978 sufC FeS assembly ATPase SufC

Probab=96.64  E-value=0.0024  Score=37.98  Aligned_cols=23  Identities=22%  Similarity=0.307  Sum_probs=19.7

Q ss_pred             eeEEEEeCCCCCHHHHHHHHHhC
Q psy2514          13 GTVVIVGNGAVGKSSMIQRYCRG   35 (71)
Q Consensus        13 ~ki~v~G~~~vGKtsl~~~~~~~   35 (71)
                      -.+.++|++|+|||+|++-+..-
T Consensus        27 e~~~i~G~nGsGKSTLl~~l~Gl   49 (243)
T TIGR01978        27 EIHAIMGPNGSGKSTLSKTIAGH   49 (243)
T ss_pred             CEEEEECCCCCCHHHHHHHHhCC
Confidence            46889999999999999987654

SufC is part of the SUF system, shown in E. coli to consist of six proteins and believed to act in Fe-S cluster formation during oxidative stress. SufC forms a complex with SufB and SufD. SufC belongs to the ATP-binding cassette transporter family (pfam00005) but is no longer thought to be part of a transporter. The complex is reported as cytosolic (PubMed:12554644) or associated with the membrane (PubMed:11943156). The SUF system also includes a cysteine desulfurase (SufS, enhanced by SufE) and a probable iron-sulfur cluster assembly scaffold protein, SufA.

>PHA02530 pseT polynucleotide kinase; Provisional

Probab=96.64  E-value=0.0024  Score=39.12  Aligned_cols=22  Identities=23%  Similarity=0.409  Sum_probs=18.5

Q ss_pred             eEEEEeCCCCCHHHHHHHHHhC
Q psy2514          14 TVVIVGNGAVGKSSMIQRYCRG   35 (71)
Q Consensus        14 ki~v~G~~~vGKtsl~~~~~~~   35 (71)
                      -++++|.+|+|||++.+.+...
T Consensus         4 liil~G~pGSGKSTla~~L~~~   25 (300)
T PHA02530          4 IILTVGVPGSGKSTWAREFAAK   25 (300)
T ss_pred             EEEEEcCCCCCHHHHHHHHHHH
Confidence            4677899999999999987643

>cd03235 ABC_Metallic_Cations ABC component of the metal-type transporters

Probab=96.64  E-value=0.0033  Score=36.78  Aligned_cols=22  Identities=27%  Similarity=0.452  Sum_probs=19.0

Q ss_pred             eeEEEEeCCCCCHHHHHHHHHh
Q psy2514          13 GTVVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus        13 ~ki~v~G~~~vGKtsl~~~~~~   34 (71)
                      -.+.++|++|+|||+|++.+..
T Consensus        26 e~~~l~G~nGsGKSTLl~~l~G   47 (213)
T cd03235          26 EFLAIVGPNGAGKSTLLKAILG   47 (213)
T ss_pred             CEEEEECCCCCCHHHHHHHHcC
Confidence            4578999999999999997764

This family includes transporters involved in the uptake of various metallic cations such as iron, manganese, and zinc. The ATPases of this group of transporters are very similar to members of iron-siderophore uptake family suggesting that they share a common ancestor. The best characterized metal-type ABC transporters are the YfeABCD system of Y. pestis, the SitABCD system of Salmonella enterica serovar Typhimurium, and the SitABCD transporter of Shigella flexneri. Moreover other uncharacterized homologs of these metal-type transporters are mainly found in pathogens like Haemophilus or enteroinvasive E. coli isolates.

>COG4987 CydC ABC-type transport system involved in cytochrome bd biosynthesis, fused ATPase and permease components [Energy production and conversion / Posttranslational modification, protein turnover, chaperones]

Probab=96.64  E-value=0.0033  Score=42.11  Aligned_cols=27  Identities=26%  Similarity=0.347  Sum_probs=22.0

Q ss_pred             cCceeeeEEEEeCCCCCHHHHHHHHHh
Q psy2514           8 RGSIKGTVVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus         8 ~~~~~~ki~v~G~~~vGKtsl~~~~~~   34 (71)
                      .-...=|+.++|.+|+|||++++-+..
T Consensus       360 ~l~~GEkvAIlG~SGsGKSTllqLl~~  386 (573)
T COG4987         360 TLAQGEKVAILGRSGSGKSTLLQLLAG  386 (573)
T ss_pred             eecCCCeEEEECCCCCCHHHHHHHHHh
Confidence            334456899999999999999987764

>cd03268 ABC_BcrA_bacitracin_resist The BcrA subfamily represents ABC transporters involved in peptide antibiotic resistance

Probab=96.64  E-value=0.0033  Score=36.66  Aligned_cols=23  Identities=13%  Similarity=0.145  Sum_probs=19.5

Q ss_pred             eeEEEEeCCCCCHHHHHHHHHhC
Q psy2514          13 GTVVIVGNGAVGKSSMIQRYCRG   35 (71)
Q Consensus        13 ~ki~v~G~~~vGKtsl~~~~~~~   35 (71)
                      -.++++|++|+|||+|++-+..-
T Consensus        27 ~~~~i~G~nGsGKSTLl~~l~Gl   49 (208)
T cd03268          27 EIYGFLGPNGAGKTTTMKIILGL   49 (208)
T ss_pred             cEEEEECCCCCCHHHHHHHHhCC
Confidence            45789999999999999988753

Bacitracin is a dodecapeptide antibiotic produced by B. licheniformis and B. subtilis. The synthesis of bacitracin is non-ribosomally catalyzed by a multienzyme complex BcrABC. Bacitracin has potent antibiotic activity against gram-positive bacteria. The inhibition of peptidoglycan biosynthesis is the best characterized bacterial effect of bacitracin. The bacitracin resistance of B. licheniformis is mediated by the ABC transporter Bcr which is composed of two identical BcrA ATP-binding subunits and one each of the integral membrane proteins, BcrB and BcrC. B. subtilis cells carrying bcr genes on high-copy number plasmids develop collateral detergent sensitivity, a similar phenomenon in human cells with overexpressed multi-drug resistance P-glycoprotein.

>TIGR03410 urea_trans_UrtE urea ABC transporter, ATP-binding protein UrtE

Probab=96.64  E-value=0.0025  Score=37.72  Aligned_cols=23  Identities=17%  Similarity=0.465  Sum_probs=19.6

Q ss_pred             eeeEEEEeCCCCCHHHHHHHHHh
Q psy2514          12 KGTVVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus        12 ~~ki~v~G~~~vGKtsl~~~~~~   34 (71)
                      .=.+.++|++|+|||+|+.-+..
T Consensus        26 Ge~~~l~G~nGsGKSTLl~~l~G   48 (230)
T TIGR03410        26 GEVTCVLGRNGVGKTTLLKTLMG   48 (230)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhC
Confidence            35688999999999999997764

Members of this protein family are ABC transporter ATP-binding subunits associated with urea transport and metabolism. This protein is found in a conserved five-gene transport operon typically found adjacent to urease genes. It was shown in Cyanobacteria that disruption leads to the loss of high-affinity urea transport activity.

>cd03229 ABC_Class3 This class is comprised of all BPD (Binding Protein Dependent) systems that are largely represented in archaea and eubacteria and are primarily involved in scavenging solutes from the environment

Probab=96.63  E-value=0.0027  Score=36.30  Aligned_cols=22  Identities=23%  Similarity=0.448  Sum_probs=19.0

Q ss_pred             eeEEEEeCCCCCHHHHHHHHHh
Q psy2514          13 GTVVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus        13 ~ki~v~G~~~vGKtsl~~~~~~   34 (71)
                      -.+.++|++|+|||+|+..+..
T Consensus        27 ~~~~i~G~nGsGKSTLl~~l~G   48 (178)
T cd03229          27 EIVALLGPSGSGKSTLLRCIAG   48 (178)
T ss_pred             CEEEEECCCCCCHHHHHHHHhC
Confidence            4577999999999999998864

ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic molecules. The nucleotide binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>PRK08903 DnaA regulatory inactivator Hda; Validated

Probab=96.63  E-value=0.0026  Score=37.61  Aligned_cols=23  Identities=17%  Similarity=0.320  Sum_probs=19.6

Q ss_pred             eeEEEEeCCCCCHHHHHHHHHhC
Q psy2514          13 GTVVIVGNGAVGKSSMIQRYCRG   35 (71)
Q Consensus        13 ~ki~v~G~~~vGKtsl~~~~~~~   35 (71)
                      --+++.|++|+|||+|+..+...
T Consensus        43 ~~~~l~G~~G~GKT~La~ai~~~   65 (227)
T PRK08903         43 RFFYLWGEAGSGRSHLLQALVAD   65 (227)
T ss_pred             CeEEEECCCCCCHHHHHHHHHHH
Confidence            45889999999999999987753

>PRK13539 cytochrome c biogenesis protein CcmA; Provisional

Probab=96.62  E-value=0.0039  Score=36.47  Aligned_cols=23  Identities=17%  Similarity=0.371  Sum_probs=19.6

Q ss_pred             eeEEEEeCCCCCHHHHHHHHHhC
Q psy2514          13 GTVVIVGNGAVGKSSMIQRYCRG   35 (71)
Q Consensus        13 ~ki~v~G~~~vGKtsl~~~~~~~   35 (71)
                      =.+.++|.+|+|||+|+..+..-
T Consensus        29 e~~~i~G~nGsGKSTLl~~l~G~   51 (207)
T PRK13539         29 EALVLTGPNGSGKTTLLRLIAGL   51 (207)
T ss_pred             CEEEEECCCCCCHHHHHHHHhCC
Confidence            46789999999999999987754

>TIGR01189 ccmA heme ABC exporter, ATP-binding protein CcmA

Probab=96.62  E-value=0.0039  Score=36.14  Aligned_cols=24  Identities=13%  Similarity=0.340  Sum_probs=19.9

Q ss_pred             eeeEEEEeCCCCCHHHHHHHHHhC
Q psy2514          12 KGTVVIVGNGAVGKSSMIQRYCRG   35 (71)
Q Consensus        12 ~~ki~v~G~~~vGKtsl~~~~~~~   35 (71)
                      .=.+.++|+.|+|||+|++.+..-
T Consensus        26 Ge~~~i~G~nGsGKSTLl~~l~G~   49 (198)
T TIGR01189        26 GEALQVTGPNGIGKTTLLRILAGL   49 (198)
T ss_pred             CcEEEEECCCCCCHHHHHHHHhCC
Confidence            346889999999999999977653

This model describes the cyt c biogenesis protein encoded by ccmA in bacteria. An exception is, an arabidopsis protein. Quite likely this is encoded by an organelle. Bacterial c-type cytocromes are located on the periplasmic side of the cytoplasmic membrane. Several gene products encoded in a locus designated as 'ccm' are implicated in the transport and assembly of the functional cytochrome C. This cluster includes genes: ccmA;B;C;D;E;F;G and H. The posttranslational pathway includes the transport of heme moiety, the secretion of the apoprotein and the covalent attachment of the heme with the apoprotein. The proteins ccmA and B represent an ABC transporter; ccmC and D participate in heme transfer to ccmE, which function as a periplasmic heme chaperone. The presence of ccmF, G and H is suggested to be obligatory for the final functional assembly of cytochrome c.

>TIGR02323 CP_lyasePhnK phosphonate C-P lyase system protein PhnK

Probab=96.62  E-value=0.0026  Score=38.17  Aligned_cols=23  Identities=26%  Similarity=0.391  Sum_probs=19.5

Q ss_pred             eeEEEEeCCCCCHHHHHHHHHhC
Q psy2514          13 GTVVIVGNGAVGKSSMIQRYCRG   35 (71)
Q Consensus        13 ~ki~v~G~~~vGKtsl~~~~~~~   35 (71)
                      -.++++|++|+|||+|++-++.-
T Consensus        30 e~~~i~G~nGsGKSTLl~~l~G~   52 (253)
T TIGR02323        30 EVLGIVGESGSGKSTLLGCLAGR   52 (253)
T ss_pred             cEEEEECCCCCCHHHHHHHHhCC
Confidence            46789999999999999977653

Members of this family are the PhnK protein of C-P lyase systems for utilization of phosphonates. These systems resemble phosphonatase-based systems in having a three component ABC transporter, where TIGR01097 is the permease, TIGR01098 is the phosphonates binding protein, and TIGR02315 is the ATP-binding cassette (ABC) protein. They differ, however, in having, typically, ten or more additional genes, many of which are believed to form a membrane-associated complex. This protein (PhnK) and the adjacent-encoded PhnL resemble transporter ATP-binding proteins but are suggested, based on mutatgenesis studies, to be part of this complex rather than part of a transporter per se.

>PRK10895 lipopolysaccharide ABC transporter ATP-binding protein; Provisional

Probab=96.62  E-value=0.0026  Score=37.87  Aligned_cols=24  Identities=17%  Similarity=0.170  Sum_probs=20.0

Q ss_pred             eeeEEEEeCCCCCHHHHHHHHHhC
Q psy2514          12 KGTVVIVGNGAVGKSSMIQRYCRG   35 (71)
Q Consensus        12 ~~ki~v~G~~~vGKtsl~~~~~~~   35 (71)
                      .-.++++|++|+|||+|++-+..-
T Consensus        29 Ge~~~l~G~nGsGKSTLl~~l~G~   52 (241)
T PRK10895         29 GEIVGLLGPNGAGKTTTFYMVVGI   52 (241)
T ss_pred             CcEEEEECCCCCCHHHHHHHHhCC
Confidence            346789999999999999987753

>PRK09825 idnK D-gluconate kinase; Provisional

Probab=96.62  E-value=0.0028  Score=36.53  Aligned_cols=21  Identities=19%  Similarity=0.354  Sum_probs=18.2

Q ss_pred             eEEEEeCCCCCHHHHHHHHHh
Q psy2514          14 TVVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus        14 ki~v~G~~~vGKtsl~~~~~~   34 (71)
                      -++++|.+|+|||+++..+..
T Consensus         5 ~i~l~G~sGsGKSTl~~~la~   25 (176)
T PRK09825          5 SYILMGVSGSGKSLIGSKIAA   25 (176)
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            468899999999999998764

>PRK14527 adenylate kinase; Provisional

Probab=96.61  E-value=0.0036  Score=36.17  Aligned_cols=22  Identities=23%  Similarity=0.474  Sum_probs=19.1

Q ss_pred             eeEEEEeCCCCCHHHHHHHHHh
Q psy2514          13 GTVVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus        13 ~ki~v~G~~~vGKtsl~~~~~~   34 (71)
                      .-++++|.+|+|||++..++..
T Consensus         7 ~~i~i~G~pGsGKsT~a~~La~   28 (191)
T PRK14527          7 KVVIFLGPPGAGKGTQAERLAQ   28 (191)
T ss_pred             cEEEEECCCCCCHHHHHHHHHH
Confidence            4589999999999999988763

>cd03214 ABC_Iron-Siderophores_B12_Hemin ABC transporters, involved in the uptake of siderophores, heme, and vitamin B12, are widely conserved in bacteria and archaea

Probab=96.61  E-value=0.0041  Score=35.62  Aligned_cols=22  Identities=27%  Similarity=0.472  Sum_probs=19.1

Q ss_pred             eeEEEEeCCCCCHHHHHHHHHh
Q psy2514          13 GTVVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus        13 ~ki~v~G~~~vGKtsl~~~~~~   34 (71)
                      -.++++|++|+|||+|++-+..
T Consensus        26 ~~~~l~G~nGsGKStLl~~i~G   47 (180)
T cd03214          26 EIVGILGPNGAGKSTLLKTLAG   47 (180)
T ss_pred             CEEEEECCCCCCHHHHHHHHhC
Confidence            4678999999999999988764

Only very few species lack representatives of the siderophore family transporters. The E. coli BtuCD protein is an ABC transporter mediating vitamin B12 uptake. The two ATP-binding cassettes (BtuD) are in close contact with each other, as are the two membrane-spanning subunits (BtuC); this arrangement is distinct from that observed for the E. coli lipid flippase MsbA. The BtuC subunits provide 20 transmembrane helices grouped around a translocation pathway that is closed to the cytoplasm by a gate region, whereas the dimer arrangement of the BtuD subunits resembles the ATP-bound form of the Rad50 DNA repair enzyme. A prominent cytoplasmic loop of BtuC forms the contact region with the ATP-binding cassette and represent a conserved motif among the ABC transporters.

>TIGR03864 PQQ_ABC_ATP ABC transporter, ATP-binding subunit, PQQ-dependent alcohol dehydrogenase system

Probab=96.60  E-value=0.0039  Score=37.10  Aligned_cols=22  Identities=27%  Similarity=0.475  Sum_probs=19.0

Q ss_pred             eeEEEEeCCCCCHHHHHHHHHh
Q psy2514          13 GTVVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus        13 ~ki~v~G~~~vGKtsl~~~~~~   34 (71)
                      =.+.++|++|+|||+|++-+..
T Consensus        28 e~~~i~G~nGsGKSTLl~~l~G   49 (236)
T TIGR03864        28 EFVALLGPNGAGKSTLFSLLTR   49 (236)
T ss_pred             CEEEEECCCCCCHHHHHHHHhC
Confidence            4578999999999999998764

Members of this protein family are the ATP-binding subunit of an ABC transporter system that is associated with PQQ biosynthesis and PQQ-dependent alcohol dehydrogenases. While this family shows homology to several efflux ABC transporter subunits, the presence of a periplasmic substrate-binding protein and association with systems for catabolism of alcohols suggests a role in import rather than detoxification.

>PRK13851 type IV secretion system protein VirB11; Provisional

Probab=96.60  E-value=0.0026  Score=40.41  Aligned_cols=25  Identities=20%  Similarity=0.300  Sum_probs=21.6

Q ss_pred             eeeeEEEEeCCCCCHHHHHHHHHhC
Q psy2514          11 IKGTVVIVGNGAVGKSSMIQRYCRG   35 (71)
Q Consensus        11 ~~~ki~v~G~~~vGKtsl~~~~~~~   35 (71)
                      ....+++.|..|+|||++++.++..
T Consensus       161 ~~~nilI~G~tGSGKTTll~aLl~~  185 (344)
T PRK13851        161 GRLTMLLCGPTGSGKTTMSKTLISA  185 (344)
T ss_pred             cCCeEEEECCCCccHHHHHHHHHcc
Confidence            3578999999999999999988754

>TIGR00176 mobB molybdopterin-guanine dinucleotide biosynthesis protein MobB

Probab=96.60  E-value=0.003  Score=35.78  Aligned_cols=20  Identities=35%  Similarity=0.662  Sum_probs=17.5

Q ss_pred             EEEEeCCCCCHHHHHHHHHh
Q psy2514          15 VVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus        15 i~v~G~~~vGKtsl~~~~~~   34 (71)
                      +.++|.+|+|||+++.++..
T Consensus         2 i~i~G~~gsGKTtl~~~l~~   21 (155)
T TIGR00176         2 LQIVGPKNSGKTTLIERLVK   21 (155)
T ss_pred             EEEECCCCCCHHHHHHHHHH
Confidence            57889999999999988774

This molybdenum cofactor biosynthesis enzyme is similar to the urease accessory protein UreG and to the hydrogenase accessory protein HypB, both GTP hydrolases involved in loading nickel into the metallocenters of their respective target enzymes.

>cd03296 ABC_CysA_sulfate_importer Part of the ABC transporter complex cysAWTP involved in sulfate import

Probab=96.60  E-value=0.0028  Score=37.78  Aligned_cols=22  Identities=18%  Similarity=0.372  Sum_probs=19.0

Q ss_pred             eEEEEeCCCCCHHHHHHHHHhC
Q psy2514          14 TVVIVGNGAVGKSSMIQRYCRG   35 (71)
Q Consensus        14 ki~v~G~~~vGKtsl~~~~~~~   35 (71)
                      .+.++|++|+|||+|++.++.-
T Consensus        30 ~~~i~G~nGsGKSTLl~~l~Gl   51 (239)
T cd03296          30 LVALLGPSGSGKTTLLRLIAGL   51 (239)
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            5789999999999999988753

Responsible for energy coupling to the transport system. The complex is composed of two ATP-binding proteins (cysA), two transmembrane proteins (cysT and cysW), and a solute-binding protein (cysP). ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic molecules. The nucleotide binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>PRK13538 cytochrome c biogenesis protein CcmA; Provisional

Probab=96.60  E-value=0.0041  Score=36.26  Aligned_cols=23  Identities=26%  Similarity=0.319  Sum_probs=19.4

Q ss_pred             eeEEEEeCCCCCHHHHHHHHHhC
Q psy2514          13 GTVVIVGNGAVGKSSMIQRYCRG   35 (71)
Q Consensus        13 ~ki~v~G~~~vGKtsl~~~~~~~   35 (71)
                      -.+.++|++|+|||+|++-++.-
T Consensus        28 e~~~l~G~nGsGKSTLl~~l~G~   50 (204)
T PRK13538         28 ELVQIEGPNGAGKTSLLRILAGL   50 (204)
T ss_pred             cEEEEECCCCCCHHHHHHHHhCC
Confidence            36789999999999999977653

>cd01672 TMPK Thymidine monophosphate kinase (TMPK), also known as thymidylate kinase, catalyzes the phosphorylation of thymidine monophosphate (TMP) to thymidine diphosphate (TDP) utilizing ATP as its preferred phophoryl donor

Probab=96.60  E-value=0.0029  Score=36.11  Aligned_cols=20  Identities=25%  Similarity=0.502  Sum_probs=17.9

Q ss_pred             EEEEeCCCCCHHHHHHHHHh
Q psy2514          15 VVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus        15 i~v~G~~~vGKtsl~~~~~~   34 (71)
                      |++.|..|+|||+++.++..
T Consensus         3 I~ieG~~GsGKtT~~~~L~~   22 (200)
T cd01672           3 IVFEGIDGAGKTTLIELLAE   22 (200)
T ss_pred             EEEECCCCCCHHHHHHHHHH
Confidence            78899999999999998864

TMPK represents the rate-limiting step in either de novo or salvage biosynthesis of thymidine triphosphate (TTP).

>cd03223 ABCD_peroxisomal_ALDP Peroxisomal ATP-binding cassette transporter (Pat) is involved in the import of very long-chain fatty acids (VLCFA) into the peroxisome

Probab=96.59  E-value=0.0031  Score=35.78  Aligned_cols=23  Identities=26%  Similarity=0.456  Sum_probs=19.6

Q ss_pred             eeeEEEEeCCCCCHHHHHHHHHh
Q psy2514          12 KGTVVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus        12 ~~ki~v~G~~~vGKtsl~~~~~~   34 (71)
                      .-.++++|.+|+|||+|++-+..
T Consensus        27 Ge~~~i~G~nGsGKSTLl~~l~G   49 (166)
T cd03223          27 GDRLLITGPSGTGKSSLFRALAG   49 (166)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhc
Confidence            34688999999999999998764

The peroxisomal membrane forms a permeability barrier for a wide variety of metabolites required for and formed during fatty acid beta-oxidation. To communicate with the cytoplasm and mitochondria, peroxisomes need dedicated proteins to transport such hydrophilic molecules across their membranes. X-linked adrenoleukodystrophy (X-ALD) is caused by mutations in the ALD gene, which encodes ALDP (adrenoleukodystrophy protein ), a peroxisomal integral membrane protein that is a member of the ATP-binding cassette (ABC) transporter protein family. The disease is characterized by a striking and unpredictable variation in phenotypic expression. Phenotypes include the rapidly progressive childhood cerebral form (CCALD), the milder adult form, adrenomyeloneuropathy (AMN), and variants without neurologic involvement (i.e. asympt

>cd03230 ABC_DR_subfamily_A This family of ATP-binding proteins belongs to a multisubunit transporter involved in drug resistance (BcrA and DrrA), nodulation, lipid transport, and lantibiotic immunity

Probab=96.59  E-value=0.0031  Score=35.94  Aligned_cols=22  Identities=18%  Similarity=0.320  Sum_probs=19.0

Q ss_pred             eeEEEEeCCCCCHHHHHHHHHh
Q psy2514          13 GTVVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus        13 ~ki~v~G~~~vGKtsl~~~~~~   34 (71)
                      =.+.++|++|+|||+|++.+..
T Consensus        27 e~~~i~G~nGsGKStLl~~l~G   48 (173)
T cd03230          27 EIYGLLGPNGAGKTTLIKIILG   48 (173)
T ss_pred             cEEEEECCCCCCHHHHHHHHhC
Confidence            4588999999999999997764

In bacteria and archaea, these transporters usually include an ATP-binding protein and one or two integral membrane proteins. Eukaryote systems of the ABCA subfamily display ABC domains that are quite similar to this family. The ATP-binding domain shows the highest similarity between all members of the ABC transporter family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>cd02020 CMPK Cytidine monophosphate kinase (CMPK) catalyzes the reversible phosphorylation of cytidine monophosphate (CMP) to produce cytidine diphosphate (CDP), using ATP as the preferred phosphoryl donor

Probab=96.59  E-value=0.0032  Score=34.41  Aligned_cols=20  Identities=25%  Similarity=0.448  Sum_probs=17.9

Q ss_pred             EEEEeCCCCCHHHHHHHHHh
Q psy2514          15 VVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus        15 i~v~G~~~vGKtsl~~~~~~   34 (71)
                      |++.|.+|+|||++...+..
T Consensus         2 I~i~G~~GsGKst~a~~la~   21 (147)
T cd02020           2 IAIDGPAGSGKSTVAKLLAK   21 (147)
T ss_pred             EEEECCCCCCHHHHHHHHHH
Confidence            68899999999999998874

>PRK14242 phosphate transporter ATP-binding protein; Provisional

Probab=96.58  E-value=0.0031  Score=37.85  Aligned_cols=22  Identities=23%  Similarity=0.481  Sum_probs=19.2

Q ss_pred             eeEEEEeCCCCCHHHHHHHHHh
Q psy2514          13 GTVVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus        13 ~ki~v~G~~~vGKtsl~~~~~~   34 (71)
                      -.++++|++|+|||+|++.+..
T Consensus        33 e~~~i~G~nGsGKSTLl~~l~G   54 (253)
T PRK14242         33 QVTALIGPSGCGKSTFLRCLNR   54 (253)
T ss_pred             CEEEEECCCCCCHHHHHHHHHh
Confidence            3578999999999999998875

>PRK14731 coaE dephospho-CoA kinase; Provisional

Probab=96.57  E-value=0.0047  Score=36.38  Aligned_cols=25  Identities=24%  Similarity=0.219  Sum_probs=21.6

Q ss_pred             ceeeeEEEEeCCCCCHHHHHHHHHh
Q psy2514          10 SIKGTVVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus        10 ~~~~ki~v~G~~~vGKtsl~~~~~~   34 (71)
                      +..+.+.+.|..|+|||+++..+..
T Consensus         3 ~~~~~igitG~igsGKSt~~~~l~~   27 (208)
T PRK14731          3 SLPFLVGVTGGIGSGKSTVCRFLAE   27 (208)
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHH
Confidence            4457899999999999999998875

>cd03221 ABCF_EF-3 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth

Probab=96.57  E-value=0.0038  Score=34.70  Aligned_cols=23  Identities=22%  Similarity=0.439  Sum_probs=19.2

Q ss_pred             eeEEEEeCCCCCHHHHHHHHHhC
Q psy2514          13 GTVVIVGNGAVGKSSMIQRYCRG   35 (71)
Q Consensus        13 ~ki~v~G~~~vGKtsl~~~~~~~   35 (71)
                      -.+.++|.+|+|||+|++-+..-
T Consensus        27 e~~~i~G~nGsGKStLl~~l~G~   49 (144)
T cd03221          27 DRIGLVGRNGAGKSTLLKLIAGE   49 (144)
T ss_pred             CEEEEECCCCCCHHHHHHHHcCC
Confidence            45689999999999999987653

EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated release of the deacylated tRNA from the E site. The reaction requires ATP hydrolysis. EF-3 contains two ATP nucleotide binding sequence (NBS) motifs. NBSI is sufficient for the intrinsic ATPase activity. NBSII is essential for the ribosome-stimulated functions.

>cd03237 ABC_RNaseL_inhibitor_domain2 The ATPase domain 2 of RNase L inhibitor

Probab=96.57  E-value=0.0041  Score=37.53  Aligned_cols=23  Identities=22%  Similarity=0.420  Sum_probs=19.4

Q ss_pred             eeEEEEeCCCCCHHHHHHHHHhC
Q psy2514          13 GTVVIVGNGAVGKSSMIQRYCRG   35 (71)
Q Consensus        13 ~ki~v~G~~~vGKtsl~~~~~~~   35 (71)
                      -.+.++|++|+|||+|+.-++.-
T Consensus        26 e~~~i~G~NGsGKSTLlk~L~G~   48 (246)
T cd03237          26 EVIGILGPNGIGKTTFIKMLAGV   48 (246)
T ss_pred             CEEEEECCCCCCHHHHHHHHhCC
Confidence            45789999999999999987653

The ABC ATPase, RNase L inhibitor (RLI), is a key enzyme in ribosomal biogenesis, formation of translation preinitiation complexes, and assembly of HIV capsids. RLI's are not transport proteins and thus cluster with a group of soluble proteins that lack the transmembrane components commonly found in other members of the family. Structurally, RLI's have an N-terminal Fe-S domain and two nucleotide-binding domains which are arranged to form two composite active sites in their interface cleft. RLI is one of the most conserved enzymes between archaea and eukaryotes with a sequence identity of more than 48%. The high degree of evolutionary conservation suggests that RLI performs a central role in archaeal and eukaryotic physiology.

>cd03297 ABC_ModC_molybdenum_transporter ModC is an ABC-type transporter and the ATPase component of a molybdate transport system that also includes the periplasmic binding protein ModA and the membrane protein ModB

Probab=96.57  E-value=0.004  Score=36.51  Aligned_cols=23  Identities=22%  Similarity=0.293  Sum_probs=19.4

Q ss_pred             eeEEEEeCCCCCHHHHHHHHHhC
Q psy2514          13 GTVVIVGNGAVGKSSMIQRYCRG   35 (71)
Q Consensus        13 ~ki~v~G~~~vGKtsl~~~~~~~   35 (71)
                      -.+.++|++|+|||+|+..+..-
T Consensus        24 e~~~i~G~nGsGKSTLl~~l~G~   46 (214)
T cd03297          24 EVTGIFGASGAGKSTLLRCIAGL   46 (214)
T ss_pred             eeEEEECCCCCCHHHHHHHHhCC
Confidence            46788999999999999977643

ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides and more complex organic molecules. The nucleotide binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>cd03231 ABC_CcmA_heme_exporter CcmA, the ATP-binding component of the bacterial CcmAB transporter

Probab=96.56  E-value=0.0032  Score=36.70  Aligned_cols=23  Identities=13%  Similarity=0.359  Sum_probs=19.6

Q ss_pred             eeeEEEEeCCCCCHHHHHHHHHh
Q psy2514          12 KGTVVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus        12 ~~ki~v~G~~~vGKtsl~~~~~~   34 (71)
                      .-.+.++|++|+|||+|++-+..
T Consensus        26 Ge~~~i~G~nGsGKSTLl~~l~G   48 (201)
T cd03231          26 GEALQVTGPNGSGKTTLLRILAG   48 (201)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhC
Confidence            45788999999999999987764

The CCM family is involved in bacterial cytochrome c biogenesis. Cytochrome c maturation in E. coli requires the ccm operon, which encodes eight membrane proteins (CcmABCDEFGH). CcmE is a periplasmic heme chaperone that binds heme covalently and transfers it onto apocytochrome c in the presence of CcmF, CcmG, and CcmH. The CcmAB proteins represent an ABC transporter and the CcmCD proteins participate in heme transfer to CcmE.

>PF00503 G-alpha: G-protein alpha subunit; InterPro: IPR001019 Guanine nucleotide binding proteins (G proteins) are membrane-associated, heterotrimeric proteins composed of three subunits: alpha (IPR001019 from INTERPRO), beta (IPR001632 from INTERPRO) and gamma (IPR001770 from INTERPRO) []

Probab=96.56  E-value=0.0039  Score=39.82  Aligned_cols=25  Identities=20%  Similarity=0.493  Sum_probs=21.5

Q ss_pred             CceeeeEEEEeCCCCCHHHHHHHHH
Q psy2514           9 GSIKGTVVIVGNGAVGKSSMIQRYC   33 (71)
Q Consensus         9 ~~~~~ki~v~G~~~vGKtsl~~~~~   33 (71)
                      ....+|++++|.+++|||+++.++.
T Consensus        55 ~~~~~kiLLLG~geSGKSTi~KQ~r   79 (389)
T PF00503_consen   55 SKREIKILLLGSGESGKSTILKQMR   79 (389)
T ss_dssp             HHEEEEEEEEESTTSSHHHHHHHHH
T ss_pred             hhccceEEEECCCCcchhhHHHHHH
Confidence            3457999999999999999999763

G proteins and their receptors (GPCRs) form one of the most prevalent signalling systems in mammalian cells, regulating systems as diverse as sensory perception, cell growth and hormonal regulation []. At the cell surface, the binding of ligands such as hormones and neurotransmitters to a GPCR activates the receptor by causing a conformational change, which in turn activates the bound G protein on the intracellular-side of the membrane. The activated receptor promotes the exchange of bound GDP for GTP on the G protein alpha subunit. GTP binding changes the conformation of switch regions within the alpha subunit, which allows the bound trimeric G protein (inactive) to be released from the receptor, and to dissociate into active alpha subunit (GTP-bound) and beta/gamma dimer. The alpha subunit and the beta/gamma dimer go on to activate distinct downstream effectors, such as adenylyl cyclase, phosphodiesterases, phospholipase C, and ion channels. These effectors in turn regulate the intracellular concentrations of secondary messengers, such as cAMP, diacylglycerol, sodium or calcium cations, which ultimately lead to a physiological response, usually via the downstream regulation of gene transcription. The cycle is completed by the hydrolysis of alpha subunit-bound GTP to GDP, resulting in the re-association of the alpha and beta/gamma subunits and their binding to the receptor, which terminates the signal []. The length of the G protein signal is controlled by the duration of the GTP-bound alpha subunit, which can be regulated by RGS (regulator of G protein signalling) proteins (IPR000342 from INTERPRO) or by covalent modifications []. There are several isoforms of each subunit, many of which have splice variants, which together can make up hundreds of combinations of G proteins. The specific combination of subunits in heterotrimeric G proteins affects not only which receptor it can bind to, but also which downstream target is affected, providing the means to target specific physiological processes in response to specific external stimuli [, ]. G proteins carry lipid modifications on one or more of their subunits to target them to the plasma membrane and to contribute to protein interactions. This family consists of the G protein alpha subunit, which acts as a weak GTPase. G protein classes are defined based on the sequence and function of their alpha subunits, which in mammals fall into four main categories: G(S)alpha, G(Q)alpha, G(I)alpha and G(12)alpha; there are also fungal and plant classes of alpha subunits. The alpha subunit consists of two domains: a GTP-binding domain and a helical insertion domain (IPR011025 from INTERPRO). The GTP-binding domain is homologous to Ras-like small GTPases, and includes switch regions I and II, which change conformation during activation. The switch regions are loops of alpha-helices with conformations sensitive to guanine nucleotides. The helical insertion domain is inserted into the GTP-binding domain before switch region I and is unique to heterotrimeric G proteins. This helical insertion domain functions to sequester the guanine nucleotide at the interface with the GTP-binding domain and must be displaced to enable nucleotide dissociation.; GO: 0004871 signal transducer activity, 0019001 guanyl nucleotide binding, 0007186 G-protein coupled receptor protein signaling pathway; PDB: 3QI2_B 3QE0_A 2IK8_A 2OM2_A 2GTP_B 2XNS_B 3ONW_B 1KJY_A 2EBC_A 1Y3A_B ....

>cd03254 ABCC_Glucan_exporter_like Glucan exporter ATP-binding protein

Probab=96.56  E-value=0.0031  Score=37.23  Aligned_cols=22  Identities=41%  Similarity=0.535  Sum_probs=19.1

Q ss_pred             eEEEEeCCCCCHHHHHHHHHhC
Q psy2514          14 TVVIVGNGAVGKSSMIQRYCRG   35 (71)
Q Consensus        14 ki~v~G~~~vGKtsl~~~~~~~   35 (71)
                      .+.++|++|+|||+|++.++.-
T Consensus        31 ~~~i~G~nGsGKSTLl~~l~G~   52 (229)
T cd03254          31 TVAIVGPTGAGKTTLINLLMRF   52 (229)
T ss_pred             EEEEECCCCCCHHHHHHHHhcC
Confidence            4789999999999999988753

In A. tumefaciens cyclic beta-1, 2-glucan must be transported into the periplasmic space to exert its action as a virluence factor. This subfamily belongs to the MRP-like family and is involved in drug, peptide, and lipid export. The MRP-like family, similar to all ABC proteins, have a common four-domain core structure constituted by two membrane-spanning domains each composed of six transmembrane (TM) helices and two nucleotide-binding domains (NBD). ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>PRK04182 cytidylate kinase; Provisional

Probab=96.56  E-value=0.0036  Score=35.36  Aligned_cols=21  Identities=19%  Similarity=0.365  Sum_probs=19.0

Q ss_pred             eEEEEeCCCCCHHHHHHHHHh
Q psy2514          14 TVVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus        14 ki~v~G~~~vGKtsl~~~~~~   34 (71)
                      .|++.|.+|+|||++...+..
T Consensus         2 ~I~i~G~~GsGKstia~~la~   22 (180)
T PRK04182          2 IITISGPPGSGKTTVARLLAE   22 (180)
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            689999999999999998874

>cd03247 ABCC_cytochrome_bd The CYD subfamily implicated in cytochrome bd biogenesis

Probab=96.55  E-value=0.0047  Score=35.28  Aligned_cols=23  Identities=22%  Similarity=0.466  Sum_probs=19.5

Q ss_pred             eeEEEEeCCCCCHHHHHHHHHhC
Q psy2514          13 GTVVIVGNGAVGKSSMIQRYCRG   35 (71)
Q Consensus        13 ~ki~v~G~~~vGKtsl~~~~~~~   35 (71)
                      -.+.++|++|+|||+|++.+..-
T Consensus        29 e~~~i~G~nGsGKStLl~~l~G~   51 (178)
T cd03247          29 EKIALLGRSGSGKSTLLQLLTGD   51 (178)
T ss_pred             CEEEEECCCCCCHHHHHHHHhcc
Confidence            35789999999999999987654

The CydC and CydD proteins are important for the formation of cytochrome bd terminal oxidase of E. coli and it has been proposed that they were necessary for biosynthesis of the cytochrome bd quinol oxidase and for periplasmic c-type cytochromes. CydCD were proposed to determine a heterooligomeric complex important for heme export into the periplasm or to be involved in the maintenance of the proper redox state of the periplasmic space. In Bacillus subtilius, the absence of CydCD does not affect the presence of halo-cytochrome c in the membrane and this observation suggests that CydCD proteins are not involved in the export of heme in this organism.

>PRK14247 phosphate ABC transporter ATP-binding protein; Provisional

Probab=96.55  E-value=0.0031  Score=37.77  Aligned_cols=22  Identities=23%  Similarity=0.531  Sum_probs=18.9

Q ss_pred             eeEEEEeCCCCCHHHHHHHHHh
Q psy2514          13 GTVVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus        13 ~ki~v~G~~~vGKtsl~~~~~~   34 (71)
                      -.+.++|++|+|||+|+.-+..
T Consensus        30 e~~~i~G~nGsGKSTLl~~i~G   51 (250)
T PRK14247         30 TITALMGPSGSGKSTLLRVFNR   51 (250)
T ss_pred             CEEEEECCCCCCHHHHHHHHhc
Confidence            3578999999999999997764

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	71
1z22_A	168	Gdp-Bound Rab23 Gtpase Crystallized In C222(1) Spac		2e-11

>pdb|1Z22|A Chain A, Gdp-Bound Rab23 Gtpase Crystallized In C222(1) Space Group Length = 168

Iteration: 1
 Score = 63.9 bits (154), Expect = 2e-11,   Method: Compositional matrix adjust.
 Identities = 28/33 (84%), Positives = 32/33 (96%)
Query: 15 VVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGV 47
          +V+VGNGAVGKSSMIQRYC+G FT+DYKKTIGV
Sbjct: 8  MVVVGNGAVGKSSMIQRYCKGIFTKDYKKTIGV 40

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	71
1z2a_A	168	RAS-related protein RAB-23; RAB GTPase, vesicular	1e-11
3gj0_A	221	GTP-binding nuclear protein RAN; G protein, GDP, a	4e-11
1ky3_A	182	GTP-binding protein YPT7P; vesicular traffic, GTP	1e-10
1vg8_A	207	RAS-related protein RAB-7; GTP-binding protein, pr	1e-10
1wms_A	177	RAB-9, RAB9, RAS-related protein RAB-9A; GTPase, p	2e-10
2hxs_A	178	RAB-26, RAS-related protein RAB-28; GTPase, signal	2e-10
4djt_A	218	GTP-binding nuclear protein GSP1; structural genom	2e-10
1z08_A	170	RAS-related protein RAB-21; RAB GTPase, vesicular	4e-10
2p5s_A	199	RAS and EF-hand domain containing; G-protein, RAB,	4e-10
2fg5_A	192	RAB-22B, RAS-related protein RAB-31; G-protein, GT	9e-10
1z0j_A	170	RAB-22, RAS-related protein RAB-22A; RAB GTPase, R	9e-10
2efe_B	181	Small GTP-binding protein-like; GEF, GTPase, VPS9,	1e-09
1r2q_A	170	RAS-related protein RAB-5A; GTPase, GNP, atomic re	1e-09
3tw8_B	181	RAS-related protein RAB-35; longin domain, RAB GTP	1e-09
3tw8_B	181	RAS-related protein RAB-35; longin domain, RAB GTP	6e-04
3dz8_A	191	RAS-related protein RAB-3B; GDP, GTPase, structura	2e-09
1ek0_A	170	Protein (GTP-binding protein YPT51); vesicular tra	2e-09
1zbd_A	203	Rabphilin-3A; G protein, effector, RABCDR, synapti	2e-09
1z06_A	189	RAS-related protein RAB-33B; RAB GTPase, RAB33B GT	2e-09
2f9l_A	199	RAB11B, member RAS oncogene family; RAB11B GTPase,	2e-09
3bbp_A	211	RAB-6, RAS-related protein RAB-6A; golgi complex,	2e-09
1oix_A	191	RAS-related protein RAB-11A; small G protein, intr	2e-09
1g16_A	170	RAS-related protein SEC4; G protein RAB, signaling	2e-09
2bme_A	186	RAB4A, RAS-related protein RAB4A; GTP-binding prot	2e-09
2ew1_A	201	RAS-related protein RAB-30; G-protein, GTP analogu	2e-09
3tkl_A	196	RAS-related protein RAB-1A; vesicle trafficking, p	2e-09
2hup_A	201	RAS-related protein RAB-43; G-protein, GDP, struct	2e-09
2gf9_A	189	RAS-related protein RAB-3D; G-protein, structural	2e-09
2o52_A	200	RAS-related protein RAB-4B; G-protein, GDP, struct	2e-09
1z0f_A	179	RAB14, member RAS oncogene family; RAB GTPase, ves	2e-09
2bcg_Y	206	Protein YP2, GTP-binding protein YPT1; RABGTPase,	3e-09
2y8e_A	179	RAB-protein 6, GH09086P, RAB6; hydrolase, nucleoti	3e-09
2f7s_A	217	C25KG, RAS-related protein RAB-27B; G-protein, str	3e-09
2f7s_A	217	C25KG, RAS-related protein RAB-27B; G-protein, str	8e-04
3l0i_B	199	RAS-related protein RAB-1A; GEF-GDF-RAB complex, G	3e-09
3cpj_B	223	GTP-binding protein YPT31/YPT8; RAB GTPase, prenyl	3e-09
2il1_A	192	RAB12; G-protein, GDP, GTPase, predicted, structur	3e-09
2oil_A	193	CATX-8, RAS-related protein RAB-25; G-protein, GDP	3e-09
3cph_A	213	RAS-related protein SEC4; RAB GTPase, prenylation,	3e-09
3bc1_A	195	RAS-related protein RAB-27A; RAB27, GTPase, RAB, s	3e-09
1x3s_A	195	RAS-related protein RAB-18; GTPase, GNP, structura	3e-09
2fu5_C	183	RAS-related protein RAB-8A; MSS4:RAB8 protein comp	4e-09
2a5j_A	191	RAS-related protein RAB-2B; GTPase, signal transdu	6e-09
2yc2_C	208	IFT27, small RAB-related GTPase; transport protein	1e-08
2a9k_A	187	RAS-related protein RAL-A; bacterial ADP-ribosyltr	2e-08
3reg_A	194	RHO-like small GTPase; cytoskeleton, nucleotide-bi	3e-08
2zej_A	184	Dardarin, leucine-rich repeat kinase 2; parkinson'	3e-08
1u8z_A	168	RAS-related protein RAL-A; GNP, GTP, GMPPNP, GPPNH	3e-08
2iwr_A	178	Centaurin gamma 1; ANK repeat, zinc-finger, GTP-bi	4e-08
2bov_A	206	RAla, RAS-related protein RAL-A; C3BOT, exoenzyme,	4e-08
2ce2_X	166	GTPase HRAS; signaling protein, guanine nucleotide	4e-08
2gf0_A	199	GTP-binding protein DI-RAS1; GDP/GTP binding, GTP	4e-08
2erx_A	172	GTP-binding protein DI-RAS2; GTP hydrolysis, trans	5e-08
3con_A	190	GTPase NRAS; structural genomics consortium, SGC,	5e-08
1m7b_A	184	RND3/RHOE small GTP-binding protein; small GTPase,	5e-08
4dsu_A	189	GTPase KRAS, isoform 2B; small G-protein, signalin	6e-08
3t5g_A	181	GTP-binding protein RHEB; immunoglobulin-like beta	6e-08
3oes_A	201	GTPase rhebl1; small GTPase, structural genomics,	7e-08
1c1y_A	167	RAS-related protein RAP-1A; GTP-binding proteins,	7e-08
3cbq_A	195	GTP-binding protein REM 2; FLJ38964A, structural g	8e-08
2q3h_A	201	RAS homolog gene family, member U; GTPase, structu	1e-07
2g6b_A	180	RAS-related protein RAB-26; G-protein, GTP analogu	1e-07
2j1l_A	214	RHO-related GTP-binding protein RHOD; GTPase, memb	1e-07
3q85_A	169	GTP-binding protein REM 2; G-domain, CAV2 beta, si	1e-07
3th5_A	204	RAS-related C3 botulinum toxin substrate 1; rossma	2e-07
2gco_A	201	H9, RHO-related GTP-binding protein RHOC; GTPase,s	2e-07
3q3j_B	214	RHO-related GTP-binding protein RHO6; RAS-binding	2e-07
2fv8_A	207	H6, RHO-related GTP-binding protein RHOB; GDP/GTP	2e-07
3ihw_A	184	Centg3; RAS, centaurin, GTPase, structural genomic	2e-07
3clv_A	208	RAB5 protein, putative; malaria, GTPase, structura	2e-07
1kao_A	167	RAP2A; GTP-binding protein, small G protein, GDP,	2e-07
3bwd_D	182	RAC-like GTP-binding protein ARAC6; G domain, cyto	2e-07
2atx_A	194	Small GTP binding protein TC10; GTPase, P-loop, al	2e-07
1gwn_A	205	RHO-related GTP-binding protein RHOE; GTPase, inac	2e-07
2atv_A	196	RERG, RAS-like estrogen-regulated growth inhibitor	3e-07
3kkq_A	183	RAS-related protein M-RAS; GTP-binding, GTPase, si	3e-07
3c5c_A	187	RAS-like protein 12; GDP, GTPase, structural genom	3e-07
2j0v_A	212	RAC-like GTP-binding protein ARAC7; nucleotide-bin	4e-07
2fn4_A	181	P23, RAS-related protein R-RAS; GDP/GTP binding, G	6e-07
1mh1_A	186	RAC1; GTP-binding, GTPase, small G-protein, RHO fa	1e-06
3dpu_A	535	RAB family protein; roccor, G-domain, COR, GTP-bin	2e-06
2nzj_A	175	GTP-binding protein REM 1; GDP/GTP binding, GTP hy	2e-05
3q72_A	166	GTP-binding protein RAD; G-domain, CAV2 beta, sign	3e-05
2cjw_A	192	GTP-binding protein GEM; nucleotide-binding, small	3e-04

>1z2a_A RAS-related protein RAB-23; RAB GTPase, vesicular trafficking, protein transport; HET: GDP; 1.90A {Mus musculus} SCOP: c.37.1.8 PDB: 1z22_A* Length = 168

 Score = 55.2 bits (134), Expect = 1e-11
 Identities = 28/33 (84%), Positives = 32/33 (96%)

Query: 15 VVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGV 47
          +V+VGNGAVGKSSMIQRYC+G FT+DYKKTIGV
Sbjct: 8  MVVVGNGAVGKSSMIQRYCKGIFTKDYKKTIGV 40

>3gj0_A GTP-binding nuclear protein RAN; G protein, GDP, acetylation, cytoplasm, HOST- virus interaction, nucleotide-binding, nucleus, phosphoprotein; HET: GDP; 1.48A {Homo sapiens} PDB: 3gj3_A* 3gj5_A* 3gj4_A* 3gj6_A* 3gj7_A* 3gj8_A* 1i2m_A 1a2k_C 1ibr_A* 1k5d_A* 1k5g_A* 1qbk_C* 3a6p_C* 3ch5_A* 1qg4_A* 3ea5_A* 1qg2_A* 1byu_A* 3ran_A* 3gjx_C* ... Length = 221

 Score = 54.6 bits (132), Expect = 4e-11
 Identities = 13/33 (39%), Positives = 23/33 (69%)

Query: 15 VVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGV 47
          +V+VG+G  GK++ ++R+  G F + Y  T+GV
Sbjct: 18 LVLVGDGGTGKTTFVKRHLTGEFEKKYVATLGV 50

>1ky3_A GTP-binding protein YPT7P; vesicular traffic, GTP hydrolysis, YPT/RAB protein, endocytosis, hydrolase, endocytosis/exocytosis complex; HET: GDP; 1.35A {Saccharomyces cerevisiae} SCOP: c.37.1.8 PDB: 1ky2_A* Length = 182

 Score = 53.0 bits (128), Expect = 1e-10
 Identities = 14/33 (42%), Positives = 23/33 (69%)

Query: 15 VVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGV 47
          V+I+G+  VGK+S++ RY    +++ YK TIG 
Sbjct: 11 VIILGDSGVGKTSLMHRYVNDKYSQQYKATIGA 43

>1vg8_A RAS-related protein RAB-7; GTP-binding protein, protein transport; HET: GNP; 1.70A {Rattus norvegicus} SCOP: c.37.1.8 PDB: 1vg0_B* 3law_A* 1t91_A* 1yhn_A* 1vg1_A* 1vg9_B* Length = 207

 Score = 53.0 bits (128), Expect = 1e-10
 Identities = 14/33 (42%), Positives = 22/33 (66%)

Query: 15 VVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGV 47
          V+I+G+  VGK+S++ +Y    F+  YK TIG 
Sbjct: 11 VIILGDSGVGKTSLMNQYVNKKFSNQYKATIGA 43

>1wms_A RAB-9, RAB9, RAS-related protein RAB-9A; GTPase, protein transport; HET: GDP; 1.25A {Homo sapiens} SCOP: c.37.1.8 PDB: 1s8f_A* 1yzl_A* 2ocb_A* Length = 177

 Score = 52.5 bits (127), Expect = 2e-10
 Identities = 15/33 (45%), Positives = 21/33 (63%)

Query: 15 VVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGV 47
          V+++G+G VGKSS++ RY    F      TIGV
Sbjct: 10 VILLGDGGVGKSSLMNRYVTNKFDTQLFHTIGV 42

>2hxs_A RAB-26, RAS-related protein RAB-28; GTPase, signaling protein; HET: G3D; 1.10A {Homo sapiens} PDB: 2hy4_A* 3e5h_A* Length = 178

 Score = 52.5 bits (127), Expect = 2e-10
 Identities = 14/33 (42%), Positives = 25/33 (75%)

Query: 15 VVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGV 47
          +V++G+GA GK+S+   + + TF + YK+TIG+
Sbjct: 9  IVVLGDGASGKTSLTTCFAQETFGKQYKQTIGL 41

>4djt_A GTP-binding nuclear protein GSP1; structural genomics, seattle structural genomics center for infectious disease, ssgcid, RAN family; HET: GDP; 1.80A {Encephalitozoon cuniculi} Length = 218

 Score = 53.1 bits (128), Expect = 2e-10
 Identities = 12/33 (36%), Positives = 21/33 (63%)

Query: 15 VVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGV 47
          + ++G+G VGK++ I R   G F ++Y  T+G 
Sbjct: 14 ICLIGDGGVGKTTYINRVLDGRFEKNYNATVGA 46

>1z08_A RAS-related protein RAB-21; RAB GTPase, vesicular trafficking, protein transport; HET: GNP; 1.80A {Homo sapiens} SCOP: c.37.1.8 PDB: 2ot3_B 1yzu_A* 1z0i_A 1yzt_A* Length = 170

 Score = 51.3 bits (124), Expect = 4e-10
 Identities = 14/33 (42%), Positives = 21/33 (63%)

Query: 15 VVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGV 47
          VV++G G VGK+S++ RYC   F   +  T+G 
Sbjct: 9  VVLLGEGCVGKTSLVLRYCENKFNDKHITTLGA 41

>2p5s_A RAS and EF-hand domain containing; G-protein, RAB, GDP, structural genomics, SGC, structural genomics consortium, signaling protein; HET: GDP; 2.15A {Homo sapiens} Length = 199

 Score = 51.9 bits (125), Expect = 4e-10
 Identities = 14/33 (42%), Positives = 21/33 (63%)

Query: 15 VVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGV 47
          +V+ G+ AVGKSS + R C+  F  +   T+GV
Sbjct: 31 IVLAGDAAVGKSSFLMRLCKNEFRENISATLGV 63

>2fg5_A RAB-22B, RAS-related protein RAB-31; G-protein, GTP analogue, structural genomics, structural genomics consortium, SGC, signaling protein; HET: GNP; 2.80A {Homo sapiens} SCOP: c.37.1.8 Length = 192

 Score = 50.7 bits (122), Expect = 9e-10
 Identities = 12/33 (36%), Positives = 20/33 (60%)

Query: 15 VVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGV 47
          V ++G+  VGKSS++ R+ +  F  +   TIG 
Sbjct: 26 VCLLGDTGVGKSSIVCRFVQDHFDHNISPTIGA 58

>1z0j_A RAB-22, RAS-related protein RAB-22A; RAB GTPase, RAB22 GTPase, rabenosyn, endosomal trafficking; HET: GTP; 1.32A {Mus musculus} SCOP: c.37.1.8 PDB: 1yvd_A* Length = 170

 Score = 50.2 bits (121), Expect = 9e-10
 Identities = 12/33 (36%), Positives = 20/33 (60%)

Query: 15 VVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGV 47
          V ++G+  VGKSS++ R+   +F  +   TIG 
Sbjct: 9  VCLLGDTGVGKSSIMWRFVEDSFDPNINPTIGA 41

>2efe_B Small GTP-binding protein-like; GEF, GTPase, VPS9, nucleotide, transport protein; HET: GNH; 2.08A {Arabidopsis thaliana} PDB: 2efd_B 2efc_B* 2efh_B* Length = 181

 Score = 50.2 bits (121), Expect = 1e-09
 Identities = 11/33 (33%), Positives = 20/33 (60%)

Query: 15 VVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGV 47
          +V++G+   GKSS++ R+ +  F    + TIG 
Sbjct: 15 LVLLGDVGAGKSSLVLRFVKDQFVEFQESTIGA 47

>1r2q_A RAS-related protein RAB-5A; GTPase, GNP, atomic resolution, protein transport; HET: GNP; 1.05A {Homo sapiens} SCOP: c.37.1.8 PDB: 1n6h_A* 1tu4_A* 1tu3_A* 1n6k_A* 1n6i_A* 1n6l_A* 1n6o_A* 1n6p_A* 1n6n_A* 1n6r_A* 3mjh_A* 1z0d_A* 1huq_A* 2hei_A* 1z07_A* Length = 170

 Score = 49.8 bits (120), Expect = 1e-09
 Identities = 14/33 (42%), Positives = 22/33 (66%)

Query: 15 VVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGV 47
          +V++G  AVGKSS++ R+ +G F    + TIG 
Sbjct: 9  LVLLGESAVGKSSLVLRFVKGQFHEFQESTIGA 41

>3tw8_B RAS-related protein RAB-35; longin domain, RAB GTPase, guanine exchange factor; 2.10A {Homo sapiens} Length = 181

 Score = 49.9 bits (120), Expect = 1e-09
 Identities = 15/33 (45%), Positives = 23/33 (69%)

Query: 15 VVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGV 47
          ++I+G+  VGKSS++ R+   TF+  Y  TIGV
Sbjct: 12 LLIIGDSGVGKSSLLLRFADNTFSGSYITTIGV 44

>3tw8_B RAS-related protein RAB-35; longin domain, RAB GTPase, guanine exchange factor; 2.10A {Homo sapiens} Length = 181

 Score = 34.8 bits (81), Expect = 6e-04
 Identities = 12/25 (48%), Positives = 16/25 (64%), Gaps = 1/25 (4%)

Query: 46 GV-KSSMIQRYCRGTFTRDYKKTIG 69
          GV KSS++ R+   TF+  Y  TIG
Sbjct: 19 GVGKSSLLLRFADNTFSGSYITTIG 43

>3dz8_A RAS-related protein RAB-3B; GDP, GTPase, structural genomics consortium, SGC, cell GTP-binding, lipoprotein, membrane, methylation; HET: GDP; 1.90A {Homo sapiens} Length = 191

 Score = 49.9 bits (120), Expect = 2e-09
 Identities = 14/33 (42%), Positives = 23/33 (69%)

Query: 15 VVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGV 47
          ++I+GN +VGK+S + RY   TFT  +  T+G+
Sbjct: 26 LLIIGNSSVGKTSFLFRYADDTFTPAFVSTVGI 58

>1ek0_A Protein (GTP-binding protein YPT51); vesicular traffic, GTP hydrolysis, YPT/RAB protein, endocytosis, hydrolase; HET: MHO GNP GDP; 1.48A {Saccharomyces cerevisiae} SCOP: c.37.1.8 Length = 170

 Score = 49.8 bits (119), Expect = 2e-09
 Identities = 13/33 (39%), Positives = 21/33 (63%)

Query: 15 VVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGV 47
          +V++G  AVGKSS++ R+    F  + + TIG 
Sbjct: 6  LVLLGEAAVGKSSIVLRFVSNDFAENKEPTIGA 38

>1zbd_A Rabphilin-3A; G protein, effector, RABCDR, synaptic exocytosis, RAB protein, RAB3A; HET: GTP; 2.60A {Rattus norvegicus} SCOP: c.37.1.8 Length = 203

 Score = 50.0 bits (120), Expect = 2e-09
 Identities = 13/33 (39%), Positives = 23/33 (69%)

Query: 15 VVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGV 47
          ++I+GN +VGK+S + RY   +FT  +  T+G+
Sbjct: 11 ILIIGNSSVGKTSFLFRYADDSFTPAFVSTVGI 43

>1z06_A RAS-related protein RAB-33B; RAB GTPase, RAB33B GTPase, vesicular trafficking, protein transport; HET: GNP; 1.81A {Mus musculus} SCOP: c.37.1.8 PDB: 2g77_B* Length = 189

 Score = 49.9 bits (120), Expect = 2e-09
 Identities = 12/33 (36%), Positives = 21/33 (63%)

Query: 15 VVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGV 47
          ++++G+  VGK+ +  R+C G F    + TIGV
Sbjct: 23 IIVIGDSNVGKTCLTYRFCAGRFPDRTEATIGV 55

>2f9l_A RAB11B, member RAS oncogene family; RAB11B GTPase, vesicle transport, hydrolase; HET: GDP; 1.55A {Homo sapiens} SCOP: c.37.1.8 PDB: 2f9m_A* 1yzk_A* 2hv8_A* 2gzd_A* 2gzh_A* 2d7c_A* 3bfk_A* Length = 199

 Score = 50.0 bits (120), Expect = 2e-09
 Identities = 15/33 (45%), Positives = 23/33 (69%)

Query: 15 VVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGV 47
          VV++G+  VGKS+++ R+ R  F  + K TIGV
Sbjct: 8  VVLIGDSGVGKSNLLSRFTRNEFNLESKSTIGV 40

>3bbp_A RAB-6, RAS-related protein RAB-6A; golgi complex, GRIP domain, RAB GTPase, ARL GTPase, golgin, RAB effector, clAsp protein; HET: GTP; 3.00A {Homo sapiens} Length = 211

 Score = 50.0 bits (120), Expect = 2e-09
 Identities = 13/33 (39%), Positives = 22/33 (66%)

Query: 15 VVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGV 47
          +V +G  +VGK+S+I R+   +F   Y+ TIG+
Sbjct: 19 LVFLGEQSVGKTSLITRFMYDSFDNTYQATIGI 51

>1oix_A RAS-related protein RAB-11A; small G protein, intracellular trafficking, GTP-binding, lipoprotein, prenylation, protein transport; HET: GDP; 1.7A {Homo sapiens} SCOP: c.37.1.8 PDB: 1oiw_A* 1oiv_A* 3rwo_B* 3rwm_B* Length = 191

 Score = 49.9 bits (120), Expect = 2e-09
 Identities = 15/33 (45%), Positives = 23/33 (69%)

Query: 15 VVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGV 47
          VV++G+  VGKS+++ R+ R  F  + K TIGV
Sbjct: 32 VVLIGDSGVGKSNLLSRFTRNEFNLESKSTIGV 64

>1g16_A RAS-related protein SEC4; G protein RAB, signaling protein, endocytosis/exocytosis complex; HET: GDP; 1.80A {Saccharomyces cerevisiae} SCOP: c.37.1.8 PDB: 1g17_A* 2ocy_C 2eqb_A Length = 170

 Score = 49.5 bits (119), Expect = 2e-09
 Identities = 10/33 (30%), Positives = 20/33 (60%)

Query: 15 VVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGV 47
          ++++G+  VGKS ++ R+    F   +  TIG+
Sbjct: 6  ILLIGDSGVGKSCLLVRFVEDKFNPSFITTIGI 38

>2bme_A RAB4A, RAS-related protein RAB4A; GTP-binding protein, vesicular transport, endocytosis, prenylation, protein transport, transport; HET: GNP; 1.57A {Homo sapiens} SCOP: c.37.1.8 PDB: 2bmd_A* 1yu9_A* 1z0k_A* Length = 186

 Score = 49.5 bits (119), Expect = 2e-09
 Identities = 11/33 (33%), Positives = 18/33 (54%)

Query: 15 VVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGV 47
           +++GN   GKS ++ ++    F  D   TIGV
Sbjct: 13 FLVIGNAGTGKSCLLHQFIEKKFKDDSNHTIGV 45

>2ew1_A RAS-related protein RAB-30; G-protein, GTP analogue, structural genomics, structural genomics consortium, SGC, signaling protein; HET: GNP; 2.00A {Homo sapiens} SCOP: c.37.1.8 Length = 201

 Score = 49.6 bits (119), Expect = 2e-09
 Identities = 13/33 (39%), Positives = 22/33 (66%)

Query: 15 VVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGV 47
          +V++GN  VGK+ +++R+ +G F      TIGV
Sbjct: 29 IVLIGNAGVGKTCLVRRFTQGLFPPGQGATIGV 61

>3tkl_A RAS-related protein RAB-1A; vesicle trafficking, protein transport-protein binding compl; HET: GTP; 2.18A {Homo sapiens} Length = 196

 Score = 49.6 bits (119), Expect = 2e-09
 Identities = 13/33 (39%), Positives = 22/33 (66%)

Query: 15 VVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGV 47
          ++++G+  VGKS ++ R+   T+T  Y  TIGV
Sbjct: 19 LLLIGDSGVGKSCLLLRFADDTYTESYISTIGV 51

>2hup_A RAS-related protein RAB-43; G-protein, GDP, structural genomics, structural genomics consortium, SGC, signaling protein; HET: GDP; 2.05A {Homo sapiens} Length = 201

 Score = 49.6 bits (119), Expect = 2e-09
 Identities = 14/33 (42%), Positives = 23/33 (69%)

Query: 15 VVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGV 47
          +V+VG+ +VGK+ ++QR+  G F+     TIGV
Sbjct: 32 LVLVGDASVGKTCVVQRFKTGAFSERQGSTIGV 64

>2gf9_A RAS-related protein RAB-3D; G-protein, structural genomics, structural genomics consortium, SGC, protein transport; HET: GDP; 1.53A {Homo sapiens} PDB: 3rab_A* Length = 189

 Score = 49.5 bits (119), Expect = 2e-09
 Identities = 12/33 (36%), Positives = 23/33 (69%)

Query: 15 VVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGV 47
          ++++GN +VGK+S + RY   +FT  +  T+G+
Sbjct: 25 LLLIGNSSVGKTSFLFRYADDSFTPAFVSTVGI 57

>2o52_A RAS-related protein RAB-4B; G-protein, GDP, structural genomics, structural genomics consortium, SGC, protein transport; HET: GDP; 2.20A {Homo sapiens} Length = 200

 Score = 49.6 bits (119), Expect = 2e-09
 Identities = 10/33 (30%), Positives = 19/33 (57%)

Query: 15 VVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGV 47
           +++G+   GKS ++ ++    F +D   TIGV
Sbjct: 28 FLVIGSAGTGKSCLLHQFIENKFKQDSNHTIGV 60

>1z0f_A RAB14, member RAS oncogene family; RAB GTPase, vesicular trafficking, protein transport; HET: GDP; 2.15A {Homo sapiens} SCOP: c.37.1.8 PDB: 2aed_A* 4drz_A* Length = 179

 Score = 49.5 bits (119), Expect = 2e-09
 Identities = 12/33 (36%), Positives = 19/33 (57%)

Query: 15 VVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGV 47
           +I+G+  VGKS ++ ++    F  D   TIGV
Sbjct: 18 YIIIGDMGVGKSCLLHQFTEKKFMADCPHTIGV 50

>2bcg_Y Protein YP2, GTP-binding protein YPT1; RABGTPase, geranylgeranylation, vesicular transport, protein transport; HET: GDP GER; 1.48A {Saccharomyces cerevisiae} SCOP: c.37.1.8 PDB: 1ukv_Y* 3cue_F* 1yzn_A* 3sfv_A* 2wwx_A 2fol_A* 3nkv_A* 3jza_A* 2rhd_A* Length = 206

 Score = 49.6 bits (119), Expect = 3e-09
 Identities = 15/33 (45%), Positives = 23/33 (69%)

Query: 15 VVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGV 47
          ++++GN  VGKS ++ R+   T+T DY  TIGV
Sbjct: 11 LLLIGNSGVGKSCLLLRFSDDTYTNDYISTIGV 43

>2y8e_A RAB-protein 6, GH09086P, RAB6; hydrolase, nucleotide binding, GTP binding; HET: GNP; 1.39A {Drosophila melanogaster} PDB: 3cwz_A* 1yzq_A* 2gil_A* 2e9s_A* 2fe4_A* 2ffq_A* 1d5c_A* Length = 179

 Score = 49.1 bits (118), Expect = 3e-09
 Identities = 13/33 (39%), Positives = 22/33 (66%)

Query: 15 VVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGV 47
          +V +G  +VGK+S+I R+   +F   Y+ TIG+
Sbjct: 17 LVFLGEQSVGKTSLITRFMYDSFDNTYQATIGI 49

>2f7s_A C25KG, RAS-related protein RAB-27B; G-protein, structural genomics, structural genomics consortium, SGC, signaling protein; HET: GDP; 2.70A {Homo sapiens} SCOP: c.37.1.8 PDB: 2iez_A* Length = 217

 Score = 49.6 bits (119), Expect = 3e-09
 Identities = 9/33 (27%), Positives = 19/33 (57%)

Query: 15 VVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGV 47
          ++ +G+  VGK++ + RY    F   +  T+G+
Sbjct: 28 LLALGDSGVGKTTFLYRYTDNKFNPKFITTVGI 60

>2f7s_A C25KG, RAS-related protein RAB-27B; G-protein, structural genomics, structural genomics consortium, SGC, signaling protein; HET: GDP; 2.70A {Homo sapiens} SCOP: c.37.1.8 PDB: 2iez_A* Length = 217

 Score = 34.6 bits (80), Expect = 8e-04
 Identities = 8/25 (32%), Positives = 13/25 (52%), Gaps = 1/25 (4%)

Query: 46 GV-KSSMIQRYCRGTFTRDYKKTIG 69
          GV K++ + RY    F   +  T+G
Sbjct: 35 GVGKTTFLYRYTDNKFNPKFITTVG 59

>3l0i_B RAS-related protein RAB-1A; GEF-GDF-RAB complex, GTP-binding, guanine-nucleotide exchang GDI-displacement factor; 2.85A {Homo sapiens} Length = 199

 Score = 49.6 bits (119), Expect = 3e-09
 Identities = 13/33 (39%), Positives = 22/33 (66%)

Query: 15 VVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGV 47
          ++++G+  VGKS ++ R+   T+T  Y  TIGV
Sbjct: 36 LLLIGDSGVGKSCLLLRFADDTYTESYISTIGV 68

>3cpj_B GTP-binding protein YPT31/YPT8; RAB GTPase, prenylation, vesicular transport, acetylation, golgi apparatus, lipoprotein, membrane; HET: GDP; 2.35A {Saccharomyces cerevisiae} Length = 223

 Score = 49.7 bits (119), Expect = 3e-09
 Identities = 14/33 (42%), Positives = 23/33 (69%)

Query: 15 VVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGV 47
          +V++G+  VGKS+++ R+ +  F  D K TIGV
Sbjct: 16 IVLIGDSGVGKSNLLSRFTKNEFNMDSKSTIGV 48

>2il1_A RAB12; G-protein, GDP, GTPase, predicted, structural genomics, structural genomics consortium, SGC, protein transport; HET: GDP; 2.10A {Homo sapiens} Length = 192

 Score = 49.5 bits (119), Expect = 3e-09
 Identities = 14/33 (42%), Positives = 23/33 (69%)

Query: 15 VVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGV 47
          V+I+G+  VGK+S+++R+   TF    K T+GV
Sbjct: 29 VIIIGSRGVGKTSLMERFTDDTFCEACKSTVGV 61

>2oil_A CATX-8, RAS-related protein RAB-25; G-protein, GDP, structural genomics, structural genomics consortium, SGC, protein transport; HET: GDP; 2.30A {Homo sapiens} Length = 193

 Score = 49.5 bits (119), Expect = 3e-09
 Identities = 14/33 (42%), Positives = 23/33 (69%)

Query: 15 VVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGV 47
          VV++G   VGK++++ R+ R  F+ D + TIGV
Sbjct: 28 VVLIGESGVGKTNLLSRFTRNEFSHDSRTTIGV 60

>3cph_A RAS-related protein SEC4; RAB GTPase, prenylation, vesicular transport, cytoplasm, cytoplasmic vesicle, exocytosis, GTP-binding; HET: GDP; 2.90A {Saccharomyces cerevisiae} SCOP: c.37.1.8 Length = 213

 Score = 49.6 bits (119), Expect = 3e-09
 Identities = 10/33 (30%), Positives = 20/33 (60%)

Query: 15 VVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGV 47
          ++++G+  VGKS ++ R+    F   +  TIG+
Sbjct: 23 ILLIGDSGVGKSCLLVRFVEDKFNPSFITTIGI 55

>3bc1_A RAS-related protein RAB-27A; RAB27, GTPase, RAB, signaling protein, GDPNP, SLP2A, exophil GTP-binding, lipoprotein, membrane, methylation; HET: GNP; 1.80A {Mus musculus} PDB: 2iey_A* 2if0_A* 2zet_A* Length = 195

 Score = 49.2 bits (118), Expect = 3e-09
 Identities = 10/33 (30%), Positives = 20/33 (60%)

Query: 15 VVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGV 47
           + +G+  VGK+S++ +Y  G F   +  T+G+
Sbjct: 14 FLALGDSGVGKTSVLYQYTDGKFNSKFITTVGI 46

>1x3s_A RAS-related protein RAB-18; GTPase, GNP, structural genomics, NPPSFA, national project on protein structural and functional analyses; HET: GNP; 1.32A {Homo sapiens} SCOP: c.37.1.8 Length = 195

 Score = 49.2 bits (118), Expect = 3e-09
 Identities = 14/33 (42%), Positives = 21/33 (63%)

Query: 15 VVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGV 47
          ++I+G   VGKSS++ R+   TF  +   TIGV
Sbjct: 18 ILIIGESGVGKSSLLLRFTDDTFDPELAATIGV 50

>2fu5_C RAS-related protein RAB-8A; MSS4:RAB8 protein complex, GEF:GTPase nucleotide free complex; 2.00A {Mus musculus} SCOP: c.37.1.8 PDB: 3qbt_A* 3tnf_A* Length = 183

 Score = 48.7 bits (117), Expect = 4e-09
 Identities = 9/33 (27%), Positives = 20/33 (60%)

Query: 15 VVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGV 47
          ++++G+  VGK+ ++ R+    F   +  TIG+
Sbjct: 11 LLLIGDSGVGKTCVLFRFSEDAFNSTFISTIGI 43

>2a5j_A RAS-related protein RAB-2B; GTPase, signal transduction, structural genomics, structural genomics consortium, SGC, protein transport; HET: GDP; 1.50A {Homo sapiens} SCOP: c.37.1.8 PDB: 1z0a_A* Length = 191

 Score = 48.7 bits (117), Expect = 6e-09
 Identities = 11/33 (33%), Positives = 19/33 (57%)

Query: 15 VVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGV 47
           +I+G+  VGKS ++ ++    F   +  TIGV
Sbjct: 24 YIIIGDTGVGKSCLLLQFTDKRFQPVHDLTIGV 56

>2yc2_C IFT27, small RAB-related GTPase; transport protein, cilium, IFT complex; 2.59A {Chlamydomonas reinhardtii} PDB: 2yc4_C Length = 208

 Score = 47.7 bits (114), Expect = 1e-08
 Identities = 14/35 (40%), Positives = 19/35 (54%), Gaps = 2/35 (5%)

Query: 15 VVIVGNGAVGKSSMIQRYCR--GTFTRDYKKTIGV 47
          V +VG   VGKS++I  +      F +DY  T GV
Sbjct: 23 VAVVGEATVGKSALISMFTSKGSKFLKDYAMTSGV 57

>2a9k_A RAS-related protein RAL-A; bacterial ADP-ribosyltransferase, RAL, RHO, GD binding; HET: GDP NAD; 1.73A {Homo sapiens} SCOP: c.37.1.8 PDB: 2a78_A* Length = 187

 Score = 46.8 bits (112), Expect = 2e-08
 Identities = 14/54 (25%), Positives = 24/54 (44%), Gaps = 15/54 (27%)

Query: 15 VVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRGTFTRDYKKTI 68
          V++VG+G VGKS++  ++    F  DY+ T                   Y+K +
Sbjct: 21 VIMVGSGGVGKSALTLQFMYDEFVEDYEPTKAD---------------SYRKKV 59

>3reg_A RHO-like small GTPase; cytoskeleton, nucleotide-binding, GTP-binding, signaling Pro lipoprotein, prenylation; HET: GSP; 1.80A {Entamoeba histolytica} PDB: 3ref_B* Length = 194

 Score = 46.9 bits (112), Expect = 3e-08
 Identities = 12/37 (32%), Positives = 23/37 (62%), Gaps = 2/37 (5%)

Query: 10 SIKGTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIG 46
          ++K  +V+VG+GAVGK+ ++  + +G     Y  T+ 
Sbjct: 23 ALK--IVVVGDGAVGKTCLLLAFSKGEIPTAYVPTVF 57

>2zej_A Dardarin, leucine-rich repeat kinase 2; parkinson'S disease, LRRK2, ROC, GTPase, ROCO, ATP-B disease mutation, GTP-binding, GTPase activation; HET: GDP; 2.00A {Homo sapiens} PDB: 3d6t_B* Length = 184

 Score = 46.6 bits (111), Expect = 3e-08
 Identities = 9/35 (25%), Positives = 20/35 (57%), Gaps = 2/35 (5%)

Query: 15 VVIVGNGAVGKSSMIQRYCRGTFT--RDYKKTIGV 47
          ++IVGN   GK++++Q+  +   +       T+G+
Sbjct: 5  LMIVGNTGSGKTTLLQQLMKTKKSDLGMQSATVGI 39

>1u8z_A RAS-related protein RAL-A; GNP, GTP, GMPPNP, GPPNHP, GDP, GTPase, signaling protein; HET: GDP; 1.50A {Saguinus oedipus} SCOP: c.37.1.8 PDB: 1u8y_A* 1u90_A* 1uad_A* 1zc3_A* 1zc4_A* 2kwi_A* 2ke5_A* Length = 168

 Score = 46.3 bits (111), Expect = 3e-08
 Identities = 14/54 (25%), Positives = 24/54 (44%), Gaps = 15/54 (27%)

Query: 15 VVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRGTFTRDYKKTI 68
          V++VG+G VGKS++  ++    F  DY+ T                   Y+K +
Sbjct: 7  VIMVGSGGVGKSALTLQFMYDEFVEDYEPTKAD---------------SYRKKV 45

>2iwr_A Centaurin gamma 1; ANK repeat, zinc-finger, GTP-binding, polymorphism, nucleotide-binding, alternative splicing, protein transport; HET: CAF; 1.5A {Homo sapiens} PDB: 2bmj_A Length = 178

 Score = 46.1 bits (110), Expect = 4e-08
 Identities = 13/54 (24%), Positives = 23/54 (42%), Gaps = 16/54 (29%)

Query: 15 VVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRGTFTRDYKKTI 68
          + ++G+   GKSS+I R+  G++    +KT                   YKK +
Sbjct: 10 LGVLGDARSGKSSLIHRFLTGSYQ-VLEKTESE---------------QYKKEM 47

>2bov_A RAla, RAS-related protein RAL-A; C3BOT, exoenzyme, RAla, GTPase, ribosylating toxin, GTP-binding, lipoprotein, prenylation; HET: GDP; 2.66A {Homo sapiens} Length = 206

 Score = 46.5 bits (111), Expect = 4e-08
 Identities = 14/54 (25%), Positives = 24/54 (44%), Gaps = 15/54 (27%)

Query: 15 VVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRGTFTRDYKKTI 68
          V++VG+G VGKS++  ++    F  DY+ T                   Y+K +
Sbjct: 17 VIMVGSGGVGKSALTLQFMYDEFVEDYEPTKAD---------------SYRKKV 55

>2ce2_X GTPase HRAS; signaling protein, guanine nucleotide binding protein, fluor membrane, lipoprotein, palmitate, prenylation; HET: GDP XY2; 1.0A {Homo sapiens} PDB: 2cl0_X* 2cl6_X* 2cl7_X* 2clc_X* 2evw_X* 2cld_X* 1aa9_A* 1ioz_A* 1q21_A* 6q21_A* 3k9l_A* 3k9n_A* 1ctq_A* 1bkd_R 1crp_A* 1crq_A* 1crr_A* 121p_A* 1gnp_A* 1gnq_A* ... Length = 166

 Score = 45.9 bits (110), Expect = 4e-08
 Identities = 13/54 (24%), Positives = 22/54 (40%), Gaps = 15/54 (27%)

Query: 15 VVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRGTFTRDYKKTI 68
          +V+VG G VGKS++  +  +  F  +   TI                  Y+K +
Sbjct: 6  LVVVGAGGVGKSALTIQLIQNHFVDECDPTIED---------------SYRKQV 44

>2gf0_A GTP-binding protein DI-RAS1; GDP/GTP binding, GTP hydrolysis, structural genomics, structural genomics consortium, SGC, transport protein; HET: GDP; 1.90A {Homo sapiens} SCOP: c.37.1.8 Length = 199

 Score = 46.5 bits (111), Expect = 4e-08
 Identities = 18/54 (33%), Positives = 25/54 (46%), Gaps = 15/54 (27%)

Query: 15 VVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRGTFTRDYKKTI 68
          VV+ G G VGKSS++ R+ +GTF   Y  TI                  Y++ I
Sbjct: 11 VVVFGAGGVGKSSLVLRFVKGTFRDTYIPTIED---------------TYRQVI 49

>2erx_A GTP-binding protein DI-RAS2; GTP hydrolysis, transport protein; HET: GDP; 1.65A {Homo sapiens} SCOP: c.37.1.8 Length = 172

 Score = 46.0 bits (110), Expect = 5e-08
 Identities = 16/54 (29%), Positives = 24/54 (44%), Gaps = 15/54 (27%)

Query: 15 VVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRGTFTRDYKKTI 68
          V + G G VGKSS++ R+ +GTF   Y  T+                  Y++ I
Sbjct: 6  VAVFGAGGVGKSSLVLRFVKGTFRESYIPTVED---------------TYRQVI 44

>3con_A GTPase NRAS; structural genomics consortium, SGC, GDP, oncogene, disease mutation, golgi apparatus, GTP-binding, lipoprotein membrane, methylation; HET: GDP; 1.65A {Homo sapiens} PDB: 2pmx_A* 3gft_A* 4q21_A* Length = 190

 Score = 46.1 bits (110), Expect = 5e-08
 Identities = 14/54 (25%), Positives = 23/54 (42%), Gaps = 15/54 (27%)

Query: 15 VVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRGTFTRDYKKTI 68
          +V+VG G VGKS++  +  +  F  +Y  TI                  Y+K +
Sbjct: 24 LVVVGAGGVGKSALTIQLIQNHFVDEYDPTIED---------------SYRKQV 62

>1m7b_A RND3/RHOE small GTP-binding protein; small GTPase, signaling protein; HET: GTP; 2.00A {Homo sapiens} SCOP: c.37.1.8 PDB: 2v55_B* Length = 184

 Score = 45.9 bits (109), Expect = 5e-08
 Identities = 9/46 (19%), Positives = 23/46 (50%)

Query: 10 SIKGTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRY 55
          ++K  +V+VG+   GK++++  + +  F  +Y  T+    +     
Sbjct: 5  NVKCKIVVVGDSQCGKTALLHVFAKDCFPENYVPTVFENYTASFEI 50

>4dsu_A GTPase KRAS, isoform 2B; small G-protein, signaling, hydrolase; HET: GDP; 1.70A {Homo sapiens} PDB: 4dsn_A* 4dst_A* 4dso_A* Length = 189

 Score = 45.7 bits (109), Expect = 6e-08
 Identities = 13/54 (24%), Positives = 22/54 (40%), Gaps = 15/54 (27%)

Query: 15 VVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRGTFTRDYKKTI 68
          +V+VG   VGKS++  +  +  F  +Y  TI                  Y+K +
Sbjct: 7  LVVVGADGVGKSALTIQLIQNHFVDEYDPTIED---------------SYRKQV 45

>3t5g_A GTP-binding protein RHEB; immunoglobulin-like beta sandwitch, PDE delta, RHEB; HET: GDP FAR; 1.70A {Homo sapiens} PDB: 1xtq_A* 1xtr_A* 1xts_A* 2l0x_A* Length = 181

 Score = 45.6 bits (109), Expect = 6e-08
 Identities = 14/54 (25%), Positives = 21/54 (38%), Gaps = 15/54 (27%)

Query: 15 VVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRGTFTRDYKKTI 68
          + I+G  +VGKSS+  ++  G F   Y  TI                  + K I
Sbjct: 9  IAILGYRSVGKSSLTIQFVEGQFVDSYDPTIEN---------------TFTKLI 47

>3oes_A GTPase rhebl1; small GTPase, structural genomics, structural genomics conso SGC, hydrolase; HET: GNP; 2.30A {Homo sapiens} Length = 201

 Score = 45.7 bits (109), Expect = 7e-08
 Identities = 14/54 (25%), Positives = 22/54 (40%), Gaps = 15/54 (27%)

Query: 15 VVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRGTFTRDYKKTI 68
          VVI+G   VGK+S+  ++  G F+  Y  T+                  Y K +
Sbjct: 27 VVILGYRCVGKTSLAHQFVEGEFSEGYDPTVEN---------------TYSKIV 65

>1c1y_A RAS-related protein RAP-1A; GTP-binding proteins, protein-protein complex, effectors, signaling protein; HET: GTP; 1.90A {Homo sapiens} SCOP: c.37.1.8 PDB: 3kuc_A* 1gua_A* 3cf6_R* 3brw_D* Length = 167

 Score = 45.2 bits (108), Expect = 7e-08
 Identities = 14/54 (25%), Positives = 25/54 (46%), Gaps = 15/54 (27%)

Query: 15 VVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRGTFTRDYKKTI 68
          +V++G+G VGKS++  ++ +G F   Y  TI                  Y+K +
Sbjct: 6  LVVLGSGGVGKSALTVQFVQGIFVEKYDPTIED---------------SYRKQV 44

>3cbq_A GTP-binding protein REM 2; FLJ38964A, structural genomics consortium, SGC, GDP, membrane, nucleotide-binding, nucleotide binding protein; HET: GDP; 1.82A {Homo sapiens} Length = 195

 Score = 45.3 bits (108), Expect = 8e-08
 Identities = 7/35 (20%), Positives = 15/35 (42%)

Query: 15 VVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKS 49
          V++VG   VGKS++   +        ++      +
Sbjct: 26 VMLVGESGVGKSTLAGTFGGLQGDSAHEPENPEDT 60

>2q3h_A RAS homolog gene family, member U; GTPase, structural genomics, structural genomics consortium,; HET: GDP; 1.73A {Homo sapiens} Length = 201

 Score = 45.1 bits (107), Expect = 1e-07
 Identities = 13/36 (36%), Positives = 21/36 (58%), Gaps = 2/36 (5%)

Query: 10 SIKGTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTI 45
           +K   V+VG+GAVGK+S++  Y    +  +Y  T 
Sbjct: 20 GVK--CVLVGDGAVGKTSLVVSYTTNGYPTEYIPTA 53

>2g6b_A RAS-related protein RAB-26; G-protein, GTP analogue, structural genomics, structural genomics consortium, SGC, unknown function; HET: GNP; 2.00A {Homo sapiens} SCOP: c.37.1.8 Length = 180

 Score = 44.9 bits (107), Expect = 1e-07
 Identities = 11/34 (32%), Positives = 21/34 (61%), Gaps = 1/34 (2%)

Query: 15 VVIVGNGAVGKSSMIQRYCRGTFTRD-YKKTIGV 47
          V++VG+  VGK+ ++ R+  G F    +  T+G+
Sbjct: 13 VMLVGDSGVGKTCLLVRFKDGAFLAGTFISTVGI 46

>2j1l_A RHO-related GTP-binding protein RHOD; GTPase, membrane, prenylation, hydrolase, nucleotide-binding, methylation, lipoprotein, endosome DYNA; HET: GDP; 2.5A {Homo sapiens} Length = 214

 Score = 45.1 bits (107), Expect = 1e-07
 Identities = 14/36 (38%), Positives = 22/36 (61%), Gaps = 2/36 (5%)

Query: 10 SIKGTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTI 45
          S+K  VV+VG+G  GK+S++  +  G F   Y  T+
Sbjct: 34 SVK--VVLVGDGGCGKTSLLMVFADGAFPESYTPTV 67

>3q85_A GTP-binding protein REM 2; G-domain, CAV2 beta, signaling protein; HET: GNP; 1.76A {Mus musculus} Length = 169

 Score = 44.8 bits (107), Expect = 1e-07
 Identities = 7/35 (20%), Positives = 15/35 (42%)

Query: 15 VVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKS 49
          V++VG   VGKS++   +        ++      +
Sbjct: 5  VMLVGESGVGKSTLAGTFGGLQGDHAHEMENSEDT 39

>3th5_A RAS-related C3 botulinum toxin substrate 1; rossmann fold, GTPase, GTP binding, protein binding, signali protein; HET: GNP; 2.30A {Homo sapiens} Length = 204

 Score = 44.8 bits (106), Expect = 2e-07
 Identities = 14/36 (38%), Positives = 22/36 (61%), Gaps = 2/36 (5%)

Query: 10 SIKGTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTI 45
          +IK   V+VG+GAVGK+ ++  Y    F  +Y  T+
Sbjct: 30 AIK--CVVVGDGAVGKTCLLISYTTNAFPGEYIPTV 63

>2gco_A H9, RHO-related GTP-binding protein RHOC; GTPase,signaling protein, signaling Pro; HET: GNP; 1.40A {Homo sapiens} PDB: 2gcn_A* 2gcp_A* 1z2c_A* 1x86_B 2rgn_C* 1lb1_B 1s1c_A* 3kz1_E* 3lxr_A* 3lwn_A* 3lw8_A* 1cxz_A* 1a2b_A* 1ow3_B* 1ftn_A* 1cc0_A* 3msx_A* 1xcg_B 3t06_B 1tx4_B* ... Length = 201

 Score = 44.7 bits (106), Expect = 2e-07
 Identities = 12/37 (32%), Positives = 22/37 (59%)

Query: 9  GSIKGTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTI 45
           +I+  +VIVG+GA GK+ ++  + +  F   Y  T+
Sbjct: 22 AAIRKKLVIVGDGACGKTCLLIVFSKDQFPEVYVPTV 58

>3q3j_B RHO-related GTP-binding protein RHO6; RAS-binding domain, plexin, small GTPase, structural genomic consortium, SGC; HET: GNP; 1.97A {Homo sapiens} PDB: 2rex_B* 2cls_A* Length = 214

 Score = 44.9 bits (106), Expect = 2e-07
 Identities = 10/36 (27%), Positives = 19/36 (52%), Gaps = 2/36 (5%)

Query: 10 SIKGTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTI 45
            K  +V+VG+   GK++M+Q   +  +   Y  T+
Sbjct: 27 RCK--LVLVGDVQCGKTAMLQVLAKDCYPETYVPTV 60

>2fv8_A H6, RHO-related GTP-binding protein RHOB; GDP/GTP binding, GTP hydrolysis, structural genomics, structural genomics consortium, SGC; HET: GDP; 1.90A {Homo sapiens} SCOP: c.37.1.8 Length = 207

 Score = 44.7 bits (106), Expect = 2e-07
 Identities = 11/36 (30%), Positives = 20/36 (55%), Gaps = 2/36 (5%)

Query: 10 SIKGTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTI 45
            K  +V+VG+GA GK+ ++  + +  F   Y  T+
Sbjct: 25 RKK--LVVVGDGACGKTCLLIVFSKDEFPEVYVPTV 58

>3ihw_A Centg3; RAS, centaurin, GTPase, structural genomics, structural genomics consortium, SGC, alternative splicing, ANK repeat, cytoplasm, GTP-binding; 1.92A {Homo sapiens} Length = 184

 Score = 44.5 bits (106), Expect = 2e-07
 Identities = 16/54 (29%), Positives = 24/54 (44%), Gaps = 16/54 (29%)

Query: 15 VVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRGTFTRDYKKTI 68
          V IVGN + GKS+++ RY  GT+ ++     G                 +KK I
Sbjct: 23 VGIVGNLSSGKSALVHRYLTGTYVQEESPEGG----------------RFKKEI 60

>3clv_A RAB5 protein, putative; malaria, GTPase, structural genomics, GTP-binding, nucleotide-binding, signaling protein; HET: GDP; 1.89A {Plasmodium falciparum} Length = 208

 Score = 44.4 bits (105), Expect = 2e-07
 Identities = 13/33 (39%), Positives = 20/33 (60%)

Query: 15 VVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGV 47
           V++G  +VGKSS++ R  + TF  +   TIG 
Sbjct: 10 TVLLGESSVGKSSIVLRLTKDTFHENTNTTIGA 42

>1kao_A RAP2A; GTP-binding protein, small G protein, GDP, RAS; HET: GDP; 1.70A {Homo sapiens} SCOP: c.37.1.8 PDB: 2rap_A* 3rap_R* Length = 167

 Score = 44.0 bits (105), Expect = 2e-07
 Identities = 14/32 (43%), Positives = 21/32 (65%)

Query: 15 VVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIG 46
          VV++G+G VGKS++  ++  GTF   Y  TI 
Sbjct: 6  VVVLGSGGVGKSALTVQFVTGTFIEKYDPTIE 37

>3bwd_D RAC-like GTP-binding protein ARAC6; G domain, cytoplasm, lipoprotein, membrane, methylation, nucleotide-binding, prenylation, ----; HET: GDP; 1.53A {Arabidopsis thaliana} PDB: 2nty_C* 2wbl_C Length = 182

 Score = 44.3 bits (105), Expect = 2e-07
 Identities = 16/37 (43%), Positives = 21/37 (56%), Gaps = 2/37 (5%)

Query: 10 SIKGTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIG 46
           IK   V VG+GAVGK+ ++  Y   TF  DY  T+ 
Sbjct: 8  FIK--CVTVGDGAVGKTCLLISYTSNTFPTDYVPTVF 42

>2atx_A Small GTP binding protein TC10; GTPase, P-loop, alpha-beta, hydrolase; HET: GNP; 2.65A {Homo sapiens} SCOP: c.37.1.8 Length = 194

 Score = 44.4 bits (105), Expect = 2e-07
 Identities = 13/36 (36%), Positives = 21/36 (58%), Gaps = 2/36 (5%)

Query: 10 SIKGTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTI 45
           +K   V+VG+GAVGK+ ++  Y    F  +Y  T+
Sbjct: 18 MLK--CVVVGDGAVGKTCLLMSYANDAFPEEYVPTV 51

>1gwn_A RHO-related GTP-binding protein RHOE; GTPase, inactive GTPase, signal transduction; HET: GTP; 2.1A {Mus musculus} SCOP: c.37.1.8 Length = 205

 Score = 44.4 bits (105), Expect = 2e-07
 Identities = 9/36 (25%), Positives = 22/36 (61%)

Query: 10 SIKGTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTI 45
          ++K  +V+VG+   GK++++  + +  F  +Y  T+
Sbjct: 26 NVKCKIVVVGDSQCGKTALLHVFAKDCFPENYVPTV 61

>2atv_A RERG, RAS-like estrogen-regulated growth inhibitor; GDP/GTP binding, GTP hydrolysis, structural genomics, structural genomics consortium, SGC; HET: GDP; 1.90A {Homo sapiens} SCOP: c.37.1.8 Length = 196

 Score = 44.1 bits (105), Expect = 3e-07
 Identities = 11/54 (20%), Positives = 19/54 (35%), Gaps = 15/54 (27%)

Query: 15 VVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRGTFTRDYKKTI 68
          + I G   VGKS+++ R+    F  +Y  T+                  Y+   
Sbjct: 31 LAIFGRAGVGKSALVVRFLTKRFIWEYDPTLES---------------TYRHQA 69

>3kkq_A RAS-related protein M-RAS; GTP-binding, GTPase, signaling protein; HET: GDP; 1.20A {Mus musculus} PDB: 3kkp_A* 3kko_A* 3pit_A* 3pir_A* 1x1r_A* 1x1s_A* Length = 183

 Score = 43.7 bits (104), Expect = 3e-07
 Identities = 13/32 (40%), Positives = 21/32 (65%)

Query: 15 VVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIG 46
          +V+VG+G VGKS++  ++ +  F  DY  TI 
Sbjct: 21 LVVVGDGGVGKSALTIQFFQKIFVDDYDPTIE 52

>3c5c_A RAS-like protein 12; GDP, GTPase, structural genomics consortium, SGC, limited proteolysis, GTP-binding, nucleotide-binding, signaling protein; HET: GDP; 1.85A {Homo sapiens} Length = 187

 Score = 43.7 bits (104), Expect = 3e-07
 Identities = 8/54 (14%), Positives = 16/54 (29%), Gaps = 15/54 (27%)

Query: 15 VVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRGTFTRDYKKTI 68
          + I+G    GKS++  ++    F  +Y   +                  Y    
Sbjct: 24 LAILGRRGAGKSALTVKFLTKRFISEYDPNLED---------------TYSSEE 62

>2j0v_A RAC-like GTP-binding protein ARAC7; nucleotide-binding protein, ROP9, atrac7, membrane, palmitate, RHO GTPase; HET: GDP; 1.78A {Arabidopsis thaliana} Length = 212

 Score = 43.9 bits (104), Expect = 4e-07
 Identities = 16/36 (44%), Positives = 20/36 (55%), Gaps = 2/36 (5%)

Query: 10 SIKGTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTI 45
           IK   V VG+GAVGK+ M+  Y    F  DY  T+
Sbjct: 9  FIK--CVTVGDGAVGKTCMLICYTSNKFPTDYIPTV 42

>2fn4_A P23, RAS-related protein R-RAS; GDP/GTP binding, GTP hydrolysis, structural genomics, structural genomics consortium, SGC, signaling protein; HET: GDP; 1.65A {Homo sapiens} SCOP: c.37.1.8 PDB: 2ery_A* Length = 181

 Score = 42.9 bits (102), Expect = 6e-07
 Identities = 13/33 (39%), Positives = 20/33 (60%)

Query: 15 VVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGV 47
          +V+VG G VGKS++  ++ +  F  DY  TI  
Sbjct: 12 LVVVGGGGVGKSALTIQFIQSYFVSDYDPTIED 44

>1mh1_A RAC1; GTP-binding, GTPase, small G-protein, RHO family, RAS super family; HET: GNP; 1.38A {Homo sapiens} SCOP: c.37.1.8 PDB: 1hh4_A* 2p2l_A* 2h7v_A* 1g4u_R* 1i4d_D* 1i4l_D* 2vrw_A 1e96_A* 1i4t_D* 2rmk_A* 2yin_C 1ryf_A* 1ryh_A* 3su8_A* 3sua_A* 2fju_A* 1he1_C* 2nz8_A 1foe_B 3bji_C ... Length = 186

 Score = 42.1 bits (99), Expect = 1e-06
 Identities = 13/32 (40%), Positives = 20/32 (62%), Gaps = 2/32 (6%)

Query: 10 SIKGTVVIVGNGAVGKSSMIQRYCRGTFTRDY 41
          +IK   V+VG+GAVGK+ ++  Y    F  +Y
Sbjct: 5  AIK--CVVVGDGAVGKTCLLISYTTNAFPGEY 34

>3dpu_A RAB family protein; roccor, G-domain, COR, GTP-binding, nucleotide-binding, SIGN protein; 2.90A {Chlorobaculum tepidum} Length = 535

 Score = 42.3 bits (99), Expect = 2e-06
 Identities = 10/33 (30%), Positives = 20/33 (60%)

Query: 15 VVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGV 47
          V ++G+G  GK+S++++    TF     +T G+
Sbjct: 44 VHLIGDGMAGKTSLLKQLIGETFDPKESQTHGL 76

>2nzj_A GTP-binding protein REM 1; GDP/GTP binding, GTP hydrolysis, RAD and GEM like GTP protein 1, structural genomics; HET: GDP; 2.50A {Homo sapiens} Length = 175

 Score = 38.7 bits (91), Expect = 2e-05
 Identities = 7/31 (22%), Positives = 16/31 (51%)

Query: 15 VVIVGNGAVGKSSMIQRYCRGTFTRDYKKTI 45
          VV++G+  VGK+S+   +        +++  
Sbjct: 7  VVLLGDPGVGKTSLASLFAGKQERDLHEQLG 37

>3q72_A GTP-binding protein RAD; G-domain, CAV2 beta, signaling protein; HET: GNP; 1.66A {Homo sapiens} PDB: 3q7p_A* 3q7q_A* 2gjs_A* 2dpx_A* Length = 166

 Score = 38.2 bits (90), Expect = 3e-05
 Identities = 10/54 (18%), Positives = 20/54 (37%), Gaps = 16/54 (29%)

Query: 15 VVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRGTFTRDYKKTI 68
          V+++G   VGKS++ + +  G       +  G                 Y ++I
Sbjct: 5  VLLLGAPGVGKSALARIFG-GVEDGPEAEAAGH---------------TYDRSI 42

>2cjw_A GTP-binding protein GEM; nucleotide-binding, small GTPase, conformational change, cysteine-modified, G-protein hydrolase; HET: GDP; 2.10A {Homo sapiens} PDB: 2cjw_B* 2ht6_A* Length = 192

 Score = 35.7 bits (83), Expect = 3e-04
 Identities = 9/36 (25%), Positives = 17/36 (47%), Gaps = 1/36 (2%)

Query: 15 VVIVGNGAVGKSSMIQRYCRGTFTRDYKK-TIGVKS 49
          VV++G   VGKS++   +     + D     +G  +
Sbjct: 9  VVLIGEQGVGKSTLANIFAGVHDSMDSDXEVLGEDT 44

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	71
4dkx_A	216	RAS-related protein RAB-6A; GTP binding fold, memb	99.86
2iwr_A	178	Centaurin gamma 1; ANK repeat, zinc-finger, GTP-bi	99.73
2ew1_A	201	RAS-related protein RAB-30; G-protein, GTP analogu	99.72
3c5c_A	187	RAS-like protein 12; GDP, GTPase, structural genom	99.72
2j0v_A	212	RAC-like GTP-binding protein ARAC7; nucleotide-bin	99.71
2y8e_A	179	RAB-protein 6, GH09086P, RAB6; hydrolase, nucleoti	99.7
2oil_A	193	CATX-8, RAS-related protein RAB-25; G-protein, GDP	99.7
2hup_A	201	RAS-related protein RAB-43; G-protein, GDP, struct	99.7
3q3j_B	214	RHO-related GTP-binding protein RHO6; RAS-binding	99.69
1gwn_A	205	RHO-related GTP-binding protein RHOE; GTPase, inac	99.69
1m7b_A	184	RND3/RHOE small GTP-binding protein; small GTPase,	99.69
2bcg_Y	206	Protein YP2, GTP-binding protein YPT1; RABGTPase,	99.69
1z08_A	170	RAS-related protein RAB-21; RAB GTPase, vesicular	99.69
2bme_A	186	RAB4A, RAS-related protein RAB4A; GTP-binding prot	99.69
2fn4_A	181	P23, RAS-related protein R-RAS; GDP/GTP binding, G	99.68
3t5g_A	181	GTP-binding protein RHEB; immunoglobulin-like beta	99.68
2hxs_A	178	RAB-26, RAS-related protein RAB-28; GTPase, signal	99.68
3reg_A	194	RHO-like small GTPase; cytoskeleton, nucleotide-bi	99.68
3ihw_A	184	Centg3; RAS, centaurin, GTPase, structural genomic	99.68
1z2a_A	168	RAS-related protein RAB-23; RAB GTPase, vesicular	99.68
3kkq_A	183	RAS-related protein M-RAS; GTP-binding, GTPase, si	99.68
3tw8_B	181	RAS-related protein RAB-35; longin domain, RAB GTP	99.67
2o52_A	200	RAS-related protein RAB-4B; G-protein, GDP, struct	99.67
3clv_A	208	RAB5 protein, putative; malaria, GTPase, structura	99.67
2fu5_C	183	RAS-related protein RAB-8A; MSS4:RAB8 protein comp	99.67
3tkl_A	196	RAS-related protein RAB-1A; vesicle trafficking, p	99.67
1wms_A	177	RAB-9, RAB9, RAS-related protein RAB-9A; GTPase, p	99.67
2atx_A	194	Small GTP binding protein TC10; GTPase, P-loop, al	99.67
1r2q_A	170	RAS-related protein RAB-5A; GTPase, GNP, atomic re	99.67
1vg8_A	207	RAS-related protein RAB-7; GTP-binding protein, pr	99.67
2a5j_A	191	RAS-related protein RAB-2B; GTPase, signal transdu	99.67
2atv_A	196	RERG, RAS-like estrogen-regulated growth inhibitor	99.67
1z0f_A	179	RAB14, member RAS oncogene family; RAB GTPase, ves	99.66
1mh1_A	186	RAC1; GTP-binding, GTPase, small G-protein, RHO fa	99.66
1z06_A	189	RAS-related protein RAB-33B; RAB GTPase, RAB33B GT	99.66
2j1l_A	214	RHO-related GTP-binding protein RHOD; GTPase, memb	99.66
1x3s_A	195	RAS-related protein RAB-18; GTPase, GNP, structura	99.66
3cpj_B	223	GTP-binding protein YPT31/YPT8; RAB GTPase, prenyl	99.66
1ek0_A	170	Protein (GTP-binding protein YPT51); vesicular tra	99.66
1zbd_A	203	Rabphilin-3A; G protein, effector, RABCDR, synapti	99.66
2efe_B	181	Small GTP-binding protein-like; GEF, GTPase, VPS9,	99.65
1g16_A	170	RAS-related protein SEC4; G protein RAB, signaling	99.65
2gf9_A	189	RAS-related protein RAB-3D; G-protein, structural	99.65
1z0j_A	170	RAB-22, RAS-related protein RAB-22A; RAB GTPase, R	99.65
2p5s_A	199	RAS and EF-hand domain containing; G-protein, RAB,	99.65
2q3h_A	201	RAS homolog gene family, member U; GTPase, structu	99.65
2fg5_A	192	RAB-22B, RAS-related protein RAB-31; G-protein, GT	99.65
1c1y_A	167	RAS-related protein RAP-1A; GTP-binding proteins,	99.65
3oes_A	201	GTPase rhebl1; small GTPase, structural genomics,	99.65
1ky3_A	182	GTP-binding protein YPT7P; vesicular traffic, GTP	99.65
2gco_A	201	H9, RHO-related GTP-binding protein RHOC; GTPase,s	99.65
2il1_A	192	RAB12; G-protein, GDP, GTPase, predicted, structur	99.65
1oix_A	191	RAS-related protein RAB-11A; small G protein, intr	99.64
3cbq_A	195	GTP-binding protein REM 2; FLJ38964A, structural g	99.64
2bov_A	206	RAla, RAS-related protein RAL-A; C3BOT, exoenzyme,	99.64
3bwd_D	182	RAC-like GTP-binding protein ARAC6; G domain, cyto	99.64
2g6b_A	180	RAS-related protein RAB-26; G-protein, GTP analogu	99.64
2fv8_A	207	H6, RHO-related GTP-binding protein RHOB; GDP/GTP	99.64
3bc1_A	195	RAS-related protein RAB-27A; RAB27, GTPase, RAB, s	99.63
1kao_A	167	RAP2A; GTP-binding protein, small G protein, GDP,	99.63
1u8z_A	168	RAS-related protein RAL-A; GNP, GTP, GMPPNP, GPPNH	99.63
4dsu_A	189	GTPase KRAS, isoform 2B; small G-protein, signalin	99.63
2f9l_A	199	RAB11B, member RAS oncogene family; RAB11B GTPase,	99.63
2erx_A	172	GTP-binding protein DI-RAS2; GTP hydrolysis, trans	99.63
3cph_A	213	RAS-related protein SEC4; RAB GTPase, prenylation,	99.63
2a9k_A	187	RAS-related protein RAL-A; bacterial ADP-ribosyltr	99.62
4gzl_A	204	RAS-related C3 botulinum toxin substrate 1; rossma	99.62
3gj0_A	221	GTP-binding nuclear protein RAN; G protein, GDP, a	99.62
2gf0_A	199	GTP-binding protein DI-RAS1; GDP/GTP binding, GTP	99.61
3dz8_A	191	RAS-related protein RAB-3B; GDP, GTPase, structura	99.61
3con_A	190	GTPase NRAS; structural genomics consortium, SGC,	99.61
2f7s_A	217	C25KG, RAS-related protein RAB-27B; G-protein, str	99.61
2yc2_C	208	IFT27, small RAB-related GTPase; transport protein	99.6
2zej_A	184	Dardarin, leucine-rich repeat kinase 2; parkinson'	99.6
2ce2_X	166	GTPase HRAS; signaling protein, guanine nucleotide	99.6
3t1o_A	198	Gliding protein MGLA; G domain containing protein,	99.59
2nzj_A	175	GTP-binding protein REM 1; GDP/GTP binding, GTP hy	99.58
2g3y_A	211	GTP-binding protein GEM; small GTPase, GDP, inacti	99.58
1zd9_A	188	ADP-ribosylation factor-like 10B; transport protei	99.57
3q85_A	169	GTP-binding protein REM 2; G-domain, CAV2 beta, si	99.57
4bas_A	199	ADP-ribosylation factor, putative (small GTPase, p	99.55
3l0i_B	199	RAS-related protein RAB-1A; GEF-GDF-RAB complex, G	99.55
2cjw_A	192	GTP-binding protein GEM; nucleotide-binding, small	99.55
2wji_A	165	Ferrous iron transport protein B homolog; membrane	99.54
2fh5_B	214	SR-beta, signal recognition particle receptor beta	99.53
2lkc_A	178	Translation initiation factor IF-2; NMR {Geobacill	99.53
2wkq_A	332	NPH1-1, RAS-related C3 botulinum toxin substrate 1	99.53
2wjg_A	188	FEOB, ferrous iron transport protein B homolog; me	99.53
4djt_A	218	GTP-binding nuclear protein GSP1; structural genom	99.52
1zj6_A	187	ADP-ribosylation factor-like protein 5; ARL, GTP-b	99.51
3r7w_B	331	Gtpase2, GTP-binding protein GTR2; RAG gtpases, GT	99.51
2h57_A	190	ADP-ribosylation factor-like protein 6; GTP, GTPas	99.51
3th5_A	204	RAS-related C3 botulinum toxin substrate 1; rossma	99.26
1ksh_A	186	ARF-like protein 2; small GTPase, small GTP-bindin	99.5
1r8s_A	164	ADP-ribosylation factor 1; protein transport/excha	99.5
3q72_A	166	GTP-binding protein RAD; G-domain, CAV2 beta, sign	99.49
1m2o_B	190	GTP-binding protein SAR1, GTP binding protein; zin	99.49
1fzq_A	181	ADP-ribosylation factor-like protein 3; protein-GD	99.49
2b6h_A	192	ADP-ribosylation factor 5; membrane trafficking, G	99.48
1upt_A	171	ARL1, ADP-ribosylation factor-like protein 1; hydr	99.48
2h17_A	181	ADP-ribosylation factor-like protein 5A; GDP, GTPa	99.48
1f6b_A	198	SAR1; gtpases, N-terminal helix, Mg-containing com	99.47
3r7w_A	307	Gtpase1, GTP-binding protein GTR1; RAG gtpases, GT	99.46
1svi_A	195	GTP-binding protein YSXC; ENGB, GTPase, GDP, hydro	99.45
1moz_A	183	ARL1, ADP-ribosylation factor-like protein 1; GTP-	99.45
2x77_A	189	ADP-ribosylation factor; GTP-binding protein, smal	99.43
3t5d_A	274	Septin-7; GTP-binding protein, cytoskeleton, signa	99.42
3llu_A	196	RAS-related GTP-binding protein C; structural geno	99.41
2gj8_A	172	MNME, tRNA modification GTPase TRME; G-domain dime	99.4
2dyk_A	161	GTP-binding protein; GTPase, ribosome-binding prot	99.39
2cxx_A	190	Probable GTP-binding protein ENGB; structural geno	99.39
3lxx_A	239	GTPase IMAP family member 4; structural genomics c	99.39
3dpu_A	535	RAB family protein; roccor, G-domain, COR, GTP-bin	99.39
2qu8_A	228	Putative nucleolar GTP-binding protein 1; GTPase,	99.38
3a1s_A	258	Iron(II) transport protein B; FEOB, iron transport	99.38
1nrj_B	218	SR-beta, signal recognition particle receptor beta	99.34
3k53_A	271	Ferrous iron transport protein B; GTPase fold, hel	99.32
2xtp_A	260	GTPase IMAP family member 2; immune system, G prot	99.31
3o47_A	329	ADP-ribosylation factor GTPase-activating protein	99.31
3iby_A	256	Ferrous iron transport protein B; G protein, G dom	99.3
3pqc_A	195	Probable GTP-binding protein ENGB; rossmann fold,	99.29
2ged_A	193	SR-beta, signal recognition particle receptor beta	99.29
3lvq_E	497	ARF-GAP with SH3 domain, ANK repeat and PH domain	99.28
3i8s_A	274	Ferrous iron transport protein B; GTPase, GPCR, ir	99.27
3c5h_A	255	Glucocorticoid receptor DNA-binding factor 1; RAS,	99.27
3def_A	262	T7I23.11 protein; chloroplast, TOC33, GTPase, hydr	99.26
3b1v_A	272	Ferrous iron uptake transporter protein B; G prote	99.23
3lxw_A	247	GTPase IMAP family member 1; immunity, structural	99.22
4dhe_A	223	Probable GTP-binding protein ENGB; melioidosis, RA	99.22
2qag_A	361	Septin-2, protein NEDD5; cell cycle, cell division	99.2
1h65_A	270	Chloroplast outer envelope protein OEP34; GTPase,	99.19
1mky_A	439	Probable GTP-binding protein ENGA; GTPase, DER, KH	99.18
2hjg_A	436	GTP-binding protein ENGA; GTPase ENGA KH-domain, h	99.16
1wf3_A	301	GTP-binding protein; GTPase, riken structural geno	99.16
1pui_A	210	ENGB, probable GTP-binding protein ENGB; structura	99.16
3iev_A	308	GTP-binding protein ERA; ERA, GTPase, KH domain, a	99.12
4dcu_A	456	GTP-binding protein ENGA; GTPase, GDP, protein bin	99.1
3gee_A	476	MNME, tRNA modification GTPase MNME; G protein, cy	99.08
2qnr_A	301	Septin-2, protein NEDD5; structural genomics conso	99.08
1mky_A	439	Probable GTP-binding protein ENGA; GTPase, DER, KH	99.05
3geh_A	462	MNME, tRNA modification GTPase MNME; G protein, U3	99.05
1xzp_A	482	Probable tRNA modification GTPase TRME; GTP-bindin	99.0
2qag_C	418	Septin-7; cell cycle, cell division, GTP-binding,	98.99
2qtf_A	364	Protein HFLX, GTP-binding protein; beta-alpha-barr	98.98
2e87_A	357	Hypothetical protein PH1320; GTP-binding, GTPase,	98.97
2aka_B	299	Dynamin-1; fusion protein, GTPase domain, myosin,	98.97
3qq5_A	423	Small GTP-binding protein; hydrogenase, H-cluster,	98.97
1jal_A	363	YCHF protein; nucleotide-binding fold, structural	98.94
1ega_A	301	Protein (GTP-binding protein ERA); GTPase, RNA-bin	98.94
2ohf_A	396	Protein OLA1, GTP-binding protein 9; ATPase, GTPas	98.92
3izy_P	537	Translation initiation factor IF-2, mitochondrial;	98.91
1s0u_A	408	EIF-2-gamma, translation initiation factor 2 gamma	98.9
4dcu_A	456	GTP-binding protein ENGA; GTPase, GDP, protein bin	98.9
3j2k_7	439	ERF3, eukaryotic polypeptide chain release factor	98.9
2hjg_A	436	GTP-binding protein ENGA; GTPase ENGA KH-domain, h	98.88
1wxq_A	397	GTP-binding protein; structural genomics, riken st	98.86
1kk1_A	410	EIF2gamma; initiation of translation; HET: GNP; 1.	98.86
3cnl_A	262	YLQF, putative uncharacterized protein; circular p	98.81
1wb1_A	482	Translation elongation factor SELB; selenocysteine	98.8
3p26_A	483	Elongation factor 1 alpha-like protein; GTP/GDP bi	98.78
2hf9_A	226	Probable hydrogenase nickel incorporation protein	98.77
1lnz_A	342	SPO0B-associated GTP-binding protein; GTPase, OBG,	98.76
2x2e_A	353	Dynamin-1; nitration, hydrolase, membrane fission,	98.75
3t34_A	360	Dynamin-related protein 1A, linker, dynamin-relat	98.74
1jny_A	435	EF-1-alpha, elongation factor 1-alpha, EF-TU, TUF-	98.71
1jwy_B	315	Dynamin A GTPase domain; dynamin, GTPase, GDP, myo	98.71
1ni3_A	392	YCHF GTPase, YCHF GTP-binding protein; structural	98.71
1dar_A	691	EF-G, elongation factor G; ribosomal translocase,	98.68
2dby_A	368	GTP-binding protein; GDP, structural genomics, NPP	98.67
3izq_1	611	HBS1P, elongation factor 1 alpha-like protein; NO-	98.65
3mca_A	592	HBS1, elongation factor 1 alpha-like protein; prot	98.65
2j69_A	695	Bacterial dynamin-like protein; FZO, FZL, GTPase,	98.6
1zun_B	434	Sulfate adenylate transferase, subunit 1/adenylyls	98.59
2c78_A	405	Elongation factor TU-A; hydrolase, GTPase, transla	98.58
1n0u_A	842	EF-2, elongation factor 2; G-protein, CIS-proline,	98.58
1puj_A	282	YLQF, conserved hypothetical protein YLQF; structu	98.57
1f60_A	458	Elongation factor EEF1A; protein-protein complex,	98.57
1zo1_I	501	IF2, translation initiation factor 2; E. coli, rib	98.56
3tr5_A	528	RF-3, peptide chain release factor 3; protein synt	98.56
3sjy_A	403	Translation initiation factor 2 subunit gamma; zin	98.56
2dy1_A	665	Elongation factor G; translocation, GTP complex, s	98.54
4a9a_A	376	Ribosome-interacting GTPase 1; DRG-DFRP complex, r	98.53
2h5e_A	529	Peptide chain release factor RF-3; beta barrel, tr	98.51
1d2e_A	397	Elongation factor TU (EF-TU); G-protein, beta-barr	98.5
2qpt_A	550	EH domain-containing protein-2; protein-nucleotide	98.48
1r5b_A	467	Eukaryotic peptide chain release factor GTP-bindi	98.46
3avx_A	1289	Elongation factor TS, elongation factor TU, linke	98.4
2elf_A	370	Protein translation elongation factor 1A; tRNA, py	98.39
2ywe_A	600	GTP-binding protein LEPA; G domain, beta-barrel, f	98.38
2xex_A	693	Elongation factor G; GTPase, translation, biosynth	98.38
2rdo_7	704	EF-G, elongation factor G; elongation factor G, EF	98.37
3cb4_D	599	GTP-binding protein LEPA; GTPase, OB-fold, membran	98.37
1g7s_A	594	Translation initiation factor IF2/EIF5B; translati	98.34
1udx_A	416	The GTP-binding protein OBG; TGS domain, riken str	98.31
1f5n_A	592	Interferon-induced guanylate-binding protein 1; GB	98.23
3sop_A	270	Neuronal-specific septin-3; hydrolase; HET: GDP; 2	98.06
3h2y_A	368	GTPase family protein; GTP-binding protein YQEH, p	97.96
3ec1_A	369	YQEH GTPase; atnos1, atnoa1, trap, PVHL, hydrolase	97.93
2wsm_A	221	Hydrogenase expression/formation protein (HYPB); m	97.83
2qag_B	427	Septin-6, protein NEDD5; cell cycle, cell division	97.79
3zvr_A	772	Dynamin-1; hydrolase, DRP1, DRP, endocytosis, mito	97.67
1kgd_A	180	CASK, peripheral plasma membrane CASK; maguk, guan	97.61
1ye8_A	178	Protein THEP1, hypothetical UPF0334 kinase-like pr	97.56
1knq_A	175	Gluconate kinase; ALFA/beta structure, transferase	97.54
3ney_A	197	55 kDa erythrocyte membrane protein; structural ge	97.51
1lvg_A	198	Guanylate kinase, GMP kinase; transferase; HET: AD	97.51
1ex7_A	186	Guanylate kinase; substrate-induced FIT, domain mo	97.49
3asz_A	211	Uridine kinase; cytidine phosphorylation, transfer	97.45
1y63_A	184	LMAJ004144AAA protein; structural genomics, protei	97.42
1zp6_A	191	Hypothetical protein ATU3015; alpha-beta protein.,	97.42
3tr0_A	205	Guanylate kinase, GMP kinase; purines, pyrimidines	97.41
3a00_A	186	Guanylate kinase, GMP kinase; domain movement, dim	97.41
1s96_A	219	Guanylate kinase, GMP kinase; E.coli, dimer, SAD,	97.39
3vqt_A	548	RF-3, peptide chain release factor 3; translation,	97.39
3tau_A	208	Guanylate kinase, GMP kinase; structural genomics,	97.38
3vaa_A	199	Shikimate kinase, SK; structural genomics, center	97.37
1znw_A	207	Guanylate kinase, GMP kinase; ATP:GMP-phosphotrans	97.36
1z6g_A	218	Guanylate kinase; structural genomics, SGC, struct	97.35
3kb2_A	173	SPBC2 prophage-derived uncharacterized protein YOR	97.32
2www_A	349	Methylmalonic aciduria type A protein, mitochondri	97.3
2qor_A	204	Guanylate kinase; phosphotransferase, purine metab	97.3
4eun_A	200	Thermoresistant glucokinase; putative sugar kinase	97.29
4gp7_A	171	Metallophosphoesterase; polynucleotide kinase phos	97.28
1jbk_A	195	CLPB protein; beta barrel, chaperone; 1.80A {Esche	97.28
1qf9_A	194	UMP/CMP kinase, protein (uridylmonophosphate/cytid	97.27
2j41_A	207	Guanylate kinase; GMP, GMK, transferase, ATP-bindi	97.25
1kag_A	173	SKI, shikimate kinase I; transferase, structural g	97.24
3c8u_A	208	Fructokinase; YP_612366.1, putative fructose trans	97.23
2wwf_A	212	Thymidilate kinase, putative; transferase, malaria	97.23
1ly1_A	181	Polynucleotide kinase; PNK, phosphatase, transfera	97.22
3fb4_A	216	Adenylate kinase; psychrophIle, phosphotransferase	97.22
3dl0_A	216	Adenylate kinase; phosphotransferase, zinc coordin	97.21
1qhx_A	178	CPT, protein (chloramphenicol phosphotransferase);	97.21
1htw_A	158	HI0065; nucleotide-binding fold, structural genomi	97.2
3lw7_A	179	Adenylate kinase related protein (ADKA-like); AMP,	97.2
1nks_A	194	Adenylate kinase; thermophilic, transferase; HET:	97.2
2bdt_A	189	BH3686; alpha-beta protein, structural genomics, P	97.19
3t61_A	202	Gluconokinase; PSI-biology, structural genomics, p	97.18
1uf9_A	203	TT1252 protein; P-loop, nucleotide binding domain,	97.18
2bbw_A	246	Adenylate kinase 4, AK4; nucleotide kinase, nucleo	97.17
4a74_A	231	DNA repair and recombination protein RADA; hydrola	97.16
2ehv_A	251	Hypothetical protein PH0186; KAIC, RECA ATPase, un	97.16
2jaq_A	205	Deoxyguanosine kinase; transferase, deoxyribonucle	97.15
3ec2_A	180	DNA replication protein DNAC; helicase loader, rep	97.13
2rhm_A	193	Putative kinase; P-loop containing nucleoside trip	97.12
3uie_A	200	Adenylyl-sulfate kinase 1, chloroplastic; rossmann	97.11
2if2_A	204	Dephospho-COA kinase; alpha-beta protein, structur	97.11
3tif_A	235	Uncharacterized ABC transporter ATP-binding prote;	97.1
3trf_A	185	Shikimate kinase, SK; amino acid biosynthesis, tra	97.1
3ohm_A	327	Guanine nucleotide-binding protein G(Q) subunit A;	97.08
1kht_A	192	Adenylate kinase; phosphotransferase, signaling pr	97.08
2cdn_A	201	Adenylate kinase; phosphoryl transfer, associative	97.07
3p32_A	355	Probable GTPase RV1496/MT1543; structural genomics	97.07
3lnc_A	231	Guanylate kinase, GMP kinase; ALS collaborative cr	97.07
2p65_A	187	Hypothetical protein PF08_0063; CLPB, malaria, str	97.07
3cm0_A	186	Adenylate kinase; ATP-binding, cytoplasm, nucleoti	97.06
2i3b_A	189	HCR-ntpase, human cancer-related ntpase; AAA, ross	97.06
2pcj_A	224	ABC transporter, lipoprotein-releasing system ATP-	97.05
1cke_A	227	CK, MSSA, protein (cytidine monophosphate kinase);	97.04
1e4v_A	214	Adenylate kinase; transferase(phosphotransferase);	97.04
2jeo_A	245	Uridine-cytidine kinase 1; UCK, transferase, ATP-b	97.02
3bos_A	242	Putative DNA replication factor; P-loop containing	97.02
1lw7_A	365	Transcriptional regulator NADR; NMN, NMN adenylyl	97.02
1ukz_A	203	Uridylate kinase; transferase; HET: ADP AMP; 1.90A	97.0
3tlx_A	243	Adenylate kinase 2; structural genomics, structura	96.99
3sr0_A	206	Adenylate kinase; phosphoryl transfer analogue, AL	96.99
1b0u_A	262	Histidine permease; ABC transporter, transport pro	96.99
2onk_A	240	Molybdate/tungstate ABC transporter, ATP-binding p	96.99
3be4_A	217	Adenylate kinase; malaria, cryptosporidium parvum	96.98
2qt1_A	207	Nicotinamide riboside kinase 1; non-protein kinase	96.98
1np6_A	174	Molybdopterin-guanine dinucleotide biosynthesis pr	96.98
2plr_A	213	DTMP kinase, probable thymidylate kinase; TMP-bind	96.98
1njg_A	250	DNA polymerase III subunit gamma; rossman-like fol	96.97
2chg_A	226	Replication factor C small subunit; DNA-binding pr	96.97
1via_A	175	Shikimate kinase; structural genomics, transferase	96.97
1ixz_A	254	ATP-dependent metalloprotease FTSH; AAA domain fol	96.96
2w0m_A	235	SSO2452; RECA, SSPF, unknown FUN; 2.0A {Sulfolobus	96.96
2ff7_A	247	Alpha-hemolysin translocation ATP-binding protein	96.96
1zcb_A	362	G alpha I/13; GTP-binding, lipoprotein, membrane,	96.96
1zd8_A	227	GTP:AMP phosphotransferase mitochondrial; ATP:AMP	96.96
1nn5_A	215	Similar to deoxythymidylate kinase (thymidylate K;	96.96
2cbz_A	237	Multidrug resistance-associated protein 1; ABC pro	96.95
2rcn_A	358	Probable GTPase ENGC; YJEQ, circularly permuted, G	96.95
2yv5_A	302	YJEQ protein; hydrolase, GTPase, permutation, stru	96.94
4fid_A	340	G protein alpha subunit; RAS-like domain, all-heli	96.94
3gfo_A	275	Cobalt import ATP-binding protein CBIO 1; structur	96.94
1mv5_A	243	LMRA, multidrug resistance ABC transporter ATP-bin	96.93
1aky_A	220	Adenylate kinase; ATP:AMP phosphotransferase, myok	96.93
2eyu_A	261	Twitching motility protein PILT; pilus retraction	96.91
1tev_A	196	UMP-CMP kinase; ploop, NMP binding region, LID reg	96.91
1zak_A	222	Adenylate kinase; ATP:AMP-phosphotransferase, tran	96.91
2pt5_A	168	Shikimate kinase, SK; aromatic amino acid biosynth	96.91
1jjv_A	206	Dephospho-COA kinase; P-loop nucleotide-binding fo	96.91
2v9p_A	305	Replication protein E1; AAA+ molecular motor, DNA	96.9
1bif_A	469	6-phosphofructo-2-kinase/ fructose-2,6-bisphospha;	96.9
3iij_A	180	Coilin-interacting nuclear ATPase protein; alpha a	96.9
2qm8_A	337	GTPase/ATPase; G protein, G3E, metallochaperone, c	96.9
1g6h_A	257	High-affinity branched-chain amino acid transport	96.9
2zu0_C	267	Probable ATP-dependent transporter SUFC; iron-sulf	96.89
2d2e_A	250	SUFC protein; ABC-ATPase, SUF protein, 310-helix,	96.89
1odf_A	290	YGR205W, hypothetical 33.3 kDa protein in ADE3-Ser	96.89
2v54_A	204	DTMP kinase, thymidylate kinase; nucleotide biosyn	96.88
1u0l_A	301	Probable GTPase ENGC; permutation, OB-fold, zinc-f	96.88
2pze_A	229	Cystic fibrosis transmembrane conductance regulat;	96.88
2c95_A	196	Adenylate kinase 1; transferase, AP4A, nucleotide	96.88
2yvu_A	186	Probable adenylyl-sulfate kinase; transferase, str	96.88
2olj_A	263	Amino acid ABC transporter; ABC domain, ATPase, hy	96.88
1sgw_A	214	Putative ABC transporter; structural genomics, P p	96.88
2vp4_A	230	Deoxynucleoside kinase; ATP-binding, DNA synthesis	96.88
3fvq_A	359	Fe(3+) IONS import ATP-binding protein FBPC; nucle	96.88
4g1u_C	266	Hemin import ATP-binding protein HMUV; membrane tr	96.87
1gvn_B	287	Zeta; postsegregational killing system, plasmid; 1	96.87
2f1r_A	171	Molybdopterin-guanine dinucleotide biosynthesis pr	96.87
1ji0_A	240	ABC transporter; ATP binding protein, structural g	96.87
1tq4_A	413	IIGP1, interferon-inducible GTPase; interferon gam	96.86
2w58_A	202	DNAI, primosome component (helicase loader); ATP-b	96.86
1lv7_A	257	FTSH; alpha/beta domain, four helix bundle, hydrol	96.86
2bwj_A	199	Adenylate kinase 5; phosphoryl transfer reaction,	96.86
2ghi_A	260	Transport protein; multidrug resistance protein, M	96.86
3aez_A	312	Pantothenate kinase; transferase, homodimer, COA b	96.85
2ixe_A	271	Antigen peptide transporter 1; ABC ATPase, hydrola	96.85
2qi9_C	249	Vitamin B12 import ATP-binding protein BTUD; inner	96.84
2cvh_A	220	DNA repair and recombination protein RADB; filamen	96.84
2ihy_A	279	ABC transporter, ATP-binding protein; ATPase, ABC	96.84
1n0w_A	243	DNA repair protein RAD51 homolog 1; DNA repair, ho	96.83
2xb4_A	223	Adenylate kinase; ATP-binding, nucleotide-binding,	96.83
1vpl_A	256	ABC transporter, ATP-binding protein; TM0544, stru	96.82
1iy2_A	278	ATP-dependent metalloprotease FTSH; AAA domain fol	96.82
1rj9_A	304	FTSY, signal recognition protein; SRP-GTPase domai	96.81
2ze6_A	253	Isopentenyl transferase; crown GALL tumor, cytokin	96.81
3syl_A	309	Protein CBBX; photosynthesis, rubisco activase, AA	96.8
2z0h_A	197	DTMP kinase, thymidylate kinase; ATP-binding, nucl	96.8
2qz4_A	262	Paraplegin; AAA+, SPG7, protease, ADP, structural	96.79
2x8a_A	274	Nuclear valosin-containing protein-like; nuclear p	96.79
1cr0_A	296	DNA primase/helicase; RECA-type protein fold, tran	96.79
2pbr_A	195	DTMP kinase, thymidylate kinase; transferase, nucl	96.79
1in4_A	334	RUVB, holliday junction DNA helicase RUVB; AAA+-cl	96.78
1rz3_A	201	Hypothetical protein rbstp0775; MCSG, structural g	96.78
2yz2_A	266	Putative ABC transporter ATP-binding protein TM_0;	96.78
3h4m_A	285	Proteasome-activating nucleotidase; ATPase, PAN, A	96.77
2nq2_C	253	Hypothetical ABC transporter ATP-binding protein H	96.77
2qby_A	386	CDC6 homolog 1, cell division control protein 6 ho	96.77
1ak2_A	233	Adenylate kinase isoenzyme-2; nucleoside monophosp	96.77
3b85_A	208	Phosphate starvation-inducible protein; PHOH2, ATP	96.77
3rlf_A	381	Maltose/maltodextrin import ATP-binding protein M;	96.76
2pjz_A	263	Hypothetical protein ST1066; ATP binding protein,	96.76
2qen_A	350	Walker-type ATPase; unknown function; HET: ADP; 2.	96.76
3t15_A	293	Ribulose bisphosphate carboxylase/oxygenase activ	96.75
1z47_A	355	CYSA, putative ABC-transporter ATP-binding protein	96.75
1e6c_A	173	Shikimate kinase; phosphoryl transfer, ADP, shikim	96.75
2it1_A	362	362AA long hypothetical maltose/maltodextrin trans	96.75
2yyz_A	359	Sugar ABC transporter, ATP-binding protein; sugar	96.75
2fna_A	357	Conserved hypothetical protein; structural genomic	96.75
3q5d_A	447	Atlastin-1; G protein, GTPase, GDP/GTP binding, hy	96.74
1g29_1	372	MALK, maltose transport protein MALK; ATPase, acti	96.73
1gtv_A	214	TMK, thymidylate kinase; transferase, transferase	96.72
1ofh_A	310	ATP-dependent HSL protease ATP-binding subunit HSL	96.72
3n70_A	145	Transport activator; sigma-54, ntpase, PSI, MCSG,	96.72
3b9p_A	297	CG5977-PA, isoform A; AAA ATPase, ATP-binding, nuc	96.72
2dr3_A	247	UPF0273 protein PH0284; RECA superfamily ATPase, h	96.71
1v43_A	372	Sugar-binding transport ATP-binding protein; ATPas	96.71
2xtz_A	354	Guanine nucleotide-binding protein alpha-1 subuni;	96.71
3e70_C	328	DPA, signal recognition particle receptor; FTSY, S	96.71
2vli_A	183	Antibiotic resistance protein; transferase, tunica	96.71
2bbs_A	290	Cystic fibrosis transmembrane conductance regulato	96.71
1uj2_A	252	Uridine-cytidine kinase 2; alpha/beta mononucleoti	96.7
2iyv_A	184	Shikimate kinase, SK; transferase, aromatic amino	96.7
3a4m_A	260	L-seryl-tRNA(SEC) kinase; P-loop motif, walker A m	96.7
3kta_A	182	Chromosome segregation protein SMC; structural mai	96.7
3gd7_A	390	Fusion complex of cystic fibrosis transmembrane co	96.69
1l8q_A	324	Chromosomal replication initiator protein DNAA; AA	96.69
4fid_A	340	G protein alpha subunit; RAS-like domain, all-heli	96.68
2kjq_A	149	DNAA-related protein; solution structure, NESG, st	96.68
4e22_A	252	Cytidylate kinase; P-loop, CMP/ATP binding, transf	96.67
3tqc_A	321	Pantothenate kinase; biosynthesis of cofactors, pr	96.66
1yrb_A	262	ATP(GTP)binding protein; GTPase, P-loop, rossman f	96.66
1sq5_A	308	Pantothenate kinase; P-loop, transferase; HET: PAU	96.64
3tui_C	366	Methionine import ATP-binding protein METN; ABC-tr	96.63
1d2n_A	272	N-ethylmaleimide-sensitive fusion protein; hexamer	96.63
1xjc_A	169	MOBB protein homolog; structural genomics, midwest	96.63
3b9q_A	302	Chloroplast SRP receptor homolog, alpha subunit CP	96.63
2pez_A	179	Bifunctional 3'-phosphoadenosine 5'- phosphosulfat	96.62
1t9h_A	307	YLOQ, probable GTPase ENGC; N-terminal beta-barrel	96.6
3uk6_A	368	RUVB-like 2; hexameric AAA+ ATP-ASE, DNA unwinding	96.6
2p5t_B	253	PEZT; postsegregational killing system, phosphoryl	96.59
1fnn_A	389	CDC6P, cell division control protein 6; ORC1, AAA	96.58
3nh6_A	306	ATP-binding cassette SUB-family B member 6, mitoc;	96.58
3umf_A	217	Adenylate kinase; rossmann fold, transferase; 2.05	96.57
1nlf_A	279	Regulatory protein REPA; replicative DNA helicase	96.55
3d31_A	348	Sulfate/molybdate ABC transporter, ATP-binding pro	96.55
2gza_A	361	Type IV secretion system protein VIRB11; ATPase, h	96.55
2p67_A	341	LAO/AO transport system kinase; ARGK, structural G	96.54
1cip_A	353	Protein (guanine nucleotide-binding protein alpha-	96.53
3cf0_A	301	Transitional endoplasmic reticulum ATPase; AAA, P9	96.53
3ohm_A	327	Guanine nucleotide-binding protein G(Q) subunit A;	96.53
3jvv_A	356	Twitching mobility protein; hexameric P-loop ATPas	96.53
1m7g_A	211	Adenylylsulfate kinase; APS kinase, transferase, s	96.52
3nwj_A	250	ATSK2; P loop, shikimate, nucleoside monophosphate	96.52
1vht_A	218	Dephospho-COA kinase; structural genomics, transfe	96.52
1ltq_A	301	Polynucleotide kinase; phosphatase, alpha/beta, P-	96.51
2obl_A	347	ESCN; ATPase, hydrolase; 1.80A {Escherichia coli O	96.51
4fcw_A	311	Chaperone protein CLPB; AAA domain; HET: ADP; 2.35	96.51
3pfi_A	338	Holliday junction ATP-dependent DNA helicase RUVB;	96.5
2f6r_A	281	COA synthase, bifunctional coenzyme A synthase; 18	96.5
2v1u_A	387	Cell division control protein 6 homolog; DNA repli	96.5
2qby_B	384	CDC6 homolog 3, cell division control protein 6 ho	96.49
2ewv_A	372	Twitching motility protein PILT; pilus retraction	96.48
2npi_A	460	Protein CLP1; CLP1-PCF11 complex, ATP binding, ter	96.47
2og2_A	359	Putative signal recognition particle receptor; nuc	96.47
2dpy_A	438	FLII, flagellum-specific ATP synthase; beta barrel	96.47
1sxj_C	340	Activator 1 40 kDa subunit; clamp loader, processi	96.45
4eaq_A	229	DTMP kinase, thymidylate kinase; structural genomi	96.44
1zuh_A	168	Shikimate kinase; alpha-beta protein, transferase;	96.44
2xtz_A	354	Guanine nucleotide-binding protein alpha-1 subuni;	96.44
3szr_A	608	Interferon-induced GTP-binding protein MX1; interf	96.43
1sxj_D	353	Activator 1 41 kDa subunit; clamp loader, processi	96.42
1sxj_E	354	Activator 1 40 kDa subunit; clamp loader, processi	96.42
2bjv_A	265	PSP operon transcriptional activator; AAA, transcr	96.42
3r20_A	233	Cytidylate kinase; structural genomics, seattle st	96.41
1um8_A	376	ATP-dependent CLP protease ATP-binding subunit CL;	96.41
3eie_A	322	Vacuolar protein sorting-associated protein 4; AAA	96.4
2yhs_A	503	FTSY, cell division protein FTSY; cell cycle, prot	96.39
1xwi_A	322	SKD1 protein; VPS4B, AAA ATPase, protein transport	96.38
1oxx_K	353	GLCV, glucose, ABC transporter, ATP binding protei	96.37
2pt7_A	330	CAG-ALFA; ATPase, protein-protein complex, type IV	96.36
1azs_C	402	GS-alpha; complex (lyase/hydrolase), hydrolase, si	96.36
2zts_A	251	Putative uncharacterized protein PH0186; KAIC like	96.33
3pxg_A	468	Negative regulator of genetic competence CLPC/MEC;	96.32
2qmh_A	205	HPR kinase/phosphorylase; V267F mutation, ATP-bind	96.31
3zvl_A	416	Bifunctional polynucleotide phosphatase/kinase; hy	96.29
3hws_A	363	ATP-dependent CLP protease ATP-binding subunit CL;	96.26
1nij_A	318	Hypothetical protein YJIA; structural genomics, P-	96.25
1pzn_A	349	RAD51, DNA repair and recombination protein RAD51,	96.25
3b60_A	582	Lipid A export ATP-binding/permease protein MSBA;	96.24
3a8t_A	339	Adenylate isopentenyltransferase; rossmann fold pr	96.23
3d8b_A	357	Fidgetin-like protein 1; AAA+, ATPase, ADP, SGC, s	96.23
2qp9_X	355	Vacuolar protein sorting-associated protein 4; ATP	96.23
3crm_A	323	TRNA delta(2)-isopentenylpyrophosphate transferase	96.23
2qgz_A	308	Helicase loader, putative primosome component; str	96.22
2r8r_A	228	Sensor protein; KDPD, PFAM02702, MCSG, structural	96.22
2r62_A	268	Cell division protease FTSH homolog; ATPase domain	96.22
3exa_A	322	TRNA delta(2)-isopentenylpyrophosphate transferase	96.21
3co5_A	143	Putative two-component system transcriptional RES	96.2
1q3t_A	236	Cytidylate kinase; nucleotide monophosphate kinase	96.2
2px0_A	296	Flagellar biosynthesis protein FLHF; SRP GTPase, f	96.19
3lda_A	400	DNA repair protein RAD51; DNA binding protein, ATP	96.19
1hqc_A	324	RUVB; extended AAA-ATPase domain, complex with nuc	96.17
1p9r_A	418	General secretion pathway protein E; bacterial typ	96.17
3tqf_A	181	HPR(Ser) kinase; transferase, hydrolase; 2.80A {Co	96.16
1jr3_A	373	DNA polymerase III subunit gamma; processivity, pr	96.16
1tf7_A	525	KAIC; homohexamer, hexamer, circadian clock protei	96.16
3pvs_A	447	Replication-associated recombination protein A; ma	96.15
2r44_A	331	Uncharacterized protein; putative ATPase, structur	96.14
3vfd_A	389	Spastin; ATPase, microtubule severing, hydrolase;	96.14
2z4s_A	440	Chromosomal replication initiator protein DNAA; AA	96.13
3m6a_A	543	ATP-dependent protease LA 1; alpha, beta, ATP-bind	96.13
1svm_A	377	Large T antigen; AAA+ fold, viral protein; HET: AT	96.11
1vma_A	306	Cell division protein FTSY; TM0570, structural gen	96.1
3d3q_A	340	TRNA delta(2)-isopentenylpyrophosphate transferase	96.1
2oap_1	511	GSPE-2, type II secretion system protein; hexameri	96.09
1iqp_A	327	RFCS; clamp loader, extended AAA-ATPase domain, co	96.09
3euj_A	483	Chromosome partition protein MUKB, linker; MUKB, M	96.08
3ake_A	208	Cytidylate kinase; CMP kinase, CMP complex, open c	96.08
1yqt_A	538	RNAse L inhibitor; ATP-binding cassette, ribosome	96.07
4b4t_K	428	26S protease regulatory subunit 6B homolog; hydrol	96.06
1c9k_A	180	COBU, adenosylcobinamide kinase; alpha/beta struct	96.04
2chq_A	319	Replication factor C small subunit; DNA-binding pr	96.02
1sxj_B	323	Activator 1 37 kDa subunit; clamp loader, processi	96.02
2grj_A	192	Dephospho-COA kinase; TM1387, EC 2.7.1.24, dephosp	96.01
1g8p_A	350	Magnesium-chelatase 38 kDa subunit; parallel beta	96.01
4fn5_A	709	EF-G 1, elongation factor G 1; translation, transl	95.99
1sxj_A	516	Activator 1 95 kDa subunit; clamp loader, processi	95.99
3b5x_A	582	Lipid A export ATP-binding/permease protein MSBA;	95.96
2j37_W	504	Signal recognition particle 54 kDa protein (SRP54)	95.95
3foz_A	316	TRNA delta(2)-isopentenylpyrophosphate transferas;	95.95
1z6t_A	591	APAF-1, apoptotic protease activating factor 1; ca	95.94
2zan_A	444	Vacuolar protein sorting-associating protein 4B; S	95.94
1f2t_A	149	RAD50 ABC-ATPase; DNA double-strand break repair,	95.91
4b4t_M	434	26S protease regulatory subunit 6A; hydrolase, AAA	95.89
1ko7_A	314	HPR kinase/phosphatase; protein kinase, phosphotra	95.88
1w5s_A	412	Origin recognition complex subunit 2 ORC2; replica	95.88
1azs_C	402	GS-alpha; complex (lyase/hydrolase), hydrolase, si	95.88
4b4t_L	437	26S protease subunit RPT4; hydrolase, AAA-atpases,	95.86
3bh0_A	315	DNAB-like replicative helicase; ATPase, replicatio	95.85
1tf7_A	525	KAIC; homohexamer, hexamer, circadian clock protei	95.81
1r6b_X	758	CLPA protein; AAA+, N-terminal domain, CLPS, cryst	95.8
2ce7_A	476	Cell division protein FTSH; metalloprotease; HET:	95.8
1tue_A	212	Replication protein E1; helicase, replication, E1E	95.8
2a5y_B	549	CED-4; apoptosis; HET: ATP; 2.60A {Caenorhabditis	95.79
2yl4_A	595	ATP-binding cassette SUB-family B member 10, mitoc	95.79
1ojl_A	304	Transcriptional regulatory protein ZRAR; response	95.79
3pxi_A	758	Negative regulator of genetic competence CLPC/MEC;	95.79
3qf4_B	598	Uncharacterized ABC transporter ATP-binding prote	95.78
2ga8_A	359	Hypothetical 39.9 kDa protein; YFR007W, YFH7, unkn	95.78
3hr8_A	356	Protein RECA; alpha and beta proteins (A/B, A+B),	95.77
3j16_B	608	RLI1P; ribosome recycling, translation, eukarya, r	95.77
3eph_A	409	TRNA isopentenyltransferase; transferase, alternat	95.76
2dhr_A	499	FTSH; AAA+ protein, hexameric Zn metalloprotease,	95.75
3nbx_X	500	ATPase RAVA; AAA+ ATPase, alpha-beta-alpha structu	95.73
3k1j_A	604	LON protease, ATP-dependent protease LON; ATP-bind	95.73

>4dkx_A RAS-related protein RAB-6A; GTP binding fold, membrane trafficking, GTP, cytosol, protei transport; HET: GDP; 1.90A {Homo sapiens} PDB: 3bbp_A*

Probab=99.86  E-value=1e-21  Score=114.72  Aligned_cols=62  Identities=29%  Similarity=0.408  Sum_probs=45.6

Q ss_pred             CceeeeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCC-EEEEEEEcCCCC
Q psy2514           9 GSIKGTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRG-TFTRDYKKTIGA   70 (71)
Q Consensus         9 ~~~~~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~-~~~l~i~Dt~G~   70 (71)
                      +...+||+++|+++||||||+.||+.+.|...|.||++.+|..+....++ .+.++||||||+
T Consensus        10 P~k~~KivlvGd~~VGKTsLi~r~~~~~f~~~~~~Tig~d~~~k~~~~~~~~v~l~iwDtaGq   72 (216)
T 4dkx_A           10 PLRKFKLVFLGEQSVGKTSLITRFMYDSFDNTYQATIGIDFLSKTMYLEDRTIRLQLWDTAGL   72 (216)
T ss_dssp             ---CEEEEEECSTTSSHHHHHHHHHHSCCC----------CEEEEEECSSCEEEEEEECCSCT
T ss_pred             CCCcEEEEEECcCCcCHHHHHHHHHhCCCCCCcCCccceEEEEEEEEecceEEEEEEEECCCc
Confidence            44679999999999999999999999999999999999999888887765 899999999995

>2iwr_A Centaurin gamma 1; ANK repeat, zinc-finger, GTP-binding, polymorphism, nucleotide-binding, alternative splicing, protein transport; HET: CAF; 1.5A {Homo sapiens} PDB: 2bmj_A

Probab=99.73  E-value=1.5e-17  Score=92.81  Aligned_cols=62  Identities=24%  Similarity=0.355  Sum_probs=51.8

Q ss_pred             ccCceeeeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCC-EEEEEEEcCCCC
Q psy2514           7 LRGSIKGTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRG-TFTRDYKKTIGA   70 (71)
Q Consensus         7 ~~~~~~~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~-~~~l~i~Dt~G~   70 (71)
                      |+....+|++++|+++||||||+.++..+.|.. +.||++..+. +.+..++ .+.+++|||+|.
T Consensus         2 m~~~~~~ki~~vG~~~vGKTsli~~l~~~~~~~-~~~t~~~~~~-~~~~~~~~~~~l~i~Dt~G~   64 (178)
T 2iwr_A            2 MRSIPELRLGVLGDARSGKSSLIHRFLTGSYQV-LEKTESEQYK-KEMLVDGQTHLVLIREEAGA   64 (178)
T ss_dssp             CCCCCEEEEEEECCGGGCHHHHHHHHHHSCCCC-CSSCSSSEEE-EEEEETTEEEEEEEEECSSS
T ss_pred             CCCCCceEEEEECCCCCCHHHHHHHHHhCCCCC-cCCCcceeEE-EEEEECCEEEEEEEEECCCC
Confidence            344567999999999999999999999999986 8899997664 4455554 789999999995

>2ew1_A RAS-related protein RAB-30; G-protein, GTP analogue, structural genomics, structural genomics consortium, SGC, signaling protein; HET: GNP; 2.00A {Homo sapiens} SCOP: c.37.1.8

Probab=99.72  E-value=8.1e-17  Score=92.51  Aligned_cols=64  Identities=25%  Similarity=0.366  Sum_probs=56.8

Q ss_pred             ccCceeeeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCC-EEEEEEEcCCCC
Q psy2514           7 LRGSIKGTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRG-TFTRDYKKTIGA   70 (71)
Q Consensus         7 ~~~~~~~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~-~~~l~i~Dt~G~   70 (71)
                      ...+..+||+++|+++||||||++++..+.|...+.||++.++....+..++ .+.+++|||+|.
T Consensus        21 ~~~~~~~ki~lvG~~~vGKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~l~Dt~G~   85 (201)
T 2ew1_A           21 EDYDFLFKIVLIGNAGVGKTCLVRRFTQGLFPPGQGATIGVDFMIKTVEINGEKVKLQIWDTAGQ   85 (201)
T ss_dssp             -CCSEEEEEEEEESTTSSHHHHHHHHHHSSCCTTCCCCCSEEEEEEEEEETTEEEEEEEEEECCS
T ss_pred             cccccceEEEEECcCCCCHHHHHHHHHhCCCCCCCCCccceeEEEEEEEECCEEEEEEEEECCCc
Confidence            3456679999999999999999999999999988999999999888887776 689999999984

>3c5c_A RAS-like protein 12; GDP, GTPase, structural genomics consortium, SGC, limited proteolysis, GTP-binding, nucleotide-binding, signaling protein; HET: GDP; 1.85A {Homo sapiens}

Probab=99.72  E-value=4.7e-17  Score=92.12  Aligned_cols=64  Identities=16%  Similarity=0.261  Sum_probs=51.5

Q ss_pred             ccCceeeeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCCEEEEEEEcCCCC
Q psy2514           7 LRGSIKGTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRGTFTRDYKKTIGA   70 (71)
Q Consensus         7 ~~~~~~~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~   70 (71)
                      .++...+||+++|+++||||||+.++..+.|...+.||++.++.......+..+.+++|||+|.
T Consensus        16 ~~~~~~~ki~vvG~~~vGKTsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~   79 (187)
T 3c5c_A           16 FQGPLEVNLAILGRRGAGKSALTVKFLTKRFISEYDPNLEDTYSSEETVDHQPVHLRVMDTADL   79 (187)
T ss_dssp             ----CEEEEEEECCTTSSHHHHHHHHHHSSCCSCCCTTCCEEEEEEEEETTEEEEEEEEECCC-
T ss_pred             hCCCceEEEEEECCCCCcHHHHHHHHHhCCCCcccCCCccceeeEEEEECCEEEEEEEEECCCC
Confidence            3456679999999999999999999999999999999999887544333344789999999985

>2j0v_A RAC-like GTP-binding protein ARAC7; nucleotide-binding protein, ROP9, atrac7, membrane, palmitate, RHO GTPase; HET: GDP; 1.78A {Arabidopsis thaliana}

Probab=99.71  E-value=1e-16  Score=91.86  Aligned_cols=64  Identities=28%  Similarity=0.244  Sum_probs=53.8

Q ss_pred             ccCceeeeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCCEEEEEEEcCCCC
Q psy2514           7 LRGSIKGTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRGTFTRDYKKTIGA   70 (71)
Q Consensus         7 ~~~~~~~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~   70 (71)
                      |.....+|++++|++++|||||+.++..+.|...+.||++..+.......+..+.+++|||+|.
T Consensus         4 m~~~~~~ki~i~G~~~~GKTsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~i~Dt~G~   67 (212)
T 2j0v_A            4 MSVSKFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVAVDGQIVNLGLWDTAGQ   67 (212)
T ss_dssp             CSCCCEEEEEEEESTTSSHHHHHHHHHHSCCCSSCCCSSCCCEEEEEECSSCEEEEEEECCCCC
T ss_pred             CCcCceEEEEEECCCCCCHHHHHHHHhcCCCCccCCCccceeEEEEEEECCEEEEEEEEECCCc
Confidence            4456779999999999999999999999999999999999877544333345799999999985

>2y8e_A RAB-protein 6, GH09086P, RAB6; hydrolase, nucleotide binding, GTP binding; HET: GNP; 1.39A {Drosophila melanogaster} PDB: 3cwz_A* 1yzq_A* 2gil_A* 2e9s_A* 2fe4_A* 2ffq_A* 1d5c_A*

Probab=99.70  E-value=1.7e-16  Score=88.19  Aligned_cols=64  Identities=28%  Similarity=0.375  Sum_probs=55.2

Q ss_pred             ccCceeeeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCC-EEEEEEEcCCCC
Q psy2514           7 LRGSIKGTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRG-TFTRDYKKTIGA   70 (71)
Q Consensus         7 ~~~~~~~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~-~~~l~i~Dt~G~   70 (71)
                      .++...+||+++|++++|||||+.++..+.+...+.|+++.++....+..++ .+.+.+|||+|.
T Consensus         9 ~~~~~~~~i~v~G~~~~GKssli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Dt~G~   73 (179)
T 2y8e_A            9 GNPLRKFKLVFLGEQSVGKTSLITRFMYDSFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQ   73 (179)
T ss_dssp             ---CEEEEEEEEESTTSSHHHHHHHHHHSCCCSSCCCCCSEEEEEEEEEETTEEEEEEEEEECCS
T ss_pred             cCCCcceEEEEECCCCCCHHHHHHHHHcCCCCCCCCCceeeEEEEEEEEECCeEEEEEEEECCCc
Confidence            3445679999999999999999999999999999999999998888887776 689999999984

>2oil_A CATX-8, RAS-related protein RAB-25; G-protein, GDP, structural genomics, structural genomics consortium, SGC, protein transport; HET: GDP; 2.30A {Homo sapiens}

Probab=99.70  E-value=2e-16  Score=89.38  Aligned_cols=67  Identities=25%  Similarity=0.325  Sum_probs=56.7

Q ss_pred             cccccCceeeeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCC-EEEEEEEcCCCC
Q psy2514           4 LWVLRGSIKGTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRG-TFTRDYKKTIGA   70 (71)
Q Consensus         4 ~~~~~~~~~~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~-~~~l~i~Dt~G~   70 (71)
                      ....+....+||+++|++++|||||+.++..+.+...+.++++.++.......++ .+.+.+|||+|.
T Consensus        17 ~~~~~~~~~~ki~v~G~~~~GKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~Dt~G~   84 (193)
T 2oil_A           17 RGSEDYNFVFKVVLIGESGVGKTNLLSRFTRNEFSHDSRTTIGVEFSTRTVMLGTAAVKAQIWDTAGL   84 (193)
T ss_dssp             ---CCCSEEEEEEEESSTTSSHHHHHHHHHHSCCCSSCCCCSSEEEEEEEEEETTEEEEEEEEEESCC
T ss_pred             ccccccCcceEEEEECcCCCCHHHHHHHHhcCCCCCCCCCccceeEEEEEEEECCEEEEEEEEeCCCc
Confidence            3334556789999999999999999999999999988999999998877777665 789999999984

>2hup_A RAS-related protein RAB-43; G-protein, GDP, structural genomics, structural genomics consortium, SGC, signaling protein; HET: GDP; 2.05A {Homo sapiens}

Probab=99.70  E-value=1.5e-16  Score=90.98  Aligned_cols=64  Identities=28%  Similarity=0.397  Sum_probs=46.7

Q ss_pred             ccCceeeeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCC-EEEEEEEcCCCC
Q psy2514           7 LRGSIKGTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRG-TFTRDYKKTIGA   70 (71)
Q Consensus         7 ~~~~~~~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~-~~~l~i~Dt~G~   70 (71)
                      ...+..+||+++|+++||||||+.++..+.|...+.||++.++....+..++ .+.+++|||+|.
T Consensus        24 ~~~~~~~ki~vvG~~~vGKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~   88 (201)
T 2hup_A           24 EQYDFLFKLVLVGDASVGKTCVVQRFKTGAFSERQGSTIGVDFTMKTLEIQGKRVKLQIWDTAGQ   88 (201)
T ss_dssp             --CCEEEEEEEEECTTSSHHHHHHHHHHSCC----------CEEEEEEEETTEEEEEEEECCTTC
T ss_pred             cccccceEEEEECcCCCCHHHHHHHHhhCCCCCCCCCCcceEEEEEEEEECCEEEEEEEEECCCc
Confidence            4456679999999999999999999999999888999999999888777776 689999999985

>3q3j_B RHO-related GTP-binding protein RHO6; RAS-binding domain, plexin, small GTPase, structural genomic consortium, SGC; HET: GNP; 1.97A {Homo sapiens} PDB: 2rex_B* 2cls_A*

Probab=99.69  E-value=1.2e-16  Score=92.31  Aligned_cols=63  Identities=17%  Similarity=0.211  Sum_probs=51.1

Q ss_pred             cCceeeeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCCEEEEEEEcCCCC
Q psy2514           8 RGSIKGTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRGTFTRDYKKTIGA   70 (71)
Q Consensus         8 ~~~~~~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~   70 (71)
                      .....+||+++|+++||||||+.++..+.|...|.||++.++.......+..+.++||||+|.
T Consensus        23 ~~~~~~ki~vvG~~~vGKSsL~~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~   85 (214)
T 3q3j_B           23 PVVARCKLVLVGDVQCGKTAMLQVLAKDCYPETYVPTVFENYTACLETEEQRVELSLWDTSGS   85 (214)
T ss_dssp             ----CEEEEEECSTTSSHHHHHHHHHHSCCCSSCCCCSEEEEEEEEEC--CEEEEEEEEECCS
T ss_pred             CccceEEEEEECcCCCCHHHHHHHHhcCCCCCCcCCeeeeeEEEEEEECCEEEEEEEEECCCC
Confidence            345679999999999999999999999999999999999888654444455899999999984

>1gwn_A RHO-related GTP-binding protein RHOE; GTPase, inactive GTPase, signal transduction; HET: GTP; 2.1A {Mus musculus} SCOP: c.37.1.8

Probab=99.69  E-value=1.2e-16  Score=92.01  Aligned_cols=63  Identities=17%  Similarity=0.304  Sum_probs=51.6

Q ss_pred             ccCceeeeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeC-CEEEEEEEcCCCC
Q psy2514           7 LRGSIKGTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCR-GTFTRDYKKTIGA   70 (71)
Q Consensus         7 ~~~~~~~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~-~~~~l~i~Dt~G~   70 (71)
                      ......+||+++|+++||||||++++..+.|...|.||++.++... +..+ ..+.+++|||+|.
T Consensus        23 ~~~~~~~ki~vvG~~~vGKSsLi~~l~~~~~~~~~~~t~~~~~~~~-~~~~~~~~~l~i~Dt~G~   86 (205)
T 1gwn_A           23 PNQNVKCKIVVVGDSQCGKTALLHVFAKDCFPENYVPTVFENYTAS-FEIDTQRIELSLWDTSGS   86 (205)
T ss_dssp             ----CEEEEEEEESTTSSHHHHHHHHHHSCCCSSCCCCSEEEEEEE-EESSSSEEEEEEEEECCS
T ss_pred             cccceeeEEEEECCCCCCHHHHHHHHhcCCCCCCcCCccceeEEEE-EEECCEEEEEEEEeCCCc
Confidence            3456789999999999999999999999999999999999887543 4444 4899999999984

>1m7b_A RND3/RHOE small GTP-binding protein; small GTPase, signaling protein; HET: GTP; 2.00A {Homo sapiens} SCOP: c.37.1.8 PDB: 2v55_B*

Probab=99.69  E-value=1.9e-16  Score=89.17  Aligned_cols=62  Identities=18%  Similarity=0.325  Sum_probs=51.8

Q ss_pred             CceeeeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCCEEEEEEEcCCCC
Q psy2514           9 GSIKGTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRGTFTRDYKKTIGA   70 (71)
Q Consensus         9 ~~~~~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~   70 (71)
                      +...+|++++|+++||||||++++..+.|...|.||++.++.......+..+.+.+|||+|.
T Consensus         4 ~~~~~ki~v~G~~~vGKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~i~Dt~G~   65 (184)
T 1m7b_A            4 QNVKCKIVVVGDSQCGKTALLHVFAKDCFPENYVPTVFENYTASFEIDTQRIELSLWDTSGS   65 (184)
T ss_dssp             --CEEEEEEEESTTSSHHHHHHHHHHSCCCSSCCCCSEEEEEEEEECSSCEEEEEEEEECCS
T ss_pred             CceEEEEEEECCCCCCHHHHHHHHhcCCCCCCCCCccceeEEEEEEECCEEEEEEEEECCCC
Confidence            45679999999999999999999999999988999999887544333345899999999985

>2bcg_Y Protein YP2, GTP-binding protein YPT1; RABGTPase, geranylgeranylation, vesicular transport, protein transport; HET: GDP GER; 1.48A {Saccharomyces cerevisiae} SCOP: c.37.1.8 PDB: 1ukv_Y* 3cue_F* 1yzn_A* 3sfv_A* 2wwx_A 2fol_A* 3nkv_A* 3jza_A* 2rhd_A*

Probab=99.69  E-value=3.9e-16  Score=89.07  Aligned_cols=62  Identities=31%  Similarity=0.432  Sum_probs=56.0

Q ss_pred             CceeeeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCC-EEEEEEEcCCCC
Q psy2514           9 GSIKGTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRG-TFTRDYKKTIGA   70 (71)
Q Consensus         9 ~~~~~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~-~~~l~i~Dt~G~   70 (71)
                      .+..+||+++|++++|||||+.++..+.+...+.|+++.++....+..++ .+.+.+|||+|.
T Consensus         5 ~~~~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~Dt~G~   67 (206)
T 2bcg_Y            5 YDYLFKLLLIGNSGVGKSCLLLRFSDDTYTNDYISTIGVDFKIKTVELDGKTVKLQIWDTAGQ   67 (206)
T ss_dssp             CSEEEEEEEEESTTSSHHHHHHHHHHCCCCTTCCCSSCCCEEEEEEEETTEEEEEEEECCTTT
T ss_pred             cCcceEEEEECCCCCCHHHHHHHHhcCCCCCCCCCcccceeEEEEEEECCEEEEEEEEeCCCh
Confidence            45679999999999999999999999999999999999999888777776 689999999984

>1z08_A RAS-related protein RAB-21; RAB GTPase, vesicular trafficking, protein transport; HET: GNP; 1.80A {Homo sapiens} SCOP: c.37.1.8 PDB: 2ot3_B 1yzu_A* 1z0i_A 1yzt_A*

Probab=99.69  E-value=3.3e-16  Score=86.52  Aligned_cols=62  Identities=27%  Similarity=0.427  Sum_probs=54.8

Q ss_pred             CceeeeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCC-EEEEEEEcCCCC
Q psy2514           9 GSIKGTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRG-TFTRDYKKTIGA   70 (71)
Q Consensus         9 ~~~~~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~-~~~l~i~Dt~G~   70 (71)
                      .+..+|++++|++++|||||++++..+.+...+.|+++.++....+..++ .+.+.+|||+|.
T Consensus         3 ~~~~~~i~v~G~~~~GKssli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~   65 (170)
T 1z08_A            3 RAYSFKVVLLGEGCVGKTSLVLRYCENKFNDKHITTLGASFLTKKLNIGGKRVNLAIWDTAGQ   65 (170)
T ss_dssp             -CEEEEEEEECCTTSCHHHHHHHHHHCCCCSSCCCCCSCEEEEEEEESSSCEEEEEEEECCCC
T ss_pred             CCcceEEEEECcCCCCHHHHHHHHHcCCCCcCCCCccceEEEEEEEEECCEEEEEEEEECCCc
Confidence            35679999999999999999999999999988999999998877776664 889999999984

>2bme_A RAB4A, RAS-related protein RAB4A; GTP-binding protein, vesicular transport, endocytosis, prenylation, protein transport, transport; HET: GNP; 1.57A {Homo sapiens} SCOP: c.37.1.8 PDB: 2bmd_A* 1yu9_A* 1z0k_A*

Probab=99.69  E-value=4.3e-16  Score=87.29  Aligned_cols=64  Identities=22%  Similarity=0.287  Sum_probs=56.5

Q ss_pred             ccCceeeeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCC-EEEEEEEcCCCC
Q psy2514           7 LRGSIKGTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRG-TFTRDYKKTIGA   70 (71)
Q Consensus         7 ~~~~~~~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~-~~~l~i~Dt~G~   70 (71)
                      .+.+..+||+++|++++|||||+.++..+.+...+.|+++.++....+..++ .+.+++|||+|.
T Consensus         5 ~~~~~~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~   69 (186)
T 2bme_A            5 ETYDFLFKFLVIGNAGTGKSCLLHQFIEKKFKDDSNHTIGVEFGSKIINVGGKYVKLQIWDTAGQ   69 (186)
T ss_dssp             CCCSEEEEEEEEESTTSSHHHHHHHHHHSSCCTTCCCCSEEEEEEEEEEETTEEEEEEEEEECCS
T ss_pred             cccccceEEEEECCCCCCHHHHHHHHHcCCCCCCCCCccceEEEEEEEEECCEEEEEEEEeCCCc
Confidence            3446789999999999999999999999999988999999988888777776 679999999984

>2fn4_A P23, RAS-related protein R-RAS; GDP/GTP binding, GTP hydrolysis, structural genomics, structural genomics consortium, SGC, signaling protein; HET: GDP; 1.65A {Homo sapiens} SCOP: c.37.1.8 PDB: 2ery_A*

Probab=99.68  E-value=3.3e-16  Score=87.11  Aligned_cols=62  Identities=29%  Similarity=0.376  Sum_probs=53.5

Q ss_pred             cCceeeeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCC-EEEEEEEcCCCC
Q psy2514           8 RGSIKGTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRG-TFTRDYKKTIGA   70 (71)
Q Consensus         8 ~~~~~~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~-~~~l~i~Dt~G~   70 (71)
                      .+...+|++++|++++|||||++++..+.+...+.+|++.++. .....++ .+.+++|||+|.
T Consensus         5 ~~~~~~~i~v~G~~~~GKssli~~l~~~~~~~~~~~t~~~~~~-~~~~~~~~~~~~~~~Dt~G~   67 (181)
T 2fn4_A            5 PPSETHKLVVVGGGGVGKSALTIQFIQSYFVSDYDPTIEDSYT-KICSVDGIPARLDILDTAGQ   67 (181)
T ss_dssp             CSSCEEEEEEEECTTSSHHHHHHHHHHSSCCSSCCTTCCEEEE-EEEEETTEEEEEEEEECCCT
T ss_pred             CCCCceEEEEECCCCCCHHHHHHHHHhCcCccccCCCcCceEE-EEEEECCEEEEEEEEECCCc
Confidence            4456799999999999999999999999999999999998877 4455555 689999999984

>3t5g_A GTP-binding protein RHEB; immunoglobulin-like beta sandwitch, PDE delta, RHEB; HET: GDP FAR; 1.70A {Homo sapiens} SCOP: c.37.1.8 PDB: 1xtq_A* 1xtr_A* 1xts_A* 2l0x_A* 3sea_A*

Probab=99.68  E-value=2.9e-16  Score=87.82  Aligned_cols=62  Identities=26%  Similarity=0.364  Sum_probs=53.2

Q ss_pred             cCceeeeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCC-EEEEEEEcCCCC
Q psy2514           8 RGSIKGTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRG-TFTRDYKKTIGA   70 (71)
Q Consensus         8 ~~~~~~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~-~~~l~i~Dt~G~   70 (71)
                      .....+||+++|++++|||||++++..+.+...+.||++..+ ......++ .+.+++|||+|.
T Consensus         2 ~~~~~~ki~~~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~~~l~Dt~G~   64 (181)
T 3t5g_A            2 PQSKSRKIAILGYRSVGKSSLTIQFVEGQFVDSYDPTIENTF-TKLITVNGQEYHLQLVDTAGQ   64 (181)
T ss_dssp             CCEEEEEEEEEESTTSSHHHHHHHHHHSSCCSCCCTTCCEEE-EEEEEETTEEEEEEEEECCCC
T ss_pred             CCCceEEEEEECcCCCCHHHHHHHHHcCCCCCCCCCCccccE-EEEEEECCEEEEEEEEeCCCc
Confidence            345679999999999999999999999999999999999888 44555554 789999999984

>2hxs_A RAB-26, RAS-related protein RAB-28; GTPase, signaling protein; HET: G3D; 1.10A {Homo sapiens} PDB: 2hy4_A* 3e5h_A*

Probab=99.68  E-value=9.3e-17  Score=89.41  Aligned_cols=62  Identities=27%  Similarity=0.407  Sum_probs=55.0

Q ss_pred             CceeeeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCC--EEEEEEEcCCCC
Q psy2514           9 GSIKGTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRG--TFTRDYKKTIGA   70 (71)
Q Consensus         9 ~~~~~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~--~~~l~i~Dt~G~   70 (71)
                      ....+|++++|++++|||||+.++..+.|...+.||++.++....+..++  .+.+++|||+|.
T Consensus         3 ~~~~~ki~v~G~~~~GKssl~~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~~~Dt~G~   66 (178)
T 2hxs_A            3 HMRQLKIVVLGDGASGKTSLTTCFAQETFGKQYKQTIGLDFFLRRITLPGNLNVTLQIWDIGGQ   66 (178)
T ss_dssp             CCCEEEEEEECCTTSSHHHHHHHHHGGGTTHHHHHTTTSSEEEEEEEETTTEEEEEEEEECTTC
T ss_pred             CCceEEEEEECcCCCCHHHHHHHHHhCcCCCCCCCceeEEEEEEEEEeCCCCEEEEEEEECCCC
Confidence            34579999999999999999999999999888899999888888777765  689999999985

>3reg_A RHO-like small GTPase; cytoskeleton, nucleotide-binding, GTP-binding, signaling Pro lipoprotein, prenylation; HET: GSP; 1.80A {Entamoeba histolytica} PDB: 3ref_B* 4dvg_A*

Probab=99.68  E-value=2.4e-16  Score=89.25  Aligned_cols=63  Identities=27%  Similarity=0.456  Sum_probs=53.3

Q ss_pred             cCceeeeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCCEEEEEEEcCCCC
Q psy2514           8 RGSIKGTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRGTFTRDYKKTIGA   70 (71)
Q Consensus         8 ~~~~~~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~   70 (71)
                      +....+|++++|+++||||||++++..+.+...+.||++.++.......+..+.+++|||+|.
T Consensus        19 ~~~~~~ki~~vG~~~~GKSsl~~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~i~Dt~G~   81 (194)
T 3reg_A           19 NGKKALKIVVVGDGAVGKTCLLLAFSKGEIPTAYVPTVFENFSHVMKYKNEEFILHLWDTAGQ   81 (194)
T ss_dssp             --CEEEEEEEECSTTSSHHHHHHHHHHSCCCSSCCCCSEEEEEEEEEETTEEEEEEEEEECCS
T ss_pred             ccceeeEEEEECcCCCCHHHHHHHHhcCCCCCccCCeeeeeeEEEEEECCEEEEEEEEECCCc
Confidence            345679999999999999999999999999999999999888765444445889999999984

>3ihw_A Centg3; RAS, centaurin, GTPase, structural genomics, structural genomics consortium, SGC, alternative splicing, ANK repeat, cytoplasm, GTP-binding; 1.92A {Homo sapiens} SCOP: c.37.1.0

Probab=99.68  E-value=3.1e-16  Score=88.70  Aligned_cols=62  Identities=23%  Similarity=0.263  Sum_probs=51.2

Q ss_pred             ccCceeeeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCC-EEEEEEEcCCCC
Q psy2514           7 LRGSIKGTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRG-TFTRDYKKTIGA   70 (71)
Q Consensus         7 ~~~~~~~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~-~~~l~i~Dt~G~   70 (71)
                      ..+...+||+++|+++||||||+.+++.+.|...+.||. .++. +.+..++ .+.+++|||+|.
T Consensus        15 ~~~~~~~ki~ivG~~~vGKSsL~~~~~~~~~~~~~~~t~-~~~~-~~~~~~~~~~~l~i~Dt~G~   77 (184)
T 3ihw_A           15 YFQGPELKVGIVGNLSSGKSALVHRYLTGTYVQEESPEG-GRFK-KEIVVDGQSYLLLIRDEGGP   77 (184)
T ss_dssp             -CCCCEEEEEEECCTTSCHHHHHHHHHHSSCCCCCCTTC-EEEE-EEEEETTEEEEEEEEECSSS
T ss_pred             CCCCCeeEEEEECCCCCCHHHHHHHHhcCCCCCCcCCCc-ceEE-EEEEECCEEEEEEEEECCCC
Confidence            345668999999999999999999999999998888884 4565 5555555 789999999995

>1z2a_A RAS-related protein RAB-23; RAB GTPase, vesicular trafficking, protein transport; HET: GDP; 1.90A {Mus musculus} SCOP: c.37.1.8 PDB: 1z22_A*

Probab=99.68  E-value=4.6e-16  Score=85.66  Aligned_cols=61  Identities=51%  Similarity=0.701  Sum_probs=54.7

Q ss_pred             ceeeeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCC-EEEEEEEcCCCC
Q psy2514          10 SIKGTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRG-TFTRDYKKTIGA   70 (71)
Q Consensus        10 ~~~~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~-~~~l~i~Dt~G~   70 (71)
                      +..+|++++|++++|||||+.++..+.+...+.||++.++....+..++ .+.+.+|||+|.
T Consensus         3 ~~~~~i~v~G~~~~GKssl~~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~Dt~G~   64 (168)
T 1z2a_A            3 EVAIKMVVVGNGAVGKSSMIQRYCKGIFTKDYKKTIGVDFLERQIQVNDEDVRLMLWDTAGQ   64 (168)
T ss_dssp             -CEEEEEEECSTTSSHHHHHHHHHHCCCCCCSSCCCSSSEEEEEEEETTEEEEEEEECCTTG
T ss_pred             ceeEEEEEECcCCCCHHHHHHHHHcCCCCCCCCCceEEEEEEEEEEECCEEEEEEEEcCCCc
Confidence            4579999999999999999999999999989999999999888887776 789999999984

>3kkq_A RAS-related protein M-RAS; GTP-binding, GTPase, signaling protein; HET: GDP; 1.20A {Mus musculus} SCOP: c.37.1.8 PDB: 3kkp_A* 3kko_A* 3pit_A* 3pir_A* 1x1r_A* 1x1s_A*

Probab=99.68  E-value=3.8e-16  Score=87.46  Aligned_cols=63  Identities=25%  Similarity=0.292  Sum_probs=53.2

Q ss_pred             ccCceeeeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCC-EEEEEEEcCCCC
Q psy2514           7 LRGSIKGTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRG-TFTRDYKKTIGA   70 (71)
Q Consensus         7 ~~~~~~~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~-~~~l~i~Dt~G~   70 (71)
                      ......+||+++|++++|||||++++..+.+...+.|+++..+. .....++ .+.+++|||+|.
T Consensus        13 ~~~~~~~ki~v~G~~~~GKSsl~~~l~~~~~~~~~~~t~~~~~~-~~~~~~~~~~~l~i~Dt~G~   76 (183)
T 3kkq_A           13 SENLPTYKLVVVGDGGVGKSALTIQFFQKIFVDDYDPTIEDSYL-KHTEIDNQWAILDVLDTAGQ   76 (183)
T ss_dssp             -CCCCEEEEEEECSTTSSHHHHHHHHHHSCCCSCCCTTCCEEEE-EEEEETTEEEEEEEEECCSC
T ss_pred             ccCCCceEEEEECCCCCCHHHHHHHHHhCCCCCCCCCCccceeE-EEEEeCCcEEEEEEEECCCc
Confidence            34556899999999999999999999999999999999998884 4444444 788999999984

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

Probab=99.67  E-value=4e-16  Score=86.77  Aligned_cols=64  Identities=28%  Similarity=0.377  Sum_probs=53.4

Q ss_pred             ccCceeeeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCC-EEEEEEEcCCCC
Q psy2514           7 LRGSIKGTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRG-TFTRDYKKTIGA   70 (71)
Q Consensus         7 ~~~~~~~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~-~~~l~i~Dt~G~   70 (71)
                      ...+..+||+++|++++|||||++++..+.+...+.|+++.++....+..++ .+.+.+|||+|.
T Consensus         4 ~~~~~~~~i~v~G~~~~GKssl~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~Dt~G~   68 (181)
T 3tw8_B            4 RDYDHLFKLLIIGDSGVGKSSLLLRFADNTFSGSYITTIGVDFKIRTVEINGEKVKLQIWDTAGQ   68 (181)
T ss_dssp             --CCEEEEEEEECCTTSCHHHHHHHHCSCC---CCTTTBSEEEEEEEEEETTEEEEEEEEEETTG
T ss_pred             cccCcceEEEEECCCCCCHHHHHHHHhcCCCCCccCCCceeEEEEEEEEECCEEEEEEEEcCCCc
Confidence            3456789999999999999999999999999988999999999888887776 689999999983

>2o52_A RAS-related protein RAB-4B; G-protein, GDP, structural genomics, structural genomics consortium, SGC, protein transport; HET: GDP; 2.20A {Homo sapiens}

Probab=99.67  E-value=3.2e-16  Score=89.48  Aligned_cols=64  Identities=22%  Similarity=0.359  Sum_probs=44.6

Q ss_pred             ccCceeeeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCC-EEEEEEEcCCCC
Q psy2514           7 LRGSIKGTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRG-TFTRDYKKTIGA   70 (71)
Q Consensus         7 ~~~~~~~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~-~~~l~i~Dt~G~   70 (71)
                      .+.+..+||+++|+++||||||+.++..+.+...+.|+++.++....+..++ .+.+++|||+|.
T Consensus        20 ~~~~~~~ki~v~G~~~~GKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~l~Dt~G~   84 (200)
T 2o52_A           20 IWSDFLFKFLVIGSAGTGKSCLLHQFIENKFKQDSNHTIGVEFGSRVVNVGGKTVKLQIWDTAGQ   84 (200)
T ss_dssp             --CCEEEEEEEEESTTSSHHHHHHHHHC------------CCEEEEEEEETTEEEEEEEECCTTH
T ss_pred             cccCcceEEEEECcCCCCHHHHHHHHHhCCCCccCCCcccceeEEEEEEECCeeeEEEEEcCCCc
Confidence            3456789999999999999999999999999888999999988888777776 689999999983

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

Probab=99.67  E-value=4.7e-16  Score=87.62  Aligned_cols=52  Identities=25%  Similarity=0.362  Sum_probs=45.7

Q ss_pred             ccCceeeeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCC
Q psy2514           7 LRGSIKGTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRG   58 (71)
Q Consensus         7 ~~~~~~~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~   58 (71)
                      |..+..+||+++|++++|||||+.+++.+.+...+.||++.++....+..++
T Consensus         2 m~~~~~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~   53 (208)
T 3clv_A            2 MEKKSSYKTVLLGESSVGKSSIVLRLTKDTFHENTNTTIGASFCTYVVNLND   53 (208)
T ss_dssp             CCCCSSEEEEEECCTTSSHHHHHHHHHHSCCCSSCCCCCSCEEEEEEEETTC
T ss_pred             CCCCcceEEEEECCCCCCHHHHHHHHHhCcCCCCcCccccceeEEEEEEecC
Confidence            3456679999999999999999999999999999999999998887776654

>2fu5_C RAS-related protein RAB-8A; MSS4:RAB8 protein complex, GEF:GTPase nucleotide free complex; 2.00A {Mus musculus} SCOP: c.37.1.8 PDB: 3qbt_A* 3tnf_A*

Probab=99.67  E-value=7.6e-17  Score=90.32  Aligned_cols=62  Identities=19%  Similarity=0.343  Sum_probs=37.8

Q ss_pred             CceeeeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCC-EEEEEEEcCCCC
Q psy2514           9 GSIKGTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRG-TFTRDYKKTIGA   70 (71)
Q Consensus         9 ~~~~~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~-~~~l~i~Dt~G~   70 (71)
                      .+..+||+++|++++|||||+.++..+.|...+.||++.++....+..++ .+.+++|||+|.
T Consensus         5 ~~~~~ki~v~G~~~~GKssl~~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~Dt~G~   67 (183)
T 2fu5_C            5 YDYLFKLLLIGDSGVGKTCVLFRFSEDAFNSTFISTIGIDFKIRTIELDGKRIKLQIWDTAGQ   67 (183)
T ss_dssp             CSEEEEEEEECCCCC----------------CHHHHHCEEEEEEEEEETTEEEEEEEEEC---
T ss_pred             cCCceEEEEECCCCCCHHHHHHHHHhCCCCCCCCCcccceeEEEEEEECCEEEEEEEEcCCCC
Confidence            45679999999999999999999999999888999999999887777766 689999999984

>3tkl_A RAS-related protein RAB-1A; vesicle trafficking, protein transport-protein binding compl; HET: GTP; 2.18A {Homo sapiens}

Probab=99.67  E-value=7.7e-16  Score=86.85  Aligned_cols=64  Identities=27%  Similarity=0.382  Sum_probs=57.1

Q ss_pred             ccCceeeeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCC-EEEEEEEcCCCC
Q psy2514           7 LRGSIKGTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRG-TFTRDYKKTIGA   70 (71)
Q Consensus         7 ~~~~~~~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~-~~~l~i~Dt~G~   70 (71)
                      ...+..+||+++|++++|||||++++..+.+...+.|+++.++....+..++ .+.+.+|||+|.
T Consensus        11 ~~~~~~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~Dt~G~   75 (196)
T 3tkl_A           11 PEYDYLFKLLLIGDSGVGKSCLLLRFADDTYTESYISTIGVDFKIRTIELDGKTIKLQIWDTAGQ   75 (196)
T ss_dssp             CCCSEEEEEEEECSTTSSHHHHHHHHHHSCCCSCCCCCSSEEEEEEEEEETTEEEEEEEEEECCS
T ss_pred             cccccceEEEEECcCCCCHHHHHHHHHcCCCCCCCCCcccceEEEEEEEECCEEEEEEEEECCCc
Confidence            3445679999999999999999999999999999999999999888887776 689999999984

>1wms_A RAB-9, RAB9, RAS-related protein RAB-9A; GTPase, protein transport; HET: GDP; 1.25A {Homo sapiens} SCOP: c.37.1.8 PDB: 1s8f_A* 1yzl_A* 2ocb_A*

Probab=99.67  E-value=7e-16  Score=85.75  Aligned_cols=62  Identities=32%  Similarity=0.406  Sum_probs=51.8

Q ss_pred             CceeeeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCC-EEEEEEEcCCCC
Q psy2514           9 GSIKGTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRG-TFTRDYKKTIGA   70 (71)
Q Consensus         9 ~~~~~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~-~~~l~i~Dt~G~   70 (71)
                      ....+||+++|++++|||||++++..+.+...+.|+++.++....+..++ .+.+.+|||+|.
T Consensus         4 ~~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~Dt~G~   66 (177)
T 1wms_A            4 KSSLFKVILLGDGGVGKSSLMNRYVTNKFDTQLFHTIGVEFLNKDLEVDGHFVTMQIWDTAGQ   66 (177)
T ss_dssp             CEEEEEEEEECCTTSSHHHHHHHHHHSCCCC----CCSEEEEEEEEEETTEEEEEEEEECCCC
T ss_pred             ccceeEEEEECCCCCCHHHHHHHHHcCCCCCCCCCceeeeEEEEEEEECCEEEEEEEEeCCCc
Confidence            45679999999999999999999999999988999999998877777776 689999999984

>2atx_A Small GTP binding protein TC10; GTPase, P-loop, alpha-beta, hydrolase; HET: GNP; 2.65A {Homo sapiens} SCOP: c.37.1.8

Probab=99.67  E-value=4.3e-16  Score=88.11  Aligned_cols=62  Identities=24%  Similarity=0.405  Sum_probs=52.6

Q ss_pred             cCceeeeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeC-CEEEEEEEcCCCC
Q psy2514           8 RGSIKGTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCR-GTFTRDYKKTIGA   70 (71)
Q Consensus         8 ~~~~~~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~-~~~~l~i~Dt~G~   70 (71)
                      .+...+||+++|+++||||||+.++..+.|...+.||++..+... +..+ ..+.+++|||+|.
T Consensus        14 ~~~~~~ki~v~G~~~~GKssli~~l~~~~~~~~~~~t~~~~~~~~-~~~~~~~~~~~i~D~~G~   76 (194)
T 2atx_A           14 PGALMLKCVVVGDGAVGKTCLLMSYANDAFPEEYVPTVFDHYAVS-VTVGGKQYLLGLYDTAGQ   76 (194)
T ss_dssp             CEEEEEEEEEEECTTSSHHHHHHHHHHSSCCCSCCCSSCCCEEEE-EESSSCEEEEEEECCCCS
T ss_pred             CCCceEEEEEECCCCCCHHHHHHHHhcCCCCCCCCCcccceeEEE-EEECCEEEEEEEEECCCC
Confidence            345679999999999999999999999999999999999877543 4444 4799999999985

>1r2q_A RAS-related protein RAB-5A; GTPase, GNP, atomic resolution, protein transport; HET: GNP; 1.05A {Homo sapiens} SCOP: c.37.1.8 PDB: 1n6h_A* 1tu4_A* 1tu3_A* 1n6k_A* 1n6i_A* 1n6l_A* 1n6o_A* 1n6p_A* 1n6n_A* 1n6r_A* 3mjh_A* 1z0d_A* 1huq_A* 2hei_A* 1z07_A*

Probab=99.67  E-value=7e-16  Score=84.95  Aligned_cols=62  Identities=27%  Similarity=0.343  Sum_probs=55.3

Q ss_pred             CceeeeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCC-EEEEEEEcCCCC
Q psy2514           9 GSIKGTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRG-TFTRDYKKTIGA   70 (71)
Q Consensus         9 ~~~~~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~-~~~l~i~Dt~G~   70 (71)
                      +...+|++++|++++|||||+.++..+.+...+.++++.++.......++ .+.+++|||+|.
T Consensus         3 ~~~~~~i~v~G~~~~GKssli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~G~   65 (170)
T 1r2q_A            3 KICQFKLVLLGESAVGKSSLVLRFVKGQFHEFQESTIGAAFLTQTVCLDDTTVKFEIWDTAGQ   65 (170)
T ss_dssp             EEEEEEEEEECSTTSSHHHHHHHHHHSCCCTTCCCCSSEEEEEEEEEETTEEEEEEEEEECCS
T ss_pred             CCceEEEEEECCCCCCHHHHHHHHHcCCCCCCCCCccceEEEEEEEEECCEEEEEEEEeCCCc
Confidence            35679999999999999999999999999988999999988877777765 789999999984

>1vg8_A RAS-related protein RAB-7; GTP-binding protein, protein transport; HET: GNP; 1.70A {Rattus norvegicus} SCOP: c.37.1.8 PDB: 1vg0_B* 3law_A* 1t91_A* 1yhn_A* 1vg1_A* 1vg9_B*

Probab=99.67  E-value=4.9e-16  Score=88.39  Aligned_cols=63  Identities=29%  Similarity=0.448  Sum_probs=54.6

Q ss_pred             cCceeeeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCC-EEEEEEEcCCCC
Q psy2514           8 RGSIKGTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRG-TFTRDYKKTIGA   70 (71)
Q Consensus         8 ~~~~~~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~-~~~l~i~Dt~G~   70 (71)
                      +....+||+++|++++|||||+.++..+.+...+.++++.++....+..++ .+.+.+|||+|.
T Consensus         4 ~~~~~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~Dt~G~   67 (207)
T 1vg8_A            4 RKKVLLKVIILGDSGVGKTSLMNQYVNKKFSNQYKATIGADFLTKEVMVDDRLVTMQIWDTAGQ   67 (207)
T ss_dssp             ---CEEEEEEECCTTSSHHHHHHHHHHSCCCSSCCCCCSEEEEEEEEESSSCEEEEEEEEECSS
T ss_pred             ccCcceEEEEECcCCCCHHHHHHHHHcCCCCCCCCCcccceEEEEEEEECCEEEEEEEEeCCCc
Confidence            456779999999999999999999999999989999999998887777665 789999999984

>2a5j_A RAS-related protein RAB-2B; GTPase, signal transduction, structural genomics, structural genomics consortium, SGC, protein transport; HET: GDP; 1.50A {Homo sapiens} SCOP: c.37.1.8 PDB: 1z0a_A*

Probab=99.67  E-value=8.2e-16  Score=86.96  Aligned_cols=64  Identities=27%  Similarity=0.320  Sum_probs=52.1

Q ss_pred             ccCceeeeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCC-EEEEEEEcCCCC
Q psy2514           7 LRGSIKGTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRG-TFTRDYKKTIGA   70 (71)
Q Consensus         7 ~~~~~~~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~-~~~l~i~Dt~G~   70 (71)
                      ......+||+++|++++|||||+.++..+.+...+.++++.++....+..++ .+.+++|||+|.
T Consensus        16 ~~~~~~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~Dt~G~   80 (191)
T 2a5j_A           16 PRGSYLFKYIIIGDTGVGKSCLLLQFTDKRFQPVHDLTIGVEFGARMVNIDGKQIKLQIWDTAGQ   80 (191)
T ss_dssp             CTTCEEEEEEEESSTTSSHHHHHHHHHHSCCCC-----CCSSEEEEEEEETTEEEEEEEECCTTG
T ss_pred             cccCcceEEEEECcCCCCHHHHHHHHhcCCCCCCCCCcccceeEEEEEEECCEEEEEEEEECCCc
Confidence            3456789999999999999999999999999888899999998888787776 689999999984

>2atv_A RERG, RAS-like estrogen-regulated growth inhibitor; GDP/GTP binding, GTP hydrolysis, structural genomics, structural genomics consortium, SGC; HET: GDP; 1.90A {Homo sapiens} SCOP: c.37.1.8

Probab=99.67  E-value=5.3e-16  Score=88.03  Aligned_cols=62  Identities=21%  Similarity=0.305  Sum_probs=51.4

Q ss_pred             CceeeeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCCEEEEEEEcCCCC
Q psy2514           9 GSIKGTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRGTFTRDYKKTIGA   70 (71)
Q Consensus         9 ~~~~~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~   70 (71)
                      +...+||+++|+++||||||+.++..+.|...+.||++.++.......+..+.+++|||+|.
T Consensus        25 ~~~~~ki~v~G~~~vGKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~Dt~G~   86 (196)
T 2atv_A           25 KSAEVKLAIFGRAGVGKSALVVRFLTKRFIWEYDPTLESTYRHQATIDDEVVSMEILDTAGQ   86 (196)
T ss_dssp             --CCEEEEEECCTTSSHHHHHHHHHHSCCCSCCCTTCCEEEEEEEEETTEEEEEEEEECCCC
T ss_pred             CCCceEEEEECCCCCCHHHHHHHHHhCCCCcccCCCCCceEEEEEEECCEEEEEEEEECCCC
Confidence            45679999999999999999999999999999999999877544333344789999999984

>1z0f_A RAB14, member RAS oncogene family; RAB GTPase, vesicular trafficking, protein transport; HET: GDP; 2.15A {Homo sapiens} SCOP: c.37.1.8 PDB: 2aed_A* 4drz_A*

Probab=99.66  E-value=1.1e-15  Score=84.86  Aligned_cols=64  Identities=25%  Similarity=0.310  Sum_probs=56.1

Q ss_pred             ccCceeeeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCC-EEEEEEEcCCCC
Q psy2514           7 LRGSIKGTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRG-TFTRDYKKTIGA   70 (71)
Q Consensus         7 ~~~~~~~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~-~~~l~i~Dt~G~   70 (71)
                      .+.+..+|++++|++++|||||++++..+.+...+.++.+.++....+..++ .+.+.+|||+|.
T Consensus        10 ~~~~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~Dt~G~   74 (179)
T 1z0f_A           10 YNYSYIFKYIIIGDMGVGKSCLLHQFTEKKFMADCPHTIGVEFGTRIIEVSGQKIKLQIWDTAGQ   74 (179)
T ss_dssp             -CCSEEEEEEEECSTTSSHHHHHHHHHHSCCCSSCTTSCCCCEEEEEEEETTEEEEEEEEECTTG
T ss_pred             cccccceEEEEECCCCCCHHHHHHHHHcCCCCCCCCCccceEEEEEEEEECCeEEEEEEEECCCC
Confidence            3456689999999999999999999999999988999999988887777766 789999999984

>1mh1_A RAC1; GTP-binding, GTPase, small G-protein, RHO family, RAS super family; HET: GNP; 1.38A {Homo sapiens} SCOP: c.37.1.8 PDB: 1hh4_A* 2p2l_A* 2h7v_A* 1g4u_R* 1i4d_D* 1i4l_D* 2vrw_A 1e96_A* 1i4t_D* 2rmk_A* 2yin_C 1ryf_A* 1ryh_A* 3su8_A* 3sua_A* 2fju_A* 1he1_C* 2nz8_A 1foe_B 3bji_C ...

Probab=99.66  E-value=7.7e-16  Score=86.05  Aligned_cols=61  Identities=25%  Similarity=0.280  Sum_probs=51.7

Q ss_pred             ceeeeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCCEEEEEEEcCCCC
Q psy2514          10 SIKGTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRGTFTRDYKKTIGA   70 (71)
Q Consensus        10 ~~~~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~   70 (71)
                      ...+|++++|++++|||||+.++..+.|...+.||++..+.......+..+.+++|||+|.
T Consensus         3 ~~~~~i~~~G~~~~GKssl~~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~i~Dt~G~   63 (186)
T 1mh1_A            3 PQAIKCVVVGDGAVGKTCLLISYTTNAFPGEYIPTVFDNYSANVMVDGKPVNLGLWDTAGQ   63 (186)
T ss_dssp             CEEEEEEEECSTTSSHHHHHHHHHHSSCCSSCCCCSCCEEEEEEEETTEEEEEEEECCCCS
T ss_pred             CcEEEEEEECCCCCCHHHHHHHHHcCCCCCCcCCcccceeEEEEEECCEEEEEEEEECCCC
Confidence            3569999999999999999999999999999999998777544443344889999999985

>1z06_A RAS-related protein RAB-33B; RAB GTPase, RAB33B GTPase, vesicular trafficking, protein transport; HET: GNP; 1.81A {Mus musculus} SCOP: c.37.1.8 PDB: 2g77_B*

Probab=99.66  E-value=9.7e-16  Score=86.44  Aligned_cols=61  Identities=26%  Similarity=0.416  Sum_probs=54.7

Q ss_pred             ceeeeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCC-EEEEEEEcCCCC
Q psy2514          10 SIKGTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRG-TFTRDYKKTIGA   70 (71)
Q Consensus        10 ~~~~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~-~~~l~i~Dt~G~   70 (71)
                      ...+||+++|++++|||||+.++..+.+...+.++++.++....+..++ .+.+.+|||+|.
T Consensus        18 ~~~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~Dt~G~   79 (189)
T 1z06_A           18 SRIFKIIVIGDSNVGKTCLTYRFCAGRFPDRTEATIGVDFRERAVDIDGERIKIQLWDTAGQ   79 (189)
T ss_dssp             -CEEEEEEECCTTSSHHHHHHHHHHSSCCSSCCCCCSCCEEEEEEEETTEEEEEEEEECCCS
T ss_pred             CceEEEEEECCCCCCHHHHHHHHHcCCCCCCCCCCcceEEEEEEEEECCEEEEEEEEECCCc
Confidence            4569999999999999999999999999988999999998888887776 689999999984

>2j1l_A RHO-related GTP-binding protein RHOD; GTPase, membrane, prenylation, hydrolase, nucleotide-binding, methylation, lipoprotein, endosome DYNA; HET: GDP; 2.5A {Homo sapiens}

Probab=99.66  E-value=3.4e-16  Score=90.24  Aligned_cols=61  Identities=23%  Similarity=0.326  Sum_probs=42.7

Q ss_pred             ceeeeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCCEEEEEEEcCCCC
Q psy2514          10 SIKGTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRGTFTRDYKKTIGA   70 (71)
Q Consensus        10 ~~~~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~   70 (71)
                      ...+||+++|+++||||||+.++..+.|...+.||++..+.......+..+.+++|||+|.
T Consensus        32 ~~~~ki~vvG~~~vGKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~l~l~Dt~G~   92 (214)
T 2j1l_A           32 VRSVKVVLVGDGGCGKTSLLMVFADGAFPESYTPTVFERYMVNLQVKGKPVHLHIWDTAGQ   92 (214)
T ss_dssp             CCEEEEEEEECTTSSHHHHHHHHHC-------CCCCCEEEEEEEEETTEEEEEEEEEC---
T ss_pred             cceEEEEEECcCCCCHHHHHHHHHcCCCCCCCCCccceeEEEEEEECCEEEEEEEEECCCc
Confidence            4569999999999999999999999999888999998777544433344789999999984

>1x3s_A RAS-related protein RAB-18; GTPase, GNP, structural genomics, NPPSFA, national project on protein structural and functional analyses; HET: GNP; 1.32A {Homo sapiens} SCOP: c.37.1.8

Probab=99.66  E-value=9.1e-16  Score=86.39  Aligned_cols=62  Identities=27%  Similarity=0.362  Sum_probs=55.4

Q ss_pred             CceeeeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCC-EEEEEEEcCCCC
Q psy2514           9 GSIKGTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRG-TFTRDYKKTIGA   70 (71)
Q Consensus         9 ~~~~~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~-~~~l~i~Dt~G~   70 (71)
                      ....+||+++|++++|||||+.++..+.|...+.|+++.++....+..++ .+.+.+|||+|.
T Consensus        12 ~~~~~~i~v~G~~~~GKssli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~Dt~G~   74 (195)
T 1x3s_A           12 VLTTLKILIIGESGVGKSSLLLRFTDDTFDPELAATIGVDFKVKTISVDGNKAKLAIWDTAGQ   74 (195)
T ss_dssp             EEEEEEEEEECSTTSSHHHHHHHHHHSCCCTTCCCCCSEEEEEEEEEETTEEEEEEEEEECSS
T ss_pred             CCCceEEEEECCCCCCHHHHHHHHHcCCCCccCCCccceEEEEEEEEECCeEEEEEEEeCCCc
Confidence            34579999999999999999999999999989999999998887777765 789999999984

>3cpj_B GTP-binding protein YPT31/YPT8; RAB GTPase, prenylation, vesicular transport, acetylation, golgi apparatus, lipoprotein, membrane; HET: GDP; 2.35A {Saccharomyces cerevisiae}

Probab=99.66  E-value=7.2e-16  Score=89.23  Aligned_cols=64  Identities=27%  Similarity=0.417  Sum_probs=50.5

Q ss_pred             ccCceeeeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCC-EEEEEEEcCCCC
Q psy2514           7 LRGSIKGTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRG-TFTRDYKKTIGA   70 (71)
Q Consensus         7 ~~~~~~~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~-~~~l~i~Dt~G~   70 (71)
                      +..+..+||+++|+++||||||+.++..+.|...+.||++.++....+..++ .+.+++|||+|.
T Consensus         8 ~~~~~~~ki~v~G~~~vGKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~Dt~G~   72 (223)
T 3cpj_B            8 YDYDLLFKIVLIGDSGVGKSNLLSRFTKNEFNMDSKSTIGVEFATRTLEIEGKRIKAQIWDTAGQ   72 (223)
T ss_dssp             --CCEEEEEEEESCTTSSHHHHHHHHHHCCCCC------CCSEEEEEEEETTEEEEEEEECCTTT
T ss_pred             CCCCeeeEEEEECcCCCCHHHHHHHHhcCCCCCCCCCcccceeEEEEEEECCEEEEEEEEECCCc
Confidence            3456789999999999999999999999999988999999999888777776 689999999984

>1ek0_A Protein (GTP-binding protein YPT51); vesicular traffic, GTP hydrolysis, YPT/RAB protein, endocytosis, hydrolase; HET: MHO GNP GDP; 1.48A {Saccharomyces cerevisiae} SCOP: c.37.1.8

Probab=99.66  E-value=1.2e-15  Score=84.02  Aligned_cols=60  Identities=27%  Similarity=0.355  Sum_probs=53.7

Q ss_pred             eeeeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCC-EEEEEEEcCCCC
Q psy2514          11 IKGTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRG-TFTRDYKKTIGA   70 (71)
Q Consensus        11 ~~~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~-~~~l~i~Dt~G~   70 (71)
                      ..+|++++|++++|||||+.++..+.+...+.|+++.++.......++ .+.+.+|||+|.
T Consensus         2 ~~~~i~v~G~~~~GKssli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~G~   62 (170)
T 1ek0_A            2 TSIKLVLLGEAAVGKSSIVLRFVSNDFAENKEPTIGAAFLTQRVTINEHTVKFEIWDTAGQ   62 (170)
T ss_dssp             EEEEEEEECSTTSSHHHHHHHHHHSCCCTTCCCCSSEEEEEEEEEETTEEEEEEEEEECCS
T ss_pred             ceEEEEEECCCCCCHHHHHHHHhcCCCCCCCCCccceeEEEEEEEECCEEEEEEEEECCCC
Confidence            358999999999999999999999999988999999988877777765 789999999984

>1zbd_A Rabphilin-3A; G protein, effector, RABCDR, synaptic exocytosis, RAB protein, RAB3A; HET: GTP; 2.60A {Rattus norvegicus} SCOP: c.37.1.8

Probab=99.66  E-value=1.4e-15  Score=86.50  Aligned_cols=62  Identities=26%  Similarity=0.410  Sum_probs=55.4

Q ss_pred             CceeeeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCC-EEEEEEEcCCCC
Q psy2514           9 GSIKGTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRG-TFTRDYKKTIGA   70 (71)
Q Consensus         9 ~~~~~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~-~~~l~i~Dt~G~   70 (71)
                      .+..+||+++|++++|||||+.++..+.|...+.|+++.++....+..++ .+.+++|||+|.
T Consensus         5 ~~~~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~Dt~G~   67 (203)
T 1zbd_A            5 FDYMFKILIIGNSSVGKTSFLFRYADDSFTPAFVSTVGIDFKVKTIYRNDKRIKLQIWDTAGL   67 (203)
T ss_dssp             CSEEEEEEEECSTTSSHHHHHHHHHTCCCCSCCCCCCSEEEEEEEEEETTEEEEEEEEEECCS
T ss_pred             cceeeEEEEECCCCCCHHHHHHHHhcCCCCCCcCCccceeEEEEEEEECCeEEEEEEEECCCc
Confidence            35679999999999999999999999999888999999988877777765 789999999984

>2efe_B Small GTP-binding protein-like; GEF, GTPase, VPS9, nucleotide, transport protein; HET: GNH; 2.08A {Arabidopsis thaliana} PDB: 2efd_B 2efc_B* 2efh_B*

Probab=99.65  E-value=1.6e-15  Score=84.59  Aligned_cols=63  Identities=25%  Similarity=0.334  Sum_probs=55.1

Q ss_pred             cCceeeeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCC-EEEEEEEcCCCC
Q psy2514           8 RGSIKGTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRG-TFTRDYKKTIGA   70 (71)
Q Consensus         8 ~~~~~~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~-~~~l~i~Dt~G~   70 (71)
                      ++...+|++++|++++|||||+.++..+.+...+.++++.++....+..++ .+.+++|||+|.
T Consensus         8 ~~~~~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~Dt~G~   71 (181)
T 2efe_B            8 NKSINAKLVLLGDVGAGKSSLVLRFVKDQFVEFQESTIGAAFFSQTLAVNDATVKFEIWDTAGQ   71 (181)
T ss_dssp             --CEEEEEEEECCTTSCHHHHHHHHHHCCCTTTSCCCSCCSEEEEEEEETTEEEEEEEEECCCS
T ss_pred             CCccceEEEEECcCCCCHHHHHHHHHcCCCCCcCCCCceeEEEEEEEEECCEEEEEEEEeCCCC
Confidence            345679999999999999999999999999988899999988887777765 789999999984

>1g16_A RAS-related protein SEC4; G protein RAB, signaling protein, endocytosis/exocytosis complex; HET: GDP; 1.80A {Saccharomyces cerevisiae} SCOP: c.37.1.8 PDB: 1g17_A* 2ocy_C 2eqb_A

Probab=99.65  E-value=8.5e-16  Score=84.73  Aligned_cols=60  Identities=22%  Similarity=0.402  Sum_probs=47.3

Q ss_pred             eeeeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCC-EEEEEEEcCCCC
Q psy2514          11 IKGTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRG-TFTRDYKKTIGA   70 (71)
Q Consensus        11 ~~~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~-~~~l~i~Dt~G~   70 (71)
                      ..+|++++|++++|||||+.++..+.+...+.|+++.++....+..++ .+.+.+|||+|.
T Consensus         2 ~~~~i~v~G~~~~GKssli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~D~~G~   62 (170)
T 1g16_A            2 SIMKILLIGDSGVGKSCLLVRFVEDKFNPSFITTIGIDFKIKTVDINGKKVKLQIWDTAGQ   62 (170)
T ss_dssp             CEEEEEEEESTTSSHHHHHHHHHHCCCCC-------CCEEEEEEESSSCEEEEEEECCTTG
T ss_pred             CceEEEEECcCCCCHHHHHHHHHhCCCCCCCCCccceeEEEEEEEECCEEEEEEEEeCCCC
Confidence            468999999999999999999999999888999999988877777665 789999999984

>2gf9_A RAS-related protein RAB-3D; G-protein, structural genomics, structural genomics consortium, SGC, protein transport; HET: GDP; 1.53A {Homo sapiens} PDB: 3rab_A*

Probab=99.65  E-value=2e-15  Score=85.18  Aligned_cols=62  Identities=24%  Similarity=0.435  Sum_probs=55.2

Q ss_pred             CceeeeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCC-EEEEEEEcCCCC
Q psy2514           9 GSIKGTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRG-TFTRDYKKTIGA   70 (71)
Q Consensus         9 ~~~~~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~-~~~l~i~Dt~G~   70 (71)
                      .+..+||+++|++++|||||+.++..+.|...+.++++.++....+..++ .+.+.+|||+|.
T Consensus        19 ~~~~~ki~vvG~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~Dt~G~   81 (189)
T 2gf9_A           19 SDYMFKLLLIGNSSVGKTSFLFRYADDSFTPAFVSTVGIDFKVKTVYRHDKRIKLQIWDTAGQ   81 (189)
T ss_dssp             CSEEEEEEEECSTTSSHHHHHHHHHHSCCCCSCCCCCCCEEEEEEEEETTEEEEEEEEECCSC
T ss_pred             cCceeEEEEECCCCCCHHHHHHHHHcCCCCCCcCCceeEEEEEEEEEECCeEEEEEEEeCCCc
Confidence            45679999999999999999999999999888999999988877777665 789999999984

>1z0j_A RAB-22, RAS-related protein RAB-22A; RAB GTPase, RAB22 GTPase, rabenosyn, endosomal trafficking; HET: GTP; 1.32A {Mus musculus} SCOP: c.37.1.8 PDB: 1yvd_A*

Probab=99.65  E-value=1.6e-15  Score=83.57  Aligned_cols=61  Identities=23%  Similarity=0.259  Sum_probs=54.6

Q ss_pred             ceeeeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCC-EEEEEEEcCCCC
Q psy2514          10 SIKGTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRG-TFTRDYKKTIGA   70 (71)
Q Consensus        10 ~~~~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~-~~~l~i~Dt~G~   70 (71)
                      ...+|++++|++++|||||++++..+.+...+.|+.+.++.......++ .+.+.+|||+|.
T Consensus         4 ~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Dt~G~   65 (170)
T 1z0j_A            4 LRELKVCLLGDTGVGKSSIMWRFVEDSFDPNINPTIGASFMTKTVQYQNELHKFLIWDTAGL   65 (170)
T ss_dssp             EEEEEEEEECCTTSSHHHHHHHHHHSCCCTTCCCCCSEEEEEEEEEETTEEEEEEEEEECCS
T ss_pred             CcceEEEEECcCCCCHHHHHHHHHcCCCCCCCCCceeEEEEEEEEEECCeEEEEEEEcCCCc
Confidence            4569999999999999999999999999988999999988877777765 789999999984

>2p5s_A RAS and EF-hand domain containing; G-protein, RAB, GDP, structural genomics, SGC, structural genomics consortium, signaling protein; HET: GDP; 2.15A {Homo sapiens}

Probab=99.65  E-value=6.7e-16  Score=87.89  Aligned_cols=64  Identities=28%  Similarity=0.448  Sum_probs=44.6

Q ss_pred             ccCceeeeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCC-EEEEEEEcCCCC
Q psy2514           7 LRGSIKGTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRG-TFTRDYKKTIGA   70 (71)
Q Consensus         7 ~~~~~~~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~-~~~l~i~Dt~G~   70 (71)
                      ......+||+++|++++|||||+.++..+.|...+.++++.++....+..++ .+.+++|||+|.
T Consensus        23 ~~~~~~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~   87 (199)
T 2p5s_A           23 FSSQKAYKIVLAGDAAVGKSSFLMRLCKNEFRENISATLGVDFQMKTLIVDGERTVLQLWDTAGQ   87 (199)
T ss_dssp             -----CEEEEEESSTTSSHHHHHHHHHHCCCC----------CEEEEEEETTEEEEEEEEECTTC
T ss_pred             cCcCCCeEEEEECcCCCCHHHHHHHHHhCCCCccCCCCccceeEEEEEEECCEEEEEEEEECCCC
Confidence            3455679999999999999999999999999888999999988877777766 688999999984

>2q3h_A RAS homolog gene family, member U; GTPase, structural genomics, structural genomics consortium,; HET: GDP; 1.73A {Homo sapiens}

Probab=99.65  E-value=5e-16  Score=88.23  Aligned_cols=62  Identities=26%  Similarity=0.341  Sum_probs=43.0

Q ss_pred             cCceeeeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCC-EEEEEEEcCCCC
Q psy2514           8 RGSIKGTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRG-TFTRDYKKTIGA   70 (71)
Q Consensus         8 ~~~~~~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~-~~~l~i~Dt~G~   70 (71)
                      .....+||+++|+++||||||+.++..+.|...+.||++..+... +..++ .+.+++|||+|.
T Consensus        16 ~~~~~~ki~~~G~~~~GKssl~~~l~~~~~~~~~~~t~~~~~~~~-~~~~~~~~~~~i~Dt~G~   78 (201)
T 2q3h_A           16 AEGRGVKCVLVGDGAVGKTSLVVSYTTNGYPTEYIPTAFDNFSAV-VSVDGRPVRLQLCDTAGQ   78 (201)
T ss_dssp             ----CEEEEEECSTTSSHHHHHHHHHC--------CCSSEEEEEE-EEETTEEEEEEEEECCCS
T ss_pred             CCCcceEEEEECCCCCCHHHHHHHHHhCCCCCCCCCcccceeEEE-EEECCEEEEEEEEECCCC
Confidence            345679999999999999999999999999989999999777544 44444 789999999985

>2fg5_A RAB-22B, RAS-related protein RAB-31; G-protein, GTP analogue, structural genomics, structural genomics consortium, SGC, signaling protein; HET: GNP; 2.80A {Homo sapiens} SCOP: c.37.1.8

Probab=99.65  E-value=1.5e-15  Score=86.04  Aligned_cols=62  Identities=24%  Similarity=0.307  Sum_probs=54.6

Q ss_pred             CceeeeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeC-CEEEEEEEcCCCC
Q psy2514           9 GSIKGTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCR-GTFTRDYKKTIGA   70 (71)
Q Consensus         9 ~~~~~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~-~~~~l~i~Dt~G~   70 (71)
                      ....+||+++|++++|||||+.++..+.|...+.|+++.++....+..+ ..+.+.+|||+|.
T Consensus        20 ~~~~~ki~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~Dt~G~   82 (192)
T 2fg5_A           20 AIRELKVCLLGDTGVGKSSIVCRFVQDHFDHNISPTIGASFMTKTVPCGNELHKFLIWDTAGQ   82 (192)
T ss_dssp             -CEEEEEEEEECTTSSHHHHHHHHHHCCCCTTCCCCSSEEEEEEEEECSSSEEEEEEEEECCS
T ss_pred             cCCceEEEEECcCCCCHHHHHHHHhcCCCCCCcCCCcceeEEEEEEEeCCEEEEEEEEcCCCc
Confidence            3567999999999999999999999999988899999998887777665 4889999999984

>1c1y_A RAS-related protein RAP-1A; GTP-binding proteins, protein-protein complex, effectors, signaling protein; HET: GTP; 1.90A {Homo sapiens} SCOP: c.37.1.8 PDB: 3kuc_A* 1gua_A* 3cf6_R* 3brw_D*

Probab=99.65  E-value=8.2e-16  Score=84.58  Aligned_cols=59  Identities=24%  Similarity=0.360  Sum_probs=50.5

Q ss_pred             eeeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCCEEEEEEEcCCCC
Q psy2514          12 KGTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRGTFTRDYKKTIGA   70 (71)
Q Consensus        12 ~~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~   70 (71)
                      .+|++++|++++|||||++++..+.+...+.||++..+.......+..+.+++|||+|.
T Consensus         3 ~~ki~v~G~~~~GKssli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~D~~G~   61 (167)
T 1c1y_A            3 EYKLVVLGSGGVGKSALTVQFVQGIFVEKYDPTIEDSYRKQVEVDCQQCMLEILDTAGT   61 (167)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHCCCCCSCCCCSEEEEEEEEESSSCEEEEEEEEECSS
T ss_pred             eeEEEEECCCCCCHHHHHHHHHcCCCCCCCCCCccceEEEEEEECCEEEEEEEEECCCh
Confidence            58999999999999999999999999989999999877644333345899999999984

>3oes_A GTPase rhebl1; small GTPase, structural genomics, structural genomics conso SGC, hydrolase; HET: GNP; 2.30A {Homo sapiens}

Probab=99.65  E-value=6.3e-16  Score=88.11  Aligned_cols=64  Identities=27%  Similarity=0.392  Sum_probs=49.9

Q ss_pred             ccCceeeeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCCEEEEEEEcCCCC
Q psy2514           7 LRGSIKGTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRGTFTRDYKKTIGA   70 (71)
Q Consensus         7 ~~~~~~~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~   70 (71)
                      +.....+||+++|+++||||||++++..+.+...+.||++..+.......+..+.+.+|||+|.
T Consensus        19 ~~~~~~~ki~vvG~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~Dt~G~   82 (201)
T 3oes_A           19 MPLVRYRKVVILGYRCVGKTSLAHQFVEGEFSEGYDPTVENTYSKIVTLGKDEFHLHLVDTAGQ   82 (201)
T ss_dssp             ----CEEEEEEEESTTSSHHHHHHHHHHSCCCSCCCCCSEEEEEEEEC----CEEEEEEEECCC
T ss_pred             CCCCCcEEEEEECCCCcCHHHHHHHHHhCCCCCCCCCccceEEEEEEEECCEEEEEEEEECCCc
Confidence            4456689999999999999999999999999999999999887443333345789999999984

>1ky3_A GTP-binding protein YPT7P; vesicular traffic, GTP hydrolysis, YPT/RAB protein, endocytosis, hydrolase, endocytosis/exocytosis complex; HET: GDP; 1.35A {Saccharomyces cerevisiae} SCOP: c.37.1.8 PDB: 1ky2_A*

Probab=99.65  E-value=5.6e-16  Score=86.25  Aligned_cols=63  Identities=29%  Similarity=0.422  Sum_probs=49.6

Q ss_pred             cCceeeeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeC-C-EEEEEEEcCCCC
Q psy2514           8 RGSIKGTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCR-G-TFTRDYKKTIGA   70 (71)
Q Consensus         8 ~~~~~~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~-~-~~~l~i~Dt~G~   70 (71)
                      +....+||+++|++++|||||+.++..+.+...+.|+++.++....+..+ + .+.+.+|||+|.
T Consensus         4 ~~~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~   68 (182)
T 1ky3_A            4 RKKNILKVIILGDSGVGKTSLMHRYVNDKYSQQYKATIGADFLTKEVTVDGDKVATMQVWDTAGQ   68 (182)
T ss_dssp             ---CEEEEEEECCTTSSHHHHHHHHHHSCCCTTC---CCCSCEEEEECCSSSCCEEEEEECCC--
T ss_pred             ccCceEEEEEECCCCCCHHHHHHHHHhCcCCcccCCccceEEEEEEEEEcCCcEEEEEEEECCCC
Confidence            45567999999999999999999999999998999999988887777665 3 688999999984

>2gco_A H9, RHO-related GTP-binding protein RHOC; GTPase,signaling protein, signaling Pro; HET: GNP; 1.40A {Homo sapiens} PDB: 2gcn_A* 2gcp_A* 1z2c_A* 1x86_B 2rgn_C* 1lb1_B 1s1c_A* 3kz1_E* 3lxr_A* 3lwn_A* 3lw8_A* 1cxz_A* 1a2b_A* 1ow3_B* 1ftn_A* 1cc0_A* 3msx_A* 1xcg_B 3t06_B 1tx4_B* ...

Probab=99.65  E-value=1.1e-15  Score=87.15  Aligned_cols=62  Identities=23%  Similarity=0.296  Sum_probs=52.8

Q ss_pred             CceeeeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCCEEEEEEEcCCCC
Q psy2514           9 GSIKGTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRGTFTRDYKKTIGA   70 (71)
Q Consensus         9 ~~~~~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~   70 (71)
                      ....+||+++|++++|||||+.++..+.+...+.||++.++.......+..+.+.+|||+|.
T Consensus        22 ~~~~~ki~vvG~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~   83 (201)
T 2gco_A           22 AAIRKKLVIVGDGACGKTCLLIVFSKDQFPEVYVPTVFENYIADIEVDGKQVELALWDTAGQ   83 (201)
T ss_dssp             CCEEEEEEEEESTTSSHHHHHHHHHHSSCCSSCCCSSCCCCEEEEEETTEEEEEEEECCCCS
T ss_pred             cccceEEEEECCCCCCHHHHHHHHHhCcCCcccCCcccceEEEEEEECCEEEEEEEEECCCc
Confidence            45679999999999999999999999999999999999888755433334789999999984

>2il1_A RAB12; G-protein, GDP, GTPase, predicted, structural genomics, structural genomics consortium, SGC, protein transport; HET: GDP; 2.10A {Homo sapiens}

Probab=99.65  E-value=9.4e-16  Score=86.96  Aligned_cols=63  Identities=30%  Similarity=0.468  Sum_probs=49.0

Q ss_pred             cCceeeeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCC-EEEEEEEcCCCC
Q psy2514           8 RGSIKGTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRG-TFTRDYKKTIGA   70 (71)
Q Consensus         8 ~~~~~~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~-~~~l~i~Dt~G~   70 (71)
                      ..+..+||+++|++++|||||+.++..+.+...+.|+++.++....+..++ .+.+.+|||+|.
T Consensus        22 ~~~~~~ki~vvG~~~~GKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~l~Dt~G~   85 (192)
T 2il1_A           22 PADFKLQVIIIGSRGVGKTSLMERFTDDTFCEACKSTVGVDFKIKTVELRGKKIRLQIWDTAGQ   85 (192)
T ss_dssp             CCSEEEEEEEECSTTSSHHHHHHHHCC--------CCTTEEEEEEEEEETTEEEEEEEEEECCS
T ss_pred             ccCCceEEEEECCCCCCHHHHHHHHhcCCCCcCCCCccceeEEEEEEEECCeEEEEEEEeCCCc
Confidence            345679999999999999999999999999888999999999888887776 789999999984

>1oix_A RAS-related protein RAB-11A; small G protein, intracellular trafficking, GTP-binding, lipoprotein, prenylation, protein transport; HET: GDP; 1.7A {Homo sapiens} SCOP: c.37.1.8 PDB: 1oiw_A* 1oiv_A* 3rwo_B* 3rwm_B*

Probab=99.64  E-value=2.7e-15  Score=85.22  Aligned_cols=62  Identities=31%  Similarity=0.428  Sum_probs=55.3

Q ss_pred             CceeeeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCC-EEEEEEEcCCCC
Q psy2514           9 GSIKGTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRG-TFTRDYKKTIGA   70 (71)
Q Consensus         9 ~~~~~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~-~~~l~i~Dt~G~   70 (71)
                      .+..++++++|++|||||||++++....+...+.||++.++....+..++ .+.+++|||+|.
T Consensus        26 ~~~~~kv~lvG~~g~GKSTLl~~l~~~~~~~~~~~t~~~~~~~~~i~~~g~~~~~~i~Dt~g~   88 (191)
T 1oix_A           26 YDYLFKVVLIGDSGVGKSNLLSRFTRNEFNLESKSTIGVEFATRSIQVDGKTIKAQIWDTAGL   88 (191)
T ss_dssp             CSEEEEEEEEECTTSSHHHHHHHHHHSCCCCSCCCCCSEEEEEEEEEETTEEEEEEEEEECSC
T ss_pred             cCcceEEEEECcCCCCHHHHHHHHhcCCCCCCCCCccceEEEEEEEEECCEEEEEEEEECCCC
Confidence            34579999999999999999999999999988999999999888887776 678999999884

>3cbq_A GTP-binding protein REM 2; FLJ38964A, structural genomics consortium, SGC, GDP, membrane, nucleotide-binding, nucleotide binding protein; HET: GDP; 1.82A {Homo sapiens}

Probab=99.64  E-value=5.9e-16  Score=88.33  Aligned_cols=64  Identities=13%  Similarity=-0.046  Sum_probs=49.0

Q ss_pred             ccCceeeeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCC-EEEEEEEcCCCC
Q psy2514           7 LRGSIKGTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRG-TFTRDYKKTIGA   70 (71)
Q Consensus         7 ~~~~~~~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~-~~~l~i~Dt~G~   70 (71)
                      .+....+||+++|+++||||||+.++....+...+.|+++.++....+..++ .+.+.+|||+|.
T Consensus        18 ~~~~~~~ki~vvG~~~vGKSsLi~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~i~Dt~g~   82 (195)
T 3cbq_A           18 GQKDGIFKVMLVGESGVGKSTLAGTFGGLQGDSAHEPENPEDTYERRIMVDKEEVTLVVYDIWEQ   82 (195)
T ss_dssp             ----CEEEEEEECSTTSSHHHHHHHTCCEECCGGGTTTSCTTEEEEEEEETTEEEEEEEECCCCC
T ss_pred             CCCCcEEEEEEECCCCCCHHHHHHHHHhccCCccCCCCcccceEEEEEEECCEEEEEEEEecCCC
Confidence            3455679999999999999999999975555444567777777777666665 789999999985

>2bov_A RAla, RAS-related protein RAL-A; C3BOT, exoenzyme, RAla, GTPase, ribosylating toxin, GTP-binding, lipoprotein, prenylation; HET: GDP; 2.66A {Homo sapiens}

Probab=99.64  E-value=1.8e-15  Score=85.90  Aligned_cols=63  Identities=24%  Similarity=0.293  Sum_probs=52.2

Q ss_pred             cCceeeeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCCEEEEEEEcCCCC
Q psy2514           8 RGSIKGTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRGTFTRDYKKTIGA   70 (71)
Q Consensus         8 ~~~~~~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~   70 (71)
                      ++...+||+++|++++|||||+.++..+.+...+.+|++..+.......+..+.+.+|||+|.
T Consensus        10 ~~~~~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~Dt~G~   72 (206)
T 2bov_A           10 NSLALHKVIMVGSGGVGKSALTLQFMYDEFVEDYEPTKADSYRKKVVLDGEEVQIDILDTAGQ   72 (206)
T ss_dssp             -CCCEEEEEEECSTTSSHHHHHHHHHHSCCCTTCCTTCCEEEEEEEEETTEEEEEEEEECCCT
T ss_pred             CCCceEEEEEECCCCCCHHHHHHHHHhCCCCCCCCCccceEEEEEEEECCEEEEEEEEcCCCh
Confidence            345679999999999999999999999999999999999877544433344789999999984

>3bwd_D RAC-like GTP-binding protein ARAC6; G domain, cytoplasm, lipoprotein, membrane, methylation, nucleotide-binding, prenylation, ----; HET: GDP; 1.53A {Arabidopsis thaliana} PDB: 2nty_C* 2wbl_C

Probab=99.64  E-value=1e-16  Score=89.50  Aligned_cols=64  Identities=30%  Similarity=0.304  Sum_probs=37.4

Q ss_pred             ccCceeeeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCCEEEEEEEcCCCC
Q psy2514           7 LRGSIKGTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRGTFTRDYKKTIGA   70 (71)
Q Consensus         7 ~~~~~~~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~   70 (71)
                      +.....+|++++|++++|||||+.++..+.|...+.||++..+.......+..+.+++|||+|.
T Consensus         3 ~~~~~~~ki~v~G~~~~GKssl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~i~Dt~G~   66 (182)
T 3bwd_D            3 MSASRFIKCVTVGDGAVGKTCLLISYTSNTFPTDYVPTVFDNFSANVVVNGATVNLGLWDTAGQ   66 (182)
T ss_dssp             ----CCCEEEEECSTTSSHHHHHHHHHHSCCC----------CBCCCC-------CEEECCCC-
T ss_pred             CCCCceEEEEEECCCCCCHHHHHHHHhcCCCCCCCCCeeeeeEEEEEEECCEEEEEEEEECCCC
Confidence            3445679999999999999999999999999989999998776544333345788999999984

>2g6b_A RAS-related protein RAB-26; G-protein, GTP analogue, structural genomics, structural genomics consortium, SGC, unknown function; HET: GNP; 2.00A {Homo sapiens} SCOP: c.37.1.8

Probab=99.64  E-value=3.9e-15  Score=82.91  Aligned_cols=62  Identities=23%  Similarity=0.366  Sum_probs=54.2

Q ss_pred             CceeeeEEEEeCCCCCHHHHHHHHHhCcCC-CCccCCcceeeEEEEEEeCC-EEEEEEEcCCCC
Q psy2514           9 GSIKGTVVIVGNGAVGKSSMIQRYCRGTFT-RDYKKTIGVKSSMIQRYCRG-TFTRDYKKTIGA   70 (71)
Q Consensus         9 ~~~~~ki~v~G~~~vGKtsl~~~~~~~~f~-~~~~~t~~~~~~~~~~~~~~-~~~l~i~Dt~G~   70 (71)
                      .+..+|++++|++++|||||+.++..+.+. ..+.||++.++.......++ .+.+++|||+|.
T Consensus         7 ~~~~~~i~v~G~~~~GKssli~~l~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~~Dt~G~   70 (180)
T 2g6b_A            7 YDVAFKVMLVGDSGVGKTCLLVRFKDGAFLAGTFISTVGIDFRNKVLDVDGVKVKLQMWDTAGQ   70 (180)
T ss_dssp             CSEEEEEEEECSTTSSHHHHHHHHHHSCCCCCCCCCCCSCEEEEEEEEETTEEEEEEEEECCCC
T ss_pred             CCcceEEEEECcCCCCHHHHHHHHHhCCCCCCCcCCceeeEEEEEEEEECCEEEEEEEEeCCCc
Confidence            456799999999999999999999999885 47889999998877766666 689999999984

>2fv8_A H6, RHO-related GTP-binding protein RHOB; GDP/GTP binding, GTP hydrolysis, structural genomics, structural genomics consortium, SGC; HET: GDP; 1.90A {Homo sapiens} SCOP: c.37.1.8

Probab=99.64  E-value=1.4e-15  Score=87.06  Aligned_cols=61  Identities=23%  Similarity=0.335  Sum_probs=46.1

Q ss_pred             CceeeeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCC-EEEEEEEcCCCC
Q psy2514           9 GSIKGTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRG-TFTRDYKKTIGA   70 (71)
Q Consensus         9 ~~~~~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~-~~~l~i~Dt~G~   70 (71)
                      ....+||+++|+++||||||+.++..+.+...+.||++.++... +..++ .+.+.+|||+|.
T Consensus        22 ~~~~~ki~vvG~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~-~~~~~~~~~~~i~Dt~G~   83 (207)
T 2fv8_A           22 SMIRKKLVVVGDGACGKTCLLIVFSKDEFPEVYVPTVFENYVAD-IEVDGKQVELALWDTAGQ   83 (207)
T ss_dssp             GSEEEEEEEEECTTSSHHHHHHHHHHSSCC-------CCEEEEE-EEETTEEEEEEEEECTTC
T ss_pred             cccCcEEEEECcCCCCHHHHHHHHhcCCCCCcCCCcccceEEEE-EEECCEEEEEEEEECCCc
Confidence            45679999999999999999999999999988999999887655 44454 789999999985

>3bc1_A RAS-related protein RAB-27A; RAB27, GTPase, RAB, signaling protein, GDPNP, SLP2A, exophil GTP-binding, lipoprotein, membrane, methylation; HET: GNP; 1.80A {Mus musculus} PDB: 2iey_A* 2if0_A* 2zet_A*

Probab=99.63  E-value=3.2e-15  Score=83.79  Aligned_cols=63  Identities=21%  Similarity=0.327  Sum_probs=54.2

Q ss_pred             cCceeeeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeE-EEEEEeCC----------EEEEEEEcCCCC
Q psy2514           8 RGSIKGTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSS-MIQRYCRG----------TFTRDYKKTIGA   70 (71)
Q Consensus         8 ~~~~~~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~-~~~~~~~~----------~~~l~i~Dt~G~   70 (71)
                      +.+..+||+++|++++|||||++++..+.+...+.||++.++. .+....++          .+.+.+|||+|.
T Consensus         7 ~~~~~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~   80 (195)
T 3bc1_A            7 DYDYLIKFLALGDSGVGKTSVLYQYTDGKFNSKFITTVGIDFREKRVVYRANGPDGAVGRGQRIHLQLWDTAGL   80 (195)
T ss_dssp             CCSEEEEEEEECSTTSSHHHHHHHHHHSCCCCSCCCCCSEEEEEEEEEECTTSCCCSSCCCEEEEEEEEEECCS
T ss_pred             ccceeEEEEEECCCCCCHHHHHHHHhcCCCCcCcccccceeeeeEEEEEecCCcccccccCcEEEEEEEeCCCc
Confidence            3466799999999999999999999999998889999999887 55555543          589999999984

>1kao_A RAP2A; GTP-binding protein, small G protein, GDP, RAS; HET: GDP; 1.70A {Homo sapiens} SCOP: c.37.1.8 PDB: 2rap_A* 3rap_R*

Probab=99.63  E-value=2.4e-15  Score=82.45  Aligned_cols=58  Identities=28%  Similarity=0.390  Sum_probs=49.5

Q ss_pred             eeeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCC-EEEEEEEcCCCC
Q psy2514          12 KGTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRG-TFTRDYKKTIGA   70 (71)
Q Consensus        12 ~~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~-~~~l~i~Dt~G~   70 (71)
                      .+|++++|++++|||||+.++..+.+...+.|+++..+. .....++ .+.+++|||+|.
T Consensus         3 ~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~l~D~~G~   61 (167)
T 1kao_A            3 EYKVVVLGSGGVGKSALTVQFVTGTFIEKYDPTIEDFYR-KEIEVDSSPSVLEILDTAGT   61 (167)
T ss_dssp             EEEEEEECCTTSSHHHHHHHHHHSCCCSCCCTTCCEEEE-EEEEETTEEEEEEEEECCCT
T ss_pred             EEEEEEECCCCCCHHHHHHHHHcCCCcccCCCCcceeEE-EEEEECCEEEEEEEEECCCc
Confidence            589999999999999999999999999889999986654 4444454 788999999984

>1u8z_A RAS-related protein RAL-A; GNP, GTP, GMPPNP, GPPNHP, GDP, GTPase, signaling protein; HET: GDP; 1.50A {Saguinus oedipus} SCOP: c.37.1.8 PDB: 1u8y_A* 1u90_A* 1uad_A* 1zc3_A* 1zc4_A* 2kwi_A* 2ke5_A*

Probab=99.63  E-value=2.7e-15  Score=82.36  Aligned_cols=60  Identities=25%  Similarity=0.315  Sum_probs=50.3

Q ss_pred             eeeeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCCEEEEEEEcCCCC
Q psy2514          11 IKGTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRGTFTRDYKKTIGA   70 (71)
Q Consensus        11 ~~~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~   70 (71)
                      ..+|++++|++++|||||+.++..+.+...+.||.+..+.......+..+.+.+|||+|.
T Consensus         3 ~~~~i~v~G~~~~GKssl~~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~D~~G~   62 (168)
T 1u8z_A            3 ALHKVIMVGSGGVGKSALTLQFMYDEFVEDYEPTKADSYRKKVVLDGEEVQIDILDTAGQ   62 (168)
T ss_dssp             CEEEEEEECSTTSSHHHHHHHHHHSCCCSCCCTTCCEEEEEEEEETTEEEEEEEEECCC-
T ss_pred             ceEEEEEECCCCCCHHHHHHHHHhCccCCCCCCCcceEEEEEEEECCEEEEEEEEECCCc
Confidence            358999999999999999999999999988999999877544433344789999999984

>4dsu_A GTPase KRAS, isoform 2B; small G-protein, signaling, hydrolase; HET: GDP; 1.70A {Homo sapiens} PDB: 4dsn_A* 4dst_A* 4dso_A*

Probab=99.63  E-value=2.7e-15  Score=83.97  Aligned_cols=61  Identities=26%  Similarity=0.277  Sum_probs=50.8

Q ss_pred             ceeeeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCCEEEEEEEcCCCC
Q psy2514          10 SIKGTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRGTFTRDYKKTIGA   70 (71)
Q Consensus        10 ~~~~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~   70 (71)
                      ...+|++++|++++|||||++++..+.+...+.+|.+..+.......+..+.+++|||+|.
T Consensus         2 ~~~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~i~Dt~G~   62 (189)
T 4dsu_A            2 STEYKLVVVGADGVGKSALTIQLIQNHFVDEYDPTIEDSYRKQVVIDGETCLLDILDTAGQ   62 (189)
T ss_dssp             CEEEEEEEECCTTSSHHHHHHHHHHSSCCCCCCTTCCEEEEEEEEETTEEEEEEEEECCCC
T ss_pred             CcEEEEEEECCCCCCHHHHHHHHHhCCCCCCCCCCchheEEEEEEECCcEEEEEEEECCCc
Confidence            3579999999999999999999999999988999997655544444344788999999984

>2f9l_A RAB11B, member RAS oncogene family; RAB11B GTPase, vesicle transport, hydrolase; HET: GDP; 1.55A {Homo sapiens} SCOP: c.37.1.8 PDB: 2f9m_A* 1yzk_A* 2hv8_A* 2gzd_A* 2gzh_A* 2d7c_A* 3bfk_A*

Probab=99.63  E-value=3.7e-15  Score=84.89  Aligned_cols=61  Identities=31%  Similarity=0.463  Sum_probs=51.9

Q ss_pred             ceeeeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCC-EEEEEEEcCCCC
Q psy2514          10 SIKGTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRG-TFTRDYKKTIGA   70 (71)
Q Consensus        10 ~~~~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~-~~~l~i~Dt~G~   70 (71)
                      +..+|++++|++|+|||||+++++...|...+.||++.++....+..++ .+.+.+|||+|.
T Consensus         3 ~~~~kv~lvG~~g~GKSTLl~~l~~~~~~~~~~~t~~~~~~~~~i~~~g~~~~~~i~Dt~g~   64 (199)
T 2f9l_A            3 DYLFKVVLIGDSGVGKSNLLSRFTRNEFNLESKSTIGVEFATRSIQVDGKTIKAQIWDTAGQ   64 (199)
T ss_dssp             SEEEEEEEESSTTSSHHHHHHHHHHSCCCC---CCCSCEEEEEEEEETTEEEEEEEEECSSG
T ss_pred             cceEEEEEECcCCCCHHHHHHHHhcCCCCCCCCCccceeEEEEEEEECCEEEEEEEEECCCc
Confidence            4579999999999999999999999999888999999888887777776 688999999984

>2erx_A GTP-binding protein DI-RAS2; GTP hydrolysis, transport protein; HET: GDP; 1.65A {Homo sapiens} SCOP: c.37.1.8

Probab=99.63  E-value=2.9e-15  Score=82.61  Aligned_cols=60  Identities=28%  Similarity=0.437  Sum_probs=50.2

Q ss_pred             eeeeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCCEEEEEEEcCCCC
Q psy2514          11 IKGTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRGTFTRDYKKTIGA   70 (71)
Q Consensus        11 ~~~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~   70 (71)
                      ..+||+++|++++|||||++++..+.+...+.|+++..+.......+..+.+.+|||+|.
T Consensus         2 ~~~~i~v~G~~~~GKssli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~Dt~G~   61 (172)
T 2erx_A            2 NDYRVAVFGAGGVGKSSLVLRFVKGTFRESYIPTVEDTYRQVISCDKSICTLQITDTTGS   61 (172)
T ss_dssp             CEEEEEEECCTTSSHHHHHHHHHTCCCCSSCCCCSCEEEEEEEEETTEEEEEEEEECCSC
T ss_pred             CceEEEEECCCCCCHHHHHHHHHcCCCCCCCCCCccccEEEEEEECCEEEEEEEEECCCc
Confidence            358999999999999999999999999888999998776544333334789999999984

>3cph_A RAS-related protein SEC4; RAB GTPase, prenylation, vesicular transport, cytoplasm, cytoplasmic vesicle, exocytosis, GTP-binding; HET: GDP; 2.90A {Saccharomyces cerevisiae} SCOP: c.37.1.8

Probab=99.63  E-value=3.4e-15  Score=85.19  Aligned_cols=62  Identities=21%  Similarity=0.374  Sum_probs=53.9

Q ss_pred             CceeeeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCC-EEEEEEEcCCCC
Q psy2514           9 GSIKGTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRG-TFTRDYKKTIGA   70 (71)
Q Consensus         9 ~~~~~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~-~~~l~i~Dt~G~   70 (71)
                      .+..+||+++|++++|||||+.++..+.+...+.|+++.++....+..++ .+.+.+|||+|.
T Consensus        17 ~~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~   79 (213)
T 3cph_A           17 YDSIMKILLIGDSGVGKSCLLVRFVEDKFNPSFITTIGIDFKIKTVDINGKKVKLQLWDTAGQ   79 (213)
T ss_dssp             ---CEEEEEECSTTSSHHHHHHHHHHCCCCCSSSCCCSCCEEEEEEEETTEEEEEEEECCTTG
T ss_pred             CCcceEEEEECCCCCCHHHHHHHHHhCCCCcccCCcccceEEEEEEEECCEEEEEEEEeCCCc
Confidence            34569999999999999999999999999888999999999888877776 689999999984

>2a9k_A RAS-related protein RAL-A; bacterial ADP-ribosyltransferase, RAL, RHO, GD binding; HET: GDP NAD; 1.73A {Homo sapiens} SCOP: c.37.1.8 PDB: 2a78_A*

Probab=99.62  E-value=3e-15  Score=83.59  Aligned_cols=62  Identities=24%  Similarity=0.296  Sum_probs=51.2

Q ss_pred             CceeeeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCCEEEEEEEcCCCC
Q psy2514           9 GSIKGTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRGTFTRDYKKTIGA   70 (71)
Q Consensus         9 ~~~~~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~   70 (71)
                      ....+||+++|++++|||||++++..+.+...+.+|.+..+.......+..+.+.+|||+|.
T Consensus        15 ~~~~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~Dt~G~   76 (187)
T 2a9k_A           15 SLALHKVIMVGSGGVGKSALTLQFMYDEFVEDYEPTKADSYRKKVVLDGEEVQIDILDTAGQ   76 (187)
T ss_dssp             --CEEEEEEECSTTSSHHHHHHHHHHSCCCCSCCTTCCEEEEEEEEETTEEEEEEEEECCCT
T ss_pred             CCCceEEEEECCCCCCHHHHHHHHhhCCCCCcCCCccceEEEEEEEECCEEEEEEEEECCCC
Confidence            34579999999999999999999999999989999999877544443344789999999984

>4gzl_A RAS-related C3 botulinum toxin substrate 1; rossmann fold, GTP binding, membrane, hydrolase; HET: GNP; 2.00A {Homo sapiens} PDB: 3th5_A* 4gzm_A*

Probab=99.62  E-value=2.4e-15  Score=86.11  Aligned_cols=62  Identities=24%  Similarity=0.265  Sum_probs=49.6

Q ss_pred             CceeeeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCCEEEEEEEcCCCC
Q psy2514           9 GSIKGTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRGTFTRDYKKTIGA   70 (71)
Q Consensus         9 ~~~~~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~   70 (71)
                      ....+||+++|+++||||||+.++..+.+...+.+|++..+.......+..+.+++|||+|.
T Consensus        27 ~~~~~ki~vvG~~~~GKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~   88 (204)
T 4gzl_A           27 QGQAIKCVVVGDGAVGKTCLLISYTTNAFPGEYIPTVFDNYSANVMVDGKPVNLGLWDTAGL   88 (204)
T ss_dssp             ---CEEEEEEESTTSSHHHHHHHHHHSCCCC-CCCCSEEEEEEEEECC-CEEEEEEEEECCS
T ss_pred             cCCeEEEEEECcCCCCHHHHHHHHHhCCCCCCcCCeecceeEEEEEECCEEEEEEEEECCCc
Confidence            34579999999999999999999999999999999998766554444455899999999984

>3gj0_A GTP-binding nuclear protein RAN; G protein, GDP, acetylation, cytoplasm, HOST- virus interaction, nucleotide-binding, nucleus, phosphoprotein; HET: GDP; 1.48A {Homo sapiens} SCOP: c.37.1.8 PDB: 3gj3_A* 3gj5_A* 3gj4_A* 3gj6_A* 3gj7_A* 3gj8_A* 1i2m_A 1a2k_C 1ibr_A* 1k5d_A* 1k5g_A* 1qbk_C* 3a6p_C* 3ch5_A* 4gmx_A* 4gpt_A* 4hat_A* 4hau_A* 4hav_A* 4haw_A* ...

Probab=99.62  E-value=6.4e-16  Score=89.14  Aligned_cols=64  Identities=23%  Similarity=0.393  Sum_probs=56.0

Q ss_pred             ccCceeeeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCC-EEEEEEEcCCCC
Q psy2514           7 LRGSIKGTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRG-TFTRDYKKTIGA   70 (71)
Q Consensus         7 ~~~~~~~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~-~~~l~i~Dt~G~   70 (71)
                      ......+||+++|+++||||||+++++.+.|...+.++.+.++.......++ .+.+.+|||+|.
T Consensus        10 ~~~~~~~ki~v~G~~~~GKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~Dt~G~   74 (221)
T 3gj0_A           10 GEPQVQFKLVLVGDGGTGKTTFVKRHLTGEFEKKYVATLGVEVHPLVFHTNRGPIKFNVWDTAGQ   74 (221)
T ss_dssp             TCCCCEEEEEEEECTTSSHHHHHTTBHHHHHTCEEETTTTEEEEEEEEEETTEEEEEEEEEECSG
T ss_pred             CCcccceEEEEECCCCCCHHHHHHHHHcCCCCCCCCCccceeEEEEEEEECCEEEEEEEEeCCCh
Confidence            4456779999999999999999999999999888999999888877777665 789999999984

>2gf0_A GTP-binding protein DI-RAS1; GDP/GTP binding, GTP hydrolysis, structural genomics, structural genomics consortium, SGC, transport protein; HET: GDP; 1.90A {Homo sapiens} SCOP: c.37.1.8

Probab=99.61  E-value=4.1e-15  Score=84.01  Aligned_cols=61  Identities=33%  Similarity=0.462  Sum_probs=51.1

Q ss_pred             ceeeeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCCEEEEEEEcCCCC
Q psy2514          10 SIKGTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRGTFTRDYKKTIGA   70 (71)
Q Consensus        10 ~~~~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~   70 (71)
                      ...+||+++|++++|||||+.++..+.+...+.||++..+.......+..+.+.+|||+|.
T Consensus         6 ~~~~ki~vvG~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~Dt~G~   66 (199)
T 2gf0_A            6 SNDYRVVVFGAGGVGKSSLVLRFVKGTFRDTYIPTIEDTYRQVISCDKSVCTLQITDTTGS   66 (199)
T ss_dssp             CCCEEEEEEECTTSSHHHHHHHHHHSCCCCTTSCCCCEEEEEEEEETTEEEEEEEEECCGG
T ss_pred             CCeeEEEEECCCCCcHHHHHHHHHcCCCCCcccCccccceeEEEEECCEEEEEEEEeCCCh
Confidence            4569999999999999999999999999988999999776544333334789999999984

>3dz8_A RAS-related protein RAB-3B; GDP, GTPase, structural genomics consortium, SGC, cell GTP-binding, lipoprotein, membrane, methylation; HET: GDP; 1.90A {Homo sapiens} SCOP: c.37.1.8

Probab=99.61  E-value=4.2e-16  Score=88.14  Aligned_cols=63  Identities=27%  Similarity=0.381  Sum_probs=55.8

Q ss_pred             ccCceeeeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCC-EEEEEEEcCCC
Q psy2514           7 LRGSIKGTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRG-TFTRDYKKTIG   69 (71)
Q Consensus         7 ~~~~~~~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~-~~~l~i~Dt~G   69 (71)
                      .+.+..+||+++|+++||||||+.++..+.|...+.++.+.++....+..++ .+.+.+|||+|
T Consensus        18 ~~~~~~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~Dt~G   81 (191)
T 3dz8_A           18 GNFDYMFKLLIIGNSSVGKTSFLFRYADDTFTPAFVSTVGIDFKVKTVYRHEKRVKLQIWDTAG   81 (191)
T ss_dssp             TEEEECEEEEEEESTTSSHHHHHHHHHHHTTCCCEEEEETTTEEEEEEEETTTTEEEEEECHHH
T ss_pred             cccCeeeEEEEECCCCcCHHHHHHHHhcCCCCcccCCCeeeEEEEEEEEECCEEEEEEEEeCCC
Confidence            4456789999999999999999999999999989999999888887777654 78999999987

>3con_A GTPase NRAS; structural genomics consortium, SGC, GDP, oncogene, disease mutation, golgi apparatus, GTP-binding, lipoprotein membrane, methylation; HET: GDP; 1.65A {Homo sapiens} PDB: 2pmx_A* 3gft_A* 4q21_A*

Probab=99.61  E-value=6e-15  Score=83.05  Aligned_cols=62  Identities=27%  Similarity=0.323  Sum_probs=50.4

Q ss_pred             CceeeeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCCEEEEEEEcCCCC
Q psy2514           9 GSIKGTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRGTFTRDYKKTIGA   70 (71)
Q Consensus         9 ~~~~~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~   70 (71)
                      ....+||+++|+++||||||+.++..+.+...+.+|.+..+.......+..+.+.+|||+|.
T Consensus        18 ~~~~~ki~vvG~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~Dt~G~   79 (190)
T 3con_A           18 GMTEYKLVVVGAGGVGKSALTIQLIQNHFVDEYDPTIEDSYRKQVVIDGETCLLDILDTAGQ   79 (190)
T ss_dssp             -CEEEEEEEECSTTSSHHHHHHHHHHSSCCSCCCTTCCEEEEEEEEETTEEEEEEEEECCC-
T ss_pred             ccceeEEEEECcCCCCHHHHHHHHHcCCCccccCCccceEEEEEEEECCEEEEEEEEECCCh
Confidence            34569999999999999999999999999888899998766544333334789999999984

>2f7s_A C25KG, RAS-related protein RAB-27B; G-protein, structural genomics, structural genomics consortium, SGC, signaling protein; HET: GDP; 2.70A {Homo sapiens} SCOP: c.37.1.8 PDB: 2iez_A*

Probab=99.61  E-value=1.9e-15  Score=86.79  Aligned_cols=63  Identities=17%  Similarity=0.296  Sum_probs=54.1

Q ss_pred             cCceeeeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCC-----------EEEEEEEcCCCC
Q psy2514           8 RGSIKGTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRG-----------TFTRDYKKTIGA   70 (71)
Q Consensus         8 ~~~~~~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~-----------~~~l~i~Dt~G~   70 (71)
                      +.+..+||+++|+++||||||+.++..+.|...+.||++.++..+.+..++           .+.+++|||+|.
T Consensus        21 ~~~~~~ki~vvG~~~~GKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~l~Dt~G~   94 (217)
T 2f7s_A           21 DYDYLIKLLALGDSGVGKTTFLYRYTDNKFNPKFITTVGIDFREKRVVYNAQGPNGSSGKAFKVHLQLWDTAGQ   94 (217)
T ss_dssp             CCSEEEEEEEESCTTSSHHHHHHHHHCSCCCCEEEEEEEEEEEEEEEEEEC-------CCEEEEEEEEEEEESH
T ss_pred             CcceeEEEEEECcCCCCHHHHHHHHhcCCCCcCCCCceeEEEEEEEEEECCccccccccCceeEEEEEEECCCc
Confidence            346679999999999999999999999999888999999988776665543           688999999883

>2yc2_C IFT27, small RAB-related GTPase; transport protein, cilium, IFT complex; 2.59A {Chlamydomonas reinhardtii} PDB: 2yc4_C

Probab=99.60  E-value=4.5e-16  Score=88.39  Aligned_cols=62  Identities=26%  Similarity=0.409  Sum_probs=24.9

Q ss_pred             CceeeeEEEEeCCCCCHHHHHHHHHhC--cCCCCccCCcceeeEEEEEEeCC---EEEEEEEcCCCC
Q psy2514           9 GSIKGTVVIVGNGAVGKSSMIQRYCRG--TFTRDYKKTIGVKSSMIQRYCRG---TFTRDYKKTIGA   70 (71)
Q Consensus         9 ~~~~~ki~v~G~~~vGKtsl~~~~~~~--~f~~~~~~t~~~~~~~~~~~~~~---~~~l~i~Dt~G~   70 (71)
                      ....+||+++|++++|||||+.++..+  .|...+.||++.++....+..++   .+.+.+|||+|.
T Consensus        17 ~~~~~~i~v~G~~~~GKssli~~l~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~   83 (208)
T 2yc2_C           17 ATLRCKVAVVGEATVGKSALISMFTSKGSKFLKDYAMTSGVEVVVAPVTIPDTTVSVELFLLDTAGS   83 (208)
T ss_dssp             EEEEEEEEEC----------------------------------CEEEECTTSSEEEEEEEEETTTT
T ss_pred             cccceEEEEECCCCCCHHHHHHHHHhCCCcccCCCCCccceEEEEEEEEECCcccEEEEEEEECCCc
Confidence            356799999999999999999999988  88888999999888877777765   789999999984

>2zej_A Dardarin, leucine-rich repeat kinase 2; parkinson'S disease, LRRK2, ROC, GTPase, ROCO, ATP-B disease mutation, GTP-binding, GTPase activation; HET: GDP; 2.00A {Homo sapiens} PDB: 3d6t_B*

Probab=99.60  E-value=1.1e-15  Score=86.23  Aligned_cols=59  Identities=17%  Similarity=0.223  Sum_probs=39.2

Q ss_pred             eeeEEEEeCCCCCHHHHHHHHHhC--cCCCCccCCcceeeEEEEEEe----CCEEEEEEEcCCCC
Q psy2514          12 KGTVVIVGNGAVGKSSMIQRYCRG--TFTRDYKKTIGVKSSMIQRYC----RGTFTRDYKKTIGA   70 (71)
Q Consensus        12 ~~ki~v~G~~~vGKtsl~~~~~~~--~f~~~~~~t~~~~~~~~~~~~----~~~~~l~i~Dt~G~   70 (71)
                      .+|++++|+++||||||+++++..  .|...+.||++.++....+..    +..+.+++|||+|.
T Consensus         2 ~~kv~ivG~~gvGKStLl~~l~~~~~~~~~~~~~t~g~~~~~~~~~~~~~~~~~~~~~i~Dt~G~   66 (184)
T 2zej_A            2 RMKLMIVGNTGSGKTTLLQQLMKTKKSDLGMQSATVGIDVKDWPIQIRDKRKRDLVLNVWDFAGR   66 (184)
T ss_dssp             -CEEEEESCTTSSHHHHHHHHTCC-----------CSEEEEEEEC---------CEEEEEEECSH
T ss_pred             ceEEEEECCCCCCHHHHHHHHhcCCCccCCCcceeccEEeEEeeeccccCCCCceEEEEEecCCC
Confidence            479999999999999999999974  677778999999887665543    24678999999983

>2ce2_X GTPase HRAS; signaling protein, guanine nucleotide binding protein, fluor membrane, lipoprotein, palmitate, prenylation; HET: GDP XY2; 1.0A {Homo sapiens} PDB: 2cl0_X* 2cl6_X* 2cl7_X* 2clc_X* 2evw_X* 2cld_X* 1aa9_A* 1ioz_A* 1q21_A* 6q21_A* 3k9l_A* 3k9n_A* 1ctq_A* 1bkd_R 1crp_A* 1crq_A* 1crr_A* 121p_A* 1gnp_A* 1gnq_A* ...

Probab=99.60  E-value=9.3e-15  Score=79.91  Aligned_cols=59  Identities=25%  Similarity=0.267  Sum_probs=49.2

Q ss_pred             eeeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCCEEEEEEEcCCCC
Q psy2514          12 KGTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRGTFTRDYKKTIGA   70 (71)
Q Consensus        12 ~~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~   70 (71)
                      .+|++++|++++|||||+.++..+.+...+.++.+..+.......+..+.+.+|||+|.
T Consensus         3 ~~~i~v~G~~~~GKssl~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~G~   61 (166)
T 2ce2_X            3 EYKLVVVGAGGVGKSALTIQLIQNHFVDECDPTIEDSYRKQVVIDGETCLLDILDTAGQ   61 (166)
T ss_dssp             EEEEEEEESTTSSHHHHHHHHHHSSCCSCCCTTCCEEEEEEEEETTEEEEEEEEECCCC
T ss_pred             eeEEEEECCCCCCHHHHHHHHHhCcCccccCCccceEEEEEEEECCEEEEEEEEECCCc
Confidence            48999999999999999999999999888889998766444333344789999999984

>3t1o_A Gliding protein MGLA; G domain containing protein, bacterial GTPase, bacterial POL motility, POLE localisation, alpha/beta protein; HET: GDP; 1.90A {Thermus thermophilus} PDB: 3t12_A* 3t1q_A* 3t1t_A* 3t1v_A*

Probab=99.59  E-value=6.4e-16  Score=86.96  Aligned_cols=63  Identities=13%  Similarity=0.106  Sum_probs=48.4

Q ss_pred             ccCceeeeEEEEeCCCCCHHHHHHHHHhCcCCCCc-----------cCCcceeeEEEEE-EeC-CEEEEEEEcCCCC
Q psy2514           7 LRGSIKGTVVIVGNGAVGKSSMIQRYCRGTFTRDY-----------KKTIGVKSSMIQR-YCR-GTFTRDYKKTIGA   70 (71)
Q Consensus         7 ~~~~~~~ki~v~G~~~vGKtsl~~~~~~~~f~~~~-----------~~t~~~~~~~~~~-~~~-~~~~l~i~Dt~G~   70 (71)
                      .+....+||+++|+++||||||+ +++.+.|...+           .||++.++....+ ..+ ..+.+++|||+|.
T Consensus         9 ~~~~~~~ki~vvG~~~~GKssL~-~~l~~~~~~~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~i~Dt~G~   84 (198)
T 3t1o_A            9 ANREINFKIVYYGPGLSGKTTNL-KWIYSKVPEGRKGEMVSLATEDERTLFFDFLPLDIGEVKGFKTRFHLYTVPGQ   84 (198)
T ss_dssp             TTTEEEEEEEEECSTTSSHHHHH-HHHHHTSCGGGBCCCEEEECSSCEEEEEEECCSSCCCSSSCEEEEEEEECCSC
T ss_pred             hccccccEEEEECCCCCCHHHHH-HHHHhhccccccccccccccccccceeeeecccccccccCCceEEEEEeCCCh
Confidence            34567899999999999999999 67777777664           4577777665444 333 4789999999994

>2nzj_A GTP-binding protein REM 1; GDP/GTP binding, GTP hydrolysis, RAD and GEM like GTP protein 1, structural genomics; HET: GDP; 2.50A {Homo sapiens}

Probab=99.58  E-value=1.3e-14  Score=80.31  Aligned_cols=59  Identities=20%  Similarity=0.137  Sum_probs=44.7

Q ss_pred             eeeeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCC-EEEEEEEcCCCC
Q psy2514          11 IKGTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRG-TFTRDYKKTIGA   70 (71)
Q Consensus        11 ~~~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~-~~~l~i~Dt~G~   70 (71)
                      ..+|++++|+++||||||++++..+.+... .++.+.++..+.+..++ .+.+.+|||+|.
T Consensus         3 ~~~ki~i~G~~~vGKSsl~~~l~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~   62 (175)
T 2nzj_A            3 ALYRVVLLGDPGVGKTSLASLFAGKQERDL-HEQLGEDVYERTLTVDGEDTTLVVVDTWEA   62 (175)
T ss_dssp             CEEEEEEECCTTSSHHHHHHHHHCC------CCCSSSSEEEEEEEETTEEEEEEEECCC--
T ss_pred             eEEEEEEECCCCccHHHHHHHHhcCCCccc-cCccccceeEEEEEECCEEEEEEEEecCCC
Confidence            468999999999999999999998888754 46677777777777766 689999999984

>2g3y_A GTP-binding protein GEM; small GTPase, GDP, inactive state, RGK family, structur genomics, structural genomics consortium, SGC, signaling PR; HET: GDP; 2.40A {Homo sapiens} SCOP: c.37.1.8

Probab=99.58  E-value=1.3e-14  Score=84.25  Aligned_cols=62  Identities=19%  Similarity=0.259  Sum_probs=46.7

Q ss_pred             cCceeeeEEEEeCCCCCHHHHHHHHHh--CcCCCCccCCcceeeEEEEEEeCC-EEEEEEEcCCCC
Q psy2514           8 RGSIKGTVVIVGNGAVGKSSMIQRYCR--GTFTRDYKKTIGVKSSMIQRYCRG-TFTRDYKKTIGA   70 (71)
Q Consensus         8 ~~~~~~ki~v~G~~~vGKtsl~~~~~~--~~f~~~~~~t~~~~~~~~~~~~~~-~~~l~i~Dt~G~   70 (71)
                      .....+||+++|+++||||||+.+|..  ..|...+ ++++.++..+.+..++ .+.+.+|||+|.
T Consensus        33 ~~~~~~kVvlvG~~~vGKSSLl~r~~~~~~~~~~~~-~~~g~d~~~~~i~~~~~~~~l~~~Dt~g~   97 (211)
T 2g3y_A           33 SGNTYYRVVLIGEQGVGKSTLANIFAGVHDSMDSDC-EVLGEDTYERTLMVDGESATIILLDMWEN   97 (211)
T ss_dssp             --CCEEEEEEECCTTSSHHHHHHHHHCCCCTTCCC----CCTTEEEEEEEETTEEEEEEEECCTTT
T ss_pred             cCCCceEEEEECCCCCCHHHHHHHHHhCCCCCCCcC-CccceeeEEEEEEECCeeeEEEEeecCCC
Confidence            345679999999999999999999985  3445444 5678787777776666 788999999985

>1zd9_A ADP-ribosylation factor-like 10B; transport protein, GDP-binding, membrane trafficking, structural genomics, structural genomics consortium, SGC; HET: GDP; 1.70A {Homo sapiens} SCOP: c.37.1.8 PDB: 2al7_A* 2h18_A*

Probab=99.57  E-value=1.2e-14  Score=82.04  Aligned_cols=59  Identities=20%  Similarity=0.281  Sum_probs=50.0

Q ss_pred             CceeeeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCCEEEEEEEcCCCC
Q psy2514           9 GSIKGTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRGTFTRDYKKTIGA   70 (71)
Q Consensus         9 ~~~~~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~   70 (71)
                      ....+||+++|++++|||||+.++..+.+...+.||++.++..  +. .+.+.+++|||+|.
T Consensus        19 ~~~~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~--~~-~~~~~~~l~Dt~G~   77 (188)
T 1zd9_A           19 SKEEMELTLVGLQYSGKTTFVNVIASGQFNEDMIPTVGFNMRK--IT-KGNVTIKLWDIGGQ   77 (188)
T ss_dssp             CCEEEEEEEECSTTSSHHHHHHHHHHSCCCCSCCCCCSEEEEE--EE-ETTEEEEEEEECCS
T ss_pred             CCCccEEEEECCCCCCHHHHHHHHHcCCCCCccCCCCceeEEE--EE-eCCEEEEEEECCCC
Confidence            3457999999999999999999999999988899999987643  33 34588999999984

>3q85_A GTP-binding protein REM 2; G-domain, CAV2 beta, signaling protein; HET: GNP; 1.76A {Mus musculus} SCOP: c.37.1.8 PDB: 4aii_A*

Probab=99.57  E-value=1.7e-14  Score=79.63  Aligned_cols=59  Identities=14%  Similarity=0.003  Sum_probs=41.5

Q ss_pred             eeeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCC-EEEEEEEcCCCC
Q psy2514          12 KGTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRG-TFTRDYKKTIGA   70 (71)
Q Consensus        12 ~~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~-~~~l~i~Dt~G~   70 (71)
                      .+|++++|+++||||||+.++....+...+.++.+.++....+..++ .+.+.+|||+|.
T Consensus         2 ~~ki~ivG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~   61 (169)
T 3q85_A            2 VFKVMLVGESGVGKSTLAGTFGGLQGDHAHEMENSEDTYERRIMVDKEEVTLIVYDIWEQ   61 (169)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHCC------------CEEEEEEEETTEEEEEEEECCCCC
T ss_pred             cEEEEEECCCCCCHHHHHHHHHhccCcccccCCCcCCeeeEEEEECCeEEEEEEEECCCc
Confidence            48999999999999999999998877776667777777777777766 789999999985

>4bas_A ADP-ribosylation factor, putative (small GTPase, putative); hydrolase; HET: GNP; 2.00A {Trypanosoma brucei TREU927}

Probab=99.55  E-value=2.5e-14  Score=80.81  Aligned_cols=60  Identities=20%  Similarity=0.201  Sum_probs=45.8

Q ss_pred             cCceeeeEEEEeCCCCCHHHHHHHHHhCcCCC-CccCCcceeeEEEEEEeCCEEEEEEEcCCCC
Q psy2514           8 RGSIKGTVVIVGNGAVGKSSMIQRYCRGTFTR-DYKKTIGVKSSMIQRYCRGTFTRDYKKTIGA   70 (71)
Q Consensus         8 ~~~~~~ki~v~G~~~vGKtsl~~~~~~~~f~~-~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~   70 (71)
                      .+....||+++|+++||||||++++..+.|.. .|.||++..+  ..+. ...+.+++|||+|.
T Consensus        13 ~~~~~~ki~v~G~~~~GKSsl~~~l~~~~~~~~~~~~t~~~~~--~~~~-~~~~~~~i~Dt~G~   73 (199)
T 4bas_A           13 QSKTKLQVVMCGLDNSGKTTIINQVKPAQSSSKHITATVGYNV--ETFE-KGRVAFTVFDMGGA   73 (199)
T ss_dssp             ---CEEEEEEECCTTSCHHHHHHHHSCCC----CCCCCSSEEE--EEEE-ETTEEEEEEEECCS
T ss_pred             CCCCCcEEEEECCCCCCHHHHHHHHhcCCCcccccccccceeE--EEEE-eCCEEEEEEECCCC
Confidence            45567999999999999999999999999988 8899999433  3333 44689999999985

>3l0i_B RAS-related protein RAB-1A; GEF-GDF-RAB complex, GTP-binding, guanine-nucleotide exchang GDI-displacement factor; 2.85A {Homo sapiens}

Probab=99.55  E-value=9e-16  Score=87.35  Aligned_cols=63  Identities=27%  Similarity=0.400  Sum_probs=56.0

Q ss_pred             cCceeeeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCC-EEEEEEEcCCCC
Q psy2514           8 RGSIKGTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRG-TFTRDYKKTIGA   70 (71)
Q Consensus         8 ~~~~~~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~-~~~l~i~Dt~G~   70 (71)
                      ..+..+||+++|+++||||||++++..+.+...+.|+++.++....+..++ .+.+.+|||+|.
T Consensus        29 ~~~~~~ki~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~Dt~G~   92 (199)
T 3l0i_B           29 EYDYLFKLLLIGDSGVGKSCLLLRFADDTYTESYISTIGVDFKIRTIELDGKTIKLQIWDTAGQ   92 (199)
T ss_dssp             CCSEEEEEEEECCTTSCCTTTTTSSBCCCCCCHHHHHHCCSEEEEEEEETTEEEEEEEECCTTC
T ss_pred             ccCcceEEEEECCCCCCHHHHHHHHhcCCCCCCcCCcccceEEEEEEEECCEEEEEEEEECCCc
Confidence            345679999999999999999999999999888899999999888887776 689999999984

>2cjw_A GTP-binding protein GEM; nucleotide-binding, small GTPase, conformational change, cysteine-modified, G-protein hydrolase; HET: GDP; 2.10A {Homo sapiens} PDB: 2cjw_B* 2ht6_A*

Probab=99.55  E-value=3.3e-14  Score=80.85  Aligned_cols=60  Identities=18%  Similarity=0.222  Sum_probs=45.7

Q ss_pred             ceeeeEEEEeCCCCCHHHHHHHHHh--CcCCCCccCCcceeeEEEEEEeCC-EEEEEEEcCCCC
Q psy2514          10 SIKGTVVIVGNGAVGKSSMIQRYCR--GTFTRDYKKTIGVKSSMIQRYCRG-TFTRDYKKTIGA   70 (71)
Q Consensus        10 ~~~~ki~v~G~~~vGKtsl~~~~~~--~~f~~~~~~t~~~~~~~~~~~~~~-~~~l~i~Dt~G~   70 (71)
                      ...+||+++|+++||||||+++|+.  ..|...+ ++++.++..+.+..++ .+.+.+|||+|.
T Consensus         4 ~~~~kv~lvG~~~vGKSsL~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~l~~~Dt~~~   66 (192)
T 2cjw_A            4 MTYYRVVLIGEQGVGKSTLANIFAGVHDSMDSDX-EVLGEDTYERTLMVDGESATIILLDMWEN   66 (192)
T ss_dssp             CCEEEEEEECSTTSSHHHHHHHHHHHSCCC-----GGGCTTEEEEEEEETTEEEEEEEECCCCC
T ss_pred             CceEEEEEECCCCCCHHHHHHHHhcCcCCcCccc-cccceeEEEEEEEECCeEEEEEEEEeccC
Confidence            3469999999999999999999995  4455544 5577777777776666 788999999874

>2wji_A Ferrous iron transport protein B homolog; membrane G-proteins, cell membrane, ION transport, transmembrane; HET: GNP; 1.90A {Methanocaldococcus jannaschii} PDB: 2wjj_A* 2wjh_A*

Probab=99.54  E-value=3.9e-14  Score=78.64  Aligned_cols=58  Identities=16%  Similarity=0.106  Sum_probs=43.9

Q ss_pred             eeeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCCEEEEEEEcCCCC
Q psy2514          12 KGTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRGTFTRDYKKTIGA   70 (71)
Q Consensus        12 ~~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~   70 (71)
                      .++++++|+++||||||++++....+...+.|++..++....+..++ ..+++|||+|.
T Consensus         3 ~~~v~lvG~~gvGKStL~~~l~~~~~~~~~~~~~t~~~~~~~~~~~~-~~l~i~Dt~G~   60 (165)
T 2wji_A            3 SYEIALIGNPNVGKSTIFNALTGENVYIGNWPGVTVEKKEGEFEYNG-EKFKVVDLPGV   60 (165)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHCCSSSCC-----CCCCCEEEEEETT-EEEEEEECCCC
T ss_pred             ccEEEEECCCCCCHHHHHHHHhCCCeeccCCCCcceeeeEEEEEECC-cEEEEEECCCc
Confidence            48999999999999999999998877666667776666666565555 68999999995

>2fh5_B SR-beta, signal recognition particle receptor beta subunit; endomembrane targeting, GTPase, GAP, longin domain, SEDL, transport protein; HET: GTP; 2.45A {Mus musculus} SCOP: c.37.1.8 PDB: 2go5_2

Probab=99.53  E-value=1.8e-14  Score=82.52  Aligned_cols=59  Identities=17%  Similarity=0.160  Sum_probs=44.8

Q ss_pred             CceeeeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeC-C-EEEEEEEcCCCC
Q psy2514           9 GSIKGTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCR-G-TFTRDYKKTIGA   70 (71)
Q Consensus         9 ~~~~~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~-~-~~~l~i~Dt~G~   70 (71)
                      ....+|++++|++++|||||+.++..+.|...+.++ ..++..  +..+ . .+.+++|||+|.
T Consensus         4 ~~~~~ki~vvG~~~~GKTsli~~l~~~~~~~~~~~~-~~~~~~--~~~~~~~~~~~~i~Dt~G~   64 (214)
T 2fh5_B            4 KSSQRAVLFVGLCDSGKTLLFVRLLTGQYRDTQTSI-TDSSAI--YKVNNNRGNSLTLIDLPGH   64 (214)
T ss_dssp             ----CEEEEECSTTSSHHHHHHHHHHSCCCCBCCCC-SCEEEE--EECSSTTCCEEEEEECCCC
T ss_pred             CCCCCEEEEECCCCCCHHHHHHHHhCCCcccccCCc-ceeeEE--EEecCCCccEEEEEECCCC
Confidence            455799999999999999999999999998887544 445543  3333 2 689999999995

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

Probab=99.53  E-value=2.5e-14  Score=79.45  Aligned_cols=60  Identities=17%  Similarity=0.137  Sum_probs=50.6

Q ss_pred             ceeeeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCCEEEEEEEcCCCC
Q psy2514          10 SIKGTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRGTFTRDYKKTIGA   70 (71)
Q Consensus        10 ~~~~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~   70 (71)
                      ...++|+++|++++|||||+.++..+.+...+.|++..++....+..++ ..+.+|||+|.
T Consensus         6 ~~~~~i~v~G~~~~GKssl~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~l~Dt~G~   65 (178)
T 2lkc_A            6 ERPPVVTIMGHVDHGKTTLLDAIRHSKVTEQEAGGITQHIGAYQVTVND-KKITFLDTPGH   65 (178)
T ss_dssp             CCCCEEEEESCTTTTHHHHHHHHHTTCSSCSSCCSSSTTCCCCEEEETT-EEEEESCCCSS
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHhCCccccCCCCceeEeeeEEEEEeCC-ceEEEEECCCC
Confidence            4568999999999999999999999999888888887777666666665 46789999984

>2wkq_A NPH1-1, RAS-related C3 botulinum toxin substrate 1; transferase, cell adhesion, nucleotide-binding, protein engineering, RAS superfamily LOV2; HET: GTP FMN; 1.60A {Avena sativa} PDB: 2wkr_A* 2wkp_A*

Probab=99.53  E-value=4.6e-14  Score=85.01  Aligned_cols=61  Identities=25%  Similarity=0.259  Sum_probs=51.3

Q ss_pred             ceeeeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCCEEEEEEEcCCCC
Q psy2514          10 SIKGTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRGTFTRDYKKTIGA   70 (71)
Q Consensus        10 ~~~~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~   70 (71)
                      ...+|++++|++++|||||+.++..+.|...+.+|++..+.......+..+.+++|||+|.
T Consensus       153 ~~~~~i~i~G~~~~GKssli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~Dt~G~  213 (332)
T 2wkq_A          153 KELIKCVVVGDGAVGKTCLLISYTTNAFPGEYIPTVFDNYSANVMVDGKPVNLGLWDTAGL  213 (332)
T ss_dssp             TTCEEEEEEESTTSSHHHHHHHHHHSCCCCSCCCCSEEEEEEEEEETTEEEEEEEEEECCC
T ss_pred             cceeEEEEECCCCCChHHHHHHHHhCCCCcccCCcccceeEEEEEECCEEEEEEEEeCCCc
Confidence            3458999999999999999999999999999999998777544433344889999999984

>2wjg_A FEOB, ferrous iron transport protein B homolog; membrane G-proteins, cell membrane, ION transport, transmembrane; HET: GDP; 2.20A {Methanocaldococcus jannaschii}

Probab=99.53  E-value=6e-14  Score=78.69  Aligned_cols=59  Identities=15%  Similarity=0.093  Sum_probs=49.1

Q ss_pred             eeeeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCCEEEEEEEcCCCC
Q psy2514          11 IKGTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRGTFTRDYKKTIGA   70 (71)
Q Consensus        11 ~~~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~   70 (71)
                      ..++++++|+++||||||+.+++...+...+.|++..++....+..++ ..+++|||+|.
T Consensus         6 ~~~~i~lvG~~gvGKStL~~~l~~~~~~~~~~~~~t~~~~~~~~~~~~-~~~~l~Dt~G~   64 (188)
T 2wjg_A            6 KSYEIALIGNPNVGKSTIFNALTGENVYIGNWPGVTVEKKEGEFEYNG-EKFKVVDLPGV   64 (188)
T ss_dssp             CEEEEEEECSTTSSHHHHHHHHHTTCEEEEECTTSCCEEEEEEEEETT-EEEEEEECCCC
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCCccccCCCCeeccceEEEEEeCC-cEEEEEECCCc
Confidence            568999999999999999999998777666678777777666666655 78999999985

>4djt_A GTP-binding nuclear protein GSP1; structural genomics, seattle structural genomics center for infectious disease, ssgcid, RAN family; HET: GDP; 1.80A {Encephalitozoon cuniculi}

Probab=99.52  E-value=1.8e-14  Score=82.69  Aligned_cols=63  Identities=24%  Similarity=0.451  Sum_probs=52.4

Q ss_pred             cCceeeeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCC--EEEEEEEcCCCC
Q psy2514           8 RGSIKGTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRG--TFTRDYKKTIGA   70 (71)
Q Consensus         8 ~~~~~~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~--~~~l~i~Dt~G~   70 (71)
                      .....+||+++|+++||||||+++++.+.+...+.+|++..+........+  .+.+.+|||+|.
T Consensus         7 ~~~~~~ki~vvG~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~l~Dt~G~   71 (218)
T 4djt_A            7 RRELTYKICLIGDGGVGKTTYINRVLDGRFEKNYNATVGAVNHPVTFLDDQGNVIKFNVWDTAGQ   71 (218)
T ss_dssp             ---CEEEEEEECCTTSSHHHHHCBCTTCSTTCEEETTTTEEEEEEEEEBTTSCEEEEEEEEECSG
T ss_pred             cccCccEEEEECCCCCCHHHHHHHHhcCCCCCCCCCccceeeEEEEEEeCCCcEEEEEEEecCCc
Confidence            345679999999999999999999999999988899999887766666543  489999999984

>1zj6_A ADP-ribosylation factor-like protein 5; ARL, GTP-binding, transport protein; HET: G3D; 2.00A {Homo sapiens} SCOP: c.37.1.8

Probab=99.51  E-value=3.9e-14  Score=79.72  Aligned_cols=58  Identities=17%  Similarity=0.180  Sum_probs=47.3

Q ss_pred             CceeeeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCCEEEEEEEcCCCC
Q psy2514           9 GSIKGTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRGTFTRDYKKTIGA   70 (71)
Q Consensus         9 ~~~~~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~   70 (71)
                      ....+||+++|+++||||||++++..+.+. .+.||++...  ..+..++ +.+++|||+|.
T Consensus        13 ~~~~~~i~v~G~~~~GKssl~~~l~~~~~~-~~~~t~~~~~--~~~~~~~-~~~~i~Dt~G~   70 (187)
T 1zj6_A           13 NHQEHKVIIVGLDNAGKTTILYQFSMNEVV-HTSPTIGSNV--EEIVINN-TRFLMWDIGGQ   70 (187)
T ss_dssp             TTSCEEEEEEESTTSSHHHHHHHHHTTSCE-EEECCSCSSC--EEEEETT-EEEEEEECCC-
T ss_pred             CCCccEEEEECCCCCCHHHHHHHHhcCCCC-cCcCCCccce--EEEEECC-EEEEEEECCCC
Confidence            355799999999999999999999998887 6789988543  4444454 88999999984

>3r7w_B Gtpase2, GTP-binding protein GTR2; RAG gtpases, GTR1P, GTR2P, MTOR, protein transport; HET: GNP; 2.77A {Saccharomyces cerevisiae} PDB: 4arz_B*

Probab=99.51  E-value=8.8e-15  Score=90.13  Aligned_cols=53  Identities=15%  Similarity=0.061  Sum_probs=43.0

Q ss_pred             eEEEEeCCCCCHHHHHHHHHhCcCCC---CccCCcceeeEEEEEEeCCEEEEEEEcCCCC
Q psy2514          14 TVVIVGNGAVGKSSMIQRYCRGTFTR---DYKKTIGVKSSMIQRYCRGTFTRDYKKTIGA   70 (71)
Q Consensus        14 ki~v~G~~~vGKtsl~~~~~~~~f~~---~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~   70 (71)
                      |++++|+++||||||+.++..+.++.   .+.||+|.++..  +  +..++++||||||+
T Consensus         1 KIvllGdsgvGKTSLl~~~~~~~~~~~~~~~~~Tig~~~~~--v--~~~v~LqIWDTAGQ   56 (331)
T 3r7w_B            1 MVLLMGVRRCGKSSICKVVFHNMQPLDTLYLESTSNPSLEH--F--STLIDLAVMELPGQ   56 (331)
T ss_dssp             CEEEECSTTSSTTHHHHHHHSCCCSGGGTTCCCCCSCCCEE--E--CSSSCEEEEECCSC
T ss_pred             CEEEECCCCCCHHHHHHHHHcCCCCCccceecCeeeeeeEE--E--ccEEEEEEEECCCc
Confidence            78999999999999999887654443   367999988863  2  45689999999996

>2h57_A ADP-ribosylation factor-like protein 6; GTP, GTPase, membrane trafficking, structural genomics consortium, SGC, transport protein; HET: GTP; 2.00A {Homo sapiens}

Probab=99.51  E-value=4.5e-14  Score=79.61  Aligned_cols=59  Identities=20%  Similarity=0.233  Sum_probs=47.1

Q ss_pred             CceeeeEEEEeCCCCCHHHHHHHHHhCc-CCCCccCCcceeeEEEEEEeCCEEEEEEEcCCCC
Q psy2514           9 GSIKGTVVIVGNGAVGKSSMIQRYCRGT-FTRDYKKTIGVKSSMIQRYCRGTFTRDYKKTIGA   70 (71)
Q Consensus         9 ~~~~~ki~v~G~~~vGKtsl~~~~~~~~-f~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~   70 (71)
                      ....+||+++|++++|||||++++..+. +...+.||++  +....+..++ +.+.+|||+|.
T Consensus        18 ~~~~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~~t~~--~~~~~~~~~~-~~~~l~Dt~G~   77 (190)
T 2h57_A           18 GSKEVHVLCLGLDNSGKTTIINKLKPSNAQSQNILPTIG--FSIEKFKSSS-LSFTVFDMSGQ   77 (190)
T ss_dssp             ---CEEEEEEECTTSSHHHHHHHTSCGGGCCSSCCCCSS--EEEEEEECSS-CEEEEEEECCS
T ss_pred             CCCccEEEEECCCCCCHHHHHHHHhcCCCCCCCcCCccc--eeEEEEEECC-EEEEEEECCCC
Confidence            4467999999999999999999999887 6777889998  4445555554 78999999984

>3th5_A RAS-related C3 botulinum toxin substrate 1; rossmann fold, GTPase, GTP binding, protein binding, signali protein; HET: GNP; 2.30A {Homo sapiens}

Probab=99.26  E-value=1.3e-15  Score=86.82  Aligned_cols=61  Identities=25%  Similarity=0.280  Sum_probs=51.6

Q ss_pred             ceeeeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCCEEEEEEEcCCCC
Q psy2514          10 SIKGTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRGTFTRDYKKTIGA   70 (71)
Q Consensus        10 ~~~~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~   70 (71)
                      ...+||+++|++++|||||+.++..+.|...+.||++..+.......+..+.+++|||+|.
T Consensus        28 ~~~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~   88 (204)
T 3th5_A           28 GQAIKCVVVGDGAVGKTCLLISYTTNAFPGEYIPTVFDNYSANVMVDGKPVNLGLWDTAGQ   88 (204)
Confidence            5679999999999999999999999999988999998777544444445788999999984

>1ksh_A ARF-like protein 2; small GTPase, small GTP-binding protein, ARF family; HET: CME GDP; 1.80A {Mus musculus} SCOP: c.37.1.8 PDB: 1ksg_A* 1ksj_A* 3doe_A* 3dof_A*

Probab=99.50  E-value=9.2e-14  Score=77.93  Aligned_cols=57  Identities=14%  Similarity=0.259  Sum_probs=46.7

Q ss_pred             ceeeeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCCEEEEEEEcCCCC
Q psy2514          10 SIKGTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRGTFTRDYKKTIGA   70 (71)
Q Consensus        10 ~~~~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~   70 (71)
                      ...+|++++|++++|||||++++..+. ...+.||++..  ...+..+ .+.+++|||+|.
T Consensus        16 ~~~~~i~v~G~~~~GKssl~~~l~~~~-~~~~~~t~~~~--~~~~~~~-~~~~~~~Dt~G~   72 (186)
T 1ksh_A           16 ERELRLLMLGLDNAGKTTILKKFNGED-VDTISPTLGFN--IKTLEHR-GFKLNIWDVGGQ   72 (186)
T ss_dssp             -CCEEEEEECSTTSSHHHHHHHHTTCC-CSSCCCCSSEE--EEEEEET-TEEEEEEEECCS
T ss_pred             CCeeEEEEECCCCCCHHHHHHHHhcCC-CCcccccCccc--eEEEEEC-CEEEEEEECCCC
Confidence            567999999999999999999999888 66788999844  3444444 488999999985

>1r8s_A ADP-ribosylation factor 1; protein transport/exchange factor, protein transport-exchang complex; HET: GDP; 1.46A {Bos taurus} SCOP: c.37.1.8 PDB: 1re0_A* 1s9d_A* 1u81_A* 1r8q_A* 1rrf_A* 1rrg_A* 1hur_A* 1o3y_A* 1j2j_A* 2j59_A* 1mr3_F* 2k5u_A* 3lrp_A* 3tjz_A* 3rd1_A* 2ksq_A* 2a5d_A* 2a5f_A* 2j5x_A* 1e0s_A* ...

Probab=99.50  E-value=5.9e-14  Score=77.09  Aligned_cols=54  Identities=19%  Similarity=0.214  Sum_probs=43.9

Q ss_pred             eeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCCEEEEEEEcCCCC
Q psy2514          13 GTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRGTFTRDYKKTIGA   70 (71)
Q Consensus        13 ~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~   70 (71)
                      +|++++|+++||||||+.++..+.|.. +.||++.  ....+.. +.+.+++|||+|.
T Consensus         1 ~ki~~~G~~~~GKssl~~~l~~~~~~~-~~~t~~~--~~~~~~~-~~~~~~i~Dt~G~   54 (164)
T 1r8s_A            1 MRILMVGLDAAGKTTILYKLKLGEIVT-TIPTIGF--NVETVEY-KNISFTVWDVGGQ   54 (164)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHHHCSSC-CCCCSSC--CEEEEEC-SSCEEEEEECCCC
T ss_pred             CEEEEECCCCCCHHHHHHHHHcCCcCc-ccCcCce--eEEEEEE-CCEEEEEEEcCCC
Confidence            589999999999999999999888874 6789884  3333433 4588999999985

>3q72_A GTP-binding protein RAD; G-domain, CAV2 beta, signaling protein; HET: GNP; 1.66A {Homo sapiens} SCOP: c.37.1.8 PDB: 3q7p_A* 3q7q_A* 2gjs_A* 2dpx_A*

Probab=99.49  E-value=6.7e-14  Score=76.99  Aligned_cols=58  Identities=12%  Similarity=-0.027  Sum_probs=37.4

Q ss_pred             eeeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCCEEEEEEEcCCCC
Q psy2514          12 KGTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRGTFTRDYKKTIGA   70 (71)
Q Consensus        12 ~~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~   70 (71)
                      .+|++++|+++||||||++++....+. .+.++.+..+.......+..+.+.+|||+|.
T Consensus         2 ~~ki~~vG~~~~GKSsli~~l~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~   59 (166)
T 3q72_A            2 VYKVLLLGAPGVGKSALARIFGGVEDG-PEAEAAGHTYDRSIVVDGEEASLMVYDIWEQ   59 (166)
T ss_dssp             CCEEEEEESTTSSHHHHHHHHCCC-----------CEEEEEEEETTEEEEEEEEECC--
T ss_pred             eEEEEEECCCCCCHHHHHHHHcCcccc-CCCCccccceEEEEEECCEEEEEEEEECCCC
Confidence            589999999999999999999866654 4457777666433333344889999999984

>1m2o_B GTP-binding protein SAR1, GTP binding protein; zinc-finger, beta barrel, VWA domain, gelsolin domain,; HET: GNP; 2.50A {Saccharomyces cerevisiae} SCOP: c.37.1.8 PDB: 2qtv_B*

Probab=99.49  E-value=2.2e-13  Score=77.18  Aligned_cols=57  Identities=11%  Similarity=0.102  Sum_probs=45.8

Q ss_pred             ceeeeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCCEEEEEEEcCCCC
Q psy2514          10 SIKGTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRGTFTRDYKKTIGA   70 (71)
Q Consensus        10 ~~~~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~   70 (71)
                      ...+|++++|+++||||||++++..+.+. .+.||++..  ...+..++ +.+++|||+|.
T Consensus        21 ~~~~ki~~vG~~~vGKSsli~~l~~~~~~-~~~~t~~~~--~~~~~~~~-~~~~i~Dt~G~   77 (190)
T 1m2o_B           21 NKHGKLLFLGLDNAGKTTLLHMLKNDRLA-TLQPTWHPT--SEELAIGN-IKFTTFDLGGH   77 (190)
T ss_dssp             ---CEEEEEESTTSSHHHHHHHHHHSCCC-CCCCCCSCE--EEEEEETT-EEEEEEECCCS
T ss_pred             CCccEEEEECCCCCCHHHHHHHHhcCCCC-ccccCCCCC--eEEEEECC-EEEEEEECCCC
Confidence            34589999999999999999999998886 578898864  34555566 88999999985

>1fzq_A ADP-ribosylation factor-like protein 3; protein-GDP complex without magnesium, ARF family, RAS superfamily, G-domain, signaling protein; HET: MES GDP; 1.70A {Mus musculus} SCOP: c.37.1.8 PDB: 3bh7_A* 3bh6_A*

Probab=99.49  E-value=3.6e-14  Score=79.84  Aligned_cols=58  Identities=12%  Similarity=0.233  Sum_probs=46.6

Q ss_pred             CceeeeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCCEEEEEEEcCCCC
Q psy2514           9 GSIKGTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRGTFTRDYKKTIGA   70 (71)
Q Consensus         9 ~~~~~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~   70 (71)
                      +...+|++++|+++||||||+.++..+.+. .+.||+|.  ....+..+ .+.+++|||+|.
T Consensus        13 ~~~~~ki~ivG~~~vGKSsL~~~l~~~~~~-~~~~t~g~--~~~~~~~~-~~~l~i~Dt~G~   70 (181)
T 1fzq_A           13 PDQEVRILLLGLDNAGKTTLLKQLASEDIS-HITPTQGF--NIKSVQSQ-GFKLNVWDIGGQ   70 (181)
T ss_dssp             CSSCEEEEEEESTTSSHHHHHHHHCCSCCE-EEEEETTE--EEEEEEET-TEEEEEEECSSC
T ss_pred             CCCceEEEEECCCCCCHHHHHHHHhcCCCC-cccCcCCe--EEEEEEEC-CEEEEEEECCCC
Confidence            356799999999999999999999987654 57889884  34445555 488999999985

>2b6h_A ADP-ribosylation factor 5; membrane trafficking, GDP, structural genomics, structural G consortium, SGC, protein transport; HET: GDP; 1.76A {Homo sapiens} SCOP: c.37.1.8 PDB: 1z6x_A* 3aq4_A*

Probab=99.48  E-value=9.5e-14  Score=78.81  Aligned_cols=58  Identities=19%  Similarity=0.246  Sum_probs=45.4

Q ss_pred             CceeeeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCCEEEEEEEcCCCC
Q psy2514           9 GSIKGTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRGTFTRDYKKTIGA   70 (71)
Q Consensus         9 ~~~~~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~   70 (71)
                      ....+||+++|+++||||||+.++..+.|. .+.||++.  ....+..+ .+.+++|||+|.
T Consensus        26 ~~~~~ki~v~G~~~vGKSsLi~~l~~~~~~-~~~~t~~~--~~~~~~~~-~~~~~i~Dt~G~   83 (192)
T 2b6h_A           26 GKKQMRILMVGLDAAGKTTILYKLKLGEIV-TTIPTIGF--NVETVEYK-NICFTVWDVGGQ   83 (192)
T ss_dssp             TTSCEEEEEEESTTSSHHHHHHHHCSSCCE-EEEEETTE--EEEEEEET-TEEEEEEECC--
T ss_pred             cCCccEEEEECCCCCCHHHHHHHHHhCCcc-ccCCcCce--eEEEEEEC-CEEEEEEECCCC
Confidence            456799999999999999999999988887 46788883  33444444 488999999984

>1upt_A ARL1, ADP-ribosylation factor-like protein 1; hydrolase/protein-binding, complex (GTPase/golgin), golgin-245, GRIP, golgin, GTPase, G-protein; HET: GTP; 1.7A {Homo sapiens} SCOP: c.37.1.8 PDB: 1r4a_A*

Probab=99.48  E-value=2.4e-13  Score=74.99  Aligned_cols=56  Identities=18%  Similarity=0.215  Sum_probs=45.9

Q ss_pred             eeeeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCCEEEEEEEcCCCC
Q psy2514          11 IKGTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRGTFTRDYKKTIGA   70 (71)
Q Consensus        11 ~~~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~   70 (71)
                      ..+|++++|++++|||||+.++..+.+. .+.||++..  ...+..+ .+.+.+|||+|.
T Consensus         6 ~~~~i~v~G~~~~GKssl~~~l~~~~~~-~~~~t~~~~--~~~~~~~-~~~~~~~Dt~G~   61 (171)
T 1upt_A            6 REMRILILGLDGAGKTTILYRLQVGEVV-TTIPTIGFN--VETVTYK-NLKFQVWDLGGL   61 (171)
T ss_dssp             SCEEEEEECSTTSSHHHHHHHHHHSSCC-CCCCCSSEE--EEEEEET-TEEEEEEEECCC
T ss_pred             CccEEEEECCCCCCHHHHHHHHhcCCCC-CcCCcCccc--eEEEEEC-CEEEEEEECCCC
Confidence            4689999999999999999999999886 467888843  3444445 588999999984

>2h17_A ADP-ribosylation factor-like protein 5A; GDP, GTPase, membrane trafficking, structural genomics consortium, SGC, transport protein; HET: GDP; 1.70A {Homo sapiens} PDB: 2h16_A* 1z6y_A* 1yzg_A*

Probab=99.48  E-value=6.4e-14  Score=78.58  Aligned_cols=59  Identities=22%  Similarity=0.240  Sum_probs=46.3

Q ss_pred             cCceeeeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCCEEEEEEEcCCCC
Q psy2514           8 RGSIKGTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRGTFTRDYKKTIGA   70 (71)
Q Consensus         8 ~~~~~~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~   70 (71)
                      .....+||+++|++++|||||++++..+.| ..+.||++..+  ..+..++ +.+.+|||+|.
T Consensus        17 ~~~~~~~i~v~G~~~~GKSsli~~l~~~~~-~~~~~t~~~~~--~~~~~~~-~~~~i~Dt~G~   75 (181)
T 2h17_A           17 RGSQEHKVIIVGLDNAGKTTILYQFSMNEV-VHTSPTIGSNV--EEIVINN-TRFLMWDIGGQ   75 (181)
T ss_dssp             ----CEEEEEEEETTSSHHHHHHHHHTTSC-EEEECCSSSSC--EEEEETT-EEEEEEEESSS
T ss_pred             CCCceeEEEEECCCCCCHHHHHHHHhcCCC-CccCCcCceee--EEEEECC-EEEEEEECCCC
Confidence            345679999999999999999999999988 56789998654  3444454 88999999985

>1f6b_A SAR1; gtpases, N-terminal helix, Mg-containing complex, protein transport; HET: GDP; 1.70A {Cricetulus griseus} SCOP: c.37.1.8 PDB: 2fmx_A* 2fa9_A* 2gao_A*

Probab=99.47  E-value=1e-13  Score=79.11  Aligned_cols=57  Identities=18%  Similarity=0.170  Sum_probs=42.1

Q ss_pred             ceeeeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCCEEEEEEEcCCCC
Q psy2514          10 SIKGTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRGTFTRDYKKTIGA   70 (71)
Q Consensus        10 ~~~~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~   70 (71)
                      ...+|++++|+++||||||++++..+.+. .+.||++...  ..+..++ +.+++|||+|.
T Consensus        23 ~~~~ki~lvG~~~vGKSsLi~~l~~~~~~-~~~~t~~~~~--~~~~~~~-~~l~i~Dt~G~   79 (198)
T 1f6b_A           23 KKTGKLVFLGLDNAGKTTLLHMLKDDRLG-QHVPTLHPTS--EELTIAG-MTFTTFDLGGH   79 (198)
T ss_dssp             TCCEEEEEEEETTSSHHHHHHHHSCC-------CCCCCSC--EEEEETT-EEEEEEEECC-
T ss_pred             CCCcEEEEECCCCCCHHHHHHHHhcCCCC-ccCCCCCcee--EEEEECC-EEEEEEECCCc
Confidence            34589999999999999999999988875 5788988653  4455566 88999999984

>3r7w_A Gtpase1, GTP-binding protein GTR1; RAG gtpases, GTR1P, GTR2P, MTOR, protein transport; HET: GNP; 2.77A {Saccharomyces cerevisiae} PDB: 4arz_A*

Probab=99.46  E-value=2.5e-13  Score=82.43  Aligned_cols=58  Identities=26%  Similarity=0.315  Sum_probs=46.4

Q ss_pred             eeeeEEEEeCCCCCHHHHHHHHHhC--cCC-CCccCCcceeeEEEEEEeCCEEEEEEEcCCCC
Q psy2514          11 IKGTVVIVGNGAVGKSSMIQRYCRG--TFT-RDYKKTIGVKSSMIQRYCRGTFTRDYKKTIGA   70 (71)
Q Consensus        11 ~~~ki~v~G~~~vGKtsl~~~~~~~--~f~-~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~   70 (71)
                      ..+|++++|+++||||||++++..+  .+. ..+.+|++.++..  ...++.+.+++|||+|.
T Consensus         2 ~~~KI~lvG~~~vGKSSLi~~l~~~~~~~~~~~~~~Ti~~~~~~--~~~~~~~~l~i~Dt~G~   62 (307)
T 3r7w_A            2 LGSKLLLMGRSGSGKSSMRSIIFSNYSAFDTRRLGATIDVEHSH--LRFLGNMTLNLWDCGGQ   62 (307)
T ss_dssp             CEEEEEEECCTTSSHHHHHHHHHSCCCTGGGGGCCCCCSEEEEE--EEETTTEEEEEEEECCS
T ss_pred             CceEEEEECCCCCCHHHHHHHHHhCCCCccccCcCCccceEEEE--EEeCCceEEEEEECCCc
Confidence            4689999999999999999999876  443 2577899877754  33345789999999995

>1svi_A GTP-binding protein YSXC; ENGB, GTPase, GDP, hydrolase; HET: GDP; 1.95A {Bacillus subtilis} SCOP: c.37.1.8 PDB: 1sul_A* 1svw_A*

Probab=99.45  E-value=2.4e-13  Score=76.63  Aligned_cols=60  Identities=15%  Similarity=0.129  Sum_probs=38.0

Q ss_pred             cCceeeeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCCEEEEEEEcCCC
Q psy2514           8 RGSIKGTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRGTFTRDYKKTIG   69 (71)
Q Consensus         8 ~~~~~~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G   69 (71)
                      .....++++++|++++|||||++++..+.|...+.++.+..........++  .+.+|||+|
T Consensus        19 ~~~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~t~~~~~~~~~~--~~~l~Dt~G   78 (195)
T 1svi_A           19 PEGGLPEIALAGRSNVGKSSFINSLINRKNLARTSSKPGKTQTLNFYIIND--ELHFVDVPG   78 (195)
T ss_dssp             CCSCCCEEEEEEBTTSSHHHHHHHHHTC-------------CCEEEEEETT--TEEEEECCC
T ss_pred             CCCCCCEEEEECCCCCCHHHHHHHHhCCCCccccCCCCCceeeEEEEEECC--cEEEEECCC
Confidence            345679999999999999999999999887777777777555444444444  589999998

>1moz_A ARL1, ADP-ribosylation factor-like protein 1; GTP-binding, protein binding; HET: GDP; 3.17A {Saccharomyces cerevisiae} SCOP: c.37.1.8

Probab=99.45  E-value=1e-13  Score=77.38  Aligned_cols=57  Identities=19%  Similarity=0.247  Sum_probs=45.7

Q ss_pred             ceeeeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCCEEEEEEEcCCCC
Q psy2514          10 SIKGTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRGTFTRDYKKTIGA   70 (71)
Q Consensus        10 ~~~~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~   70 (71)
                      +..+|++++|++++|||||+.++..+.+ ..+.||++..  ...+..++ +.+.+|||+|.
T Consensus        16 ~~~~~i~v~G~~~~GKssli~~l~~~~~-~~~~~t~~~~--~~~~~~~~-~~~~i~Dt~G~   72 (183)
T 1moz_A           16 NKELRILILGLDGAGKTTILYRLQIGEV-VTTKPTIGFN--VETLSYKN-LKLNVWDLGGQ   72 (183)
T ss_dssp             SSCEEEEEEEETTSSHHHHHHHTCCSEE-EEECSSTTCC--EEEEEETT-EEEEEEEEC--
T ss_pred             CCccEEEEECCCCCCHHHHHHHHhcCCc-CccCCcCccc--eEEEEECC-EEEEEEECCCC
Confidence            5679999999999999999999998888 5678999843  34444444 88999999984

>2x77_A ADP-ribosylation factor; GTP-binding protein, small GTPase, nucleotide-binding; HET: GDP; 2.10A {Leishmania major}

Probab=99.43  E-value=2.2e-13  Score=76.59  Aligned_cols=57  Identities=21%  Similarity=0.260  Sum_probs=46.4

Q ss_pred             ceeeeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCCEEEEEEEcCCCC
Q psy2514          10 SIKGTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRGTFTRDYKKTIGA   70 (71)
Q Consensus        10 ~~~~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~   70 (71)
                      +..+|++++|++++|||||++++..+.+.. +.||++.  ....+..+ .+.+++|||+|.
T Consensus        20 ~~~~~i~v~G~~~~GKssli~~l~~~~~~~-~~~t~~~--~~~~~~~~-~~~~~~~Dt~G~   76 (189)
T 2x77_A           20 DRKIRVLMLGLDNAGKTSILYRLHLGDVVT-TVPTVGV--NLETLQYK-NISFEVWDLGGQ   76 (189)
T ss_dssp             TSCEEEEEEEETTSSHHHHHHHTCCSCCEE-ECSSTTC--CEEEEEET-TEEEEEEEECCS
T ss_pred             CCceEEEEECCCCCCHHHHHHHHHcCCCCC-cCCCCce--EEEEEEEC-CEEEEEEECCCC
Confidence            467999999999999999999999888864 6789884  33444444 488999999984

>3t5d_A Septin-7; GTP-binding protein, cytoskeleton, signaling protein; HET: GDP; 3.30A {Homo sapiens} PDB: 3tw4_A*

Probab=99.42  E-value=2.8e-13  Score=80.87  Aligned_cols=63  Identities=25%  Similarity=0.378  Sum_probs=41.8

Q ss_pred             cCceeeeEEEEeCCCCCHHHHHHHHH-hCcCCCCc-------cCCcceeeEEEEEEeCC-EEEEEEEcCCCC
Q psy2514           8 RGSIKGTVVIVGNGAVGKSSMIQRYC-RGTFTRDY-------KKTIGVKSSMIQRYCRG-TFTRDYKKTIGA   70 (71)
Q Consensus         8 ~~~~~~ki~v~G~~~vGKtsl~~~~~-~~~f~~~~-------~~t~~~~~~~~~~~~~~-~~~l~i~Dt~G~   70 (71)
                      +....++|+++|.+|+|||||++++. .+.+...+       .+|++.++....+..++ .+.+.+|||+|-
T Consensus         4 ~~g~~~~I~vvG~~g~GKSTLin~L~~~~~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~liDTpG~   75 (274)
T 3t5d_A            4 GSGFEFTLMVVGESGLGKSTLINSLFLTDLYSPEYPGPSHRIKKTVQVEQSKVLIKEGGVQLLLTIVDTPGF   75 (274)
T ss_dssp             ---CEEEEEEEECTTSSHHHHHHHHSSSCC---------------CCCEEEEEEECC--CCEEEEEEECCCC
T ss_pred             cCccEEEEEEECCCCCCHHHHHHHHhCCCccccCCCCcccccCCceEEEEEEEEEecCCeEEEEEEEECCCc
Confidence            34567999999999999999999965 55666666       78888877766665444 679999999984

>3llu_A RAS-related GTP-binding protein C; structural genomics consortium, SGC, cytoplasm, nucleotide-binding, nucleus, phosphoprotein; HET: GNP; 1.40A {Homo sapiens} PDB: 2q3f_A*

Probab=99.41  E-value=1.5e-13  Score=77.98  Aligned_cols=60  Identities=15%  Similarity=0.072  Sum_probs=41.6

Q ss_pred             cCceeeeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEE--e--CCEEEEEEEcCCCC
Q psy2514           8 RGSIKGTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRY--C--RGTFTRDYKKTIGA   70 (71)
Q Consensus         8 ~~~~~~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~--~--~~~~~l~i~Dt~G~   70 (71)
                      .+...+|++++|+++||||||++++. +.|...  ++++.++......  .  +..+.+++|||+|.
T Consensus        16 ~~~~~~ki~~vG~~~vGKTsLi~~l~-~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~l~i~Dt~G~   79 (196)
T 3llu_A           16 FQGSKPRILLMGLRRSGKSSIQKVVF-HKMSPN--ETLFLESTNKIYKDDISNSSFVNFQIWDFPGQ   79 (196)
T ss_dssp             ----CCEEEEEESTTSSHHHHHHHHH-SCCCGG--GGGGCCCCCSCEEEEECCTTSCCEEEEECCSS
T ss_pred             ccCcceEEEEECCCCCCHHHHHHHHH-hcCCCc--ceeeeccccceeeeeccCCCeeEEEEEECCCC
Confidence            35568999999999999999998655 455443  5666655543332  2  45789999999985

>2gj8_A MNME, tRNA modification GTPase TRME; G-domain dimer, alpha-beta-sandwich, hydrolase; HET: GDP; 1.70A {Escherichia coli BL21} SCOP: c.37.1.8 PDB: 2gj9_A* 2gja_A* 1rfl_A

Probab=99.40  E-value=3.1e-12  Score=71.54  Aligned_cols=59  Identities=19%  Similarity=0.077  Sum_probs=44.2

Q ss_pred             eeeeEEEEeCCCCCHHHHHHHHHhCcCC-CCccCCcceeeEEEEEEeCCEEEEEEEcCCCC
Q psy2514          11 IKGTVVIVGNGAVGKSSMIQRYCRGTFT-RDYKKTIGVKSSMIQRYCRGTFTRDYKKTIGA   70 (71)
Q Consensus        11 ~~~ki~v~G~~~vGKtsl~~~~~~~~f~-~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~   70 (71)
                      ...|++++|+++||||||++++....+. ....|++..++....+..++ ..+.+|||+|.
T Consensus         3 ~~~ki~ivG~~g~GKStLl~~l~~~~~~~~~~~~~~t~~~~~~~~~~~~-~~~~l~Dt~G~   62 (172)
T 2gj8_A            3 HGMKVVIAGRPNAGKSSLLNALAGREAAIVTDIAGTTRDVLREHIHIDG-MPLHIIDTAGL   62 (172)
T ss_dssp             -CEEEEEEESTTSSHHHHHHHHHTSCCSCCCSSTTCCCSCEEEEEEETT-EEEEEEECCCC
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCCcceeeCCCCceeceeeEEEEECC-eEEEEEECCCc
Confidence            4589999999999999999999977643 12234555566666676666 45899999984

>2dyk_A GTP-binding protein; GTPase, ribosome-binding protein, structural genomics; HET: GDP; 1.96A {Thermus thermophilus}

Probab=99.39  E-value=1.5e-12  Score=71.18  Aligned_cols=57  Identities=23%  Similarity=0.046  Sum_probs=39.0

Q ss_pred             eeEEEEeCCCCCHHHHHHHHHhCcCC-CCccCCcceeeEEEEEEeCCEEEEEEEcCCCC
Q psy2514          13 GTVVIVGNGAVGKSSMIQRYCRGTFT-RDYKKTIGVKSSMIQRYCRGTFTRDYKKTIGA   70 (71)
Q Consensus        13 ~ki~v~G~~~vGKtsl~~~~~~~~f~-~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~   70 (71)
                      .|++++|++++|||||+.++..+.+. ....++...++.......++ ..+.+|||+|.
T Consensus         2 ~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~l~Dt~G~   59 (161)
T 2dyk_A            2 HKVVIVGRPNVGKSSLFNRLLKKRSAVVADVPGVTRDLKEGVVETDR-GRFLLVDTGGL   59 (161)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHCCC-----------CCEEEEEEETT-EEEEEEECGGG
T ss_pred             CEEEEECCCCCCHHHHHHHHhCCCeeeccCCCCceecceEEEEEeCC-ceEEEEECCCC
Confidence            68999999999999999999988754 23335555556556665555 47899999985

>2cxx_A Probable GTP-binding protein ENGB; structural genomics, NPPSFA, national P protein structural and functional analyses; HET: GDP; 1.70A {Pyrococcus horikoshii} SCOP: c.37.1.8

Probab=99.39  E-value=5.5e-13  Score=74.67  Aligned_cols=52  Identities=21%  Similarity=0.294  Sum_probs=42.2

Q ss_pred             eeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCCEEEEEEEcCCC
Q psy2514          13 GTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRGTFTRDYKKTIG   69 (71)
Q Consensus        13 ~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G   69 (71)
                      +|++++|++++|||||++++..+.|...+.|++..+..  ....+   .+.+|||+|
T Consensus         2 ~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~~~t~~~~--~~~~~---~~~l~Dt~G   53 (190)
T 2cxx_A            2 ATIIFAGRSNVGKSTLIYRLTGKKVRRGKRPGVTRKII--EIEWK---NHKIIDMPG   53 (190)
T ss_dssp             CEEEEEEBTTSSHHHHHHHHHSCCCSSSSSTTCTTSCE--EEEET---TEEEEECCC
T ss_pred             cEEEEECCCCCCHHHHHHHHhCcCCccCCCCCccceeE--EEecC---CEEEEECCC
Confidence            68999999999999999999999998888787664432  23333   689999998

>3lxx_A GTPase IMAP family member 4; structural genomics consortium, SGC, coiled coil, GTP- binding, nucleotide-binding, immune system; HET: GDP; 2.15A {Homo sapiens}

Probab=99.39  E-value=2.4e-12  Score=75.26  Aligned_cols=60  Identities=17%  Similarity=0.068  Sum_probs=43.1

Q ss_pred             CceeeeEEEEeCCCCCHHHHHHHHHhCcCCCCccC--CcceeeEEEEEEeCCEEEEEEEcCCC
Q psy2514           9 GSIKGTVVIVGNGAVGKSSMIQRYCRGTFTRDYKK--TIGVKSSMIQRYCRGTFTRDYKKTIG   69 (71)
Q Consensus         9 ~~~~~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~--t~~~~~~~~~~~~~~~~~l~i~Dt~G   69 (71)
                      ....++|+++|.+|+|||||+++++...+.....+  ++..++.......++ ..+.||||+|
T Consensus        26 ~~~~~~i~lvG~~g~GKStlin~l~g~~~~~~~~~~~~~t~~~~~~~~~~~~-~~i~liDTpG   87 (239)
T 3lxx_A           26 RNSQLRIVLVGKTGAGKSATGNSILGRKVFHSGTAAKSITKKCEKRSSSWKE-TELVVVDTPG   87 (239)
T ss_dssp             --CEEEEEEECCTTSSHHHHHHHHHTSCCSCC-------CCSCEEEEEEETT-EEEEEEECCS
T ss_pred             CCCceEEEEECCCCCCHHHHHHHHcCCCcCccCCCCCceeeeEEEEEEEeCC-ceEEEEECCC
Confidence            34569999999999999999999998888666555  444455555555555 5789999999

>3dpu_A RAB family protein; roccor, G-domain, COR, GTP-binding, nucleotide-binding, SIGN protein; 2.90A {Chlorobaculum tepidum}

Probab=99.39  E-value=1.7e-13  Score=88.07  Aligned_cols=63  Identities=19%  Similarity=0.187  Sum_probs=42.0

Q ss_pred             cCceeeeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEE------EEeC---CEEEEEEEcCCCC
Q psy2514           8 RGSIKGTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQ------RYCR---GTFTRDYKKTIGA   70 (71)
Q Consensus         8 ~~~~~~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~------~~~~---~~~~l~i~Dt~G~   70 (71)
                      .....+||+++|+++||||||++++..+.|...+.||++.++..+.      +..+   ..+.+.+|||+|.
T Consensus        37 ~~~~~~kV~lvG~~~vGKSSLl~~l~~~~~~~~~~~t~g~~~~~~~~~~~~~v~~~~~~~~~~~~i~Dt~G~  108 (535)
T 3dpu_A           37 VHLQEIKVHLIGDGMAGKTSLLKQLIGETFDPKESQTHGLNVVTKQAPNIKGLENDDELKECLFHFWDFGGQ  108 (535)
T ss_dssp             BCCCEEEEEEESSSCSSHHHHHHHHHC-----------CCCEEEEEGGGSGGGTTCSTTTTCEEEEECCCSC
T ss_pred             ccccceEEEEECCCCCCHHHHHHHHhcCCCCCCCCCccceEEEEeccccccceeecCCCceEEEEEEECCcH
Confidence            3456799999999999999999999999999899999998887553      1112   2688999999994

>2qu8_A Putative nucleolar GTP-binding protein 1; GTPase, malaria, structural genomics, structural genomics consortium, SGC, unknown function; HET: GDP; 2.01A {Plasmodium falciparum}

Probab=99.38  E-value=1.4e-12  Score=75.57  Aligned_cols=60  Identities=18%  Similarity=0.083  Sum_probs=41.6

Q ss_pred             ceeeeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCCEEEEEEEcCCCC
Q psy2514          10 SIKGTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRGTFTRDYKKTIGA   70 (71)
Q Consensus        10 ~~~~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~   70 (71)
                      ...+||+++|+++||||||+.+++.+.|.....+....++.......++ +.+.+|||+|.
T Consensus        27 ~~~~kI~vvG~~~vGKSsLin~l~~~~~~~~~~~~~t~~~~~~~~~~~~-~~~~l~DtpG~   86 (228)
T 2qu8_A           27 PHKKTIILSGAPNVGKSSFMNIVSRANVDVQSYSFTTKNLYVGHFDHKL-NKYQIIDTPGL   86 (228)
T ss_dssp             TTSEEEEEECSTTSSHHHHHHHHTTTCEEEECC-----CEEEEEEEETT-EEEEEEECTTT
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHhCCCCccCCCCCcceeeeeeeeecCC-CeEEEEECCCC
Confidence            4579999999999999999999998887533333333333333333333 78999999995

>3a1s_A Iron(II) transport protein B; FEOB, iron transporter, small GTPase, G protein, GDI; HET: GDP; 1.50A {Thermotoga maritima} PDB: 3a1t_A* 3a1u_A* 3a1v_A* 3a1w_A

Probab=99.38  E-value=2.4e-12  Score=76.58  Aligned_cols=60  Identities=17%  Similarity=0.096  Sum_probs=46.6

Q ss_pred             ceeeeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCCEEEEEEEcCCCC
Q psy2514          10 SIKGTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRGTFTRDYKKTIGA   70 (71)
Q Consensus        10 ~~~~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~   70 (71)
                      ...++++++|+++||||||+++++...+.....|.+..+.....+..++ ..+.+|||+|.
T Consensus         3 ~~~~kI~lvG~~nvGKTsL~n~l~g~~~~~~~~pg~tv~~~~~~~~~~~-~~~~l~DtpG~   62 (258)
T 3a1s_A            3 LHMVKVALAGCPNVGKTSLFNALTGTKQYVANWPGVTVEKKEGVFTYKG-YTINLIDLPGT   62 (258)
T ss_dssp             CEEEEEEEECCTTSSHHHHHHHHHTTCEEEEECTTSCCEEEEEEEEETT-EEEEEEECCCC
T ss_pred             CCceEEEEECCCCCCHHHHHHHHHCCCCcccCCCCceEEEEEEEEEECC-eEEEEEECCCc
Confidence            4568999999999999999999998777555556666555554444444 78999999995

>1nrj_B SR-beta, signal recognition particle receptor beta subunit; transmembrane, endoplasmic reticulum, GTP-binding; HET: GTP; 1.70A {Saccharomyces cerevisiae} SCOP: c.37.1.8

Probab=99.34  E-value=5.1e-13  Score=76.64  Aligned_cols=54  Identities=13%  Similarity=0.130  Sum_probs=43.8

Q ss_pred             CceeeeEEEEeCCCCCHHHHHHHHHhCcCCC---CccCCcceeeEEEEEEeCCEEEEEEEcCCCC
Q psy2514           9 GSIKGTVVIVGNGAVGKSSMIQRYCRGTFTR---DYKKTIGVKSSMIQRYCRGTFTRDYKKTIGA   70 (71)
Q Consensus         9 ~~~~~ki~v~G~~~vGKtsl~~~~~~~~f~~---~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~   70 (71)
                      ....++++++|++++|||||+.++..+.+..   .+.|+++.++        ..+.+.+|||+|.
T Consensus         9 ~~~~~~i~~~G~~g~GKTsl~~~l~~~~~~~~~~~~~~~~~~~~--------~~~~~~l~Dt~G~   65 (218)
T 1nrj_B            9 KSYQPSIIIAGPQNSGKTSLLTLLTTDSVRPTVVSQEPLSAADY--------DGSGVTLVDFPGH   65 (218)
T ss_dssp             -CCCCEEEEECSTTSSHHHHHHHHHHSSCCCBCCCSSCEEETTG--------GGSSCEEEECCCC
T ss_pred             cCCCCEEEEECCCCCCHHHHHHHHhcCCCCCeeeecCceEEEEe--------eCceEEEEECCCc
Confidence            4567999999999999999999999988765   4667776555        3467899999984

>3k53_A Ferrous iron transport protein B; GTPase fold, helical bundle, G-protein, prokaryote, GTP-BIND nucleotide-binding, metal transport; 2.70A {Pyrococcus furiosus}

Probab=99.32  E-value=6.8e-12  Score=74.72  Aligned_cols=58  Identities=19%  Similarity=0.038  Sum_probs=48.6

Q ss_pred             eeeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCCEEEEEEEcCCCC
Q psy2514          12 KGTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRGTFTRDYKKTIGA   70 (71)
Q Consensus        12 ~~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~   70 (71)
                      .++++++|++|+|||||++++....+...+.|++..+........++ ..+.+|||+|.
T Consensus         3 ~~~i~lvG~~g~GKTTL~n~l~g~~~~~~~~~~~t~~~~~~~~~~~~-~~~~l~DtpG~   60 (271)
T 3k53_A            3 LKTVALVGNPNVGKTTIFNALTGLRQHVGNWPGVTVEKKEGIMEYRE-KEFLVVDLPGI   60 (271)
T ss_dssp             CEEEEEEECSSSSHHHHHHHHHTTCEEEEECTTSSCEEEEEEEEETT-EEEEEEECCCC
T ss_pred             eeEEEEECCCCCCHHHHHHHHhCCCcccCCCCCeEEEeeEEEEEECC-ceEEEEeCCCc
Confidence            58999999999999999999998877666778888777776666666 45999999984

>2xtp_A GTPase IMAP family member 2; immune system, G protein; HET: MSE; 1.50A {Homo sapiens} PDB: 2xto_A* 2xtm_A* 2xtn_A* 3p1j_A

Probab=99.31  E-value=1.3e-11  Score=72.77  Aligned_cols=60  Identities=17%  Similarity=0.089  Sum_probs=45.0

Q ss_pred             ceeeeEEEEeCCCCCHHHHHHHHHhCc-CCCCccCC-cceeeEEEEEEeCCEEEEEEEcCCCC
Q psy2514          10 SIKGTVVIVGNGAVGKSSMIQRYCRGT-FTRDYKKT-IGVKSSMIQRYCRGTFTRDYKKTIGA   70 (71)
Q Consensus        10 ~~~~ki~v~G~~~vGKtsl~~~~~~~~-f~~~~~~t-~~~~~~~~~~~~~~~~~l~i~Dt~G~   70 (71)
                      ...++|+++|.+++|||||+.+++... |...+.|+ +..+........++ ..+.||||+|.
T Consensus        20 ~~~~~I~lvG~~g~GKStl~n~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~-~~i~iiDTpG~   81 (260)
T 2xtp_A           20 RSELRIILVGKTGTGKSAAGNSILRKQAFESKLGSQTLTKTCSKSQGSWGN-REIVIIDTPDM   81 (260)
T ss_dssp             -CCEEEEEEECTTSCHHHHHHHHHTSCCSCCCTTSCCCCCSCEEEEEEETT-EEEEEEECCGG
T ss_pred             CCceEEEEECCCCCCHHHHHHHHhCCCCcccCCCCCceeeeeEEEEEEeCC-CEEEEEECcCC
Confidence            356899999999999999999999776 66556565 44445545555454 67999999983

>3o47_A ADP-ribosylation factor GTPase-activating protein ribosylation factor 1; structural genomics consortium, GTPase activation; HET: GDP; 2.80A {Homo sapiens}

Probab=99.31  E-value=2.2e-12  Score=78.98  Aligned_cols=56  Identities=18%  Similarity=0.214  Sum_probs=43.9

Q ss_pred             eeeeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCCEEEEEEEcCCCC
Q psy2514          11 IKGTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRGTFTRDYKKTIGA   70 (71)
Q Consensus        11 ~~~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~   70 (71)
                      ..+||+++|+++||||||+.++..+.|... .||++..+.  .+.. ..+.++||||+|.
T Consensus       164 ~~~kI~ivG~~~vGKSsLl~~l~~~~~~~~-~pT~~~~~~--~~~~-~~~~l~i~Dt~G~  219 (329)
T 3o47_A          164 KEMRILMVGLDAAGKTTILYKLKLGEIVTT-IPTIGFNVE--TVEY-KNISFTVWDVGGQ  219 (329)
T ss_dssp             CSEEEEEEESTTSSHHHHHHHTCSSCCEEE-EEETTEEEE--EEEE-TTEEEEEEECC--
T ss_pred             CcceEEEECCCCccHHHHHHHHhCCCCCCc-ccccceEEE--EEec-CcEEEEEEECCCC
Confidence            457999999999999999999999888765 488886653  3333 3488999999984

>3iby_A Ferrous iron transport protein B; G protein, G domain, iron uptake, cell inner membrane, cell GTP-binding, ION transport, membrane; 2.50A {Legionella pneumophila}

Probab=99.30  E-value=1e-11  Score=73.90  Aligned_cols=57  Identities=11%  Similarity=0.116  Sum_probs=47.2

Q ss_pred             eeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCCEEEEEEEcCCCC
Q psy2514          13 GTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRGTFTRDYKKTIGA   70 (71)
Q Consensus        13 ~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~   70 (71)
                      .+++++|+++||||||++++....+...+.|++..+.....+..++. .+.+|||+|.
T Consensus         2 ~kI~lvG~~n~GKSTL~n~L~g~~~~v~~~pg~Tv~~~~~~~~~~~~-~~~lvDtpG~   58 (256)
T 3iby_A            2 THALLIGNPNCGKTTLFNALTNANQRVGNWPGVTVEKKTGEFLLGEH-LIEITDLPGV   58 (256)
T ss_dssp             CEEEEEESTTSSHHHHHHHHHTTSEEEEECTTSSSEEEEEEEEETTE-EEEEEECCCC
T ss_pred             CEEEEECCCCCCHHHHHHHHHCCCCCccCCCCceEEEEEEEEEECCe-EEEEEeCCCc
Confidence            48999999999999999999987765556677777777777766664 8999999995

>3pqc_A Probable GTP-binding protein ENGB; rossmann fold, GTPase, cell cycle, hydrolase; HET: GDP; 1.90A {Thermotoga maritima} PDB: 3pr1_A

Probab=99.29  E-value=1.3e-11  Score=69.17  Aligned_cols=58  Identities=26%  Similarity=0.303  Sum_probs=43.2

Q ss_pred             CceeeeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCCEEEEEEEcCCC
Q psy2514           9 GSIKGTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRGTFTRDYKKTIG   69 (71)
Q Consensus         9 ~~~~~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G   69 (71)
                      ....+|++++|++++|||||++++..+.+. .+.++.+..........+.  .+.+|||+|
T Consensus        20 ~~~~~~i~v~G~~~~GKSsli~~l~~~~~~-~~~~~~~~t~~~~~~~~~~--~~~i~Dt~G   77 (195)
T 3pqc_A           20 PPLKGEVAFVGRSNVGKSSLLNALFNRKIA-FVSKTPGKTRSINFYLVNS--KYYFVDLPG   77 (195)
T ss_dssp             CCTTCEEEEEEBTTSSHHHHHHHHHTSCCS-CCCSSCCCCCCEEEEEETT--TEEEEECCC
T ss_pred             CCCCeEEEEECCCCCCHHHHHHHHHcCccc-cccCCCCCccCeEEEEECC--cEEEEECCC
Confidence            455689999999999999999999988743 4556666554444443343  467999998

>2ged_A SR-beta, signal recognition particle receptor beta subunit; protein transport, G protein, proline isomerization, circular permutation; 2.20A {Saccharomyces cerevisiae}

Probab=99.29  E-value=8.7e-13  Score=74.28  Aligned_cols=53  Identities=13%  Similarity=0.139  Sum_probs=37.3

Q ss_pred             ceeeeEEEEeCCCCCHHHHHHHHHhCcCCC---CccCCcceeeEEEEEEeCCEEEEEEEcCCCC
Q psy2514          10 SIKGTVVIVGNGAVGKSSMIQRYCRGTFTR---DYKKTIGVKSSMIQRYCRGTFTRDYKKTIGA   70 (71)
Q Consensus        10 ~~~~ki~v~G~~~vGKtsl~~~~~~~~f~~---~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~   70 (71)
                      ...++++++|++++|||||+.++..+.+..   .+.|+++.++        ..+.+.+|||+|.
T Consensus        46 ~~~~~i~vvG~~g~GKSsll~~l~~~~~~~~~~~~~~~~~~~~--------~~~~~~l~Dt~G~  101 (193)
T 2ged_A           46 SYQPSIIIAGPQNSGKTSLLTLLTTDSVRPTVVSQEPLSAADY--------DGSGVTLVDFPGH  101 (193)
T ss_dssp             CCCCEEEEECCTTSSHHHHHHHHHHSSCC------------CC--------CCTTCSEEEETTC
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHhcCCCCcccccCCCceeeee--------cCCeEEEEECCCC
Confidence            456899999999999999999999888754   3445555433        3467899999984

>3i8s_A Ferrous iron transport protein B; GTPase, GPCR, iron uptake, FEO, cell inner membrane, cell ME GTP-binding, ION transport, membrane; 1.80A {Escherichia coli} PDB: 3i8x_A* 3i92_A* 3hyr_A 3hyt_A* 2wic_A* 2wib_A* 2wia_A*

Probab=99.27  E-value=1.1e-11  Score=74.21  Aligned_cols=58  Identities=16%  Similarity=0.105  Sum_probs=46.6

Q ss_pred             eeeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCCEEEEEEEcCCCC
Q psy2514          12 KGTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRGTFTRDYKKTIGA   70 (71)
Q Consensus        12 ~~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~   70 (71)
                      .++++++|.+++|||||++++....+...+.|++..+.....+..++ ..+.+|||+|.
T Consensus         3 ~~~I~lvG~~n~GKSTLin~l~g~~~~v~~~~g~t~~~~~~~~~~~~-~~~~liDtpG~   60 (274)
T 3i8s_A            3 KLTIGLIGNPNSGKTTLFNQLTGSRQRVGNWAGVTVERKEGQFSTTD-HQVTLVDLPGT   60 (274)
T ss_dssp             CEEEEEEECTTSSHHHHHHHHHTTCEEEEECTTSSSEEEEEEEECSS-CEEEEEECCCC
T ss_pred             ccEEEEECCCCCCHHHHHHHHhCCCcccCCCCCeeEEEEEEEEEeCC-CceEEEECcCC
Confidence            58999999999999999999998877655667777666666665544 56788999994

>3c5h_A Glucocorticoid receptor DNA-binding factor 1; RAS, GTPase, glucorticoid receptor, structural genomics consortium, SGC, alternative splicing; HET: GNP; 1.80A {Homo sapiens}

Probab=99.27  E-value=5.2e-13  Score=79.07  Aligned_cols=59  Identities=15%  Similarity=0.072  Sum_probs=43.0

Q ss_pred             cCceeeeEEEEeCC---------CCCHHHHHHHHHh---CcCCCCccCCc-ceeeEEEEE---------------EeCCE
Q psy2514           8 RGSIKGTVVIVGNG---------AVGKSSMIQRYCR---GTFTRDYKKTI-GVKSSMIQR---------------YCRGT   59 (71)
Q Consensus         8 ~~~~~~ki~v~G~~---------~vGKtsl~~~~~~---~~f~~~~~~t~-~~~~~~~~~---------------~~~~~   59 (71)
                      .....+||+++|++         +||||||+++++.   +.|...+.||+ +.+|..+.+               ..+..
T Consensus        15 ~~~~~~ki~lvG~~~~~~~~~~~~vGKSsLi~~l~~~~~~~~~~~~~~t~~~~~~~~~~i~~~~~~~~~~~~~~~~~~~~   94 (255)
T 3c5h_A           15 YFQGTYNISVVGLSGTEKEKGQCGIGKSCLCNRFVRPSADEFHLDHTSVLSTSDFGGRVVNNDHFLYWGEVSRSLEDCVE   94 (255)
T ss_dssp             SCCSCEEEEEEESCCCTTTTTTCCCSHHHHHHHHHCCSTTTCCSCCCCEECHHHHTSTTTTTCSEEEEEEEC--------
T ss_pred             CCCceeEEEEECCCccccccCCCCcCHHHHHHHHHhccCCccccccCCcccccccceeEeecccccccccccccccCCcE
Confidence            34567999999999         9999999999998   67777788886 666543322               12347


Q ss_pred             EEEEEEc
Q psy2514          60 FTRDYKK   66 (71)
Q Consensus        60 ~~l~i~D   66 (71)
                      +.++|||
T Consensus        95 ~~l~i~D  101 (255)
T 3c5h_A           95 CKMHIVE  101 (255)
T ss_dssp             -CEEEEE
T ss_pred             EEEEEEE
Confidence            8899999

>3def_A T7I23.11 protein; chloroplast, TOC33, GTPase, hydrolase; HET: GDP; 1.96A {Arabidopsis thaliana} PDB: 3bb3_A* 3bb4_A* 2j3e_A*

Probab=99.26  E-value=6.1e-11  Score=70.34  Aligned_cols=59  Identities=27%  Similarity=0.358  Sum_probs=42.2

Q ss_pred             ceeeeEEEEeCCCCCHHHHHHHHHhCcC--CCCccCCcceeeEEEEEEeCCEEEEEEEcCCCC
Q psy2514          10 SIKGTVVIVGNGAVGKSSMIQRYCRGTF--TRDYKKTIGVKSSMIQRYCRGTFTRDYKKTIGA   70 (71)
Q Consensus        10 ~~~~ki~v~G~~~vGKtsl~~~~~~~~f--~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~   70 (71)
                      ...++|+++|.+++|||||++++....+  ...+.++.. .........++ ..+.+|||+|.
T Consensus        34 ~~~~~I~lvG~~g~GKSSLin~l~~~~~~~~~~~~~~t~-~~~~~~~~~~~-~~l~liDTpG~   94 (262)
T 3def_A           34 MNSMTVLVLGKGGVGKSSTVNSLIGEQVVRVSPFQAEGL-RPVMVSRTMGG-FTINIIDTPGL   94 (262)
T ss_dssp             CCEEEEEEEECTTSSHHHHHHHHHTSCCSCCCSSCC-CC-CCEEEEEEETT-EEEEEEECCCS
T ss_pred             CCCcEEEEECCCCCCHHHHHHHHhCCCCcccCCCCCcce-eeEEEEEEECC-eeEEEEECCCC
Confidence            4579999999999999999999998774  333433332 33333444444 58999999994

>3b1v_A Ferrous iron uptake transporter protein B; G protein, iron transport, GTPase, transmembrane, potassium; HET: GGM; 1.85A {Streptococcus thermophilus} PDB: 3b1w_A* 3lx5_A* 3lx8_A* 3ss8_A* 3b1z_A 3b1y_A* 3b1x_A* 3tah_A*

Probab=99.23  E-value=7.7e-12  Score=75.04  Aligned_cols=57  Identities=12%  Similarity=0.131  Sum_probs=39.9

Q ss_pred             eeeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCCEEEEEEEcCCCC
Q psy2514          12 KGTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRGTFTRDYKKTIGA   70 (71)
Q Consensus        12 ~~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~   70 (71)
                      .++++++|+++||||||+++++...+.....|.+..+...  ...+....+++|||+|.
T Consensus         3 ~~kI~lvG~~nvGKSTL~n~L~g~~~~v~~~pg~tv~~~~--~~~~~~~~l~l~DtpG~   59 (272)
T 3b1v_A            3 MTEIALIGNPNSGKTSLFNLITGHNQRVGNWPGVTVERKS--GLVKKNKDLEIQDLPGI   59 (272)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHCCCCCCCSSSCCCCSCEE--EECTTCTTEEEEECCCC
T ss_pred             ceEEEEECCCCCCHHHHHHHHHCCCCcccCCCCCcEEEEE--EEEecCCeEEEEECCCc
Confidence            5799999999999999999999765433333544433322  22222457999999995

>4dhe_A Probable GTP-binding protein ENGB; melioidosis, RAS-like GTPase, cell division, cell cycle, SEP GTP-binding; 2.20A {Burkholderia thailandensis}

Probab=99.22  E-value=1.7e-11  Score=70.37  Aligned_cols=61  Identities=16%  Similarity=0.149  Sum_probs=40.5

Q ss_pred             CceeeeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEe--CCEEEEEEEcCCC
Q psy2514           9 GSIKGTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYC--RGTFTRDYKKTIG   69 (71)
Q Consensus         9 ~~~~~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~--~~~~~l~i~Dt~G   69 (71)
                      ....++|+++|++++|||||+++++.+.+.....++.+..........  .+...+.+|||+|
T Consensus        26 ~~~~~~i~v~G~~~~GKSslin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~l~DtpG   88 (223)
T 4dhe_A           26 PTVQPEIAFAGRSNAGKSTAINVLCNQKRLAFASKTPGRTQHINYFSVGPAAEPVAHLVDLPG   88 (223)
T ss_dssp             CCCSCEEEEEESCHHHHHHHHHHHTTCSSSSCTTCCCCSCCCEEEEEESCTTSCSEEEEECCC
T ss_pred             CCCCCEEEEEcCCCCCHHHHHHHHhCCCcceeecCCCCcccceEEEEecCCCCCcEEEEcCCC
Confidence            445789999999999999999999987632222222222222222222  3357799999999

>2qag_A Septin-2, protein NEDD5; cell cycle, cell division, GTP-binding, nucleotide-binding, phosphorylation, acetylation, alternative splicing, coiled coil; HET: GDP GTP; 4.00A {Homo sapiens}

Probab=99.20  E-value=2.1e-11  Score=75.53  Aligned_cols=62  Identities=21%  Similarity=0.343  Sum_probs=37.2

Q ss_pred             CceeeeEEEEeCCCCCHHHHHHHHH-hCcCCCCcc--------CCcceeeEEEEEEeCC-EEEEEEEcCCCC
Q psy2514           9 GSIKGTVVIVGNGAVGKSSMIQRYC-RGTFTRDYK--------KTIGVKSSMIQRYCRG-TFTRDYKKTIGA   70 (71)
Q Consensus         9 ~~~~~ki~v~G~~~vGKtsl~~~~~-~~~f~~~~~--------~t~~~~~~~~~~~~~~-~~~l~i~Dt~G~   70 (71)
                      ....++|+++|++|+|||||+.++. .+.|...+.        +|++.++....+..++ .+.+.+|||+|.
T Consensus        34 ~~~~~~I~vvG~~g~GKSTLln~L~~~~~~~~~~~~~~~~~~~~ti~~~~~~~~~~~~~~~~~l~i~DTpG~  105 (361)
T 2qag_A           34 KGFEFTLMVVGESGLGKSTLINSLFLTDLYPERVIPGAAEKIERTVQIEASTVEIEERGVKLRLTVVDTPGY  105 (361)
T ss_dssp             HCCEECEEECCCTTSCHHHHHHHHTTCCC---------------CEEEEEEEEC----CEEEEEEEEC----
T ss_pred             CCCCEEEEEEcCCCCCHHHHHHHHhCCCCCCCCcccCCCcccCCceeEEEEEEEeecCCcccceEEEEeccc
Confidence            4557999999999999999999965 455554442        6777665544444444 578999999984

>1h65_A Chloroplast outer envelope protein OEP34; GTPase, translocon; HET: GDP; 2.0A {Pisum sativum} SCOP: c.37.1.8 PDB: 3bb1_A*

Probab=99.19  E-value=1.1e-10  Score=69.43  Aligned_cols=59  Identities=25%  Similarity=0.363  Sum_probs=40.8

Q ss_pred             ceeeeEEEEeCCCCCHHHHHHHHHhCcCC--CCccCCcceeeEEEEEEeCCEEEEEEEcCCCC
Q psy2514          10 SIKGTVVIVGNGAVGKSSMIQRYCRGTFT--RDYKKTIGVKSSMIQRYCRGTFTRDYKKTIGA   70 (71)
Q Consensus        10 ~~~~ki~v~G~~~vGKtsl~~~~~~~~f~--~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~   70 (71)
                      ...++|+++|++++|||||+++++...+.  ..+.++.. +....... .+...+.+|||+|.
T Consensus        37 ~~~~~I~vvG~~g~GKSSLin~l~~~~~~~~~~~~~~t~-~~~~~~~~-~~~~~l~iiDTpG~   97 (270)
T 1h65_A           37 VNSLTILVMGKGGVGKSSTVNSIIGERVVSISPFQSEGP-RPVMVSRS-RAGFTLNIIDTPGL   97 (270)
T ss_dssp             CCEEEEEEEESTTSSHHHHHHHHHTSCCSCCCSSSCCCS-SCEEEEEE-ETTEEEEEEECCCS
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHhCCCcccccCCCCcce-eeEEEEEe-eCCeEEEEEECCCC
Confidence            45799999999999999999999987753  22323322 22222222 23578999999984

>1mky_A Probable GTP-binding protein ENGA; GTPase, DER, KH-domain, tandem G-domains, ligand binding protein; HET: GDP; 1.90A {Thermotoga maritima} SCOP: c.37.1.8 c.37.1.8 d.52.5.1

Probab=99.18  E-value=5e-11  Score=75.18  Aligned_cols=57  Identities=23%  Similarity=0.239  Sum_probs=36.7

Q ss_pred             eeEEEEeCCCCCHHHHHHHHHhCcCC-CCccCCcceeeEEEEEEeCCEEEEEEEcCCCC
Q psy2514          13 GTVVIVGNGAVGKSSMIQRYCRGTFT-RDYKKTIGVKSSMIQRYCRGTFTRDYKKTIGA   70 (71)
Q Consensus        13 ~ki~v~G~~~vGKtsl~~~~~~~~f~-~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~   70 (71)
                      .+++++|.++||||||+++++.+.+. ....|.+..++.......++ ..+.+|||+|.
T Consensus         2 ~~v~ivG~pnvGKStL~nrl~~~~~~~v~~~~g~T~d~~~~~~~~~~-~~~~l~DT~G~   59 (439)
T 1mky_A            2 ATVLIVGRPNVGKSTLFNKLVKKKKAIVEDEEGVTRDPVQDTVEWYG-KTFKLVDTCGV   59 (439)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHC--------------CCSEEEEEETT-EEEEEEECTTT
T ss_pred             CEEEEECCCCCCHHHHHHHHhCCCCceecCCCCCccceeeEEEEECC-eEEEEEECCCc
Confidence            47999999999999999999977642 22345555566666666666 35789999994

>2hjg_A GTP-binding protein ENGA; GTPase ENGA KH-domain, hydrolase; HET: GDP; 2.50A {Bacillus subtilis}

Probab=99.16  E-value=2e-11  Score=76.97  Aligned_cols=59  Identities=14%  Similarity=-0.015  Sum_probs=39.6

Q ss_pred             eeeeEEEEeCCCCCHHHHHHHHHhCcCC-CCccCCcceeeEEEEEEeCCEEEEEEEcCCCC
Q psy2514          11 IKGTVVIVGNGAVGKSSMIQRYCRGTFT-RDYKKTIGVKSSMIQRYCRGTFTRDYKKTIGA   70 (71)
Q Consensus        11 ~~~ki~v~G~~~vGKtsl~~~~~~~~f~-~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~   70 (71)
                      ..+|++++|.++||||||+++++...+. .+..|++..+.....+..++ ..+.+|||+|.
T Consensus       174 ~~~ki~lvG~~nvGKSSLin~l~~~~~~~~~~~~gtT~d~~~~~~~~~~-~~~~l~DT~G~  233 (436)
T 2hjg_A          174 EVIQFCLIGRPNVGKSSLVNAMLGEERVIVSNVAGTTRDAVDTSFTYNQ-QEFVIVDTAGM  233 (436)
T ss_dssp             TCEEEEEECSTTSSHHHHHHHHHTSTTEEEC---------CCEEEEETT-EEEEETTHHHH
T ss_pred             cCcEEEEEcCCCCCHHHHHHHHhCCCceeecCCCCceeeeeEEEEEECC-eEEEEEECCCc
Confidence            4589999999999999999999987763 23345444455555555565 35899999983

>1wf3_A GTP-binding protein; GTPase, riken structural genomics/prote initiative, RSGI, structural genomics, hydrolase; HET: GNP; 1.88A {Thermus thermophilus} SCOP: c.37.1.8 d.52.3.1

Probab=99.16  E-value=3.1e-10  Score=68.88  Aligned_cols=59  Identities=22%  Similarity=0.188  Sum_probs=40.9

Q ss_pred             eeeeEEEEeCCCCCHHHHHHHHHhCcCCC-CccCCcceeeEEEEEEeCCEEEEEEEcCCCC
Q psy2514          11 IKGTVVIVGNGAVGKSSMIQRYCRGTFTR-DYKKTIGVKSSMIQRYCRGTFTRDYKKTIGA   70 (71)
Q Consensus        11 ~~~ki~v~G~~~vGKtsl~~~~~~~~f~~-~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~   70 (71)
                      ...+++++|.++||||||+++++...+.. ...|....+.... +...+...+.+|||+|.
T Consensus         6 ~~g~V~ivG~~nvGKSTLln~l~g~~~~ivs~~~~tTr~~i~~-i~~~~~~~l~l~DTpG~   65 (301)
T 1wf3_A            6 YSGFVAIVGKPNVGKSTLLNNLLGVKVAPISPRPQTTRKRLRG-ILTEGRRQIVFVDTPGL   65 (301)
T ss_dssp             EEEEEEEECSTTSSHHHHHHHHHTSCCSCCCSSSCCCCSCEEE-EEEETTEEEEEEECCCC
T ss_pred             cCCEEEEECCCCCCHHHHHHHHhCCceeeecCCCCceeEEEEE-EEEeCCcEEEEecCccc
Confidence            45689999999999999999999887752 2333222222222 22334578999999994

>1pui_A ENGB, probable GTP-binding protein ENGB; structural genomics, nysgxrc T16, GTPase, PSI, protein structure initiative; 2.00A {Escherichia coli} SCOP: c.37.1.8

Probab=99.16  E-value=2.6e-11  Score=69.05  Aligned_cols=60  Identities=17%  Similarity=0.077  Sum_probs=35.8

Q ss_pred             CceeeeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCCEEEEEEEcCCCC
Q psy2514           9 GSIKGTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRGTFTRDYKKTIGA   70 (71)
Q Consensus         9 ~~~~~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~   70 (71)
                      .....+++++|++|+|||||+++++...+...+.|+.|..+.......++  .+.+|||+|.
T Consensus        23 ~~~~~~v~lvG~~g~GKSTLl~~l~g~~~~~~~~~~~G~~~~~~~~~~~~--~~~l~Dt~G~   82 (210)
T 1pui_A           23 SDTGIEVAFAGRSNAGKSSALNTLTNQKSLARTSKTPGRTQLINLFEVAD--GKRLVDLPGY   82 (210)
T ss_dssp             CSCSEEEEEEECTTSSHHHHHTTTCCC-------------CCEEEEEEET--TEEEEECCCC
T ss_pred             CCCCcEEEEECCCCCCHHHHHHHHhCCCccccccCCCccceeeEEEEecC--CEEEEECcCC
Confidence            34568999999999999999999987776555667777655433333333  4779999984

>3iev_A GTP-binding protein ERA; ERA, GTPase, KH domain, anti-SD, 16S rRNA, 30S ribosome ASSE GTP-binding, nucleotide-binding; HET: GNP; 1.90A {Aquifex aeolicus} PDB: 3r9w_A* 3r9x_A*

Probab=99.12  E-value=4.7e-10  Score=68.09  Aligned_cols=64  Identities=19%  Similarity=0.118  Sum_probs=44.3

Q ss_pred             ccCceeeeEEEEeCCCCCHHHHHHHHHhCcCCC-CccCCcceeeEEEEEEeCCEEEEEEEcCCCC
Q psy2514           7 LRGSIKGTVVIVGNGAVGKSSMIQRYCRGTFTR-DYKKTIGVKSSMIQRYCRGTFTRDYKKTIGA   70 (71)
Q Consensus         7 ~~~~~~~ki~v~G~~~vGKtsl~~~~~~~~f~~-~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~   70 (71)
                      ..++..-.++++|.++||||||+++++...+.. ...|....+........+....+.+|||+|.
T Consensus         5 ~~~~~~g~v~ivG~~nvGKSTLin~l~g~~~~i~s~~~~tT~~~~~~~~~~~~~~~i~lvDTPG~   69 (308)
T 3iev_A            5 HHHMKVGYVAIVGKPNVGKSTLLNNLLGTKVSIISPKAGTTRMRVLGVKNIPNEAQIIFLDTPGI   69 (308)
T ss_dssp             --CCEEEEEEEECSTTSSHHHHHHHHHTSCCSCCCSSSCCCCSCEEEEEEETTTEEEEEEECCCC
T ss_pred             CCCCCCCEEEEECCCCCcHHHHHHHHhCCCccccCCCCCceeeEEEEEEecCCCCeEEEEECcCC
Confidence            345677899999999999999999999887752 2223222233333344443688999999994

>4dcu_A GTP-binding protein ENGA; GTPase, GDP, protein binding, hydrolase; HET: GDP; 2.00A {Bacillus subtilis} PDB: 4dct_A* 4dcs_A* 4dcv_A* 2hjg_A*

Probab=99.10  E-value=6.4e-11  Score=75.01  Aligned_cols=59  Identities=14%  Similarity=0.020  Sum_probs=40.7

Q ss_pred             ceeeeEEEEeCCCCCHHHHHHHHHhCc-CCCCccCCcceeeEEEEEEeCCEEEEEEEcCCC
Q psy2514          10 SIKGTVVIVGNGAVGKSSMIQRYCRGT-FTRDYKKTIGVKSSMIQRYCRGTFTRDYKKTIG   69 (71)
Q Consensus        10 ~~~~ki~v~G~~~vGKtsl~~~~~~~~-f~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G   69 (71)
                      ...+|++++|++++|||||+.++.... +.....|++..+.....+..++. .+.||||+|
T Consensus       193 ~~~~ki~ivG~~~vGKSslin~l~~~~~~~~~~~~gtt~~~~~~~~~~~~~-~~~l~DT~G  252 (456)
T 4dcu_A          193 EEVIQFCLIGRPNVGKSSLVNAMLGEERVIVSNVAGTTRDAVDTSFTYNQQ-EFVIVDTAG  252 (456)
T ss_dssp             TTCEEEEEECSTTSSHHHHHHHHHTSTTEEECC------CTTSEEEEETTE-EEEETTGGG
T ss_pred             cccceeEEecCCCCCHHHHHHHHhCCCccccCCCCCeEEEEEEEEEEECCc-eEEEEECCC
Confidence            456899999999999999999999654 22233455555555555555664 799999999

>3gee_A MNME, tRNA modification GTPase MNME; G protein, cytoplasm, GTP- binding, hydrolase, magnesium, metal-binding, nucleotide- binding, potassium; HET: GDP FON; 2.95A {Chlorobium tepidum} PDB: 3gei_A*

Probab=99.08  E-value=1.2e-10  Score=74.43  Aligned_cols=59  Identities=14%  Similarity=-0.033  Sum_probs=32.7

Q ss_pred             eeeeEEEEeCCCCCHHHHHHHHHhCcC-CCCccCCcceeeEEEEEEeCCEEEEEEEcCCCC
Q psy2514          11 IKGTVVIVGNGAVGKSSMIQRYCRGTF-TRDYKKTIGVKSSMIQRYCRGTFTRDYKKTIGA   70 (71)
Q Consensus        11 ~~~ki~v~G~~~vGKtsl~~~~~~~~f-~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~   70 (71)
                      ..++++++|.+++|||||++++...+. .....|++..++....+..++ +.+.+|||+|.
T Consensus       232 ~~~kV~ivG~~nvGKSSLln~L~~~~~a~vs~~~gtT~d~~~~~i~~~g-~~l~liDT~G~  291 (476)
T 3gee_A          232 EGVSTVIAGKPNAGKSTLLNTLLGQERAIVSHMPGTTRDYIEECFIHDK-TMFRLTDTAGL  291 (476)
T ss_dssp             HCEEEEEECCTTSSHHHHHHHCC------------------CEEEEETT-EEEEEEC----
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCCCcccCCCCCceEEEEEEEEEECC-eEEEEEECCCC
Confidence            358899999999999999999997653 223345555566656666666 67999999983

>2qnr_A Septin-2, protein NEDD5; structural genomics consortium, SGC, mitosis, GDP, C cycle, cell division, GTP-binding, nucleotide-binding; HET: GDP; 2.60A {Homo sapiens} PDB: 2qa5_A* 3ftq_A*

Probab=99.08  E-value=1.3e-10  Score=70.55  Aligned_cols=62  Identities=21%  Similarity=0.344  Sum_probs=31.9

Q ss_pred             CceeeeEEEEeCCCCCHHHHHHHHHhC-cCCCCc--------cCCcceeeEEEEEEeCC-EEEEEEEcCCCC
Q psy2514           9 GSIKGTVVIVGNGAVGKSSMIQRYCRG-TFTRDY--------KKTIGVKSSMIQRYCRG-TFTRDYKKTIGA   70 (71)
Q Consensus         9 ~~~~~ki~v~G~~~vGKtsl~~~~~~~-~f~~~~--------~~t~~~~~~~~~~~~~~-~~~l~i~Dt~G~   70 (71)
                      ....++++++|++|+|||||+.++... .++.++        .++++..........++ ...+.+|||+|.
T Consensus        15 ~~~~~~I~lvG~nG~GKSTLl~~L~g~~~~~~~gi~~~g~~~~~t~~~~~~~~~~q~~~~~~~ltv~Dt~g~   86 (301)
T 2qnr_A           15 KGFEFTLMVVGESGLGKSTLINSLFLTDLYPERVISGAAEKIERTVQIEASTVEIEERGVKLRLTVVDTPGY   86 (301)
T ss_dssp             ---CEEEEEEEETTSSHHHHHHHHHC------------------------CEEEEC---CCEEEEEEEEC--
T ss_pred             cCCCEEEEEECCCCCCHHHHHHHHhCCCccCCCCcccCCcccCCcceEeeEEEEecCCCcccCcchhhhhhh
Confidence            456799999999999999999997653 565543        23333322222222233 578999999884

>1mky_A Probable GTP-binding protein ENGA; GTPase, DER, KH-domain, tandem G-domains, ligand binding protein; HET: GDP; 1.90A {Thermotoga maritima} SCOP: c.37.1.8 c.37.1.8 d.52.5.1

Probab=99.05  E-value=4.1e-10  Score=71.05  Aligned_cols=58  Identities=19%  Similarity=0.141  Sum_probs=39.6

Q ss_pred             eeeeEEEEeCCCCCHHHHHHHHHhCcC--CCCccCCcceeeEEEEEEeCCEEEEEEEcCCCC
Q psy2514          11 IKGTVVIVGNGAVGKSSMIQRYCRGTF--TRDYKKTIGVKSSMIQRYCRGTFTRDYKKTIGA   70 (71)
Q Consensus        11 ~~~ki~v~G~~~vGKtsl~~~~~~~~f--~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~   70 (71)
                      ..+|++++|++|||||||+++++...+  ..++ |++..+.....+..++. .+.+|||+|.
T Consensus       179 ~~~kvaivG~~gvGKSTLln~l~g~~~~~v~~~-~gtT~d~~~~~i~~~g~-~~~l~Dt~G~  238 (439)
T 1mky_A          179 DAIKVAIVGRPNVGKSTLFNAILNKERALVSPI-PGTTRDPVDDEVFIDGR-KYVFVDTAGL  238 (439)
T ss_dssp             SCEEEEEECSTTSSHHHHHHHHHTSTTEEECCC-C------CCEEEEETTE-EEEESSCSCC
T ss_pred             cCceEEEECCCCCCHHHHHHHHhCCcccccCCC-CCCcCCceEEEEEECCE-EEEEEECCCC
Confidence            358999999999999999999997764  2333 44434444445555663 6789999984

>3geh_A MNME, tRNA modification GTPase MNME; G protein, U34, GTP-binding, HYDR magnesium, metal-binding, nucleotide-binding, potassium, TR processing; HET: GDP FON; 3.20A {Nostoc SP}

Probab=99.05  E-value=1e-10  Score=74.56  Aligned_cols=58  Identities=22%  Similarity=0.173  Sum_probs=40.5

Q ss_pred             eeeeEEEEeCCCCCHHHHHHHHHhCcCC-CCccCCcceeeEEEEEEeCCEEEEEEEcCCC
Q psy2514          11 IKGTVVIVGNGAVGKSSMIQRYCRGTFT-RDYKKTIGVKSSMIQRYCRGTFTRDYKKTIG   69 (71)
Q Consensus        11 ~~~ki~v~G~~~vGKtsl~~~~~~~~f~-~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G   69 (71)
                      ..++++++|.+++|||||++++....+. ....|++..++....+..++ ..+.+|||+|
T Consensus       223 ~~~kV~ivG~~nvGKSSLln~L~~~~~a~v~~~~gtT~d~~~~~i~~~g-~~v~liDT~G  281 (462)
T 3geh_A          223 TGLKVAIVGRPNVGKSSLLNAWSQSDRAIVTDLPGTTRDVVESQLVVGG-IPVQVLDTAG  281 (462)
T ss_dssp             HCEEEEEEECTTSSHHHHHHHHHHHHBSCCSCCTTCCHHHHHHEEEETT-EEEEECC---
T ss_pred             CCCEEEEEcCCCCCHHHHHHHHhCCCcccccCCCCeeEEEEEEEEEECC-EEEEEEECCc
Confidence            3578999999999999999999976542 23345555556555555565 6789999998

>1xzp_A Probable tRNA modification GTPase TRME; GTP-binding, THF-binding, hydrolase; 2.30A {Thermotoga maritima} SCOP: a.24.25.1 c.37.1.8 d.250.1.2 PDB: 1xzq_A* 1xzp_B 1xzq_B*

Probab=99.00  E-value=1.5e-10  Score=74.14  Aligned_cols=57  Identities=25%  Similarity=0.224  Sum_probs=43.6

Q ss_pred             eeeEEEEeCCCCCHHHHHHHHHhCcC--CCCccCCcceeeEEEEEEeCCEEEEEEEcCCCC
Q psy2514          12 KGTVVIVGNGAVGKSSMIQRYCRGTF--TRDYKKTIGVKSSMIQRYCRGTFTRDYKKTIGA   70 (71)
Q Consensus        12 ~~ki~v~G~~~vGKtsl~~~~~~~~f--~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~   70 (71)
                      .++++++|.++||||||++++...++  ..++ |.+..++....+..++ ..+.+|||+|.
T Consensus       243 ~~kV~ivG~pnvGKSSLln~L~~~~~a~vs~~-~gTT~d~~~~~i~~~g-~~~~l~DTaG~  301 (482)
T 1xzp_A          243 GLRMVIVGKPNVGKSTLLNRLLNEDRAIVTDI-PGTTRDVISEEIVIRG-ILFRIVDTAGV  301 (482)
T ss_dssp             CEEEEEECCHHHHTCHHHHHHHHHTBCCCCCS-SCCSSCSCCEEEEETT-EEEEEEESSCC
T ss_pred             CCEEEEECcCCCcHHHHHHHHHCCCCCccCCC-CCeeeeeEEEEEecCC-eEEEEEECCCc
Confidence            38999999999999999999997654  3444 4444456656666665 57899999994

>2qag_C Septin-7; cell cycle, cell division, GTP-binding, nucleotide-binding, phosphorylation, acetylation, alternative splicing, coiled coil; HET: GDP GTP; 4.00A {Homo sapiens}

Probab=98.99  E-value=1.1e-09  Score=69.18  Aligned_cols=62  Identities=24%  Similarity=0.277  Sum_probs=38.3

Q ss_pred             CceeeeEEEEeCCCCCHHHHHHHHHhCcCCCC--------ccCCcceeeEEEEEEeCC-EEEEEEEcCCCC
Q psy2514           9 GSIKGTVVIVGNGAVGKSSMIQRYCRGTFTRD--------YKKTIGVKSSMIQRYCRG-TFTRDYKKTIGA   70 (71)
Q Consensus         9 ~~~~~ki~v~G~~~vGKtsl~~~~~~~~f~~~--------~~~t~~~~~~~~~~~~~~-~~~l~i~Dt~G~   70 (71)
                      ....++++++|++|+|||||+.+++...+...        ..++++.++........+ ...+.+|||+|.
T Consensus        28 ~~vsf~I~lvG~sGaGKSTLln~L~g~~~~~~~~~~~~~~~~~t~~~~~i~~v~q~~~~~~~Ltv~Dt~g~   98 (418)
T 2qag_C           28 RGFEFTLMVVGESGLGKSTLINSLFLTDLYSPEYPGPSHRIKKTVQVEQSKVLIKEGGVQLLLTIVDTPGF   98 (418)
T ss_dssp             -CCCEEEEEECCTTSSHHHHHHHHTTCCCCCCCCCSCC-----CCEEEEEECC------CEEEEEEECC--
T ss_pred             cCCCEEEEEECCCCCcHHHHHHHHhCCCCCCCCCCCcccCCccceeeeeEEEEEecCCcccceeeeechhh
Confidence            45678999999999999999999998776321        124444333333333333 457999999873

>2qtf_A Protein HFLX, GTP-binding protein; beta-alpha-barrels, nucleotide-binding, nucleotide binding protein; 2.00A {Sulfolobus solfataricus P2} PDB: 2qth_A* 3kxi_A* 3kxl_A 3kxk_A

Probab=98.98  E-value=1.2e-09  Score=67.88  Aligned_cols=58  Identities=19%  Similarity=0.061  Sum_probs=37.4

Q ss_pred             eee-EEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCCEEEEEEEcCCCC
Q psy2514          12 KGT-VVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRGTFTRDYKKTIGA   70 (71)
Q Consensus        12 ~~k-i~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~   70 (71)
                      .++ ++++|.+++|||||++++....+.....+....+.....+..++ ..+.+|||+|-
T Consensus       178 ~~~~V~lvG~~naGKSTLln~L~~~~~~~~~~~~~T~d~~~~~i~~~g-~~v~l~DT~G~  236 (364)
T 2qtf_A          178 NIPSIGIVGYTNSGKTSLFNSLTGLTQKVDTKLFTTMSPKRYAIPINN-RKIMLVDTVGF  236 (364)
T ss_dssp             -CCEEEEECBTTSSHHHHHHHHHCC-----------CCSCEEEEEETT-EEEEEEECCCB
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHCCCccccCCcccccCCEEEEEEECC-EEEEEEeCCCc
Confidence            355 99999999999999999998766432222222345556666666 56899999984

>2e87_A Hypothetical protein PH1320; GTP-binding, GTPase, OBG, bundle, GDP, complex, structural G NPPSFA; HET: GDP; 2.35A {Pyrococcus horikoshii}

Probab=98.97  E-value=2.4e-09  Score=66.02  Aligned_cols=60  Identities=22%  Similarity=0.067  Sum_probs=40.6

Q ss_pred             ceeeeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCCEEEEEEEcCCCC
Q psy2514          10 SIKGTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRGTFTRDYKKTIGA   70 (71)
Q Consensus        10 ~~~~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~   70 (71)
                      ...++++++|.+|||||||++++....+.....|....+........+ ...+.+|||+|.
T Consensus       165 ~~~~~v~lvG~~gvGKSTLin~L~~~~~~~~~~~~~t~~~~~~~~~~~-~~~~~l~Dt~G~  224 (357)
T 2e87_A          165 LEIPTVVIAGHPNVGKSTLLKALTTAKPEIASYPFTTRGINVGQFEDG-YFRYQIIDTPGL  224 (357)
T ss_dssp             SSSCEEEEECSTTSSHHHHHHHHCSSCCEEECCTTCSSCEEEEEEEET-TEEEEEEECTTT
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHhCCCCccCCCCCeeeceeEEEEEec-CceEEEEeCCCc
Confidence            346899999999999999999999776532222222222333333333 467999999995

>2aka_B Dynamin-1; fusion protein, GTPase domain, myosin, contractIle protein; 1.90A {Rattus norvegicus} SCOP: c.37.1.8 PDB: 3l43_A*

Probab=98.97  E-value=2e-09  Score=64.21  Aligned_cols=29  Identities=24%  Similarity=0.423  Sum_probs=25.8

Q ss_pred             ceeeeEEEEeCCCCCHHHHHHHHHhCcCC
Q psy2514          10 SIKGTVVIVGNGAVGKSSMIQRYCRGTFT   38 (71)
Q Consensus        10 ~~~~ki~v~G~~~vGKtsl~~~~~~~~f~   38 (71)
                      ....+|+++|++++|||||+++++...+.
T Consensus        24 ~~~~~i~vvG~~~~GKSSLln~l~g~~~~   52 (299)
T 2aka_B           24 LDLPQIAVVGGQSAGKSSVLENFVGRDFL   52 (299)
T ss_dssp             CCCCEEEEEEBTTSCHHHHHHHHHTSCCS
T ss_pred             CCCCeEEEEeCCCCCHHHHHHHHHCCCcC
Confidence            34679999999999999999999988874

>3qq5_A Small GTP-binding protein; hydrogenase, H-cluster, HYDA maturation, GTP-binding domain, maturation enzyme, oxidoreductase; 2.99A {Thermotoga neapolitana}

Probab=98.97  E-value=1.4e-10  Score=73.36  Aligned_cols=62  Identities=15%  Similarity=0.092  Sum_probs=40.4

Q ss_pred             CceeeeEEEEeCCCCCHHHHHHHHHhCcCC-CCccCCcceeeEEEEEEeCCEEEEEEEcCCCC
Q psy2514           9 GSIKGTVVIVGNGAVGKSSMIQRYCRGTFT-RDYKKTIGVKSSMIQRYCRGTFTRDYKKTIGA   70 (71)
Q Consensus         9 ~~~~~ki~v~G~~~vGKtsl~~~~~~~~f~-~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~   70 (71)
                      ....++++++|..++|||||+.++....+. .+..+.+..+.....+...+...+.+|||+|.
T Consensus        31 ~~~~~kI~IvG~~~vGKSTLin~L~~~~~~~~~~~~gtT~d~~~~~~~~~~~~~l~liDTpG~   93 (423)
T 3qq5_A           31 AGFRRYIVVAGRRNVGKSSFMNALVGQNVSIVSDYAGTTTDPVYKSMELHPIGPVTLVDTPGL   93 (423)
T ss_dssp             -CCCEEEEEECSCSTTTTTTTTSSCC-------------CCCCEEEEEETTTEEEEEEECSST
T ss_pred             CCCCEEEEEECCCCCCHHHHHHHHHcCCCCccCCCCCeeeeeEEEEEEECCCCeEEEEECcCC
Confidence            345799999999999999999999987763 23334444455556666665558999999984

>1jal_A YCHF protein; nucleotide-binding fold, structural genomics, structure 2 function project, S2F, unknown function; 2.40A {Haemophilus influenzae} SCOP: c.37.1.8 d.15.10.2

Probab=98.94  E-value=8.1e-10  Score=68.83  Aligned_cols=57  Identities=21%  Similarity=0.215  Sum_probs=37.2

Q ss_pred             eeeEEEEeCCCCCHHHHHHHHHhCcCCC-Ccc-CCcceeeEEEEEEeCC----------------EEEEEEEcCCCC
Q psy2514          12 KGTVVIVGNGAVGKSSMIQRYCRGTFTR-DYK-KTIGVKSSMIQRYCRG----------------TFTRDYKKTIGA   70 (71)
Q Consensus        12 ~~ki~v~G~~~vGKtsl~~~~~~~~f~~-~~~-~t~~~~~~~~~~~~~~----------------~~~l~i~Dt~G~   70 (71)
                      .++++++|.++||||||++++....+.. +|. +|+..+..  .+..++                +..+++|||+|.
T Consensus         2 ~~kI~IVG~pnvGKSTL~n~Lt~~~~~v~~~p~tTi~p~~g--~v~~~~~r~~~l~~~~~~~~~~~~~i~lvDtpGl   76 (363)
T 1jal_A            2 GFKCGIVGLPNVGKSTLFNALTKAGIEAANYPFCTIEPNTG--VVPMPDPRLDALAEIVKPERILPTTMEFVDIAGL   76 (363)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHHTC------CCCCCCCCSS--EEECCCHHHHHHHHHHCCSEEECCEEEEEECCSC
T ss_pred             CCEEEEECCCCCCHHHHHHHHHCCCCcccCCCCceECceEE--EEecCCcccceeeeeecccceeeeEEEEEECCCC
Confidence            3789999999999999999999876532 221 24443332  122232                257999999984

>1ega_A Protein (GTP-binding protein ERA); GTPase, RNA-binding, RAS-like, hydrolase; 2.40A {Escherichia coli} SCOP: c.37.1.8 d.52.3.1 PDB: 1x1l_X 3ieu_A* 1x18_X

Probab=98.94  E-value=2.7e-09  Score=64.63  Aligned_cols=59  Identities=25%  Similarity=0.328  Sum_probs=39.8

Q ss_pred             ceeeeEEEEeCCCCCHHHHHHHHHhCcCCC-CccC-CcceeeEEEEEEeCCEEEEEEEcCCCC
Q psy2514          10 SIKGTVVIVGNGAVGKSSMIQRYCRGTFTR-DYKK-TIGVKSSMIQRYCRGTFTRDYKKTIGA   70 (71)
Q Consensus        10 ~~~~ki~v~G~~~vGKtsl~~~~~~~~f~~-~~~~-t~~~~~~~~~~~~~~~~~l~i~Dt~G~   70 (71)
                      ....+++++|.+++|||||+++++...+.. ...| +.. +...... ..+...+.+|||+|.
T Consensus         6 ~r~~~VaIvG~~nvGKSTLln~L~g~~~~i~s~~~~tTr-~~~~gi~-~~~~~~i~~iDTpG~   66 (301)
T 1ega_A            6 SYCGFIAIVGRPNVGKSTLLNKLLGQKISITSRKAQTTR-HRIVGIH-TEGAYQAIYVDTPGL   66 (301)
T ss_dssp             CEEEEEEEECSSSSSHHHHHHHHHTCSEEECCCCSSCCS-SCEEEEE-EETTEEEEEESSSSC
T ss_pred             ccCCEEEEECCCCCCHHHHHHHHHCCCccccCCCCCcce-eeEEEEE-EECCeeEEEEECcCC
Confidence            445689999999999999999999876632 2223 222 1222222 234578999999984

>2ohf_A Protein OLA1, GTP-binding protein 9; ATPase, GTPase, P-loop, OBG-like, hydrolase; HET: ACP; 2.70A {Homo sapiens}

Probab=98.92  E-value=2e-09  Score=67.70  Aligned_cols=61  Identities=13%  Similarity=0.049  Sum_probs=35.6

Q ss_pred             ceeeeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCC----------------EEEEEEEcCCCC
Q psy2514          10 SIKGTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRG----------------TFTRDYKKTIGA   70 (71)
Q Consensus        10 ~~~~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~----------------~~~l~i~Dt~G~   70 (71)
                      ....++.++|.++||||||++++....+.....|....+.....+...+                +..+++|||+|-
T Consensus        20 ~~~~kvgIVG~pnvGKSTL~n~Ltg~~~~~~~~p~tTi~p~~g~v~v~~~r~~~l~~~~~p~~~~~~~i~lvDtpGl   96 (396)
T 2ohf_A           20 GTSLKIGIVGLPNVGKSTFFNVLTNSQASAENFPFCTIDPNESRVPVPDERFDFLCQYHKPASKIPAFLNVVDIAGL   96 (396)
T ss_dssp             SSCCCEEEECCSSSSHHHHHHHHHC-------------CCSEEEEECCCHHHHHHHHHHCCSEEECCEEEEEECCC-
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHHCCCccccCCCccccCceeEEEEECCccceeeccccCcccccccccEEEECCCc
Confidence            4468999999999999999999997766443344443333333343332                235999999984

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

Probab=98.91  E-value=3.7e-11  Score=77.87  Aligned_cols=60  Identities=13%  Similarity=0.090  Sum_probs=47.0

Q ss_pred             eeeeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCCEEEEEEEcCCCC
Q psy2514          11 IKGTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRGTFTRDYKKTIGA   70 (71)
Q Consensus        11 ~~~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~   70 (71)
                      ...+++++|.+++|||||+.++....+...+.+++..++....+..++...+.+|||+|.
T Consensus         3 r~pkV~IvG~~~vGKTSLl~~L~~~~~~~~~~~giT~~i~~~~v~~~~g~~i~~iDTPGh   62 (537)
T 3izy_P            3 RSPVVTIMGHVDHGKTTLLDKLRKTQVAAMEAGGITQHIGAFLVSLPSGEKITFLDTPGH   62 (537)
T ss_dssp             CCCBCEEEESTTTTHHHHHHHHHHHHHHHSSSCCBCCCTTSCCBCSSCSSCCBCEECSSS
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCCcccccCCceeEEEeEEEEEeCCCCEEEEEECCCh
Confidence            357899999999999999999998888776777777666555444433457899999984

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

Probab=98.90  E-value=8.5e-09  Score=64.54  Aligned_cols=61  Identities=11%  Similarity=0.137  Sum_probs=40.8

Q ss_pred             CceeeeEEEEeCCCCCHHHHHHHHH---hCcCCCCccC--CcceeeEEEEEEe-------------C--C-----EEEEE
Q psy2514           9 GSIKGTVVIVGNGAVGKSSMIQRYC---RGTFTRDYKK--TIGVKSSMIQRYC-------------R--G-----TFTRD   63 (71)
Q Consensus         9 ~~~~~ki~v~G~~~vGKtsl~~~~~---~~~f~~~~~~--t~~~~~~~~~~~~-------------~--~-----~~~l~   63 (71)
                      ....++++++|..++|||||+.++.   .+.+..++.+  |+...|....+..             +  +     ...+.
T Consensus         5 r~~~~~I~iiG~~d~GKSTLi~~L~g~~~~~~~~e~~~giTi~~~~~~~~~~~~~~~~~y~~~~~~~~~g~~~~~~~~i~   84 (408)
T 1s0u_A            5 SQAEVNIGMVGHVDHGKTSLTKALTGVWTDRHSEELRRGISIRLGYADCEIRKCPQCGTYTTKPRCPNCLAETEFLRRVS   84 (408)
T ss_dssp             CCCCEEEEEESCTTSSHHHHHHHHHSCCCCC-------CCCCCCEEEEEEEEECTTTCCEESSSBCTTSCCBCEEEEEEE
T ss_pred             cCCceEEEEEcCCCCCHHHHHHHHhCCccccCcccccCCcEEEecccccccccccccccccccccccccCcccccccEEE
Confidence            3456999999999999999999998   3445555556  7766666544432             1  1     27899


Q ss_pred             EEcCCC
Q psy2514          64 YKKTIG   69 (71)
Q Consensus        64 i~Dt~G   69 (71)
                      +|||+|
T Consensus        85 iiDtPG   90 (408)
T 1s0u_A           85 FVDSPG   90 (408)
T ss_dssp             EEECSS
T ss_pred             EEECCC
Confidence            999998

>4dcu_A GTP-binding protein ENGA; GTPase, GDP, protein binding, hydrolase; HET: GDP; 2.00A {Bacillus subtilis} PDB: 4dct_A* 4dcs_A* 4dcv_A* 2hjg_A*

Probab=98.90  E-value=5e-10  Score=70.95  Aligned_cols=58  Identities=28%  Similarity=0.290  Sum_probs=35.9

Q ss_pred             eeeeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeC-CEEEEEEEcCCC
Q psy2514          11 IKGTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCR-GTFTRDYKKTIG   69 (71)
Q Consensus        11 ~~~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~-~~~~l~i~Dt~G   69 (71)
                      ...+|+++|.++||||||+++++...+.. ..++.|........... ....+.+|||+|
T Consensus        22 ~~~~V~lvG~~nvGKSTL~n~l~~~~~~~-v~~~~g~t~~~~~~~~~~~~~~~~liDT~G   80 (456)
T 4dcu_A           22 GKPVVAIVGRPNVGKSTIFNRIAGERISI-VEDTPGVTRDRIYSSAEWLNYDFNLIDTGG   80 (456)
T ss_dssp             -CCEEEEECSSSSSHHHHHHHHEEEEEC------------CEEEECTTCSSCCEEECCCC
T ss_pred             CCCEEEEECCCCCcHHHHHHHHhCCCCcc-cCCCCCcceeEEEEEEEECCceEEEEECCC
Confidence            35799999999999999999999876642 23334433322222222 245799999999

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

Probab=98.90  E-value=7e-09  Score=65.64  Aligned_cols=61  Identities=16%  Similarity=0.008  Sum_probs=42.1

Q ss_pred             CceeeeEEEEeCCCCCHHHHHHHHHhC-------------------------------cCCCCccCCcceeeEEEEEEeC
Q psy2514           9 GSIKGTVVIVGNGAVGKSSMIQRYCRG-------------------------------TFTRDYKKTIGVKSSMIQRYCR   57 (71)
Q Consensus         9 ~~~~~ki~v~G~~~vGKtsl~~~~~~~-------------------------------~f~~~~~~t~~~~~~~~~~~~~   57 (71)
                      ....++++++|..++|||||+.+++..                               .+..+..+.+..+.....+..+
T Consensus        14 ~k~~~~i~iiG~~d~GKSTL~~~Ll~~~~~i~~~~~~~~~~~~~~~g~~~~~~a~~~d~~~~er~~GiTid~~~~~~~~~   93 (439)
T 3j2k_7           14 KKEHVNVVFIGHVDAGKSTIGGQIMYLTGMVDKRTLEKYEREAKEKNRETWYLSWALDTNQEERDKGKTVEVGRAYFETE   93 (439)
T ss_pred             CCceeEEEEEeCCCCCHHHHHHHHHHHcCCCchHHHHHHHHHHHhccccchhhhhhhccchhHhhcCceEEEeEEEEecC
Confidence            345689999999999999999999532                               2222233455555554444444


Q ss_pred             CEEEEEEEcCCCC
Q psy2514          58 GTFTRDYKKTIGA   70 (71)
Q Consensus        58 ~~~~l~i~Dt~G~   70 (71)
                      + ..+.||||+|.
T Consensus        94 ~-~~~~iiDTPGh  105 (439)
T 3j2k_7           94 K-KHFTILDAPGH  105 (439)
T ss_pred             C-eEEEEEECCCh
Confidence            4 58999999984

>2hjg_A GTP-binding protein ENGA; GTPase ENGA KH-domain, hydrolase; HET: GDP; 2.50A {Bacillus subtilis}

Probab=98.88  E-value=4.5e-10  Score=70.81  Aligned_cols=57  Identities=26%  Similarity=0.286  Sum_probs=32.6

Q ss_pred             eeeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcce--eeEEEEEEeCCEEEEEEEcCCCC
Q psy2514          12 KGTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGV--KSSMIQRYCRGTFTRDYKKTIGA   70 (71)
Q Consensus        12 ~~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~--~~~~~~~~~~~~~~l~i~Dt~G~   70 (71)
                      ..+|+++|.++||||||+++++...+.. ..++.|.  +........+ ...+.+|||+|.
T Consensus         3 ~~~V~ivG~~nvGKStL~n~l~~~~~~~-v~~~~g~T~d~~~~~~~~~-~~~~~l~DT~G~   61 (436)
T 2hjg_A            3 KPVVAIVGRPNVGKSTIFNRIAGERISI-VEDTPGVTRDRIYSSAEWL-NYDFNLIDTGGI   61 (436)
T ss_dssp             CCEEEEECSTTSSHHHHHHHHEEEECC------------CEEEECTTC-SSCCEEEC----
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCCCcee-ecCCCCCccceEEEEEEEC-CceEEEEECCCC
Confidence            3689999999999999999999776532 2333333  2222222222 357899999994

>1wxq_A GTP-binding protein; structural genomics, riken structural genomics/proteomics initiative, RSGI, NPPSFA; 2.60A {Pyrococcus horikoshii} SCOP: c.37.1.8 d.15.10.2

Probab=98.86  E-value=4.9e-09  Score=65.79  Aligned_cols=25  Identities=24%  Similarity=0.258  Sum_probs=20.7

Q ss_pred             eeEEEEeCCCCCHHHHHHHHHhCcC
Q psy2514          13 GTVVIVGNGAVGKSSMIQRYCRGTF   37 (71)
Q Consensus        13 ~ki~v~G~~~vGKtsl~~~~~~~~f   37 (71)
                      ++++++|.++||||||+++++....
T Consensus         1 ~kI~ivG~pnvGKSTL~n~L~~~~~   25 (397)
T 1wxq_A            1 MEIGVVGKPNVGKSTFFSAATLVDV   25 (397)
T ss_dssp             CEEEEEECTTSSHHHHHHHHHC---
T ss_pred             CEEEEECCCCCCHHHHHHHHHCCCC
Confidence            5899999999999999999997653

>1kk1_A EIF2gamma; initiation of translation; HET: GNP; 1.80A {Pyrococcus abyssi} SCOP: b.43.3.1 b.44.1.1 c.37.1.8 PDB: 1kjz_A* 1kk2_A* 1kk3_A* 1kk0_A* 2d74_A 2dcu_A*

Probab=98.86  E-value=2.2e-08  Score=62.65  Aligned_cols=61  Identities=13%  Similarity=0.168  Sum_probs=43.7

Q ss_pred             CceeeeEEEEeCCCCCHHHHHHHHH---hCcCCCCccC--CcceeeEEEEEEe----------------CC----EEEEE
Q psy2514           9 GSIKGTVVIVGNGAVGKSSMIQRYC---RGTFTRDYKK--TIGVKSSMIQRYC----------------RG----TFTRD   63 (71)
Q Consensus         9 ~~~~~ki~v~G~~~vGKtsl~~~~~---~~~f~~~~~~--t~~~~~~~~~~~~----------------~~----~~~l~   63 (71)
                      ....++++++|..++|||||+.++.   .+.+.+++.+  |+...|.......                +.    ...+.
T Consensus         7 ~~~~~~I~iiG~~~~GKSTLi~~L~g~~~~~~~~e~~~giTi~~~~~~~~~~~~~~~~~y~~~~~~~~~g~~~~~~~~i~   86 (410)
T 1kk1_A            7 RQAEVNIGMVGHVDHGKTTLTKALTGVWTDTHSEELRRGITIKIGFADAEIRRCPNCGRYSTSPVCPYCGHETEFVRRVS   86 (410)
T ss_dssp             CSEEEEEEEECSTTSSHHHHHHHHHTCCCC--CGGGGSCSSSCCEEEEEEEEECTTTCCEESSSBCTTTCCBCEEEEEEE
T ss_pred             CCCccEEEEECCCCCCHHHHHHHHhCCccccChhhhcCCcEEEEeeeeeecccccccccccccccccccCcccccccEEE
Confidence            4567999999999999999999998   3445555556  7766665544432                11    27899


Q ss_pred             EEcCCC
Q psy2514          64 YKKTIG   69 (71)
Q Consensus        64 i~Dt~G   69 (71)
                      +|||+|
T Consensus        87 iiDtPG   92 (410)
T 1kk1_A           87 FIDAPG   92 (410)
T ss_dssp             EEECSS
T ss_pred             EEECCC
Confidence            999998

>3cnl_A YLQF, putative uncharacterized protein; circular permutation, GNP, signaling protein; HET: GNP; 2.00A {Thermotoga maritima} PDB: 3cnn_A* 3cno_A*

Probab=98.81  E-value=3e-09  Score=63.53  Aligned_cols=55  Identities=20%  Similarity=0.167  Sum_probs=33.3

Q ss_pred             eeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCCEEEEEEEcCCCC
Q psy2514          13 GTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRGTFTRDYKKTIGA   70 (71)
Q Consensus        13 ~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~   70 (71)
                      ++++++|.++||||||++++....... ..++.|.......+..+  ..+.+|||+|-
T Consensus       100 ~~v~~vG~~~vGKSslin~l~~~~~~~-~~~~~g~T~~~~~~~~~--~~~~l~DtpG~  154 (262)
T 3cnl_A          100 ARVLIVGVPNTGKSTIINKLKGKRASS-VGAQPGITKGIQWFSLE--NGVKILDTPGI  154 (262)
T ss_dssp             CEEEEEESTTSSHHHHHHHHHTTCC-----------CCSCEEECT--TSCEEESSCEE
T ss_pred             hheEEeCCCCCCHHHHHHHHhcccccc-cCCCCCCccceEEEEeC--CCEEEEECCCc
Confidence            699999999999999999998765532 23333332222222222  25789999984

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

Probab=98.80  E-value=1.4e-08  Score=64.99  Aligned_cols=61  Identities=11%  Similarity=0.078  Sum_probs=37.2

Q ss_pred             cCceeeeEEEEeCCCCCHHHHHHHHHhCc-------CCCCccCCcceeeEEEEEEeCCEEEEEEEcCCC
Q psy2514           8 RGSIKGTVVIVGNGAVGKSSMIQRYCRGT-------FTRDYKKTIGVKSSMIQRYCRGTFTRDYKKTIG   69 (71)
Q Consensus         8 ~~~~~~ki~v~G~~~vGKtsl~~~~~~~~-------f~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G   69 (71)
                      .....++++++|..++|||||+.++....       +..+..+.+..+.....+..++ ..+.+|||+|
T Consensus        15 ~~m~~~~I~iiG~~d~GKSTLi~~L~~~~~~~~~d~~~~e~~~GiTi~~~~~~~~~~~-~~i~iiDtPG   82 (482)
T 1wb1_A           15 MDFKNINLGIFGHIDHGKTTLSKVLTEIASTSAHDKLPESQKRGITIDIGFSAFKLEN-YRITLVDAPG   82 (482)
T ss_dssp             CCCEEEEEEEEECTTSSHHHHHHHHHTTC--------------------CCCEEEETT-EEEEECCCSS
T ss_pred             hcCCCCEEEEECCCCChHHHHHHHHHCCCcccccccccccccCccEEecceEEEEECC-EEEEEEECCC
Confidence            34457999999999999999999998765       3333333332222222233344 7899999998

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

Probab=98.78  E-value=9.8e-09  Score=65.52  Aligned_cols=27  Identities=22%  Similarity=0.316  Sum_probs=23.5

Q ss_pred             CceeeeEEEEeCCCCCHHHHHHHHHhC
Q psy2514           9 GSIKGTVVIVGNGAVGKSSMIQRYCRG   35 (71)
Q Consensus         9 ~~~~~ki~v~G~~~vGKtsl~~~~~~~   35 (71)
                      ....+|++++|.+++|||||+.+++..
T Consensus        30 ~k~~~ki~iiG~~~~GKSTLi~~Ll~~   56 (483)
T 3p26_A           30 ALPHLSFVVLGHVDAGKSTLMGRLLYD   56 (483)
T ss_dssp             SCCEEEEEEESCGGGTHHHHHHHHHHH
T ss_pred             CCCceEEEEECCCCCCHHHHHHHHHHh
Confidence            345699999999999999999999754

>2hf9_A Probable hydrogenase nickel incorporation protein HYPB; alpha and beta protein; HET: GSP; 1.90A {Methanocaldococcus jannaschii} PDB: 2hf8_A*

Probab=98.77  E-value=9e-10  Score=63.37  Aligned_cols=40  Identities=13%  Similarity=0.008  Sum_probs=34.4

Q ss_pred             eeeeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeE
Q psy2514          11 IKGTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSS   50 (71)
Q Consensus        11 ~~~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~   50 (71)
                      ...+++++|++|||||||+.+++...|...+.++++.++.
T Consensus        37 ~~~~i~ivG~~gvGKTtl~~~l~~~~~~~~~~~~i~~d~~   76 (226)
T 2hf9_A           37 GVVAFDFMGAIGSGKTLLIEKLIDNLKDKYKIACIAGDVI   76 (226)
T ss_dssp             TCEEEEEEESTTSSHHHHHHHHHHHHTTTCCEEEEEEETT
T ss_pred             CCeEEEEEcCCCCCHHHHHHHHHHHhccCCeEEEEECCCC
Confidence            4689999999999999999999988777767788887764

>1lnz_A SPO0B-associated GTP-binding protein; GTPase, OBG, stringent factor, stress response, sporulation, large G-protein, structural genomics, PSI; HET: G4P; 2.60A {Bacillus subtilis} SCOP: b.117.1.1 c.37.1.8

Probab=98.76  E-value=2.1e-09  Score=66.39  Aligned_cols=55  Identities=20%  Similarity=0.126  Sum_probs=37.5

Q ss_pred             eeEEEEeCCCCCHHHHHHHHHhCcCC-CCcc-CCcceeeEEEEEEeCCEEEEEEEcCCC
Q psy2514          13 GTVVIVGNGAVGKSSMIQRYCRGTFT-RDYK-KTIGVKSSMIQRYCRGTFTRDYKKTIG   69 (71)
Q Consensus        13 ~ki~v~G~~~vGKtsl~~~~~~~~f~-~~~~-~t~~~~~~~~~~~~~~~~~l~i~Dt~G   69 (71)
                      .+|+++|.++||||||++++....+. .+|. .|....+  ..+..++...+.+|||+|
T Consensus       159 a~V~lvG~~nvGKSTLln~L~~~~~~i~~~~ftTl~p~~--g~v~~~~~~~~~l~DtPG  215 (342)
T 1lnz_A          159 ADVGLVGFPSVGKSTLLSVVSSAKPKIADYHFTTLVPNL--GMVETDDGRSFVMADLPG  215 (342)
T ss_dssp             CCEEEESSTTSSHHHHHHHSEEECCEESSTTSSCCCCCE--EEEECSSSCEEEEEEHHH
T ss_pred             CeeeeeCCCCCCHHHHHHHHHcCCCccccCCccccCceE--EEEEeCCCceEEEecCCC
Confidence            46889999999999999999866532 2332 3333222  334444446789999987

>2x2e_A Dynamin-1; nitration, hydrolase, membrane fission, nucleotide-binding, endocytosis, motor protein; HET: GDP; 2.00A {Homo sapiens} PDB: 2x2f_A* 3zyc_A* 3zys_A

Probab=98.75  E-value=1.3e-08  Score=62.61  Aligned_cols=28  Identities=25%  Similarity=0.463  Sum_probs=25.1

Q ss_pred             eeeeEEEEeCCCCCHHHHHHHHHhCcCC
Q psy2514          11 IKGTVVIVGNGAVGKSSMIQRYCRGTFT   38 (71)
Q Consensus        11 ~~~ki~v~G~~~vGKtsl~~~~~~~~f~   38 (71)
                      ...+|+++|++++|||||+++++...|.
T Consensus        30 ~~~~I~vvG~~~~GKSSLln~L~g~~~~   57 (353)
T 2x2e_A           30 DLPQIAVVGGQSAGKSSVLENFVGRDFL   57 (353)
T ss_dssp             CCCEEEEECBTTSSHHHHHHTTTTSCCS
T ss_pred             CCCeEEEECCCCCCHHHHHHHHhCCCcC
Confidence            4579999999999999999999988774

>3t34_A Dynamin-related protein 1A, linker, dynamin-relat 1A; dynamin-like protein 1A, GTPase, membrane fission, motor Pro; HET: GDP; 2.40A {Arabidopsis thaliana} PDB: 3t35_A*

Probab=98.74  E-value=2.3e-08  Score=61.57  Aligned_cols=27  Identities=26%  Similarity=0.442  Sum_probs=24.2

Q ss_pred             eeeEEEEeCCCCCHHHHHHHHHhCcCC
Q psy2514          12 KGTVVIVGNGAVGKSSMIQRYCRGTFT   38 (71)
Q Consensus        12 ~~ki~v~G~~~vGKtsl~~~~~~~~f~   38 (71)
                      ...|+++|++++|||||++++....|.
T Consensus        34 lp~I~vvG~~~sGKSSLln~l~g~~~l   60 (360)
T 3t34_A           34 LPAIAVVGGQSSGKSSVLESIVGKDFL   60 (360)
T ss_dssp             CCEEEEECBTTSSHHHHHHHHHTSCCS
T ss_pred             CCEEEEECCCCCcHHHHHHHHhCCCcC
Confidence            359999999999999999999988773

>1jny_A EF-1-alpha, elongation factor 1-alpha, EF-TU, TUF-1; GTPase, alpha/beta structure, protein biosynthesis, translation; HET: GDP; 1.80A {Sulfolobus solfataricus} SCOP: b.43.3.1 b.44.1.1 c.37.1.8 PDB: 1skq_A* 3agj_A*

Probab=98.71  E-value=1e-08  Score=64.67  Aligned_cols=26  Identities=19%  Similarity=0.354  Sum_probs=23.2

Q ss_pred             ceeeeEEEEeCCCCCHHHHHHHHHhC
Q psy2514          10 SIKGTVVIVGNGAVGKSSMIQRYCRG   35 (71)
Q Consensus        10 ~~~~ki~v~G~~~vGKtsl~~~~~~~   35 (71)
                      ...++++++|..++|||||+.+++.+
T Consensus         4 k~~~~I~iiG~~~~GKSTLi~~Ll~~   29 (435)
T 1jny_A            4 KPHLNLIVIGHVDHGKSTLVGRLLMD   29 (435)
T ss_dssp             CCEEEEEEEESTTSSHHHHHHHHHHH
T ss_pred             CCEEEEEEEeCCCCCHHHHHHHHHHH
Confidence            45689999999999999999999864

>1jwy_B Dynamin A GTPase domain; dynamin, GTPase, GDP, myosin, fusion-protein, hydrolase; HET: BGC ADP GDP; 2.30A {Dictyostelium discoideum} SCOP: c.37.1.8 PDB: 1jx2_B*

Probab=98.71  E-value=4.3e-08  Score=58.93  Aligned_cols=28  Identities=29%  Similarity=0.417  Sum_probs=25.0

Q ss_pred             ceeeeEEEEeCCCCCHHHHHHHHHhCcC
Q psy2514          10 SIKGTVVIVGNGAVGKSSMIQRYCRGTF   37 (71)
Q Consensus        10 ~~~~ki~v~G~~~vGKtsl~~~~~~~~f   37 (71)
                      ....+|+++|.+++|||||+++++...+
T Consensus        22 ~~~~~I~vvG~~~~GKSTlln~l~g~~~   49 (315)
T 1jwy_B           22 LDLPQIVVVGSQSSGKSSVLENIVGRDF   49 (315)
T ss_dssp             TCCCEEEEEECSSSSHHHHHHHHHTSCC
T ss_pred             CCCCeEEEEcCCCCCHHHHHHHHHCCCc
Confidence            4457999999999999999999998776

>1ni3_A YCHF GTPase, YCHF GTP-binding protein; structural genomics, GTP1OBG, PSI, protein structure initiative; 2.80A {Schizosaccharomyces pombe} SCOP: c.37.1.8 d.15.10.2

Probab=98.71  E-value=6.1e-08  Score=60.91  Aligned_cols=61  Identities=13%  Similarity=0.043  Sum_probs=41.9

Q ss_pred             CceeeeEEEEeCCCCCHHHHHHHHHhCcC-CCCccCCcceeeEEEEEEeCC----------------EEEEEEEcCCC
Q psy2514           9 GSIKGTVVIVGNGAVGKSSMIQRYCRGTF-TRDYKKTIGVKSSMIQRYCRG----------------TFTRDYKKTIG   69 (71)
Q Consensus         9 ~~~~~ki~v~G~~~vGKtsl~~~~~~~~f-~~~~~~t~~~~~~~~~~~~~~----------------~~~l~i~Dt~G   69 (71)
                      .....++.++|.+|+|||||++.++.... .....|....+...-.+...+                ...+++||++|
T Consensus        17 v~~g~~vgiVG~pnaGKSTL~n~Ltg~~~a~~~~~p~tTi~p~~G~v~v~~~r~~~l~~~~~~~~~v~~~i~lvD~pG   94 (392)
T 1ni3_A           17 PGNNLKTGIVGMPNVGKSTFFRAITKSVLGNPANYPYATIDPEEAKVAVPDERFDWLCEAYKPKSRVPAFLTVFDIAG   94 (392)
T ss_dssp             SSSCCEEEEEECSSSSHHHHHHHHHHSTTTSTTCCSSCCCCTTEEEEEECCHHHHHHHHHHCCSEEECEEEEEECTGG
T ss_pred             ccCCCEEEEECCCCCCHHHHHHHHHCCCcccccCCCceeecceeeeeeeCCcchhhhhhhcccccccCcceEEEeccc
Confidence            34467999999999999999999998665 333445443333333343333                14689999988

>1dar_A EF-G, elongation factor G; ribosomal translocase, translational GTPase; HET: GDP; 2.40A {Thermus thermophilus} SCOP: b.43.3.1 c.37.1.8 d.14.1.1 d.58.11.1 PDB: 1elo_A 1ktv_A 2om7_L* 2wri_Y* 2wrk_Y* 2xsy_Y* 2xuy_Y* 2j7k_A* 2efg_A* 1jqm_B 1efg_A* 1fnm_A* 1pn6_A 2bm1_A* 2bm0_A* 2bv3_A* 3izp_E 1zn0_B 1jqs_C 2bcw_C ...

Probab=98.68  E-value=5.8e-08  Score=64.44  Aligned_cols=67  Identities=15%  Similarity=0.092  Sum_probs=40.5

Q ss_pred             CcccccccCceeeeEEEEeCCCCCHHHHHHHHHh--CcCCC------------------CccCCcceeeEEEEEEeCCEE
Q psy2514           1 MLNLWVLRGSIKGTVVIVGNGAVGKSSMIQRYCR--GTFTR------------------DYKKTIGVKSSMIQRYCRGTF   60 (71)
Q Consensus         1 m~~~~~~~~~~~~ki~v~G~~~vGKtsl~~~~~~--~~f~~------------------~~~~t~~~~~~~~~~~~~~~~   60 (71)
                      |...+........+++++|..++|||||+.+++.  +.+..                  .+.+|+....  ..+..+ .+
T Consensus         1 M~~~l~~~~~~~~~I~IvG~~~aGKTTL~~~Ll~~~g~~~~~g~v~~~~~~~d~~~~E~~~giTi~~~~--~~~~~~-~~   77 (691)
T 1dar_A            1 MAVKVEYDLKRLRNIGIAAHIDAGKTTTTERILYYTGRIHKIGEVHEGAATMDFMEQERERGITITAAV--TTCFWK-DH   77 (691)
T ss_dssp             CCTTCCCCGGGEEEEEEEECTTSCHHHHHHHHHHHHCC----------------------------CCE--EEEEET-TE
T ss_pred             CCccccCccccccEEEEECCCCCCHHHHHHHHHHhcCCCcccceecCCceeccCchhhhhcccccccce--EEEEEC-Ce
Confidence            3444444456779999999999999999999984  22210                  2234444322  222223 47


Q ss_pred             EEEEEcCCCC
Q psy2514          61 TRDYKKTIGA   70 (71)
Q Consensus        61 ~l~i~Dt~G~   70 (71)
                      .+++|||+|.
T Consensus        78 ~i~liDTPG~   87 (691)
T 1dar_A           78 RINIIDTPGH   87 (691)
T ss_dssp             EEEEECCCSS
T ss_pred             EEEEEECcCc
Confidence            8999999985

>2dby_A GTP-binding protein; GDP, structural genomics, NPPSFA, natio project on protein structural and functional analyses; HET: GDP; 1.76A {Thermus thermophilus} PDB: 2dwq_A

Probab=98.67  E-value=2.8e-08  Score=61.98  Aligned_cols=24  Identities=38%  Similarity=0.437  Sum_probs=21.6

Q ss_pred             eeEEEEeCCCCCHHHHHHHHHhCc
Q psy2514          13 GTVVIVGNGAVGKSSMIQRYCRGT   36 (71)
Q Consensus        13 ~ki~v~G~~~vGKtsl~~~~~~~~   36 (71)
                      +++.++|.+++|||||++++....
T Consensus         2 ~~v~IVG~pnvGKSTL~n~L~~~~   25 (368)
T 2dby_A            2 LAVGIVGLPNVGKSTLFNALTRAN   25 (368)
T ss_dssp             CSEEEECCSSSSHHHHHHHHHHHH
T ss_pred             cEEEEECCCCCCHHHHHHHHhCCC
Confidence            689999999999999999998654

>3izq_1 HBS1P, elongation factor 1 alpha-like protein; NO-GO mRNA decay, ribosomal protein,hydrolase; 9.50A {Saccharomyces cerevisiae}

Probab=98.65  E-value=4.6e-08  Score=64.21  Aligned_cols=27  Identities=22%  Similarity=0.316  Sum_probs=23.7

Q ss_pred             CceeeeEEEEeCCCCCHHHHHHHHHhC
Q psy2514           9 GSIKGTVVIVGNGAVGKSSMIQRYCRG   35 (71)
Q Consensus         9 ~~~~~ki~v~G~~~vGKtsl~~~~~~~   35 (71)
                      ....++++++|.+++|||||+.+++..
T Consensus       164 ~k~~lkV~ivG~~n~GKSTLin~Ll~~  190 (611)
T 3izq_1          164 ALPHLSFVVLGHVDAGKSTLMGRLLYD  190 (611)
T ss_dssp             CCCCCEEEEECCSSSCHHHHHHHHHSC
T ss_pred             cCCceEEEEEECCCCCHHHHHHHHHHh
Confidence            345689999999999999999999855

>3mca_A HBS1, elongation factor 1 alpha-like protein; protein protein complex, translation regulation; 2.74A {Schizosaccharomyces pombe}

Probab=98.65  E-value=1.3e-08  Score=66.64  Aligned_cols=25  Identities=28%  Similarity=0.332  Sum_probs=22.2

Q ss_pred             CceeeeEEEEeCCCCCHHHHHHHHH
Q psy2514           9 GSIKGTVVIVGNGAVGKSSMIQRYC   33 (71)
Q Consensus         9 ~~~~~ki~v~G~~~vGKtsl~~~~~   33 (71)
                      ....++++++|.+++|||||+.+++
T Consensus       174 ~k~~~~I~iiG~~d~GKSTLi~~Ll  198 (592)
T 3mca_A          174 PKPVVHLVVTGHVDSGKSTMLGRIM  198 (592)
T ss_dssp             CCCEEEEEEECCSSSTHHHHHHHHH
T ss_pred             CCCccEEEEEcCCCCCHHHHHHHHH
Confidence            3456899999999999999999996

>2j69_A Bacterial dynamin-like protein; FZO, FZL, GTPase, hydrolase; 3.0A {Nostoc punctiforme} PDB: 2j68_A 2w6d_A*

Probab=98.60  E-value=7.3e-08  Score=64.02  Aligned_cols=36  Identities=14%  Similarity=0.189  Sum_probs=28.1

Q ss_pred             ceeeeEEEEeCCCCCHHHHHHHHHhCcC-CCCccCCc
Q psy2514          10 SIKGTVVIVGNGAVGKSSMIQRYCRGTF-TRDYKKTI   45 (71)
Q Consensus        10 ~~~~ki~v~G~~~vGKtsl~~~~~~~~f-~~~~~~t~   45 (71)
                      ...++|+++|.+++|||||+++++...+ +....|++
T Consensus        67 ~~~~~V~VvG~~naGKSSLlNaLlg~~~~~v~~~p~T  103 (695)
T 2j69_A           67 QGVFRLLVLGDMKRGKSTFLNALIGENLLPSDVNPCT  103 (695)
T ss_dssp             HCCEEEEEECCTTSCHHHHHHHHHTSSCSCCCCCTTT
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHhCCCCCCCCCCCCc
Confidence            3468999999999999999999997664 33344554

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

Probab=98.59  E-value=1.6e-07  Score=59.27  Aligned_cols=26  Identities=27%  Similarity=0.256  Sum_probs=23.2

Q ss_pred             ceeeeEEEEeCCCCCHHHHHHHHHhC
Q psy2514          10 SIKGTVVIVGNGAVGKSSMIQRYCRG   35 (71)
Q Consensus        10 ~~~~ki~v~G~~~vGKtsl~~~~~~~   35 (71)
                      ...++++++|..++|||||+.+++.+
T Consensus        22 ~~~~~i~iiG~~~~GKSTLi~~Ll~~   47 (434)
T 1zun_B           22 KEMLRFLTCGNVDDGKSTLIGRLLHD   47 (434)
T ss_dssp             CEEEEEEEECCTTSSHHHHHHHHHHH
T ss_pred             CCceEEEEEECCCCCHHHHHHHHHhh
Confidence            45689999999999999999999854

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

Probab=98.58  E-value=3.9e-08  Score=61.44  Aligned_cols=63  Identities=11%  Similarity=0.027  Sum_probs=38.6

Q ss_pred             cCceeeeEEEEeCCCCCHHHHHHHHHhC--------cCCCC-------ccCCcceeeEEEEEE-eCCEEEEEEEcCCCC
Q psy2514           8 RGSIKGTVVIVGNGAVGKSSMIQRYCRG--------TFTRD-------YKKTIGVKSSMIQRY-CRGTFTRDYKKTIGA   70 (71)
Q Consensus         8 ~~~~~~ki~v~G~~~vGKtsl~~~~~~~--------~f~~~-------~~~t~~~~~~~~~~~-~~~~~~l~i~Dt~G~   70 (71)
                      +....++++++|..++|||||+.++...        .|...       ...+.|..+...... ......+.+|||+|.
T Consensus         7 ~~~~~~~I~iiG~~~~GKSTLi~~L~~~~~~~g~~~~~~~~~~~d~~~~e~~~GiTi~~~~~~~~~~~~~~~iiDtpG~   85 (405)
T 2c78_A            7 RTKPHVNVGTIGHVDHGKTTLTAALTYVAAAENPNVEVKDYGDIDKAPEERARGITINTAHVEYETAKRHYSHVDCPGH   85 (405)
T ss_dssp             --CCEEEEEEECSTTSSHHHHHHHHHHHHHHSCTTSCCCCHHHHSCSHHHHHHTCCCSCEEEEEECSSCEEEEEECCCS
T ss_pred             CCCCeEEEEEEcCCCCCHHHHHHHHHhhhhhcCccccccchhhccCCHHHHHcCCCEEeeeeEeccCCeEEEEEECCCh
Confidence            4456799999999999999999999862        22210       001222222222222 233577899999984

>1n0u_A EF-2, elongation factor 2; G-protein, CIS-proline, translation; HET: SO1; 2.12A {Saccharomyces cerevisiae} SCOP: b.43.3.1 c.37.1.8 d.14.1.1 d.58.11.1 d.58.11.1 PDB: 1n0v_C 1s1h_T 2e1r_A* 2npf_A* 2p8w_T* 3dny_T 3b82_A* 1zm2_A* 1zm3_A* 1zm4_A* 1zm9_A* 2p8x_T* 2p8y_T* 2p8z_T* 2zit_A* 1u2r_A* 3b78_A* 3b8h_A*

Probab=98.58  E-value=1.6e-07  Score=63.55  Aligned_cols=27  Identities=11%  Similarity=0.163  Sum_probs=23.5

Q ss_pred             CceeeeEEEEeCCCCCHHHHHHHHHhC
Q psy2514           9 GSIKGTVVIVGNGAVGKSSMIQRYCRG   35 (71)
Q Consensus         9 ~~~~~ki~v~G~~~vGKtsl~~~~~~~   35 (71)
                      .....+++++|..++|||||+.+++..
T Consensus        16 ~~~~rnI~IiG~~~~GKTTL~~~Ll~~   42 (842)
T 1n0u_A           16 VTNVRNMSVIAHVDHGKSTLTDSLVQR   42 (842)
T ss_dssp             GGGEEEEEEECCGGGTHHHHHHHHHHH
T ss_pred             cccccEEEEECCCCCCHHHHHHHHHHh
Confidence            445689999999999999999999853

>1puj_A YLQF, conserved hypothetical protein YLQF; structural genomics, nysgxrc T18, GTPase, PSI, protein structure initiative; HET: GNP; 2.00A {Bacillus subtilis} SCOP: c.37.1.8

Probab=98.57  E-value=1e-07  Score=57.42  Aligned_cols=56  Identities=20%  Similarity=0.191  Sum_probs=33.3

Q ss_pred             eeeeEEEEeCCCCCHHHHHHHHHhCcCC-CCccCCcceeeEEEEEEeCCEEEEEEEcCCCC
Q psy2514          11 IKGTVVIVGNGAVGKSSMIQRYCRGTFT-RDYKKTIGVKSSMIQRYCRGTFTRDYKKTIGA   70 (71)
Q Consensus        11 ~~~ki~v~G~~~vGKtsl~~~~~~~~f~-~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~   70 (71)
                      ..++++++|.++||||||++++...... ....|.+-.+.  ..+..+.  .+.+|||+|=
T Consensus       119 ~~~~v~~vG~~nvGKSsliN~l~~~~~~~~~~~~g~T~~~--~~~~~~~--~~~l~DtpG~  175 (282)
T 1puj_A          119 RAIRALIIGIPNVGKSTLINRLAKKNIAKTGDRPGITTSQ--QWVKVGK--ELELLDTPGI  175 (282)
T ss_dssp             CCEEEEEEESTTSSHHHHHHHHHTSCCC--------------CCEEETT--TEEEEECCCC
T ss_pred             CCceEEEEecCCCchHHHHHHHhcCceeecCCCCCeeeee--EEEEeCC--CEEEEECcCc
Confidence            4589999999999999999999865422 11122111111  1122222  4789999984

>1f60_A Elongation factor EEF1A; protein-protein complex, translation; 1.67A {Saccharomyces cerevisiae} SCOP: b.43.3.1 b.44.1.1 c.37.1.8 PDB: 1g7c_A* 1ije_A* 1ijf_A* 2b7b_A* 2b7c_A

Probab=98.57  E-value=4.4e-08  Score=62.31  Aligned_cols=26  Identities=23%  Similarity=0.245  Sum_probs=23.1

Q ss_pred             ceeeeEEEEeCCCCCHHHHHHHHHhC
Q psy2514          10 SIKGTVVIVGNGAVGKSSMIQRYCRG   35 (71)
Q Consensus        10 ~~~~ki~v~G~~~vGKtsl~~~~~~~   35 (71)
                      ...++++++|..++|||||+.+++..
T Consensus         5 ~~~~~i~iiG~~~~GKSTLi~~Ll~~   30 (458)
T 1f60_A            5 KSHINVVVIGHVDSGKSTTTGHLIYK   30 (458)
T ss_dssp             CEEEEEEEEECTTSCHHHHHHHHHHH
T ss_pred             CceeEEEEEcCCCCCHHHHHHHHHHH
Confidence            45699999999999999999999853

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

Probab=98.56  E-value=5.8e-09  Score=67.23  Aligned_cols=59  Identities=15%  Similarity=0.081  Sum_probs=40.8

Q ss_pred             eeeeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCCEEEEEEEcCCCC
Q psy2514          11 IKGTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRGTFTRDYKKTIGA   70 (71)
Q Consensus        11 ~~~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~   70 (71)
                      ...+++++|..++|||||+.++....+.....+.+..+.....+..++ ..+.+|||+|.
T Consensus         3 R~~~V~IvGhvd~GKTTLl~~L~~~~v~~~e~~GIT~~i~~~~v~~~~-~~i~~iDTPGh   61 (501)
T 1zo1_I            3 RAPVVTIMGHVDHGKTSLLEYIRSTKVASGEAGGITQHIGAYHVETEN-GMITFLDTPGH   61 (501)
T ss_dssp             CCCCEEEEESTTSSSHHHHHHHHHHHHSBTTBCCCCCCSSCCCCCTTS-SCCCEECCCTT
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHcCCCccccCCCeeEeEEEEEEEECC-EEEEEEECCCc
Confidence            457899999999999999999998776654444443333222222233 46889999984

>3tr5_A RF-3, peptide chain release factor 3; protein synthesis, translation; HET: GDP; 2.11A {Coxiella burnetii}

Probab=98.56  E-value=4.1e-08  Score=63.54  Aligned_cols=23  Identities=17%  Similarity=0.460  Sum_probs=21.3

Q ss_pred             eeeeEEEEeCCCCCHHHHHHHHH
Q psy2514          11 IKGTVVIVGNGAVGKSSMIQRYC   33 (71)
Q Consensus        11 ~~~ki~v~G~~~vGKtsl~~~~~   33 (71)
                      ...+++++|.+++|||||+.+++
T Consensus        12 ~~r~IaIiG~~~aGKTTL~~~Ll   34 (528)
T 3tr5_A           12 MRRTFAIISHPDAGKTTLTEKLL   34 (528)
T ss_dssp             TEEEEEEEECTTSSHHHHHHHHH
T ss_pred             cCCEEEEECCCCCcHHHHHHHHH
Confidence            46899999999999999999996

>3sjy_A Translation initiation factor 2 subunit gamma; zinc finger, initiate translation, tRNA binding, mRNA bindin binding; HET: GCP GDP; 2.00A {Sulfolobus solfataricus P2} PDB: 3pen_A* 3sjz_A* 2qn6_A* 2aho_A 2qmu_A* 2plf_A* 3v11_A* 3i1f_A* 3cw2_A 2pmd_A* 3p3m_A* 3qsy_A*

Probab=98.56  E-value=3.4e-07  Score=57.25  Aligned_cols=29  Identities=17%  Similarity=0.169  Sum_probs=24.8

Q ss_pred             cCceeeeEEEEeCCCCCHHHHHHHHHhCc
Q psy2514           8 RGSIKGTVVIVGNGAVGKSSMIQRYCRGT   36 (71)
Q Consensus         8 ~~~~~~ki~v~G~~~vGKtsl~~~~~~~~   36 (71)
                      .....++++++|.+++|||||++++....
T Consensus         4 ~~~~~~~I~vvG~~~~GKSTLi~~L~~~~   32 (403)
T 3sjy_A            4 KVQPEVNIGVVGHVDHGKTTLVQAITGIW   32 (403)
T ss_dssp             CCCCCCEEEEECSTTSSHHHHHHHHHSCC
T ss_pred             ccCCCcEEEEECCCCCCHHHHHHHHhCcc
Confidence            34567999999999999999999998643

>2dy1_A Elongation factor G; translocation, GTP complex, structural genomics, NPPSFA; HET: GTP; 1.60A {Thermus thermophilus} SCOP: b.43.3.1 c.37.1.8 d.14.1.1 d.58.11.1 d.58.11.1 PDB: 1wdt_A*

Probab=98.54  E-value=1.5e-07  Score=62.19  Aligned_cols=61  Identities=13%  Similarity=0.044  Sum_probs=38.5

Q ss_pred             ceeeeEEEEeCCCCCHHHHHHHHHhCcCCCCccCC----------------cceeeEEEEEE-eCCEEEEEEEcCCCC
Q psy2514          10 SIKGTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKT----------------IGVKSSMIQRY-CRGTFTRDYKKTIGA   70 (71)
Q Consensus        10 ~~~~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t----------------~~~~~~~~~~~-~~~~~~l~i~Dt~G~   70 (71)
                      ....+++++|..++|||||+.+++..........+                .++.+...... ..+.+.++||||+|.
T Consensus         7 ~~~~~i~IiG~~gaGKTTLl~~L~~~~~~~~~~G~V~~g~~~~d~~~~e~~~giti~~~~~~~~~~~~~~nliDTpG~   84 (665)
T 2dy1_A            7 AMIRTVALVGHAGSGKTTLTEALLYKTGAKERRGRVEEGTTTTDYTPEAKLHRTTVRTGVAPLLFRGHRVFLLDAPGY   84 (665)
T ss_dssp             CCEEEEEEEESTTSSHHHHHHHHHHHTTSSSSCCCGGGTCCSSCCSHHHHHTTSCCSCEEEEEEETTEEEEEEECCCS
T ss_pred             CCCcEEEEECCCCChHHHHHHHHHHhcCCCCccceecCCcccccCCHHHHhcCCeEEecceEEeeCCEEEEEEeCCCc
Confidence            45679999999999999999999843332111111                12222222222 234588999999984

>4a9a_A Ribosome-interacting GTPase 1; DRG-DFRP complex, ribosome binding GTPase; 2.67A {Saccharomyces cerevisiae}

Probab=98.53  E-value=2.8e-07  Score=57.70  Aligned_cols=58  Identities=19%  Similarity=0.169  Sum_probs=39.8

Q ss_pred             ceeeeEEEEeCCCCCHHHHHHHHHhCcC-CCCccCCcceeeEEEEEEeCCEEEEEEEcCCC
Q psy2514          10 SIKGTVVIVGNGAVGKSSMIQRYCRGTF-TRDYKKTIGVKSSMIQRYCRGTFTRDYKKTIG   69 (71)
Q Consensus        10 ~~~~ki~v~G~~~vGKtsl~~~~~~~~f-~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G   69 (71)
                      .-...|.++|.++||||||++++....- ..+|.-|+ .+-..-.+..++ ..+++.||+|
T Consensus        70 ~g~a~V~ivG~PNvGKSTL~n~Lt~~~~~v~~~pftT-~~~~~g~~~~~~-~~i~l~D~pG  128 (376)
T 4a9a_A           70 TGVASVGFVGFPSVGKSTLLSKLTGTESEAAEYEFTT-LVTVPGVIRYKG-AKIQMLDLPG  128 (376)
T ss_dssp             CSSEEEEEECCCCHHHHHHHHHHHSBCCCGGGTCSSC-CCEEEEEEEETT-EEEEEEECGG
T ss_pred             cCCCeEEEECCCCCCHHHHHHHHhCCCCcccCCCCce-eeeeeEEEEeCC-cEEEEEeCCC
Confidence            3346899999999999999999986432 23443332 233444455555 5688999988

>2h5e_A Peptide chain release factor RF-3; beta barrel, translation; HET: GDP; 2.80A {Escherichia coli} PDB: 2o0f_A 3sfs_W* 3zvo_Y* 3uoq_W*

Probab=98.51  E-value=2.2e-07  Score=60.22  Aligned_cols=25  Identities=16%  Similarity=0.329  Sum_probs=22.8

Q ss_pred             ceeeeEEEEeCCCCCHHHHHHHHHh
Q psy2514          10 SIKGTVVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus        10 ~~~~ki~v~G~~~vGKtsl~~~~~~   34 (71)
                      ....+++++|.+++|||||+.+++.
T Consensus        11 ~~~~~I~IiG~~~aGKTTL~~~Ll~   35 (529)
T 2h5e_A           11 AKRRTFAIISHPDAGKTTITEKVLL   35 (529)
T ss_dssp             HTEEEEEEEECTTSSHHHHHHHHHH
T ss_pred             cCCCEEEEECCCCChHHHHHHHHHh
Confidence            4568999999999999999999985

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

Probab=98.50  E-value=3.1e-07  Score=57.39  Aligned_cols=24  Identities=17%  Similarity=0.194  Sum_probs=21.9

Q ss_pred             eeeEEEEeCCCCCHHHHHHHHHhC
Q psy2514          12 KGTVVIVGNGAVGKSSMIQRYCRG   35 (71)
Q Consensus        12 ~~ki~v~G~~~vGKtsl~~~~~~~   35 (71)
                      .++++++|..++|||||+.++...
T Consensus         3 ~~~I~iiG~~~~GKSTLi~~L~~~   26 (397)
T 1d2e_A            3 HVNVGTIGHVDHGKTTLTAAITKI   26 (397)
T ss_dssp             EEEEEEESSTTSSHHHHHHHHHHH
T ss_pred             eEEEEEEeCCCCCHHHHHHHHhCh
Confidence            589999999999999999999863

>2qpt_A EH domain-containing protein-2; protein-nucleotide complex, membrane protein, endocytosis; HET: ANP; 3.10A {Mus musculus}

Probab=98.48  E-value=1.8e-07  Score=60.83  Aligned_cols=29  Identities=28%  Similarity=0.321  Sum_probs=25.7

Q ss_pred             ceeeeEEEEeCCCCCHHHHHHHHHhCcCC
Q psy2514          10 SIKGTVVIVGNGAVGKSSMIQRYCRGTFT   38 (71)
Q Consensus        10 ~~~~ki~v~G~~~vGKtsl~~~~~~~~f~   38 (71)
                      ....+++++|.+++|||||+++++...+.
T Consensus        63 ~~~~~V~vvG~~n~GKSTLIN~Llg~~~~   91 (550)
T 2qpt_A           63 DGKPMVLVAGQYSTGKTSFIQYLLEQEVP   91 (550)
T ss_dssp             SSCCEEEEEEBTTSCHHHHHHHHHTSCCS
T ss_pred             cCCcEEEEECCCCCCHHHHHHHHhCCccc
Confidence            34689999999999999999999988773

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

Probab=98.46  E-value=2.3e-07  Score=59.14  Aligned_cols=26  Identities=23%  Similarity=0.289  Sum_probs=22.9

Q ss_pred             CceeeeEEEEeCCCCCHHHHHHHHHh
Q psy2514           9 GSIKGTVVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus         9 ~~~~~ki~v~G~~~vGKtsl~~~~~~   34 (71)
                      ....++++++|..++|||||+.+++.
T Consensus        40 ~k~~~~i~iiG~vd~GKSTLi~~Ll~   65 (467)
T 1r5b_A           40 GKEHVNIVFIGHVDAGKSTLGGNILF   65 (467)
T ss_dssp             CCEEEEEEEEECGGGTHHHHHHHHHH
T ss_pred             CCCeeEEEEEECCCCCHHHHHHHHHH
Confidence            45578999999999999999999874

>3avx_A Elongation factor TS, elongation factor TU, linke replicase; RNA polymerase, translation, transferase-RNA complex; HET: GH3; 2.41A {Escherichia coli O157} PDB: 3agq_A 3agp_A* 3avu_A 3avv_A 3avt_A* 3avw_A* 3avy_A* 3mmp_A* 3mmp_G* 1efu_B

Probab=98.40  E-value=2.2e-07  Score=65.02  Aligned_cols=63  Identities=14%  Similarity=0.024  Sum_probs=36.4

Q ss_pred             cCceeeeEEEEeCCCCCHHHHHHHHHhC-------cCCC-------CccCCcceeeEEEEEE-eCCEEEEEEEcCCCC
Q psy2514           8 RGSIKGTVVIVGNGAVGKSSMIQRYCRG-------TFTR-------DYKKTIGVKSSMIQRY-CRGTFTRDYKKTIGA   70 (71)
Q Consensus         8 ~~~~~~ki~v~G~~~vGKtsl~~~~~~~-------~f~~-------~~~~t~~~~~~~~~~~-~~~~~~l~i~Dt~G~   70 (71)
                      +....++++++|..++|||||+.++...       .|..       ....+.|..+...... ......+.||||+|.
T Consensus       292 ~~k~~lnIvIIGhvDvGKSTLInrLt~~~~~~G~a~f~~~a~lD~~~~ErerGITIdva~v~f~~~~~kI~IIDTPGH  369 (1289)
T 3avx_A          292 RTKPHVNVGTIGHVDHGKTTLTAAITTVLAKTYGGAARAFDQIDNAPEEKARGITINTSHVEYDTPTRHYAHVDCPGH  369 (1289)
T ss_dssp             CCCCEEEEEEEESTTSSHHHHHHHHHHHHHHHSCC---------------------CCSCEEEECSSCEEEEEECCCH
T ss_pred             ccCCeeEEEEEcCCCCCHHHHHHHHHhhhccccccccccccccccccccccCceeEEEEEEEEcCCCEEEEEEECCCh
Confidence            3455699999999999999999999863       1110       1123334332221122 234578999999983

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

Probab=98.39  E-value=1.9e-07  Score=58.10  Aligned_cols=48  Identities=10%  Similarity=0.092  Sum_probs=35.2

Q ss_pred             eEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCCEEEEEEEcCCCC
Q psy2514          14 TVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRGTFTRDYKKTIGA   70 (71)
Q Consensus        14 ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~   70 (71)
                      +++++|..++|||||+.++.      ++..|+...+.  .+.. ....+.+|||+|.
T Consensus        23 ~i~iiG~~d~GKSTL~~~L~------~~giTi~~~~~--~~~~-~~~~i~iiDtPGh   70 (370)
T 2elf_A           23 NVAIIGTEKSGRTSLAANLG------KKGTSSDITMY--NNDK-EGRNMVFVDAHSY   70 (370)
T ss_dssp             EEEEEESTTSSHHHHHHTTS------EEEEESSSEEE--EECS-SSSEEEEEECTTT
T ss_pred             EEEEECCCCCCHHHHHHHHH------hCCEEEEeeEE--EEec-CCeEEEEEECCCh
Confidence            99999999999999999998      33455554332  2222 2356999999984

>2ywe_A GTP-binding protein LEPA; G domain, beta-barrel, ferredoxin-like domain, structural GE NPPSFA; 2.05A {Aquifex aeolicus} PDB: 2ywf_A* 2ywg_A* 2ywh_A*

Probab=98.38  E-value=1.3e-06  Score=57.40  Aligned_cols=25  Identities=20%  Similarity=0.247  Sum_probs=20.3

Q ss_pred             ceeeeEEEEeCCCCCHHHHHHHHHh
Q psy2514          10 SIKGTVVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus        10 ~~~~ki~v~G~~~vGKtsl~~~~~~   34 (71)
                      ....+++++|..++|||||+.+++.
T Consensus         4 ~~irnI~IiGh~d~GKTTLi~rLl~   28 (600)
T 2ywe_A            4 KNVRNFCIIAHVDHGKSTLADRLLE   28 (600)
T ss_dssp             GGEEEEEEECC--CCHHHHHHHHHH
T ss_pred             cCceEEEEECCCCCCHHHHHHHHHh
Confidence            3467999999999999999999985

>2xex_A Elongation factor G; GTPase, translation, biosynthetic protein; 1.90A {Staphylococcus aureus}

Probab=98.38  E-value=1.2e-06  Score=58.22  Aligned_cols=26  Identities=15%  Similarity=0.126  Sum_probs=23.1

Q ss_pred             CceeeeEEEEeCCCCCHHHHHHHHHh
Q psy2514           9 GSIKGTVVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus         9 ~~~~~ki~v~G~~~vGKtsl~~~~~~   34 (71)
                      .....+++++|.+++|||||+.+++.
T Consensus         7 ~~~~~~I~IvG~~~aGKSTL~~~Ll~   32 (693)
T 2xex_A            7 LEKTRNIGIMAHIDAGKTTTTERILY   32 (693)
T ss_dssp             STTEEEEEEECCGGGTHHHHHHHHHH
T ss_pred             cccceEEEEECCCCCCHHHHHHHHHH
Confidence            34568999999999999999999984

>2rdo_7 EF-G, elongation factor G; elongation factor G, EF-G, RRF, GDPNP, 50S subunit, cryo-EM, REAL-space refinement, ribonucleoprotein; 9.10A {Escherichia coli} PDB: 3j0e_H

Probab=98.37  E-value=1.2e-06  Score=58.37  Aligned_cols=26  Identities=15%  Similarity=0.054  Sum_probs=22.9

Q ss_pred             CceeeeEEEEeCCCCCHHHHHHHHHh
Q psy2514           9 GSIKGTVVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus         9 ~~~~~ki~v~G~~~vGKtsl~~~~~~   34 (71)
                      .....+++++|..++|||||+.+++.
T Consensus         7 ~~~~~~I~IiG~~~~GKTTL~~~Ll~   32 (704)
T 2rdo_7            7 IARYRNIGISAHIDAGKTTTTERILF   32 (704)
T ss_pred             cccccEEEEECCCCCCHHHHHHHHHH
Confidence            34568999999999999999999974

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

Probab=98.37  E-value=4.6e-07  Score=59.51  Aligned_cols=60  Identities=15%  Similarity=0.170  Sum_probs=30.5

Q ss_pred             eeeeEEEEeCCCCCHHHHHHHHHhC--cCCC-----Cc------cCCcceeeEEEEEEe-----C-CEEEEEEEcCCCC
Q psy2514          11 IKGTVVIVGNGAVGKSSMIQRYCRG--TFTR-----DY------KKTIGVKSSMIQRYC-----R-GTFTRDYKKTIGA   70 (71)
Q Consensus        11 ~~~ki~v~G~~~vGKtsl~~~~~~~--~f~~-----~~------~~t~~~~~~~~~~~~-----~-~~~~l~i~Dt~G~   70 (71)
                      ...+++++|..++|||||+.+++..  .+..     .+      ....|..+.......     + ..+.+++|||+|.
T Consensus         3 ~irnI~IiGh~d~GKTTLi~rLl~~tg~i~~~~~~~~~~D~~~~ErerGiTi~~~~~~~~~~~~~g~~~~l~liDTPGh   81 (599)
T 3cb4_D            3 NIRNFSIIAHIDHGKSTLSDRIIQICGGLSDREMEAQVLDSMDLERERGITIKAQSVTLDYKASDGETYQLNFIDTPGH   81 (599)
T ss_dssp             TEEEEEEECCC----CCHHHHHHHHTTC--------------------------CEEEEEEECTTSCEEEEEEEECCCC
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHhcCCcccccccccccccchhhhcccceeeeeEEEEEEecCCCCeEEEEEEECCCc
Confidence            3578999999999999999999852  2211     11      122333333222211     2 3689999999984

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

Probab=98.34  E-value=3e-07  Score=60.34  Aligned_cols=60  Identities=13%  Similarity=0.154  Sum_probs=38.9

Q ss_pred             eeeeEEEEeCCCCCHHHHHHHHHhCcCCCC----ccCCcceeeEEEEEE------e-C------CEEEEEEEcCCCC
Q psy2514          11 IKGTVVIVGNGAVGKSSMIQRYCRGTFTRD----YKKTIGVKSSMIQRY------C-R------GTFTRDYKKTIGA   70 (71)
Q Consensus        11 ~~~ki~v~G~~~vGKtsl~~~~~~~~f~~~----~~~t~~~~~~~~~~~------~-~------~~~~l~i~Dt~G~   70 (71)
                      ...+++++|..++|||||+.++....+...    ..++++..+......      . +      ....+++|||+|.
T Consensus         4 r~~~V~IvGh~d~GKTTLl~~L~~~~v~~~e~ggiT~~ig~~~~~~~~~~~~~~~~~~~~~v~~~~~~i~liDTPGh   80 (594)
T 1g7s_A            4 RSPIVSVLGHVDHGKTTLLDHIRGSAVASREAGGITQHIGATEIPMDVIEGICGDFLKKFSIRETLPGLFFIDTPGH   80 (594)
T ss_dssp             CCCEEEEECSTTSSHHHHHHHHHHHHHSCC----CCCBTTEEEEEHHHHHHHSCGGGGGCGGGGTCCEEEEECCCTT
T ss_pred             CCcEEEEECCCCCcHHHHHHHHhcccCccccCCceecccCeEEEeechhhhhccccccccccccccCCEEEEECCCc
Confidence            357999999999999999999987655432    234555433321100      0 0      1125999999985

>1udx_A The GTP-binding protein OBG; TGS domain, riken structural genomics/proteomics initiative, RSGI, structural genomics; 2.07A {Thermus thermophilus} SCOP: b.117.1.1 c.37.1.8 d.242.1.1

Probab=98.31  E-value=7e-07  Score=56.47  Aligned_cols=57  Identities=19%  Similarity=0.101  Sum_probs=35.3

Q ss_pred             eeEEEEeCCCCCHHHHHHHHHhCcC-CCCccCCcceeeEEEEEEeCCEEEEEEEcCCCC
Q psy2514          13 GTVVIVGNGAVGKSSMIQRYCRGTF-TRDYKKTIGVKSSMIQRYCRGTFTRDYKKTIGA   70 (71)
Q Consensus        13 ~ki~v~G~~~vGKtsl~~~~~~~~f-~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~   70 (71)
                      ..+.++|.+++|||||+++++.... ...|..+.- ......+..++...+.+||+.|-
T Consensus       158 ~~VgLVG~~gAGKSTLL~~Lsg~~~~i~~~~ftTl-~p~~G~V~~~~~~~~~l~DtpGl  215 (416)
T 1udx_A          158 ADVGLVGYPNAGKSSLLAAMTRAHPKIAPYPFTTL-SPNLGVVEVSEEERFTLADIPGI  215 (416)
T ss_dssp             CSEEEECCGGGCHHHHHHHHCSSCCEECCCTTCSS-CCEEEEEECSSSCEEEEEECCCC
T ss_pred             CEEEEECCCCCcHHHHHHHHHcCCccccCccccee-cceeeEEEecCcceEEEEecccc
Confidence            4588999999999999999986532 122221111 11222233343456889999874

>1f5n_A Interferon-induced guanylate-binding protein 1; GBP, GTP hydrolysis, GDP, GMP, dynamin related, large GTPase family. GMPPNP, GPPNHP.; HET: GNP; 1.70A {Homo sapiens} SCOP: a.114.1.1 c.37.1.8 PDB: 1dg3_A* 2b8w_A* 2b92_A* 2bc9_A* 2d4h_A*

Probab=98.23  E-value=2.5e-06  Score=56.10  Aligned_cols=59  Identities=20%  Similarity=0.054  Sum_probs=37.4

Q ss_pred             ceeeeEEEEeCCCCCHHHHHHHHHhCcCCCCcc-----CCcceeeEEEEEE--eCCEEEEEEEcCCCC
Q psy2514          10 SIKGTVVIVGNGAVGKSSMIQRYCRGTFTRDYK-----KTIGVKSSMIQRY--CRGTFTRDYKKTIGA   70 (71)
Q Consensus        10 ~~~~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~-----~t~~~~~~~~~~~--~~~~~~l~i~Dt~G~   70 (71)
                      .....|+++|.+++|||+|++++......-...     .|.+.-  .+...  ......+.++||.|-
T Consensus        36 ~~~~~VaivG~pnvGKStLiN~L~g~~~~~~~~~tt~~~T~gi~--~~~~~~~~~~~~~i~LiDTpGi  101 (592)
T 1f5n_A           36 QPMVVVAIVGLYRTGKSYLMNKLAGKKKGFSLGSTVQSHTKGIW--MWCVPHPKKPGHILVLLDTEGL  101 (592)
T ss_dssp             SBEEEEEEEEBTTSSHHHHHHHHTTCSSCSCCCCSSSCCCCSEE--EEEEECSSSTTCEEEEEEECCB
T ss_pred             CCCcEEEEECCCCCCHHHHHHhHcCCCCccccCCCCCCceeEEE--EeecccccCCCceEEEecCCCc
Confidence            445889999999999999999998765211221     223321  11111  123456889999984

>3sop_A Neuronal-specific septin-3; hydrolase; HET: GDP; 2.88A {Homo sapiens}

Probab=98.06  E-value=5.3e-06  Score=49.66  Aligned_cols=24  Identities=21%  Similarity=0.545  Sum_probs=21.4

Q ss_pred             eeeEEEEeCCCCCHHHHHHHHHhC
Q psy2514          12 KGTVVIVGNGAVGKSSMIQRYCRG   35 (71)
Q Consensus        12 ~~ki~v~G~~~vGKtsl~~~~~~~   35 (71)
                      .++++++|++|+|||||++.++.-
T Consensus         2 ~f~v~lvG~nGaGKSTLln~L~g~   25 (270)
T 3sop_A            2 DFNIMVVGQSGLGKSTLVNTLFKS   25 (270)
T ss_dssp             EEEEEEEESSSSSHHHHHHHHHHH
T ss_pred             eeEEEEECCCCCCHHHHHHHHhCC
Confidence            578999999999999999988753

>3h2y_A GTPase family protein; GTP-binding protein YQEH, possibly involved in replication initiation, csgid, IDP90222; HET: DGI; 1.80A {Bacillus anthracis str}

Probab=97.96  E-value=9.4e-06  Score=50.45  Aligned_cols=23  Identities=39%  Similarity=0.575  Sum_probs=20.9

Q ss_pred             eeEEEEeCCCCCHHHHHHHHHhC
Q psy2514          13 GTVVIVGNGAVGKSSMIQRYCRG   35 (71)
Q Consensus        13 ~ki~v~G~~~vGKtsl~~~~~~~   35 (71)
                      .+++++|.+++|||||++++...
T Consensus       161 ~~i~~vG~~nvGKStliN~L~~~  183 (368)
T 3h2y_A          161 KDVYVVGCTNVGKSTFINRMIKE  183 (368)
T ss_dssp             SCEEEEEBTTSSHHHHHHHHHHH
T ss_pred             ceEEEecCCCCChhHHHHHHHhh
Confidence            57999999999999999999864

>3ec1_A YQEH GTPase; atnos1, atnoa1, trap, PVHL, hydrolase, signaling protein; HET: GDP; 2.36A {Geobacillus stearothermophilus}

Probab=97.93  E-value=6.9e-06  Score=51.04  Aligned_cols=53  Identities=30%  Similarity=0.370  Sum_probs=33.1

Q ss_pred             eeEEEEeCCCCCHHHHHHHHHhC------cCCCCccCCcceeeEEEEEEeCCEEEEEEEcCCC
Q psy2514          13 GTVVIVGNGAVGKSSMIQRYCRG------TFTRDYKKTIGVKSSMIQRYCRGTFTRDYKKTIG   69 (71)
Q Consensus        13 ~ki~v~G~~~vGKtsl~~~~~~~------~f~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G   69 (71)
                      .+++++|.+++|||||++.+...      .......|.+-.+  ......+..  +.++||.|
T Consensus       163 ~~i~~vG~~nvGKStliN~L~~~~~~~~~~~~~~~~~gtT~~--~~~~~~~~~--~~liDtPG  221 (369)
T 3ec1_A          163 GDVYVVGCTNVGKSTFINRIIEEATGKGNVITTSYFPGTTLD--MIEIPLESG--ATLYDTPG  221 (369)
T ss_dssp             SCEEEECCTTSSHHHHHHHHHHHHHHTTCCCEEEECTTSSCE--EEEEECSTT--CEEEECCS
T ss_pred             CcEEEEcCCCCchHHHHHHHHhhccCCccceeecCCCCeEEe--eEEEEeCCC--eEEEeCCC
Confidence            57999999999999999999864      2221222222211  122222322  78999988

>2wsm_A Hydrogenase expression/formation protein (HYPB); metal binding protein; 2.30A {Archaeoglobus fulgidus}

Probab=97.83  E-value=1.2e-05  Score=45.90  Aligned_cols=26  Identities=27%  Similarity=0.248  Sum_probs=22.7

Q ss_pred             eeeeEEEEeCCCCCHHHHHHHHHhCc
Q psy2514          11 IKGTVVIVGNGAVGKSSMIQRYCRGT   36 (71)
Q Consensus        11 ~~~ki~v~G~~~vGKtsl~~~~~~~~   36 (71)
                      ...+++++|.+|+|||||+.+++...
T Consensus        29 ~~~~i~i~G~~g~GKTTl~~~l~~~~   54 (221)
T 2wsm_A           29 GTVAVNIMGAIGSGKTLLIERTIERI   54 (221)
T ss_dssp             TCEEEEEEECTTSCHHHHHHHHHHHH
T ss_pred             CceEEEEEcCCCCCHHHHHHHHHHHh
Confidence            45789999999999999999998653

>2qag_B Septin-6, protein NEDD5; cell cycle, cell division, GTP-binding, nucleotide-binding, phosphorylation, acetylation, alternative splicing, coiled coil; HET: GDP GTP; 4.00A {Homo sapiens}

Probab=97.79  E-value=8.5e-05  Score=47.28  Aligned_cols=28  Identities=21%  Similarity=0.415  Sum_probs=23.0

Q ss_pred             ceeeeEEEEeCCCCCHHHHHHHHHhCcC
Q psy2514          10 SIKGTVVIVGNGAVGKSSMIQRYCRGTF   37 (71)
Q Consensus        10 ~~~~ki~v~G~~~vGKtsl~~~~~~~~f   37 (71)
                      ...++++++|.+|+|||||++.++.-.+
T Consensus        40 Gei~~vaLvG~nGaGKSTLln~L~G~~l   67 (427)
T 2qag_B           40 GFCFNILCVGETGLGKSTLMDTLFNTKF   67 (427)
T ss_dssp             CCEEEEEEECSTTSSSHHHHHHHHTSCC
T ss_pred             CCeeEEEEECCCCCCHHHHHHHHhCccc
Confidence            3346799999999999999999876544

>3zvr_A Dynamin-1; hydrolase, DRP1, DRP, endocytosis, mitochondrial fission, GT stalk, PH, BSE, membrane fission; HET: 1PE; 3.10A {Rattus norvegicus} PDB: 3snh_A

Probab=97.67  E-value=0.00029  Score=47.74  Aligned_cols=27  Identities=26%  Similarity=0.496  Sum_probs=24.4

Q ss_pred             eeeeEEEEeCCCCCHHHHHHHHHhCcC
Q psy2514          11 IKGTVVIVGNGAVGKSSMIQRYCRGTF   37 (71)
Q Consensus        11 ~~~ki~v~G~~~vGKtsl~~~~~~~~f   37 (71)
                      ...+|+++|..++||||+++.++...|
T Consensus        50 ~lp~I~vvG~~saGKSSllnaL~g~~~   76 (772)
T 3zvr_A           50 DLPQIAVVGGQSAGKSSVLENFVGRDF   76 (772)
T ss_dssp             CCSEEEEEECTTTCHHHHHHHHHSSCC
T ss_pred             CCCEEEEECCCCCcHHHHHHHHhCCCc
Confidence            457999999999999999999998776

>1kgd_A CASK, peripheral plasma membrane CASK; maguk, guanylate kinase like domain, protein binding; 1.31A {Homo sapiens} SCOP: c.37.1.1

Probab=97.61  E-value=5.2e-05  Score=42.41  Aligned_cols=22  Identities=23%  Similarity=0.433  Sum_probs=19.4

Q ss_pred             eeEEEEeCCCCCHHHHHHHHHh
Q psy2514          13 GTVVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus        13 ~ki~v~G~~~vGKtsl~~~~~~   34 (71)
                      -.++++|++|+|||||+..+..
T Consensus         6 ~~i~i~GpsGsGKSTL~~~L~~   27 (180)
T 1kgd_A            6 KTLVLLGAHGVGRRHIKNTLIT   27 (180)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHh
Confidence            3688999999999999998875

>1ye8_A Protein THEP1, hypothetical UPF0334 kinase-like protein AQ_1292; mixed alpha-beta protein, rossman fold, signaling protein, transferase; 1.40A {Aquifex aeolicus} SCOP: c.37.1.11

Probab=97.56  E-value=7.2e-05  Score=42.17  Aligned_cols=21  Identities=24%  Similarity=0.678  Sum_probs=18.7

Q ss_pred             eEEEEeCCCCCHHHHHHHHHh
Q psy2514          14 TVVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus        14 ki~v~G~~~vGKtsl~~~~~~   34 (71)
                      +++++|++|+|||+|+..++.
T Consensus         2 ~i~l~G~nGsGKTTLl~~l~g   22 (178)
T 1ye8_A            2 KIIITGEPGVGKTTLVKKIVE   22 (178)
T ss_dssp             EEEEECCTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            688999999999999987764

>1knq_A Gluconate kinase; ALFA/beta structure, transferase; 2.00A {Escherichia coli} SCOP: c.37.1.17 PDB: 1ko1_A 1ko4_A 1ko5_A* 1ko8_A* 1kof_A*

Probab=97.54  E-value=0.0001  Score=40.72  Aligned_cols=24  Identities=21%  Similarity=0.284  Sum_probs=20.0

Q ss_pred             eeeeEEEEeCCCCCHHHHHHHHHh
Q psy2514          11 IKGTVVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus        11 ~~~ki~v~G~~~vGKtsl~~~~~~   34 (71)
                      ....++++|.+|+|||+++..+..
T Consensus         7 ~g~~i~l~G~~GsGKSTl~~~l~~   30 (175)
T 1knq_A            7 DHHIYVLMGVSGSGKSAVASEVAH   30 (175)
T ss_dssp             TSEEEEEECSTTSCHHHHHHHHHH
T ss_pred             CCcEEEEEcCCCCCHHHHHHHHHH
Confidence            345789999999999999987763

>3ney_A 55 kDa erythrocyte membrane protein; structural genomics consortium, SGC, 55 kDa erythrocyte MEMB protein; 2.26A {Homo sapiens} SCOP: c.37.1.0

Probab=97.51  E-value=0.0001  Score=42.50  Aligned_cols=24  Identities=25%  Similarity=0.437  Sum_probs=20.3

Q ss_pred             eeeeEEEEeCCCCCHHHHHHHHHh
Q psy2514          11 IKGTVVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus        11 ~~~ki~v~G~~~vGKtsl~~~~~~   34 (71)
                      ..--++++|++|+|||+|+..+..
T Consensus        18 ~g~~ivl~GPSGaGKsTL~~~L~~   41 (197)
T 3ney_A           18 GRKTLVLIGASGVGRSHIKNALLS   41 (197)
T ss_dssp             SCCEEEEECCTTSSHHHHHHHHHH
T ss_pred             CCCEEEEECcCCCCHHHHHHHHHh
Confidence            345688999999999999999874

>1lvg_A Guanylate kinase, GMP kinase; transferase; HET: ADP 5GP; 2.10A {Mus musculus} SCOP: c.37.1.1

Probab=97.51  E-value=8.3e-05  Score=42.29  Aligned_cols=22  Identities=27%  Similarity=0.582  Sum_probs=19.3

Q ss_pred             eeEEEEeCCCCCHHHHHHHHHh
Q psy2514          13 GTVVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus        13 ~ki~v~G~~~vGKtsl~~~~~~   34 (71)
                      -.++++|++|+|||||++.+..
T Consensus         5 ~~i~lvGpsGaGKSTLl~~L~~   26 (198)
T 1lvg_A            5 RPVVLSGPSGAGKSTLLKKLFQ   26 (198)
T ss_dssp             CCEEEECCTTSSHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHh
Confidence            4689999999999999998764

>1ex7_A Guanylate kinase; substrate-induced FIT, domain movement, GMP, ATP, substrate specificity, X-RAY diffraction, transferase; HET: 5GP; 1.90A {Saccharomyces cerevisiae} SCOP: c.37.1.1 PDB: 1ex6_A* 1gky_A* 3sqk_A 4f4j_A

Probab=97.49  E-value=9.1e-05  Score=42.27  Aligned_cols=20  Identities=30%  Similarity=0.634  Sum_probs=18.3

Q ss_pred             EEEEeCCCCCHHHHHHHHHh
Q psy2514          15 VVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus        15 i~v~G~~~vGKtsl~~~~~~   34 (71)
                      |+++|++|+||+||+.+++.
T Consensus         4 IVi~GPSG~GK~Tl~~~L~~   23 (186)
T 1ex7_A            4 IVISGPSGTGKSTLLKKLFA   23 (186)
T ss_dssp             EEEECCTTSSHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHH
Confidence            78999999999999999874

>3asz_A Uridine kinase; cytidine phosphorylation, transferase; HET: C5P; 2.25A {Thermus thermophilus} PDB: 3asy_A*

Probab=97.45  E-value=0.00014  Score=41.21  Aligned_cols=24  Identities=29%  Similarity=0.354  Sum_probs=20.2

Q ss_pred             eeeeEEEEeCCCCCHHHHHHHHHh
Q psy2514          11 IKGTVVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus        11 ~~~ki~v~G~~~vGKtsl~~~~~~   34 (71)
                      ....+.++|.+|+||||++..+..
T Consensus         5 ~~~~i~i~G~~GsGKSTl~~~l~~   28 (211)
T 3asz_A            5 KPFVIGIAGGTASGKTTLAQALAR   28 (211)
T ss_dssp             CCEEEEEEESTTSSHHHHHHHHHH
T ss_pred             CcEEEEEECCCCCCHHHHHHHHHH
Confidence            346789999999999999987764

>1y63_A LMAJ004144AAA protein; structural genomics, protein structure initiative, PSI, SGPP structural genomics of pathogenic protozoa consortium; HET: ADP; 1.70A {Leishmania major} SCOP: c.37.1.1

Probab=97.42  E-value=0.00016  Score=40.50  Aligned_cols=29  Identities=21%  Similarity=0.297  Sum_probs=22.9

Q ss_pred             ccCceeeeEEEEeCCCCCHHHHHHHHHhC
Q psy2514           7 LRGSIKGTVVIVGNGAVGKSSMIQRYCRG   35 (71)
Q Consensus         7 ~~~~~~~ki~v~G~~~vGKtsl~~~~~~~   35 (71)
                      +.......++++|.+|+|||++...+...
T Consensus         5 ~~~~~~~~I~l~G~~GsGKSTv~~~La~~   33 (184)
T 1y63_A            5 MEQPKGINILITGTPGTGKTSMAEMIAAE   33 (184)
T ss_dssp             -CCCSSCEEEEECSTTSSHHHHHHHHHHH
T ss_pred             cCCCCCCEEEEECCCCCCHHHHHHHHHHh
Confidence            44445568999999999999999888754

>1zp6_A Hypothetical protein ATU3015; alpha-beta protein., structural genomics, PSI, protein struc initiative; 3.20A {Agrobacterium tumefaciens str} SCOP: c.37.1.25

Probab=97.42  E-value=0.00013  Score=40.65  Aligned_cols=23  Identities=17%  Similarity=0.343  Sum_probs=20.0

Q ss_pred             eeEEEEeCCCCCHHHHHHHHHhC
Q psy2514          13 GTVVIVGNGAVGKSSMIQRYCRG   35 (71)
Q Consensus        13 ~ki~v~G~~~vGKtsl~~~~~~~   35 (71)
                      -.++++|.+|+||||+++.+...
T Consensus        10 ~~i~l~G~~GsGKSTl~~~La~~   32 (191)
T 1zp6_A           10 NILLLSGHPGSGKSTIAEALANL   32 (191)
T ss_dssp             EEEEEEECTTSCHHHHHHHHHTC
T ss_pred             eEEEEECCCCCCHHHHHHHHHhc
Confidence            46889999999999999988754

>3tr0_A Guanylate kinase, GMP kinase; purines, pyrimidines, nucleosides, nucleotides, transferase; HET: 5GP; 1.85A {Coxiella burnetii}

Probab=97.41  E-value=0.00013  Score=41.06  Aligned_cols=21  Identities=19%  Similarity=0.453  Sum_probs=18.8

Q ss_pred             eEEEEeCCCCCHHHHHHHHHh
Q psy2514          14 TVVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus        14 ki~v~G~~~vGKtsl~~~~~~   34 (71)
                      -++++|++|+||||++..+..
T Consensus         9 ii~l~Gp~GsGKSTl~~~L~~   29 (205)
T 3tr0_A            9 LFIISAPSGAGKTSLVRALVK   29 (205)
T ss_dssp             EEEEECCTTSCHHHHHHHHHH
T ss_pred             EEEEECcCCCCHHHHHHHHHh
Confidence            578999999999999998875

>1s96_A Guanylate kinase, GMP kinase; E.coli, dimer, SAD, transferase; 2.00A {Escherichia coli} SCOP: c.37.1.1 PDB: 2an9_A* 2anb_A* 2anc_A 2f3r_A* 2f3t_A*

Probab=97.39  E-value=0.00014  Score=42.28  Aligned_cols=22  Identities=27%  Similarity=0.404  Sum_probs=19.2

Q ss_pred             eeEEEEeCCCCCHHHHHHHHHh
Q psy2514          13 GTVVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus        13 ~ki~v~G~~~vGKtsl~~~~~~   34 (71)
                      --++++|++|+|||||+..+..
T Consensus        17 ~ii~l~GpsGsGKSTLlk~L~g   38 (219)
T 1s96_A           17 TLYIVSAPSGAGKSSLIQALLK   38 (219)
T ss_dssp             CEEEEECCTTSCHHHHHHHHHH
T ss_pred             cEEEEECCCCCCHHHHHHHHhc
Confidence            4578899999999999998875

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

Probab=97.39  E-value=0.00034  Score=45.62  Aligned_cols=24  Identities=17%  Similarity=0.389  Sum_probs=21.2

Q ss_pred             ceeeeEEEEeCCCCCHHHHHHHHH
Q psy2514          10 SIKGTVVIVGNGAVGKSSMIQRYC   33 (71)
Q Consensus        10 ~~~~ki~v~G~~~vGKtsl~~~~~   33 (71)
                      ...-++.++|-.+.|||||..+++
T Consensus        29 ~r~RNiaIiaHvdaGKTTLtE~lL   52 (548)
T 3vqt_A           29 ARRRTFAIISHPDAGKTTLTEKLL   52 (548)
T ss_dssp             HTEEEEEEECCTTSSHHHHHHHHH
T ss_pred             cccceEEEEeCCCCCHHHHHHHHH
Confidence            356789999999999999999985

>3tau_A Guanylate kinase, GMP kinase; structural genomics, center for structural genomics of infec diseases, csgid, putative guanylate kinase; HET: MSE; 2.05A {Listeria monocytogenes}

Probab=97.38  E-value=0.00014  Score=41.49  Aligned_cols=23  Identities=22%  Similarity=0.371  Sum_probs=19.9

Q ss_pred             eeEEEEeCCCCCHHHHHHHHHhC
Q psy2514          13 GTVVIVGNGAVGKSSMIQRYCRG   35 (71)
Q Consensus        13 ~ki~v~G~~~vGKtsl~~~~~~~   35 (71)
                      --++++|++|+|||+++..+...
T Consensus         9 ~~i~l~GpsGsGKsTl~~~L~~~   31 (208)
T 3tau_A            9 LLIVLSGPSGVGKGTVREAVFKD   31 (208)
T ss_dssp             CEEEEECCTTSCHHHHHHHHHHS
T ss_pred             cEEEEECcCCCCHHHHHHHHHhh
Confidence            45788999999999999998754

>3vaa_A Shikimate kinase, SK; structural genomics, center for structural genomics of infec diseases, csgid, metal binding, transferase; 1.70A {Bacteroides thetaiotaomicron}

Probab=97.37  E-value=0.00017  Score=40.75  Aligned_cols=23  Identities=17%  Similarity=0.374  Sum_probs=19.9

Q ss_pred             eeeEEEEeCCCCCHHHHHHHHHh
Q psy2514          12 KGTVVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus        12 ~~ki~v~G~~~vGKtsl~~~~~~   34 (71)
                      .-.++++|.+|+|||++...+..
T Consensus        25 ~~~i~l~G~~GsGKsTl~~~La~   47 (199)
T 3vaa_A           25 MVRIFLTGYMGAGKTTLGKAFAR   47 (199)
T ss_dssp             CCEEEEECCTTSCHHHHHHHHHH
T ss_pred             CCEEEEEcCCCCCHHHHHHHHHH
Confidence            35789999999999999998764

>1znw_A Guanylate kinase, GMP kinase; ATP:GMP-phosphotransferase, TR; 2.10A {Mycobacterium tuberculosis} SCOP: c.37.1.1 PDB: 1znx_A* 1zny_A* 1znz_A* 1s4q_A 1z8f_A

Probab=97.36  E-value=0.00016  Score=41.24  Aligned_cols=22  Identities=36%  Similarity=0.534  Sum_probs=18.8

Q ss_pred             eeEEEEeCCCCCHHHHHHHHHh
Q psy2514          13 GTVVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus        13 ~ki~v~G~~~vGKtsl~~~~~~   34 (71)
                      --++++|++|+|||+|++.+..
T Consensus        21 ei~~l~GpnGsGKSTLl~~l~g   42 (207)
T 1znw_A           21 RVVVLSGPSAVGKSTVVRCLRE   42 (207)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHh
Confidence            3578899999999999998764

>1z6g_A Guanylate kinase; structural genomics, SGC, structural genom consortium, transferase; HET: EPE; 2.18A {Plasmodium falciparum}

Probab=97.35  E-value=0.00016  Score=41.75  Aligned_cols=23  Identities=30%  Similarity=0.504  Sum_probs=19.8

Q ss_pred             eeeEEEEeCCCCCHHHHHHHHHh
Q psy2514          12 KGTVVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus        12 ~~ki~v~G~~~vGKtsl~~~~~~   34 (71)
                      .-.++++|++|+|||+|+..+..
T Consensus        23 G~~~~lvGpsGsGKSTLl~~L~g   45 (218)
T 1z6g_A           23 IYPLVICGPSGVGKGTLIKKLLN   45 (218)
T ss_dssp             CCCEEEECSTTSSHHHHHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHHh
Confidence            34688999999999999998875

>3kb2_A SPBC2 prophage-derived uncharacterized protein YORR; alpha-beta protein., structural genomics, PSI-2, protein structure initiative; HET: G3D; 2.20A {Bacillus subtilis} SCOP: c.37.1.1 PDB: 2axp_A*

Probab=97.32  E-value=0.00019  Score=39.13  Aligned_cols=21  Identities=14%  Similarity=0.317  Sum_probs=18.8

Q ss_pred             eEEEEeCCCCCHHHHHHHHHh
Q psy2514          14 TVVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus        14 ki~v~G~~~vGKtsl~~~~~~   34 (71)
                      .|++.|.+|+||||+...+..
T Consensus         3 ~i~l~G~~GsGKsT~~~~L~~   23 (173)
T 3kb2_A            3 LIILEGPDCCFKSTVAAKLSK   23 (173)
T ss_dssp             EEEEECSSSSSHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            588999999999999998864

>2www_A Methylmalonic aciduria type A protein, mitochondrial; transport protein, nucleotide-binding; HET: GDP 2PE; 2.64A {Homo sapiens}

Probab=97.30  E-value=0.00024  Score=43.83  Aligned_cols=24  Identities=25%  Similarity=0.396  Sum_probs=21.7

Q ss_pred             eeeeEEEEeCCCCCHHHHHHHHHh
Q psy2514          11 IKGTVVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus        11 ~~~ki~v~G~~~vGKtsl~~~~~~   34 (71)
                      ....+.++|.+|+|||||+++++.
T Consensus        73 ~~~~v~lvG~pgaGKSTLln~L~~   96 (349)
T 2www_A           73 LAFRVGLSGPPGAGKSTFIEYFGK   96 (349)
T ss_dssp             SCEEEEEECCTTSSHHHHHHHHHH
T ss_pred             CceEEEEEcCCCCCHHHHHHHHHH
Confidence            368899999999999999999985

>2qor_A Guanylate kinase; phosphotransferase, purine metabolism, structural genomics, structural genomics of pathogenic protozoa consortium; HET: 5GP POP; 1.80A {Plasmodium vivax}

Probab=97.30  E-value=0.0002  Score=40.61  Aligned_cols=22  Identities=27%  Similarity=0.557  Sum_probs=19.4

Q ss_pred             eeEEEEeCCCCCHHHHHHHHHh
Q psy2514          13 GTVVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus        13 ~ki~v~G~~~vGKtsl~~~~~~   34 (71)
                      .-++++|.+|+|||+++..+..
T Consensus        13 ~~i~l~G~sGsGKsTl~~~L~~   34 (204)
T 2qor_A           13 PPLVVCGPSGVGKGTLIKKVLS   34 (204)
T ss_dssp             CCEEEECCTTSCHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHH
Confidence            4578999999999999998875

>4eun_A Thermoresistant glucokinase; putative sugar kinase, enzyme function initiative, EFI, STRU genomics, transferase; 1.60A {Janibacter SP}

Probab=97.29  E-value=0.00025  Score=40.11  Aligned_cols=24  Identities=21%  Similarity=0.360  Sum_probs=20.1

Q ss_pred             eeeeEEEEeCCCCCHHHHHHHHHh
Q psy2514          11 IKGTVVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus        11 ~~~ki~v~G~~~vGKtsl~~~~~~   34 (71)
                      ....++++|.+|+||||++..+..
T Consensus        28 ~g~~i~l~G~~GsGKSTl~~~L~~   51 (200)
T 4eun_A           28 PTRHVVVMGVSGSGKTTIAHGVAD   51 (200)
T ss_dssp             CCCEEEEECCTTSCHHHHHHHHHH
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHH
Confidence            345688999999999999998764

>4gp7_A Metallophosphoesterase; polynucleotide kinase phosphatase, RNA repair, transferase; HET: ATP CIT; 2.00A {Clostridium thermocellum} PDB: 4gp6_A*

Probab=97.28  E-value=0.00017  Score=40.08  Aligned_cols=19  Identities=32%  Similarity=0.662  Sum_probs=16.6

Q ss_pred             eeEEEEeCCCCCHHHHHHH
Q psy2514          13 GTVVIVGNGAVGKSSMIQR   31 (71)
Q Consensus        13 ~ki~v~G~~~vGKtsl~~~   31 (71)
                      --++++|++|+|||+|++.
T Consensus        10 ei~~l~G~nGsGKSTl~~~   28 (171)
T 4gp7_A           10 SLVVLIGSSGSGKSTFAKK   28 (171)
T ss_dssp             EEEEEECCTTSCHHHHHHH
T ss_pred             EEEEEECCCCCCHHHHHHH
Confidence            3578899999999999994

>1jbk_A CLPB protein; beta barrel, chaperone; 1.80A {Escherichia coli} SCOP: c.37.1.20

Probab=97.28  E-value=0.00024  Score=38.87  Aligned_cols=23  Identities=22%  Similarity=0.550  Sum_probs=19.5

Q ss_pred             eeEEEEeCCCCCHHHHHHHHHhC
Q psy2514          13 GTVVIVGNGAVGKSSMIQRYCRG   35 (71)
Q Consensus        13 ~ki~v~G~~~vGKtsl~~~~~~~   35 (71)
                      -.+++.|++|+|||+++..+...
T Consensus        44 ~~~ll~G~~G~GKT~l~~~~~~~   66 (195)
T 1jbk_A           44 NNPVLIGEPGVGKTAIVEGLAQR   66 (195)
T ss_dssp             CEEEEECCTTSCHHHHHHHHHHH
T ss_pred             CceEEECCCCCCHHHHHHHHHHH
Confidence            45889999999999999887643

>1qf9_A UMP/CMP kinase, protein (uridylmonophosphate/cytidylmonophosphate kinase); nucleoside monophosphate kinase, NMP kinase; HET: ADP C5P; 1.70A {Dictyostelium discoideum} SCOP: c.37.1.1 PDB: 1uke_A* 2ukd_A* 3ukd_A* 4ukd_A* 5ukd_A*

Probab=97.27  E-value=0.00039  Score=38.48  Aligned_cols=22  Identities=23%  Similarity=0.416  Sum_probs=19.3

Q ss_pred             eeEEEEeCCCCCHHHHHHHHHh
Q psy2514          13 GTVVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus        13 ~ki~v~G~~~vGKtsl~~~~~~   34 (71)
                      ..|++.|.+|+|||++...+..
T Consensus         7 ~~I~l~G~~GsGKsT~~~~L~~   28 (194)
T 1qf9_A            7 NVVFVLGGPGSGKGTQCANIVR   28 (194)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHH
T ss_pred             cEEEEECCCCCCHHHHHHHHHH
Confidence            5789999999999999988764

>2j41_A Guanylate kinase; GMP, GMK, transferase, ATP-binding, nucleotide- binding; HET: 5GP; 1.9A {Staphylococcus aureus}

Probab=97.25  E-value=0.0003  Score=39.50  Aligned_cols=23  Identities=26%  Similarity=0.417  Sum_probs=20.0

Q ss_pred             eeEEEEeCCCCCHHHHHHHHHhC
Q psy2514          13 GTVVIVGNGAVGKSSMIQRYCRG   35 (71)
Q Consensus        13 ~ki~v~G~~~vGKtsl~~~~~~~   35 (71)
                      ..++++|.+|+|||+++..+...
T Consensus         7 ~~i~l~G~~GsGKSTl~~~L~~~   29 (207)
T 2j41_A            7 LLIVLSGPSGVGKGTVRKRIFED   29 (207)
T ss_dssp             CEEEEECSTTSCHHHHHHHHHHC
T ss_pred             CEEEEECCCCCCHHHHHHHHHHh
Confidence            46889999999999999988754

>1kag_A SKI, shikimate kinase I; transferase, structural genomics, PSI, protein structure initiative; 2.05A {Escherichia coli} SCOP: c.37.1.2

Probab=97.24  E-value=0.00028  Score=38.72  Aligned_cols=22  Identities=23%  Similarity=0.428  Sum_probs=19.2

Q ss_pred             eeEEEEeCCCCCHHHHHHHHHh
Q psy2514          13 GTVVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus        13 ~ki~v~G~~~vGKtsl~~~~~~   34 (71)
                      ..++++|.+|+|||++.+.+..
T Consensus         5 ~~i~l~G~~GsGKSTl~~~La~   26 (173)
T 1kag_A            5 RNIFLVGPMGAGKSTIGRQLAQ   26 (173)
T ss_dssp             CCEEEECCTTSCHHHHHHHHHH
T ss_pred             CeEEEECCCCCCHHHHHHHHHH
Confidence            4689999999999999988764

>3c8u_A Fructokinase; YP_612366.1, putative fructose transport system kinase, STRU genomics, joint center for structural genomics, JCSG; 1.95A {Silicibacter SP}

Probab=97.23  E-value=0.00028  Score=40.17  Aligned_cols=24  Identities=21%  Similarity=0.288  Sum_probs=20.3

Q ss_pred             ceeeeEEEEeCCCCCHHHHHHHHH
Q psy2514          10 SIKGTVVIVGNGAVGKSSMIQRYC   33 (71)
Q Consensus        10 ~~~~ki~v~G~~~vGKtsl~~~~~   33 (71)
                      .....+.++|.+|+|||||++.+.
T Consensus        20 ~~g~~v~I~G~sGsGKSTl~~~l~   43 (208)
T 3c8u_A           20 PGRQLVALSGAPGSGKSTLSNPLA   43 (208)
T ss_dssp             CSCEEEEEECCTTSCTHHHHHHHH
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHH
Confidence            345788999999999999998765

>2wwf_A Thymidilate kinase, putative; transferase, malaria; HET: TMP ADP; 1.89A {Plasmodium falciparum} PDB: 2wwg_A* 2wwh_A* 2wwi_A*

Probab=97.23  E-value=0.00042  Score=39.10  Aligned_cols=23  Identities=22%  Similarity=0.200  Sum_probs=20.0

Q ss_pred             eeeEEEEeCCCCCHHHHHHHHHh
Q psy2514          12 KGTVVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus        12 ~~ki~v~G~~~vGKtsl~~~~~~   34 (71)
                      ...|++.|.+|+|||+++..+..
T Consensus        10 ~~~I~l~G~~GsGKST~~~~L~~   32 (212)
T 2wwf_A           10 GKFIVFEGLDRSGKSTQSKLLVE   32 (212)
T ss_dssp             SCEEEEEESTTSSHHHHHHHHHH
T ss_pred             CCEEEEEcCCCCCHHHHHHHHHH
Confidence            35799999999999999998764

>1ly1_A Polynucleotide kinase; PNK, phosphatase, transferase; 2.00A {Enterobacteria phage T4} SCOP: c.37.1.1

Probab=97.22  E-value=0.0003  Score=38.61  Aligned_cols=22  Identities=18%  Similarity=0.386  Sum_probs=19.6

Q ss_pred             eeEEEEeCCCCCHHHHHHHHHh
Q psy2514          13 GTVVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus        13 ~ki~v~G~~~vGKtsl~~~~~~   34 (71)
                      ..|++.|.+|+|||++...+..
T Consensus         3 ~~I~i~G~~GsGKST~a~~L~~   24 (181)
T 1ly1_A            3 KIILTIGCPGSGKSTWAREFIA   24 (181)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHH
T ss_pred             eEEEEecCCCCCHHHHHHHHHh
Confidence            4588999999999999998876

>3fb4_A Adenylate kinase; psychrophIle, phosphotransferase, ATP-binding, nucleotide-binding, transferase; HET: AP5; 2.00A {Marinibacillus marinus}

Probab=97.22  E-value=0.00032  Score=39.87  Aligned_cols=21  Identities=19%  Similarity=0.409  Sum_probs=18.8

Q ss_pred             eEEEEeCCCCCHHHHHHHHHh
Q psy2514          14 TVVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus        14 ki~v~G~~~vGKtsl~~~~~~   34 (71)
                      +|++.|.+|+|||+++..+..
T Consensus         2 ~I~l~G~~GsGKsT~a~~L~~   22 (216)
T 3fb4_A            2 NIVLMGLPGAGKGTQAEQIIE   22 (216)
T ss_dssp             EEEEECSTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            689999999999999998854

>3dl0_A Adenylate kinase; phosphotransferase, zinc coordination, ATP-binding, binding, nucleotide biosynthesis, nucleotide-binding, trans; HET: AP5; 1.58A {Bacillus subtilis} PDB: 1p3j_A* 2ori_A* 2eu8_A* 2oo7_A* 2p3s_A* 2qaj_A* 2osb_A* 3dkv_A* 1zin_A* 1zio_A* 1zip_A* 1s3g_A*

Probab=97.21  E-value=0.00033  Score=39.87  Aligned_cols=21  Identities=24%  Similarity=0.398  Sum_probs=18.9

Q ss_pred             eEEEEeCCCCCHHHHHHHHHh
Q psy2514          14 TVVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus        14 ki~v~G~~~vGKtsl~~~~~~   34 (71)
                      +|++.|.+|+|||+++..+..
T Consensus         2 ~I~l~G~~GsGKsT~a~~L~~   22 (216)
T 3dl0_A            2 NLVLMGLPGAGKGTQGERIVE   22 (216)
T ss_dssp             EEEEECSTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            689999999999999998864

>1qhx_A CPT, protein (chloramphenicol phosphotransferase); kinase, antibiotic resistance, phosphorylation, mononucleoti binding fold; HET: ATP; 2.50A {Streptomyces venezuelae} SCOP: c.37.1.3 PDB: 1grr_A* 1grq_A 1qhs_A* 1qhn_A* 1qhy_A*

Probab=97.21  E-value=0.00032  Score=38.66  Aligned_cols=22  Identities=18%  Similarity=0.433  Sum_probs=19.3

Q ss_pred             eeEEEEeCCCCCHHHHHHHHHh
Q psy2514          13 GTVVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus        13 ~ki~v~G~~~vGKtsl~~~~~~   34 (71)
                      .-|++.|.+|+||||+.+.+..
T Consensus         4 ~~i~l~G~~GsGKST~a~~La~   25 (178)
T 1qhx_A            4 RMIILNGGSSAGKSGIVRCLQS   25 (178)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHH
Confidence            3589999999999999998875

>1htw_A HI0065; nucleotide-binding fold, structural genomics, structure 2 function project, S2F, unknown function; HET: ADP; 1.70A {Haemophilus influenzae} SCOP: c.37.1.18 PDB: 1fl9_A

Probab=97.20  E-value=0.00031  Score=38.95  Aligned_cols=24  Identities=21%  Similarity=0.336  Sum_probs=20.2

Q ss_pred             eeEEEEeCCCCCHHHHHHHHHhCc
Q psy2514          13 GTVVIVGNGAVGKSSMIQRYCRGT   36 (71)
Q Consensus        13 ~ki~v~G~~~vGKtsl~~~~~~~~   36 (71)
                      -.+.++|+.|+|||+|++.++...
T Consensus        34 e~v~L~G~nGaGKTTLlr~l~g~l   57 (158)
T 1htw_A           34 IMVYLNGDLGAGKTTLTRGMLQGI   57 (158)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHHT
T ss_pred             CEEEEECCCCCCHHHHHHHHHHhC
Confidence            458899999999999999887543

>3lw7_A Adenylate kinase related protein (ADKA-like); AMP, PSI, MCSG, structural genomics, midwest center for structural genomics; HET: AMP; 2.30A {Sulfolobus solfataricus} PDB: 3h0k_A

Probab=97.20  E-value=0.00032  Score=38.07  Aligned_cols=20  Identities=25%  Similarity=0.375  Sum_probs=18.0

Q ss_pred             eeEEEEeCCCCCHHHHHHHH
Q psy2514          13 GTVVIVGNGAVGKSSMIQRY   32 (71)
Q Consensus        13 ~ki~v~G~~~vGKtsl~~~~   32 (71)
                      .-|++.|.+|+|||++...+
T Consensus         2 ~~I~l~G~~GsGKsT~a~~L   21 (179)
T 3lw7_A            2 KVILITGMPGSGKSEFAKLL   21 (179)
T ss_dssp             CEEEEECCTTSCHHHHHHHH
T ss_pred             cEEEEECCCCCCHHHHHHHH
Confidence            35889999999999999988

>1nks_A Adenylate kinase; thermophilic, transferase; HET: AMP ADP; 2.57A {Sulfolobus acidocaldarius} SCOP: c.37.1.1

Probab=97.20  E-value=0.00043  Score=38.33  Aligned_cols=21  Identities=24%  Similarity=0.403  Sum_probs=18.7

Q ss_pred             eEEEEeCCCCCHHHHHHHHHh
Q psy2514          14 TVVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus        14 ki~v~G~~~vGKtsl~~~~~~   34 (71)
                      .|++.|.+|+||||++..+..
T Consensus         3 ~I~i~G~~GsGKsT~~~~L~~   23 (194)
T 1nks_A            3 IGIVTGIPGVGKSTVLAKVKE   23 (194)
T ss_dssp             EEEEEECTTSCHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            589999999999999988764

>2bdt_A BH3686; alpha-beta protein, structural genomics, PSI, protein struct initiative, northeast structural genomics consortium, NESG, function; 2.40A {Bacillus halodurans} SCOP: c.37.1.25

Probab=97.19  E-value=0.00033  Score=39.11  Aligned_cols=21  Identities=33%  Similarity=0.520  Sum_probs=18.6

Q ss_pred             eEEEEeCCCCCHHHHHHHHHh
Q psy2514          14 TVVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus        14 ki~v~G~~~vGKtsl~~~~~~   34 (71)
                      -++++|.+|+||||+++.+..
T Consensus         4 ii~l~G~~GaGKSTl~~~L~~   24 (189)
T 2bdt_A            4 LYIITGPAGVGKSTTCKRLAA   24 (189)
T ss_dssp             EEEEECSTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCCcHHHHHHHHhc
Confidence            478899999999999998874

>3t61_A Gluconokinase; PSI-biology, structural genomics, protein structure initiati YORK structural genomics research consortium, nysgrc; 2.20A {Sinorhizobium meliloti}

Probab=97.18  E-value=0.00032  Score=39.55  Aligned_cols=22  Identities=32%  Similarity=0.549  Sum_probs=19.4

Q ss_pred             eeEEEEeCCCCCHHHHHHHHHh
Q psy2514          13 GTVVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus        13 ~ki~v~G~~~vGKtsl~~~~~~   34 (71)
                      ..|+++|.+|+|||+++..+..
T Consensus        19 ~~I~l~G~~GsGKSTla~~L~~   40 (202)
T 3t61_A           19 GSIVVMGVSGSGKSSVGEAIAE   40 (202)
T ss_dssp             SCEEEECSTTSCHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHH
Confidence            4699999999999999998764

>1uf9_A TT1252 protein; P-loop, nucleotide binding domain, structural genomics, riken structural genomics/proteomics initiative, RSGI; HET: ATP; 2.80A {Thermus thermophilus} SCOP: c.37.1.1

Probab=97.18  E-value=0.00049  Score=38.52  Aligned_cols=25  Identities=24%  Similarity=0.093  Sum_probs=21.4

Q ss_pred             eeeeEEEEeCCCCCHHHHHHHHHhC
Q psy2514          11 IKGTVVIVGNGAVGKSSMIQRYCRG   35 (71)
Q Consensus        11 ~~~ki~v~G~~~vGKtsl~~~~~~~   35 (71)
                      ....|++.|.+|+|||++...+...
T Consensus         7 ~~~~I~i~G~~GsGKST~~~~La~~   31 (203)
T 1uf9_A            7 HPIIIGITGNIGSGKSTVAALLRSW   31 (203)
T ss_dssp             CCEEEEEEECTTSCHHHHHHHHHHT
T ss_pred             CceEEEEECCCCCCHHHHHHHHHHC
Confidence            3467999999999999999988764

>2bbw_A Adenylate kinase 4, AK4; nucleotide kinase, nucleotide binding, human, structura genomics, structural genomics consortium, SGC, transferase; HET: GP5; 2.05A {Homo sapiens} PDB: 2ar7_A* 3ndp_A

Probab=97.17  E-value=0.00036  Score=40.62  Aligned_cols=21  Identities=33%  Similarity=0.441  Sum_probs=19.2

Q ss_pred             eeEEEEeCCCCCHHHHHHHHH
Q psy2514          13 GTVVIVGNGAVGKSSMIQRYC   33 (71)
Q Consensus        13 ~ki~v~G~~~vGKtsl~~~~~   33 (71)
                      ..++++|.+|+||||+++.+.
T Consensus        28 ~~i~l~G~~GsGKSTl~k~La   48 (246)
T 2bbw_A           28 LRAVILGPPGSGKGTVCQRIA   48 (246)
T ss_dssp             CEEEEECCTTSSHHHHHHHHH
T ss_pred             cEEEEECCCCCCHHHHHHHHH
Confidence            579999999999999999887

>4a74_A DNA repair and recombination protein RADA; hydrolase, recombinase; HET: DNA ANP; 1.48A {Pyrococcus furiosus} PDB: 4a6x_A* 4a6p_A* 4a7o_A*

Probab=97.16  E-value=0.00036  Score=39.69  Aligned_cols=22  Identities=14%  Similarity=0.244  Sum_probs=19.3

Q ss_pred             eeEEEEeCCCCCHHHHHHHHHh
Q psy2514          13 GTVVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus        13 ~ki~v~G~~~vGKtsl~~~~~~   34 (71)
                      --+.++|++|+|||+|+..++.
T Consensus        26 ~~~~l~G~nGsGKSTll~~l~g   47 (231)
T 4a74_A           26 AITEVFGEFGSGKTQLAHTLAV   47 (231)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHH
T ss_pred             cEEEEECCCCCCHHHHHHHHHH
Confidence            3578899999999999999875

>2jaq_A Deoxyguanosine kinase; transferase, deoxyribonucleoside kinase; HET: DCP; 2.3A {Mycoplasma mycoides subsp} PDB: 2jat_A* 2jas_A*

Probab=97.15  E-value=0.00042  Score=38.75  Aligned_cols=21  Identities=24%  Similarity=0.450  Sum_probs=18.8

Q ss_pred             eEEEEeCCCCCHHHHHHHHHh
Q psy2514          14 TVVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus        14 ki~v~G~~~vGKtsl~~~~~~   34 (71)
                      .|++.|.+|+||||++..+..
T Consensus         2 ~I~i~G~~GsGKsT~~~~L~~   22 (205)
T 2jaq_A            2 KIAIFGTVGAGKSTISAEISK   22 (205)
T ss_dssp             EEEEECCTTSCHHHHHHHHHH
T ss_pred             EEEEECCCccCHHHHHHHHHH
Confidence            589999999999999998774

>3ec2_A DNA replication protein DNAC; helicase loader, replication initiation factor, ATP-binding, nucleotide-binding; HET: DNA ADP; 2.70A {Aquifex aeolicus} PDB: 3ecc_A*

Probab=97.13  E-value=0.00029  Score=39.10  Aligned_cols=23  Identities=22%  Similarity=0.335  Sum_probs=19.5

Q ss_pred             eeeEEEEeCCCCCHHHHHHHHHh
Q psy2514          12 KGTVVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus        12 ~~ki~v~G~~~vGKtsl~~~~~~   34 (71)
                      .-.++++|++|+|||+|+..++.
T Consensus        38 g~~~~l~G~~G~GKTtL~~~i~~   60 (180)
T 3ec2_A           38 GKGLTFVGSPGVGKTHLAVATLK   60 (180)
T ss_dssp             CCEEEECCSSSSSHHHHHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHHH
Confidence            35688999999999999987764

>2rhm_A Putative kinase; P-loop containing nucleoside triphosphate hydrolases fold, S genomics, joint center for structural genomics, JCSG; HET: MSE; 1.70A {Chloroflexus aurantiacus}

Probab=97.12  E-value=0.0006  Score=37.88  Aligned_cols=22  Identities=23%  Similarity=0.505  Sum_probs=19.3

Q ss_pred             eeEEEEeCCCCCHHHHHHHHHh
Q psy2514          13 GTVVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus        13 ~ki~v~G~~~vGKtsl~~~~~~   34 (71)
                      ..|++.|.+|+|||++...+..
T Consensus         6 ~~I~l~G~~GsGKST~~~~L~~   27 (193)
T 2rhm_A            6 ALIIVTGHPATGKTTLSQALAT   27 (193)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHH
Confidence            5689999999999999988764

>3uie_A Adenylyl-sulfate kinase 1, chloroplastic; rossmann fold, transferase-transferase complex; HET: ADX ANP; 1.79A {Arabidopsis thaliana} SCOP: c.37.1.0 PDB: 4fxp_A*

Probab=97.11  E-value=0.00048  Score=38.94  Aligned_cols=24  Identities=17%  Similarity=0.198  Sum_probs=19.9

Q ss_pred             eeeeEEEEeCCCCCHHHHHHHHHh
Q psy2514          11 IKGTVVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus        11 ~~~ki~v~G~~~vGKtsl~~~~~~   34 (71)
                      ...-++++|.+|+|||++...+..
T Consensus        24 ~g~~i~l~G~sGsGKSTl~~~La~   47 (200)
T 3uie_A           24 KGCVIWVTGLSGSGKSTLACALNQ   47 (200)
T ss_dssp             CCEEEEEECSTTSSHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHH
Confidence            346788999999999999887664

>2if2_A Dephospho-COA kinase; alpha-beta protein, structural genomics, PSI-2, protein STRU initiative, northeast structural genomics consortium, NESG; 3.00A {Aquifex aeolicus}

Probab=97.11  E-value=0.00052  Score=38.64  Aligned_cols=22  Identities=27%  Similarity=0.400  Sum_probs=19.5

Q ss_pred             eeEEEEeCCCCCHHHHHHHHHh
Q psy2514          13 GTVVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus        13 ~ki~v~G~~~vGKtsl~~~~~~   34 (71)
                      .+++++|.+|+|||+++..+..
T Consensus         2 ~~i~i~G~~GsGKSTl~~~L~~   23 (204)
T 2if2_A            2 KRIGLTGNIGCGKSTVAQMFRE   23 (204)
T ss_dssp             CEEEEEECTTSSHHHHHHHHHH
T ss_pred             eEEEEECCCCcCHHHHHHHHHH
Confidence            3689999999999999998765

>3tif_A Uncharacterized ABC transporter ATP-binding prote; nucleotide-binding domain, ABC transporter ATPase; HET: ADP; 1.80A {Methanocaldococcus jannaschii dsm 2661ORGANISM_TAXID} PDB: 1l2t_A* 1f3o_A*

Probab=97.10  E-value=0.00036  Score=40.86  Aligned_cols=22  Identities=32%  Similarity=0.374  Sum_probs=18.6

Q ss_pred             eeEEEEeCCCCCHHHHHHHHHh
Q psy2514          13 GTVVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus        13 ~ki~v~G~~~vGKtsl~~~~~~   34 (71)
                      =.+.++|++|+|||||++.+..
T Consensus        32 e~~~iiG~nGsGKSTLl~~l~G   53 (235)
T 3tif_A           32 EFVSIMGPSGSGKSTMLNIIGC   53 (235)
T ss_dssp             CEEEEECSTTSSHHHHHHHHTT
T ss_pred             CEEEEECCCCCcHHHHHHHHhc
Confidence            3578999999999999987764

>3trf_A Shikimate kinase, SK; amino acid biosynthesis, transferase; 2.60A {Coxiella burnetii}

Probab=97.10  E-value=0.00051  Score=38.08  Aligned_cols=22  Identities=18%  Similarity=0.357  Sum_probs=19.4

Q ss_pred             eeEEEEeCCCCCHHHHHHHHHh
Q psy2514          13 GTVVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus        13 ~ki~v~G~~~vGKtsl~~~~~~   34 (71)
                      ..|+++|.+|+|||++...+..
T Consensus         6 ~~i~l~G~~GsGKst~a~~La~   27 (185)
T 3trf_A            6 TNIYLIGLMGAGKTSVGSQLAK   27 (185)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHH
Confidence            4689999999999999998864

>3ohm_A Guanine nucleotide-binding protein G(Q) subunit A; PH domain, EF hand, TIM barrel, C2 domain, GTPase, lipase, C binding, GTP binding; HET: GDP; 2.70A {Mus musculus} PDB: 2bcj_Q* 2rgn_A* 3ah8_A*

Probab=97.08  E-value=0.0015  Score=40.22  Aligned_cols=27  Identities=11%  Similarity=-0.065  Sum_probs=18.7

Q ss_pred             ccCCcceeeEEEEEEeCCEEEEEEEcCCCC
Q psy2514          41 YKKTIGVKSSMIQRYCRGTFTRDYKKTIGA   70 (71)
Q Consensus        41 ~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~   70 (71)
                      +.||+|..  ...+..+ .+.+++|||+|+
T Consensus       151 r~~TiGi~--~~~~~~~-~v~l~iwDtgGQ  177 (327)
T 3ohm_A          151 RVPTTGII--EYPFDLQ-SVIFRMVDVGGQ  177 (327)
T ss_dssp             CCCCCSEE--EEEEEET-TEEEEEEEECCS
T ss_pred             cCceeeEE--EEEEEee-ceeeEEEEcCCc
Confidence            56778843  3344444 489999999996

>1kht_A Adenylate kinase; phosphotransferase, signaling protein, transferase; HET: AMP; 2.50A {Methanococcus voltae} SCOP: c.37.1.1 PDB: 3h86_B* 1ki9_A

Probab=97.08  E-value=0.00056  Score=37.84  Aligned_cols=22  Identities=27%  Similarity=0.291  Sum_probs=19.2

Q ss_pred             eeEEEEeCCCCCHHHHHHHHHh
Q psy2514          13 GTVVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus        13 ~ki~v~G~~~vGKtsl~~~~~~   34 (71)
                      ..|++.|.+|+|||+++..+..
T Consensus         4 ~~I~i~G~~GsGKsT~~~~L~~   25 (192)
T 1kht_A            4 KVVVVTGVPGVGSTTSSQLAMD   25 (192)
T ss_dssp             CEEEEECCTTSCHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHH
Confidence            4689999999999999988764

>2cdn_A Adenylate kinase; phosphoryl transfer, associative mechanism, ATP-binding, nucleotide biosynthesis, nucleotide-binding, transferase; HET: ADP; 1.9A {Mycobacterium tuberculosis} SCOP: c.37.1.1 PDB: 1p4s_A

Probab=97.07  E-value=0.00066  Score=38.24  Aligned_cols=25  Identities=16%  Similarity=0.295  Sum_probs=21.0

Q ss_pred             ceeeeEEEEeCCCCCHHHHHHHHHh
Q psy2514          10 SIKGTVVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus        10 ~~~~ki~v~G~~~vGKtsl~~~~~~   34 (71)
                      .....|++.|.+|+|||++...+..
T Consensus        18 ~~~~~I~l~G~~GsGKST~a~~La~   42 (201)
T 2cdn_A           18 GSHMRVLLLGPPGAGKGTQAVKLAE   42 (201)
T ss_dssp             CSCCEEEEECCTTSSHHHHHHHHHH
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHH
Confidence            3446899999999999999988764

>3p32_A Probable GTPase RV1496/MT1543; structural genomics, seattle structural genomics center for infectious disease, ssgcid, MEAB, MMAA; HET: GDP PGE; 1.90A {Mycobacterium tuberculosis} PDB: 3md0_A* 4gt1_A* 3nxs_A* 3tk1_A*

Probab=97.07  E-value=0.00059  Score=41.99  Aligned_cols=25  Identities=32%  Similarity=0.276  Sum_probs=21.7

Q ss_pred             ceeeeEEEEeCCCCCHHHHHHHHHh
Q psy2514          10 SIKGTVVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus        10 ~~~~ki~v~G~~~vGKtsl~~~~~~   34 (71)
                      .....++++|.+|+||||++.++..
T Consensus        77 ~~~~~I~i~G~~G~GKSTl~~~L~~  101 (355)
T 3p32_A           77 GNAHRVGITGVPGVGKSTAIEALGM  101 (355)
T ss_dssp             CCSEEEEEECCTTSSHHHHHHHHHH
T ss_pred             CCceEEEEECCCCCCHHHHHHHHHH
Confidence            3457899999999999999999864

>3lnc_A Guanylate kinase, GMP kinase; ALS collaborative crystallography, emerald biostructures, ATP-binding, cytoplasm, nucleotide-binding; HET: 5GP; 1.95A {Anaplasma phagocytophilum}

Probab=97.07  E-value=0.00023  Score=41.05  Aligned_cols=21  Identities=14%  Similarity=0.303  Sum_probs=14.8

Q ss_pred             eeEEEEeCCCCCHHHHHHHHH
Q psy2514          13 GTVVIVGNGAVGKSSMIQRYC   33 (71)
Q Consensus        13 ~ki~v~G~~~vGKtsl~~~~~   33 (71)
                      --++++|++|+||||++..+.
T Consensus        28 ~ii~l~Gp~GsGKSTl~~~L~   48 (231)
T 3lnc_A           28 VILVLSSPSGCGKTTVANKLL   48 (231)
T ss_dssp             CEEEEECSCC----CHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHH
Confidence            457899999999999999887

>2p65_A Hypothetical protein PF08_0063; CLPB, malaria, structural genomics, structural genomics consortium, SGC, unknown function; 1.70A {Plasmodium falciparum}

Probab=97.07  E-value=0.00032  Score=38.37  Aligned_cols=24  Identities=21%  Similarity=0.512  Sum_probs=20.0

Q ss_pred             eeeEEEEeCCCCCHHHHHHHHHhC
Q psy2514          12 KGTVVIVGNGAVGKSSMIQRYCRG   35 (71)
Q Consensus        12 ~~ki~v~G~~~vGKtsl~~~~~~~   35 (71)
                      .-.+++.|++|+|||+++..+...
T Consensus        43 ~~~vll~G~~G~GKT~la~~~~~~   66 (187)
T 2p65_A           43 KNNPILLGDPGVGKTAIVEGLAIK   66 (187)
T ss_dssp             SCEEEEESCGGGCHHHHHHHHHHH
T ss_pred             CCceEEECCCCCCHHHHHHHHHHH
Confidence            346789999999999999887753

>3cm0_A Adenylate kinase; ATP-binding, cytoplasm, nucleotide biosynthesis, nucleotide-binding, transferase, structural genomics; 1.80A {Thermus thermophilus}

Probab=97.06  E-value=0.00072  Score=37.44  Aligned_cols=23  Identities=22%  Similarity=0.426  Sum_probs=19.8

Q ss_pred             eeeEEEEeCCCCCHHHHHHHHHh
Q psy2514          12 KGTVVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus        12 ~~ki~v~G~~~vGKtsl~~~~~~   34 (71)
                      ...+++.|.+|+|||++...+..
T Consensus         4 g~~I~l~G~~GsGKST~~~~La~   26 (186)
T 3cm0_A            4 GQAVIFLGPPGAGKGTQASRLAQ   26 (186)
T ss_dssp             EEEEEEECCTTSCHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHH
Confidence            35799999999999999998763

>2i3b_A HCR-ntpase, human cancer-related ntpase; AAA, rossmann, hydrolase; NMR {Homo sapiens} SCOP: c.37.1.11

Probab=97.06  E-value=0.00049  Score=39.17  Aligned_cols=21  Identities=29%  Similarity=0.569  Sum_probs=18.4

Q ss_pred             eEEEEeCCCCCHHHHHHHHHh
Q psy2514          14 TVVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus        14 ki~v~G~~~vGKtsl~~~~~~   34 (71)
                      .+.++|.+|+|||+++..++.
T Consensus         3 ~i~i~G~nG~GKTTll~~l~g   23 (189)
T 2i3b_A            3 HVFLTGPPGVGKTTLIHKASE   23 (189)
T ss_dssp             CEEEESCCSSCHHHHHHHHHH
T ss_pred             EEEEECCCCChHHHHHHHHHh
Confidence            578999999999999997764

>2pcj_A ABC transporter, lipoprotein-releasing system ATP-binding protein; structural genomics; 1.70A {Aquifex aeolicus} PDB: 2pcl_A

Probab=97.05  E-value=0.00047  Score=40.05  Aligned_cols=21  Identities=29%  Similarity=0.387  Sum_probs=18.1

Q ss_pred             eEEEEeCCCCCHHHHHHHHHh
Q psy2514          14 TVVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus        14 ki~v~G~~~vGKtsl~~~~~~   34 (71)
                      .+.++|++|+|||||++.+..
T Consensus        32 ~~~iiG~nGsGKSTLl~~l~G   52 (224)
T 2pcj_A           32 FVSIIGASGSGKSTLLYILGL   52 (224)
T ss_dssp             EEEEEECTTSCHHHHHHHHTT
T ss_pred             EEEEECCCCCCHHHHHHHHhc
Confidence            478999999999999987764

>1cke_A CK, MSSA, protein (cytidine monophosphate kinase); nucleotide monophosphate kinase,, transferase; 1.75A {Escherichia coli} SCOP: c.37.1.1 PDB: 1kdo_A* 1kdp_A* 1kdr_A* 1kdt_A* 2cmk_A* 2fem_A 2feo_A*

Probab=97.04  E-value=0.00062  Score=38.82  Aligned_cols=22  Identities=18%  Similarity=0.369  Sum_probs=19.4

Q ss_pred             eeEEEEeCCCCCHHHHHHHHHh
Q psy2514          13 GTVVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus        13 ~ki~v~G~~~vGKtsl~~~~~~   34 (71)
                      ..+.++|.+|+||||++..+..
T Consensus         6 ~~i~i~G~~GsGKSTl~~~L~~   27 (227)
T 1cke_A            6 PVITIDGPSGAGKGTLCKAMAE   27 (227)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHH
Confidence            5799999999999999987764

>1e4v_A Adenylate kinase; transferase(phosphotransferase); HET: AP5; 1.85A {Escherichia coli} SCOP: c.37.1.1 g.41.2.1 PDB: 1e4y_A* 1ake_A* 1ank_A* 2eck_A* 3hpq_A* 4ake_A 3hpr_A*

Probab=97.04  E-value=0.00066  Score=38.70  Aligned_cols=21  Identities=19%  Similarity=0.377  Sum_probs=18.8

Q ss_pred             eEEEEeCCCCCHHHHHHHHHh
Q psy2514          14 TVVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus        14 ki~v~G~~~vGKtsl~~~~~~   34 (71)
                      +|++.|.+|+|||+++..+..
T Consensus         2 ~I~l~G~~GsGKsT~a~~L~~   22 (214)
T 1e4v_A            2 RIILLGAPVAGKGTQAQFIME   22 (214)
T ss_dssp             EEEEEESTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            689999999999999988764

>2jeo_A Uridine-cytidine kinase 1; UCK, transferase, ATP-binding, nucleoside kinase, nucleotide-binding; 2.50A {Homo sapiens} PDB: 2uvq_A*

Probab=97.02  E-value=0.00072  Score=39.41  Aligned_cols=25  Identities=20%  Similarity=0.209  Sum_probs=20.8

Q ss_pred             ceeeeEEEEeCCCCCHHHHHHHHHh
Q psy2514          10 SIKGTVVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus        10 ~~~~ki~v~G~~~vGKtsl~~~~~~   34 (71)
                      .....+.++|.+|+||||++..+..
T Consensus        23 ~~g~iigI~G~~GsGKSTl~k~L~~   47 (245)
T 2jeo_A           23 MRPFLIGVSGGTASGKSTVCEKIME   47 (245)
T ss_dssp             CCSEEEEEECSTTSSHHHHHHHHHH
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHH
Confidence            3446789999999999999998764

>3bos_A Putative DNA replication factor; P-loop containing nucleoside triphosphate hydrolases, struct genomics; HET: MSE CDP; 1.75A {Shewanella amazonensis} PDB: 3sc3_A

Probab=97.02  E-value=0.00057  Score=38.85  Aligned_cols=23  Identities=17%  Similarity=0.404  Sum_probs=19.9

Q ss_pred             eeeEEEEeCCCCCHHHHHHHHHh
Q psy2514          12 KGTVVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus        12 ~~ki~v~G~~~vGKtsl~~~~~~   34 (71)
                      .-.+++.|++|+|||+++..+..
T Consensus        52 ~~~~ll~G~~G~GKT~la~~l~~   74 (242)
T 3bos_A           52 VQAIYLWGPVKSGRTHLIHAACA   74 (242)
T ss_dssp             CSEEEEECSTTSSHHHHHHHHHH
T ss_pred             CCeEEEECCCCCCHHHHHHHHHH
Confidence            45789999999999999988764

>1lw7_A Transcriptional regulator NADR; NMN, NMN adenylyl transferase, ribosylnicotinamide KINA transferase; HET: NAD; 2.90A {Haemophilus influenzae} SCOP: c.26.1.3 c.37.1.1

Probab=97.02  E-value=0.00044  Score=42.61  Aligned_cols=23  Identities=30%  Similarity=0.534  Sum_probs=20.4

Q ss_pred             eeeEEEEeCCCCCHHHHHHHHHh
Q psy2514          12 KGTVVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus        12 ~~ki~v~G~~~vGKtsl~~~~~~   34 (71)
                      .-+++++|.+|+|||||++.+..
T Consensus       170 g~k~~IvG~nGsGKSTLlk~L~g  192 (365)
T 1lw7_A          170 AKTVAILGGESSGKSVLVNKLAA  192 (365)
T ss_dssp             CEEEEEECCTTSHHHHHHHHHHH
T ss_pred             hCeEEEECCCCCCHHHHHHHHHH
Confidence            56899999999999999998764

>1ukz_A Uridylate kinase; transferase; HET: ADP AMP; 1.90A {Saccharomyces cerevisiae} SCOP: c.37.1.1 PDB: 1uky_A*

Probab=97.00  E-value=0.0009  Score=37.63  Aligned_cols=24  Identities=13%  Similarity=0.385  Sum_probs=20.2

Q ss_pred             eeeeEEEEeCCCCCHHHHHHHHHh
Q psy2514          11 IKGTVVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus        11 ~~~ki~v~G~~~vGKtsl~~~~~~   34 (71)
                      ....|++.|.+|+|||++...+..
T Consensus        14 ~~~~I~l~G~~GsGKsT~~~~L~~   37 (203)
T 1ukz_A           14 QVSVIFVLGGPGAGKGTQCEKLVK   37 (203)
T ss_dssp             TCEEEEEECSTTSSHHHHHHHHHH
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHH
Confidence            346789999999999999988763

>3tlx_A Adenylate kinase 2; structural genomics, structural genomics consortium, SGC, RO fold, transferase, ATP binding, phosphorylation; HET: ADP ATP AMP; 2.75A {Plasmodium falciparum}

Probab=96.99  E-value=0.00084  Score=39.26  Aligned_cols=24  Identities=17%  Similarity=0.291  Sum_probs=20.9

Q ss_pred             eeeeEEEEeCCCCCHHHHHHHHHh
Q psy2514          11 IKGTVVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus        11 ~~~ki~v~G~~~vGKtsl~~~~~~   34 (71)
                      ....|++.|.+|+|||+++.++..
T Consensus        28 ~~~~I~l~G~~GsGKsT~a~~L~~   51 (243)
T 3tlx_A           28 PDGRYIFLGAPGSGKGTQSLNLKK   51 (243)
T ss_dssp             CCEEEEEECCTTSSHHHHHHHHHH
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHH
Confidence            457899999999999999998864

>3sr0_A Adenylate kinase; phosphoryl transfer analogue, ALF4, transferase (phosphotran phosphoryl transfer, nucleotide-binding; HET: ADP AMP; 1.56A {Aquifex aeolicus} PDB: 2rh5_A 2rgx_A*

Probab=96.99  E-value=0.00071  Score=38.99  Aligned_cols=21  Identities=24%  Similarity=0.499  Sum_probs=18.8

Q ss_pred             eEEEEeCCCCCHHHHHHHHHh
Q psy2514          14 TVVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus        14 ki~v~G~~~vGKtsl~~~~~~   34 (71)
                      .|+++|++|+||++.+.+++.
T Consensus         2 ~Iil~GpPGsGKgTqa~~La~   22 (206)
T 3sr0_A            2 ILVFLGPPGAGKGTQAKRLAK   22 (206)
T ss_dssp             EEEEECSTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            689999999999999988774

>1b0u_A Histidine permease; ABC transporter, transport protein; HET: ATP; 1.50A {Salmonella typhimurium} SCOP: c.37.1.12

Probab=96.99  E-value=0.00054  Score=40.74  Aligned_cols=21  Identities=24%  Similarity=0.447  Sum_probs=18.2

Q ss_pred             eEEEEeCCCCCHHHHHHHHHh
Q psy2514          14 TVVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus        14 ki~v~G~~~vGKtsl~~~~~~   34 (71)
                      .+.++|++|+|||||++.++.
T Consensus        34 ~~~liG~nGsGKSTLlk~l~G   54 (262)
T 1b0u_A           34 VISIIGSSGSGKSTFLRCINF   54 (262)
T ss_dssp             EEEEECCTTSSHHHHHHHHTT
T ss_pred             EEEEECCCCCCHHHHHHHHhc
Confidence            478999999999999997764

>2onk_A Molybdate/tungstate ABC transporter, ATP-binding protein; membrane protein; 3.10A {Archaeoglobus fulgidus} SCOP: c.37.1.12

Probab=96.99  E-value=0.00062  Score=40.07  Aligned_cols=21  Identities=24%  Similarity=0.398  Sum_probs=18.4

Q ss_pred             eEEEEeCCCCCHHHHHHHHHh
Q psy2514          14 TVVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus        14 ki~v~G~~~vGKtsl~~~~~~   34 (71)
                      .+.++|++|+|||||++.+..
T Consensus        26 ~~~liG~nGsGKSTLl~~l~G   46 (240)
T 2onk_A           26 YCVLLGPTGAGKSVFLELIAG   46 (240)
T ss_dssp             EEEEECCTTSSHHHHHHHHHT
T ss_pred             EEEEECCCCCCHHHHHHHHhC
Confidence            578999999999999998764

>3be4_A Adenylate kinase; malaria, cryptosporidium parvum nonprotein inhibitors, nucleotide-binding, transferase; HET: AP5; 1.60A {Cryptosporidium parvum iowa II}

Probab=96.98  E-value=0.00081  Score=38.48  Aligned_cols=23  Identities=17%  Similarity=0.358  Sum_probs=19.8

Q ss_pred             eeeEEEEeCCCCCHHHHHHHHHh
Q psy2514          12 KGTVVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus        12 ~~ki~v~G~~~vGKtsl~~~~~~   34 (71)
                      ...|++.|.+|+|||++...+..
T Consensus         5 ~~~I~l~G~~GsGKsT~a~~La~   27 (217)
T 3be4_A            5 KHNLILIGAPGSGKGTQCEFIKK   27 (217)
T ss_dssp             CCEEEEEECTTSSHHHHHHHHHH
T ss_pred             ceEEEEECCCCCCHHHHHHHHHH
Confidence            36799999999999999988764

>2qt1_A Nicotinamide riboside kinase 1; non-protein kinase, NAD+, NRK1, nicotinic acid riboside kinase activity, NAD biosynthesis; HET: NNR; 1.32A {Homo sapiens} PDB: 2qsy_A* 2qsz_A* 2qt0_A* 2p0e_A* 2qg6_A* 2ql6_A*

Probab=96.98  E-value=0.0011  Score=37.48  Aligned_cols=25  Identities=20%  Similarity=0.216  Sum_probs=21.1

Q ss_pred             ceeeeEEEEeCCCCCHHHHHHHHHh
Q psy2514          10 SIKGTVVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus        10 ~~~~ki~v~G~~~vGKtsl~~~~~~   34 (71)
                      .....+.++|.+|+|||+++..+..
T Consensus        19 ~~~~~i~i~G~~GsGKSTl~~~L~~   43 (207)
T 2qt1_A           19 SKTFIIGISGVTNSGKTTLAKNLQK   43 (207)
T ss_dssp             CCCEEEEEEESTTSSHHHHHHHHHT
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHH
Confidence            3456789999999999999998865

>1np6_A Molybdopterin-guanine dinucleotide biosynthesis protein B; mixed alpha-beta fold, elongated beta-sheet, walker A motif, P-loop structural motif; 1.90A {Escherichia coli} SCOP: c.37.1.10 PDB: 1p9n_A

Probab=96.98  E-value=0.00069  Score=38.17  Aligned_cols=22  Identities=9%  Similarity=0.282  Sum_probs=19.1

Q ss_pred             eeEEEEeCCCCCHHHHHHHHHh
Q psy2514          13 GTVVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus        13 ~ki~v~G~~~vGKtsl~~~~~~   34 (71)
                      .-++++|.+|+|||+++.++..
T Consensus         7 ~~i~i~G~sGsGKTTl~~~l~~   28 (174)
T 1np6_A            7 PLLAFAAWSGTGKTTLLKKLIP   28 (174)
T ss_dssp             CEEEEECCTTSCHHHHHHHHHH
T ss_pred             eEEEEEeCCCCCHHHHHHHHHH
Confidence            4578999999999999998874

>2plr_A DTMP kinase, probable thymidylate kinase; TMP-binding, ATP-binding, structural GEN NPPSFA; HET: 1PE PGE EPE PG4; 1.60A {Sulfolobus tokodaii}

Probab=96.98  E-value=0.00085  Score=37.67  Aligned_cols=22  Identities=23%  Similarity=0.126  Sum_probs=19.7

Q ss_pred             eeEEEEeCCCCCHHHHHHHHHh
Q psy2514          13 GTVVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus        13 ~ki~v~G~~~vGKtsl~~~~~~   34 (71)
                      ..|++.|.+|+|||+++..+..
T Consensus         5 ~~I~i~G~~GsGKsT~~~~L~~   26 (213)
T 2plr_A            5 VLIAFEGIDGSGKSSQATLLKD   26 (213)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHH
T ss_pred             eEEEEEcCCCCCHHHHHHHHHH
Confidence            5799999999999999998864

>1njg_A DNA polymerase III subunit gamma; rossman-like fold, AAA+ ATPase domains, sensor 1, sensor 2, transferase; HET: DNA; 2.20A {Escherichia coli} SCOP: c.37.1.20 PDB: 1njf_A*

Probab=96.97  E-value=0.00067  Score=38.22  Aligned_cols=21  Identities=24%  Similarity=0.461  Sum_probs=18.6

Q ss_pred             eEEEEeCCCCCHHHHHHHHHh
Q psy2514          14 TVVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus        14 ki~v~G~~~vGKtsl~~~~~~   34 (71)
                      -+++.|++|+|||+++..+..
T Consensus        47 ~~ll~G~~G~GKT~l~~~~~~   67 (250)
T 1njg_A           47 AYLFSGTRGVGKTSIARLLAK   67 (250)
T ss_dssp             EEEEECSTTSCHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            578999999999999998764

>2chg_A Replication factor C small subunit; DNA-binding protein, DNA replication, clamp loader, AAA+ ATPase, ATP-binding, nucleotide-binding; HET: ANP; 2.1A {Archaeoglobus fulgidus}

Probab=96.97  E-value=0.00069  Score=37.81  Aligned_cols=21  Identities=19%  Similarity=0.344  Sum_probs=18.7

Q ss_pred             eEEEEeCCCCCHHHHHHHHHh
Q psy2514          14 TVVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus        14 ki~v~G~~~vGKtsl~~~~~~   34 (71)
                      .+++.|++|+|||+++..+..
T Consensus        40 ~~ll~G~~G~GKT~l~~~l~~   60 (226)
T 2chg_A           40 HLLFSGPPGTGKTATAIALAR   60 (226)
T ss_dssp             CEEEECSTTSSHHHHHHHHHH
T ss_pred             eEEEECCCCCCHHHHHHHHHH
Confidence            389999999999999988764

>1via_A Shikimate kinase; structural genomics, transferase; HET: MSE; 1.57A {Campylobacter jejuni} SCOP: c.37.1.2

Probab=96.97  E-value=0.00069  Score=37.37  Aligned_cols=21  Identities=24%  Similarity=0.480  Sum_probs=18.6

Q ss_pred             eEEEEeCCCCCHHHHHHHHHh
Q psy2514          14 TVVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus        14 ki~v~G~~~vGKtsl~~~~~~   34 (71)
                      +++++|.+|+|||++...+..
T Consensus         6 ~i~i~G~~GsGKsTla~~La~   26 (175)
T 1via_A            6 NIVFIGFMGSGKSTLARALAK   26 (175)
T ss_dssp             CEEEECCTTSCHHHHHHHHHH
T ss_pred             EEEEEcCCCCCHHHHHHHHHH
Confidence            689999999999999988764

>1ixz_A ATP-dependent metalloprotease FTSH; AAA domain fold, hydrolase; 2.20A {Thermus thermophilus} SCOP: c.37.1.20 PDB: 1iy0_A* 1iy1_A*

Probab=96.96  E-value=0.00069  Score=39.46  Aligned_cols=20  Identities=30%  Similarity=0.531  Sum_probs=18.4

Q ss_pred             EEEEeCCCCCHHHHHHHHHh
Q psy2514          15 VVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus        15 i~v~G~~~vGKtsl~~~~~~   34 (71)
                      ++++|++|+|||++++.+..
T Consensus        52 ~ll~G~~G~GKTtl~~~i~~   71 (254)
T 1ixz_A           52 VLLVGPPGVGKTHLARAVAG   71 (254)
T ss_dssp             EEEECCTTSSHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHH
Confidence            89999999999999998774

>2w0m_A SSO2452; RECA, SSPF, unknown FUN; 2.0A {Sulfolobus solfataricus P2}

Probab=96.96  E-value=0.00067  Score=38.47  Aligned_cols=21  Identities=14%  Similarity=0.349  Sum_probs=18.3

Q ss_pred             eEEEEeCCCCCHHHHHHHHHh
Q psy2514          14 TVVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus        14 ki~v~G~~~vGKtsl~~~~~~   34 (71)
                      -++++|++|+|||+|+..++.
T Consensus        25 ~~~i~G~~GsGKTtl~~~l~~   45 (235)
T 2w0m_A           25 FIALTGEPGTGKTIFSLHFIA   45 (235)
T ss_dssp             EEEEECSTTSSHHHHHHHHHH
T ss_pred             EEEEEcCCCCCHHHHHHHHHH
Confidence            477889999999999998873

>2ff7_A Alpha-hemolysin translocation ATP-binding protein HLYB; ABC-transporter, transport protein; HET: ADP; 1.60A {Escherichia coli} SCOP: c.37.1.12 PDB: 2ffb_A* 2fgk_A* 2ffa_A* 2fgj_A* 2pmk_A* 3b5j_A* 1mt0_A 1xef_A*

Probab=96.96  E-value=0.00065  Score=40.06  Aligned_cols=21  Identities=33%  Similarity=0.487  Sum_probs=18.5

Q ss_pred             eEEEEeCCCCCHHHHHHHHHh
Q psy2514          14 TVVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus        14 ki~v~G~~~vGKtsl~~~~~~   34 (71)
                      .+.++|++|+|||||++.++.
T Consensus        37 ~~~i~G~nGsGKSTLl~~l~G   57 (247)
T 2ff7_A           37 VIGIVGRSGSGKSTLTKLIQR   57 (247)
T ss_dssp             EEEEECSTTSSHHHHHHHHTT
T ss_pred             EEEEECCCCCCHHHHHHHHhc
Confidence            578999999999999998764

>1zcb_A G alpha I/13; GTP-binding, lipoprotein, membrane, transducer, signaling PR; HET: GDP; 2.00A {Mus musculus} SCOP: a.66.1.1 c.37.1.8 PDB: 3ab3_A* 3cx8_A* 3cx7_A* 3cx6_A* 1zca_A*

Probab=96.96  E-value=0.00074  Score=42.01  Aligned_cols=23  Identities=22%  Similarity=0.515  Sum_probs=20.0

Q ss_pred             ceeeeEEEEeCCCCCHHHHHHHH
Q psy2514          10 SIKGTVVIVGNGAVGKSSMIQRY   32 (71)
Q Consensus        10 ~~~~ki~v~G~~~vGKtsl~~~~   32 (71)
                      ....|++++|.+++|||+++.++
T Consensus        31 ~~~~killlG~~~SGKST~~kq~   53 (362)
T 1zcb_A           31 ARLVKILLLGAGESGKSTFLKQM   53 (362)
T ss_dssp             CCCEEEEEECSTTSSHHHHHHHH
T ss_pred             cCccEEEEECCCCCcHHHHHHHH
Confidence            45689999999999999998864

>1zd8_A GTP:AMP phosphotransferase mitochondrial; ATP:AMP phosphotransferase, myokinase, structural genomics, structural genomics consortium, SGC; 1.48A {Homo sapiens} PDB: 2ak3_A*

Probab=96.96  E-value=0.00087  Score=38.51  Aligned_cols=22  Identities=27%  Similarity=0.360  Sum_probs=19.6

Q ss_pred             eeEEEEeCCCCCHHHHHHHHHh
Q psy2514          13 GTVVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus        13 ~ki~v~G~~~vGKtsl~~~~~~   34 (71)
                      ..|++.|.+|+|||+++..+..
T Consensus         8 ~~I~l~G~~GsGKsT~a~~La~   29 (227)
T 1zd8_A            8 LRAVIMGAPGSGKGTVSSRITT   29 (227)
T ss_dssp             CEEEEEECTTSSHHHHHHHHHH
T ss_pred             cEEEEECCCCCCHHHHHHHHHH
Confidence            5799999999999999998864

>1nn5_A Similar to deoxythymidylate kinase (thymidylate K; P-loop, D4TMP, transferase; HET: 2DT ANP; 1.50A {Homo sapiens} SCOP: c.37.1.1 PDB: 1e2e_A* 1e2d_A* 1e2g_A* 1e2q_A* 1e99_A* 1e9a_A* 1e9b_A* 1nmx_A* 1nmz_A* 1nn0_A* 1nn1_A* 1e2f_A* 1nn3_A* 2xx3_A* 1e9c_A* 1e9d_A* 1e9e_A* 1e98_A* 1nmy_A* 1e9f_A*

Probab=96.96  E-value=0.00094  Score=37.66  Aligned_cols=23  Identities=22%  Similarity=0.361  Sum_probs=20.0

Q ss_pred             eeeEEEEeCCCCCHHHHHHHHHh
Q psy2514          12 KGTVVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus        12 ~~ki~v~G~~~vGKtsl~~~~~~   34 (71)
                      ...|++.|.+|+|||+++..+..
T Consensus         9 ~~~I~l~G~~GsGKsT~~~~L~~   31 (215)
T 1nn5_A            9 GALIVLEGVDRAGKSTQSRKLVE   31 (215)
T ss_dssp             CCEEEEEESTTSSHHHHHHHHHH
T ss_pred             CcEEEEECCCCCCHHHHHHHHHH
Confidence            35799999999999999998774

>2cbz_A Multidrug resistance-associated protein 1; ABC proteins, MRP1/ABCC1, nucleotide-binding domain, ATP- binding, hydrolysis, transport; HET: ATP; 1.5A {Homo sapiens}

Probab=96.95  E-value=0.00066  Score=39.76  Aligned_cols=21  Identities=33%  Similarity=0.485  Sum_probs=18.5

Q ss_pred             eEEEEeCCCCCHHHHHHHHHh
Q psy2514          14 TVVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus        14 ki~v~G~~~vGKtsl~~~~~~   34 (71)
                      .+.++|++|+|||||++.++.
T Consensus        33 ~~~i~G~nGsGKSTLl~~l~G   53 (237)
T 2cbz_A           33 LVAVVGQVGCGKSSLLSALLA   53 (237)
T ss_dssp             EEEEECSTTSSHHHHHHHHTT
T ss_pred             EEEEECCCCCCHHHHHHHHhc
Confidence            578999999999999997764

>2rcn_A Probable GTPase ENGC; YJEQ, circularly permuted, GTP-binding, hydrolase, nucleotide-binding; HET: GDP; 2.25A {Salmonella typhimurium} PDB: 2ykr_W 4a2i_V

Probab=96.95  E-value=0.00065  Score=42.34  Aligned_cols=23  Identities=26%  Similarity=0.395  Sum_probs=20.0

Q ss_pred             eEEEEeCCCCCHHHHHHHHHhCc
Q psy2514          14 TVVIVGNGAVGKSSMIQRYCRGT   36 (71)
Q Consensus        14 ki~v~G~~~vGKtsl~~~~~~~~   36 (71)
                      .++++|.+|+|||||++.+....
T Consensus       217 ~~~lvG~sG~GKSTLln~L~g~~  239 (358)
T 2rcn_A          217 ISIFAGQSGVGKSSLLNALLGLQ  239 (358)
T ss_dssp             EEEEECCTTSSHHHHHHHHHCCS
T ss_pred             EEEEECCCCccHHHHHHHHhccc
Confidence            58899999999999999888543

>2yv5_A YJEQ protein; hydrolase, GTPase, permutation, structural genomics, NPPSFA, national project on protein structural and functional analyses; HET: GDP; 1.90A {Aquifex aeolicus}

Probab=96.94  E-value=0.00065  Score=41.07  Aligned_cols=21  Identities=33%  Similarity=0.542  Sum_probs=18.9

Q ss_pred             eeEEEEeCCCCCHHHHHHHHH
Q psy2514          13 GTVVIVGNGAVGKSSMIQRYC   33 (71)
Q Consensus        13 ~ki~v~G~~~vGKtsl~~~~~   33 (71)
                      -.++++|.+|+|||||++.+.
T Consensus       166 ~i~~l~G~sG~GKSTLln~l~  186 (302)
T 2yv5_A          166 FICILAGPSGVGKSSILSRLT  186 (302)
T ss_dssp             CEEEEECSTTSSHHHHHHHHH
T ss_pred             cEEEEECCCCCCHHHHHHHHH
Confidence            457889999999999999988

>4fid_A G protein alpha subunit; RAS-like domain, all-helical domain, GTP binding, nucleotide signaling protein, transducer, lipoprotein; HET: MLY MSE GDP; 2.62A {Entamoeba histolytica}

Probab=96.94  E-value=0.00075  Score=41.81  Aligned_cols=19  Identities=37%  Similarity=0.616  Sum_probs=14.2

Q ss_pred             ceeeeEEEEeCCCCCHHHH
Q psy2514          10 SIKGTVVIVGNGAVGKSSM   28 (71)
Q Consensus        10 ~~~~ki~v~G~~~vGKtsl   28 (71)
                      ...+|++++|..++|||++
T Consensus         3 ~~~~klLLLG~geSGKSTi   21 (340)
T 4fid_A            3 AKPITVMLLGSGESGKSTI   21 (340)
T ss_dssp             -CCEEEEEEECTTSSHHHH
T ss_pred             CCcceEEEECCCCCcHHHH
Confidence            4467888888888888874

>3gfo_A Cobalt import ATP-binding protein CBIO 1; structural genomics, cell membrane, cobalt transport, hydrolase, ION transport; 2.30A {Clostridium perfringens atcc 13124}

Probab=96.94  E-value=0.00062  Score=40.87  Aligned_cols=21  Identities=33%  Similarity=0.632  Sum_probs=18.2

Q ss_pred             eEEEEeCCCCCHHHHHHHHHh
Q psy2514          14 TVVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus        14 ki~v~G~~~vGKtsl~~~~~~   34 (71)
                      .+.++|++|+|||||++.+..
T Consensus        36 ~~~iiGpnGsGKSTLl~~l~G   56 (275)
T 3gfo_A           36 VTAILGGNGVGKSTLFQNFNG   56 (275)
T ss_dssp             EEEEECCTTSSHHHHHHHHTT
T ss_pred             EEEEECCCCCCHHHHHHHHHc
Confidence            478999999999999987764

>1mv5_A LMRA, multidrug resistance ABC transporter ATP-binding and permease protein; asymmetric dimer, tetramer, P-glycoprotein; HET: ATP ADP; 3.10A {Lactococcus lactis} SCOP: c.37.1.12

Probab=96.93  E-value=0.00073  Score=39.66  Aligned_cols=22  Identities=23%  Similarity=0.366  Sum_probs=19.0

Q ss_pred             eeEEEEeCCCCCHHHHHHHHHh
Q psy2514          13 GTVVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus        13 ~ki~v~G~~~vGKtsl~~~~~~   34 (71)
                      -.+.++|++|+|||||++.+..
T Consensus        29 e~~~i~G~nGsGKSTLl~~l~G   50 (243)
T 1mv5_A           29 SIIAFAGPSGGGKSTIFSLLER   50 (243)
T ss_dssp             EEEEEECCTTSSHHHHHHHHTT
T ss_pred             CEEEEECCCCCCHHHHHHHHhc
Confidence            4678999999999999998764

>1aky_A Adenylate kinase; ATP:AMP phosphotransferase, myokinase, transferase (phosphotransferase); HET: AP5; 1.63A {Saccharomyces cerevisiae} SCOP: c.37.1.1 g.41.2.1 PDB: 2aky_A* 3aky_A* 1dvr_A*

Probab=96.93  E-value=0.00092  Score=38.19  Aligned_cols=22  Identities=18%  Similarity=0.288  Sum_probs=19.6

Q ss_pred             eeEEEEeCCCCCHHHHHHHHHh
Q psy2514          13 GTVVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus        13 ~ki~v~G~~~vGKtsl~~~~~~   34 (71)
                      ..|++.|.+|+|||++...+..
T Consensus         5 ~~I~l~G~~GsGKsT~a~~La~   26 (220)
T 1aky_A            5 IRMVLIGPPGAGKGTQAPNLQE   26 (220)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHH
T ss_pred             cEEEEECCCCCCHHHHHHHHHH
Confidence            6799999999999999988764

>2eyu_A Twitching motility protein PILT; pilus retraction motor, C-terminal domain PILT, protein transport; 1.87A {Aquifex aeolicus}

Probab=96.91  E-value=0.00076  Score=40.10  Aligned_cols=23  Identities=26%  Similarity=0.449  Sum_probs=19.4

Q ss_pred             eeeEEEEeCCCCCHHHHHHHHHh
Q psy2514          12 KGTVVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus        12 ~~ki~v~G~~~vGKtsl~~~~~~   34 (71)
                      .-.++++|++|+||||+++.+..
T Consensus        25 g~~v~i~Gp~GsGKSTll~~l~g   47 (261)
T 2eyu_A           25 MGLILVTGPTGSGKSTTIASMID   47 (261)
T ss_dssp             SEEEEEECSTTCSHHHHHHHHHH
T ss_pred             CCEEEEECCCCccHHHHHHHHHH
Confidence            34688999999999999997764

>1tev_A UMP-CMP kinase; ploop, NMP binding region, LID region, conformational changes, transferase; 2.10A {Homo sapiens} SCOP: c.37.1.1

Probab=96.91  E-value=0.0011  Score=36.76  Aligned_cols=22  Identities=23%  Similarity=0.362  Sum_probs=19.0

Q ss_pred             eeEEEEeCCCCCHHHHHHHHHh
Q psy2514          13 GTVVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus        13 ~ki~v~G~~~vGKtsl~~~~~~   34 (71)
                      ..|++.|.+|+|||++...+..
T Consensus         4 ~~I~l~G~~GsGKsT~a~~L~~   25 (196)
T 1tev_A            4 LVVFVLGGPGAGKGTQCARIVE   25 (196)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHH
Confidence            5689999999999999987753

>1zak_A Adenylate kinase; ATP:AMP-phosphotransferase, transferase; HET: AP5; 3.50A {Zea mays} SCOP: c.37.1.1 g.41.2.1

Probab=96.91  E-value=0.00088  Score=38.32  Aligned_cols=22  Identities=27%  Similarity=0.232  Sum_probs=19.4

Q ss_pred             eeEEEEeCCCCCHHHHHHHHHh
Q psy2514          13 GTVVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus        13 ~ki~v~G~~~vGKtsl~~~~~~   34 (71)
                      ..|+++|.+|+|||++...+..
T Consensus         6 ~~I~l~G~~GsGKsT~~~~La~   27 (222)
T 1zak_A            6 LKVMISGAPASGKGTQCELIKT   27 (222)
T ss_dssp             CCEEEEESTTSSHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHH
Confidence            5799999999999999998764

>2pt5_A Shikimate kinase, SK; aromatic amino acid biosynthesis, P-loop kinase, SHI kinase, shikimate pathway; 2.10A {Aquifex aeolicus}

Probab=96.91  E-value=0.00097  Score=36.33  Aligned_cols=21  Identities=24%  Similarity=0.328  Sum_probs=18.8

Q ss_pred             eEEEEeCCCCCHHHHHHHHHh
Q psy2514          14 TVVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus        14 ki~v~G~~~vGKtsl~~~~~~   34 (71)
                      +|++.|.+|+|||++...+..
T Consensus         2 ~I~l~G~~GsGKsT~a~~L~~   22 (168)
T 2pt5_A            2 RIYLIGFMCSGKSTVGSLLSR   22 (168)
T ss_dssp             EEEEESCTTSCHHHHHHHHHH
T ss_pred             eEEEECCCCCCHHHHHHHHHH
Confidence            689999999999999988764

>1jjv_A Dephospho-COA kinase; P-loop nucleotide-binding fold, structure 2 function project, S2F, structural genomics, transferase; HET: ATP; 2.00A {Haemophilus influenzae} SCOP: c.37.1.1

Probab=96.91  E-value=0.00097  Score=37.63  Aligned_cols=22  Identities=18%  Similarity=0.268  Sum_probs=19.6

Q ss_pred             eeEEEEeCCCCCHHHHHHHHHh
Q psy2514          13 GTVVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus        13 ~ki~v~G~~~vGKtsl~~~~~~   34 (71)
                      +.+.++|.+|+||||+...+..
T Consensus         3 ~~i~l~G~~GsGKST~~~~La~   24 (206)
T 1jjv_A            3 YIVGLTGGIGSGKTTIANLFTD   24 (206)
T ss_dssp             EEEEEECSTTSCHHHHHHHHHT
T ss_pred             cEEEEECCCCCCHHHHHHHHHH
Confidence            4689999999999999998875

>2v9p_A Replication protein E1; AAA+ molecular motor, DNA replication, DNA translocation, nucleotide-binding, DNA-binding; 3.00A {Bovine papillomavirus type 1} PDB: 2gxa_A*

Probab=96.90  E-value=0.00084  Score=40.99  Aligned_cols=24  Identities=21%  Similarity=0.320  Sum_probs=20.0

Q ss_pred             ceeeeEEEEeCCCCCHHHHHHHHH
Q psy2514          10 SIKGTVVIVGNGAVGKSSMIQRYC   33 (71)
Q Consensus        10 ~~~~ki~v~G~~~vGKtsl~~~~~   33 (71)
                      +..-.++++|++|+|||+|+..+.
T Consensus       124 ~~Ge~vaIvGpsGsGKSTLl~lL~  147 (305)
T 2v9p_A          124 PKKNCLAFIGPPNTGKSMLCNSLI  147 (305)
T ss_dssp             TTCSEEEEECSSSSSHHHHHHHHH
T ss_pred             cCCCEEEEECCCCCcHHHHHHHHh
Confidence            344578999999999999998766

>1bif_A 6-phosphofructo-2-kinase/ fructose-2,6-bisphospha; transferase (phospho), phosphatase, hydrolase (phosp glycolysis, bifunctional enzyme; HET: AGS; 2.00A {Rattus norvegicus} SCOP: c.37.1.7 c.60.1.4 PDB: 3bif_A* 2bif_A* 1k6m_A* 1c80_A* 1c7z_A* 1c81_A* 1tip_A* 1fbt_A

Probab=96.90  E-value=0.00092  Score=42.54  Aligned_cols=25  Identities=28%  Similarity=0.337  Sum_probs=21.9

Q ss_pred             eeeeEEEEeCCCCCHHHHHHHHHhC
Q psy2514          11 IKGTVVIVGNGAVGKSSMIQRYCRG   35 (71)
Q Consensus        11 ~~~ki~v~G~~~vGKtsl~~~~~~~   35 (71)
                      ...+|+++|.+|+|||++..++...
T Consensus        38 ~~~~IvlvGlpGsGKSTia~~La~~   62 (469)
T 1bif_A           38 CPTLIVMVGLPARGKTYISKKLTRY   62 (469)
T ss_dssp             CCEEEEEECCTTSSHHHHHHHHHHH
T ss_pred             CcEEEEEECCCCCCHHHHHHHHHHH
Confidence            4578999999999999999998754

>3iij_A Coilin-interacting nuclear ATPase protein; alpha and beta proteins (A/B), protein binding, transferase, phosphotransferase; HET: ADP; 1.76A {Homo sapiens} SCOP: c.37.1.1 PDB: 3iik_A 3iil_A* 3iim_A* 1rkb_A

Probab=96.90  E-value=0.00087  Score=37.07  Aligned_cols=23  Identities=17%  Similarity=0.395  Sum_probs=19.7

Q ss_pred             eeeEEEEeCCCCCHHHHHHHHHh
Q psy2514          12 KGTVVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus        12 ~~ki~v~G~~~vGKtsl~~~~~~   34 (71)
                      ...|++.|.+|+|||++...+..
T Consensus        11 ~~~i~i~G~~GsGKst~~~~l~~   33 (180)
T 3iij_A           11 LPNILLTGTPGVGKTTLGKELAS   33 (180)
T ss_dssp             CCCEEEECSTTSSHHHHHHHHHH
T ss_pred             CCeEEEEeCCCCCHHHHHHHHHH
Confidence            35689999999999999998763

>2qm8_A GTPase/ATPase; G protein, G3E, metallochaperone, chaperone; HET: MSE; 1.70A {Methylobacterium extorquens} SCOP: c.37.1.10 PDB: 2qm7_A*

Probab=96.90  E-value=0.00084  Score=41.23  Aligned_cols=24  Identities=33%  Similarity=0.264  Sum_probs=20.9

Q ss_pred             ceeeeEEEEeCCCCCHHHHHHHHH
Q psy2514          10 SIKGTVVIVGNGAVGKSSMIQRYC   33 (71)
Q Consensus        10 ~~~~ki~v~G~~~vGKtsl~~~~~   33 (71)
                      .....+.++|.+|+|||||++.+.
T Consensus        53 ~~g~~v~i~G~~GaGKSTLl~~l~   76 (337)
T 2qm8_A           53 GRAIRVGITGVPGVGKSTTIDALG   76 (337)
T ss_dssp             CCSEEEEEECCTTSCHHHHHHHHH
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHH
Confidence            345679999999999999999987

>1g6h_A High-affinity branched-chain amino acid transport ATP-binding protein; beta-core domain; HET: ADP; 1.60A {Methanocaldococcus jannaschii} SCOP: c.37.1.12 PDB: 1gaj_A 1g9x_A*

Probab=96.90  E-value=0.00069  Score=40.09  Aligned_cols=21  Identities=29%  Similarity=0.498  Sum_probs=18.3

Q ss_pred             eEEEEeCCCCCHHHHHHHHHh
Q psy2514          14 TVVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus        14 ki~v~G~~~vGKtsl~~~~~~   34 (71)
                      .+.++|++|+|||||++.+..
T Consensus        35 ~~~liG~nGsGKSTLlk~l~G   55 (257)
T 1g6h_A           35 VTLIIGPNGSGKSTLINVITG   55 (257)
T ss_dssp             EEEEECSTTSSHHHHHHHHTT
T ss_pred             EEEEECCCCCCHHHHHHHHhC
Confidence            578999999999999997764

>2zu0_C Probable ATP-dependent transporter SUFC; iron-sulfur cluster, ABC-ATPase, ATP-binding, cytoplasm, nucleotide-binding; HET: MES; 2.20A {Escherichia coli} PDB: 2d3w_A

Probab=96.89  E-value=0.00081  Score=40.07  Aligned_cols=22  Identities=23%  Similarity=0.333  Sum_probs=19.1

Q ss_pred             eEEEEeCCCCCHHHHHHHHHhC
Q psy2514          14 TVVIVGNGAVGKSSMIQRYCRG   35 (71)
Q Consensus        14 ki~v~G~~~vGKtsl~~~~~~~   35 (71)
                      .+.++|++|+|||||++.++.-
T Consensus        48 ~~~l~G~NGsGKSTLlk~l~Gl   69 (267)
T 2zu0_C           48 VHAIMGPNGSGKSTLSATLAGR   69 (267)
T ss_dssp             EEEEECCTTSSHHHHHHHHHTC
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            5789999999999999987753

>2d2e_A SUFC protein; ABC-ATPase, SUF protein, 310-helix, riken structural genomics/proteomics initiative, RSGI, structural genomics, binding; 1.70A {Thermus thermophilus} PDB: 2d2f_A*

Probab=96.89  E-value=0.0008  Score=39.67  Aligned_cols=22  Identities=18%  Similarity=0.300  Sum_probs=19.0

Q ss_pred             eEEEEeCCCCCHHHHHHHHHhC
Q psy2514          14 TVVIVGNGAVGKSSMIQRYCRG   35 (71)
Q Consensus        14 ki~v~G~~~vGKtsl~~~~~~~   35 (71)
                      .+.++|++|+|||||++.++.-
T Consensus        31 ~~~l~G~nGsGKSTLlk~l~Gl   52 (250)
T 2d2e_A           31 VHALMGPNGAGKSTLGKILAGD   52 (250)
T ss_dssp             EEEEECSTTSSHHHHHHHHHTC
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            5789999999999999987753

>1odf_A YGR205W, hypothetical 33.3 kDa protein in ADE3-Ser2 intergenic region; yeast protein, ATP binding protein; 2.25A {Saccharomyces cerevisiae} SCOP: c.37.1.6

Probab=96.89  E-value=0.0012  Score=39.87  Aligned_cols=24  Identities=17%  Similarity=0.063  Sum_probs=20.1

Q ss_pred             ceeeeEEEEeCCCCCHHHHHHHHH
Q psy2514          10 SIKGTVVIVGNGAVGKSSMIQRYC   33 (71)
Q Consensus        10 ~~~~ki~v~G~~~vGKtsl~~~~~   33 (71)
                      .....+.++|.+|+|||+++..+.
T Consensus        29 ~~~~ii~I~G~sGsGKSTla~~L~   52 (290)
T 1odf_A           29 KCPLFIFFSGPQGSGKSFTSIQIY   52 (290)
T ss_dssp             CSCEEEEEECCTTSSHHHHHHHHH
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHH
Confidence            345789999999999999988665

>2v54_A DTMP kinase, thymidylate kinase; nucleotide biosynthesis, ATP-binding, nucleotide-binding, poxvirus, transferase; HET: TYD POP; 2.4A {Vaccinia virus copenhagen} PDB: 2w0s_A*

Probab=96.88  E-value=0.0012  Score=36.97  Aligned_cols=23  Identities=17%  Similarity=0.238  Sum_probs=20.4

Q ss_pred             eeEEEEeCCCCCHHHHHHHHHhC
Q psy2514          13 GTVVIVGNGAVGKSSMIQRYCRG   35 (71)
Q Consensus        13 ~ki~v~G~~~vGKtsl~~~~~~~   35 (71)
                      ..|++.|.+|+||||++..+...
T Consensus         5 ~~I~l~G~~GsGKsT~~~~L~~~   27 (204)
T 2v54_A            5 ALIVFEGLDKSGKTTQCMNIMES   27 (204)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHT
T ss_pred             cEEEEEcCCCCCHHHHHHHHHHH
Confidence            56999999999999999988764

>1u0l_A Probable GTPase ENGC; permutation, OB-fold, zinc-finger, structural genomics, BSGC structure funded by NIH, protein structure initiative, PSI; HET: GDP; 2.80A {Thermotoga maritima} SCOP: b.40.4.5 c.37.1.8

Probab=96.88  E-value=0.00089  Score=40.40  Aligned_cols=24  Identities=29%  Similarity=0.412  Sum_probs=20.0

Q ss_pred             eeEEEEeCCCCCHHHHHHHHHhCc
Q psy2514          13 GTVVIVGNGAVGKSSMIQRYCRGT   36 (71)
Q Consensus        13 ~ki~v~G~~~vGKtsl~~~~~~~~   36 (71)
                      -.++++|.+|+|||||++.+....
T Consensus       170 eiv~l~G~sG~GKSTll~~l~g~~  193 (301)
T 1u0l_A          170 KISTMAGLSGVGKSSLLNAINPGL  193 (301)
T ss_dssp             SEEEEECSTTSSHHHHHHHHSTTC
T ss_pred             CeEEEECCCCCcHHHHHHHhcccc
Confidence            357889999999999999887543

>2pze_A Cystic fibrosis transmembrane conductance regulat; NBD, ABC transporter, CFTR, hydrolase; HET: ATP; 1.70A {Homo sapiens} PDB: 2pzg_A* 2pzf_A* 1ckx_A 1cky_A 1ckw_A 1ckz_A

Probab=96.88  E-value=0.00086  Score=39.07  Aligned_cols=21  Identities=19%  Similarity=0.392  Sum_probs=18.4

Q ss_pred             eEEEEeCCCCCHHHHHHHHHh
Q psy2514          14 TVVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus        14 ki~v~G~~~vGKtsl~~~~~~   34 (71)
                      .+.++|++|+|||||++.++.
T Consensus        36 ~~~i~G~nGsGKSTLl~~l~G   56 (229)
T 2pze_A           36 LLAVAGSTGAGKTSLLMMIMG   56 (229)
T ss_dssp             EEEEECCTTSSHHHHHHHHTT
T ss_pred             EEEEECCCCCCHHHHHHHHhC
Confidence            578999999999999997764

>2c95_A Adenylate kinase 1; transferase, AP4A, nucleotide kinase, transferase ATP-bindi; HET: B4P; 1.71A {Homo sapiens} PDB: 1z83_A* 3adk_A

Probab=96.88  E-value=0.0011  Score=36.83  Aligned_cols=22  Identities=18%  Similarity=0.444  Sum_probs=19.3

Q ss_pred             eeEEEEeCCCCCHHHHHHHHHh
Q psy2514          13 GTVVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus        13 ~ki~v~G~~~vGKtsl~~~~~~   34 (71)
                      ..|++.|.+|+|||++...+..
T Consensus        10 ~~I~l~G~~GsGKsT~~~~La~   31 (196)
T 2c95_A           10 NIIFVVGGPGSGKGTQCEKIVQ   31 (196)
T ss_dssp             CEEEEEECTTSSHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHH
Confidence            5799999999999999988764

>2yvu_A Probable adenylyl-sulfate kinase; transferase, structural genomics, NPPSFA, national P protein structural and functional analyses; 2.10A {Aeropyrum pernix}

Probab=96.88  E-value=0.0014  Score=36.42  Aligned_cols=24  Identities=21%  Similarity=0.235  Sum_probs=20.0

Q ss_pred             eeeeEEEEeCCCCCHHHHHHHHHh
Q psy2514          11 IKGTVVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus        11 ~~~ki~v~G~~~vGKtsl~~~~~~   34 (71)
                      ....++++|.+|+|||+++..+..
T Consensus        12 ~~~~i~l~G~~GsGKsT~~~~L~~   35 (186)
T 2yvu_A           12 KGIVVWLTGLPGSGKTTIATRLAD   35 (186)
T ss_dssp             CCEEEEEECCTTSSHHHHHHHHHH
T ss_pred             CCcEEEEEcCCCCCHHHHHHHHHH
Confidence            346789999999999999987753

>2olj_A Amino acid ABC transporter; ABC domain, ATPase, hydrolase; HET: ADP; 2.05A {Geobacillus stearothermophilus} PDB: 2olk_A* 2ouk_A 2q0h_A* 3c4j_A* 3c41_J*

Probab=96.88  E-value=0.00076  Score=40.24  Aligned_cols=21  Identities=29%  Similarity=0.506  Sum_probs=18.3

Q ss_pred             eEEEEeCCCCCHHHHHHHHHh
Q psy2514          14 TVVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus        14 ki~v~G~~~vGKtsl~~~~~~   34 (71)
                      .+.++|++|+|||||++.+..
T Consensus        52 i~~liG~NGsGKSTLlk~l~G   72 (263)
T 2olj_A           52 VVVVIGPSGSGKSTFLRCLNL   72 (263)
T ss_dssp             EEEEECCTTSSHHHHHHHHTT
T ss_pred             EEEEEcCCCCcHHHHHHHHHc
Confidence            578999999999999997764

>1sgw_A Putative ABC transporter; structural genomics, P protein structure initiative, southeast collaboratory for S genomics, secsg; 1.70A {Pyrococcus furiosus} SCOP: c.37.1.12

Probab=96.88  E-value=0.00079  Score=39.05  Aligned_cols=21  Identities=19%  Similarity=0.458  Sum_probs=18.2

Q ss_pred             eEEEEeCCCCCHHHHHHHHHh
Q psy2514          14 TVVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus        14 ki~v~G~~~vGKtsl~~~~~~   34 (71)
                      .+.++|++|+|||+|++.++.
T Consensus        37 ~~~iiG~NGsGKSTLlk~l~G   57 (214)
T 1sgw_A           37 VVNFHGPNGIGKTTLLKTIST   57 (214)
T ss_dssp             CEEEECCTTSSHHHHHHHHTT
T ss_pred             EEEEECCCCCCHHHHHHHHhc
Confidence            478899999999999998764

>2vp4_A Deoxynucleoside kinase; ATP-binding, DNA synthesis, phosphoprotein, feedback inhibition, deoxyribonucleoside kinase, salvage pathway; HET: DCP; 2.20A {Drosophila melanogaster} SCOP: c.37.1.1 PDB: 1j90_A* 2jj8_A* 2vp2_A* 1oe0_A* 2vp5_A* 2vp6_A* 2vp9_A* 2vpp_A* 2vqs_A* 2vp0_A* 1ot3_A* 2jcs_A* 1zm7_A* 1zmx_A*

Probab=96.88  E-value=0.00082  Score=38.88  Aligned_cols=25  Identities=28%  Similarity=0.408  Sum_probs=20.9

Q ss_pred             ceeeeEEEEeCCCCCHHHHHHHHHh
Q psy2514          10 SIKGTVVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus        10 ~~~~ki~v~G~~~vGKtsl~~~~~~   34 (71)
                      ....-+++.|..|+||||++..+..
T Consensus        18 ~~g~~i~i~G~~GsGKSTl~~~L~~   42 (230)
T 2vp4_A           18 TQPFTVLIEGNIGSGKTTYLNHFEK   42 (230)
T ss_dssp             CCCEEEEEECSTTSCHHHHHHTTGG
T ss_pred             CCceEEEEECCCCCCHHHHHHHHHh
Confidence            3456789999999999999987764

>3fvq_A Fe(3+) IONS import ATP-binding protein FBPC; nucleotide binding domain, ABC motor domain, ferric iron TRA ATP-binding, cell inner membrane; HET: ATP; 1.90A {Neisseria gonorrhoeae}

Probab=96.88  E-value=0.00085  Score=41.83  Aligned_cols=21  Identities=19%  Similarity=0.521  Sum_probs=18.4

Q ss_pred             eEEEEeCCCCCHHHHHHHHHh
Q psy2514          14 TVVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus        14 ki~v~G~~~vGKtsl~~~~~~   34 (71)
                      -++++|++|+|||||++.+..
T Consensus        32 ~~~llGpsGsGKSTLLr~iaG   52 (359)
T 3fvq_A           32 ILFIIGASGCGKTTLLRCLAG   52 (359)
T ss_dssp             EEEEEESTTSSHHHHHHHHHT
T ss_pred             EEEEECCCCchHHHHHHHHhc
Confidence            468899999999999998765

>4g1u_C Hemin import ATP-binding protein HMUV; membrane transporter, type II ABC importer, HMUT, plasma MEM transport protein-hydrolase complex; 3.01A {Yersinia pestis}

Probab=96.87  E-value=0.00075  Score=40.27  Aligned_cols=21  Identities=29%  Similarity=0.534  Sum_probs=18.3

Q ss_pred             eEEEEeCCCCCHHHHHHHHHh
Q psy2514          14 TVVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus        14 ki~v~G~~~vGKtsl~~~~~~   34 (71)
                      .+.++|++|+|||||++.+..
T Consensus        39 ~~~liG~nGsGKSTLl~~l~G   59 (266)
T 4g1u_C           39 MVAIIGPNGAGKSTLLRLLTG   59 (266)
T ss_dssp             EEEEECCTTSCHHHHHHHHTS
T ss_pred             EEEEECCCCCcHHHHHHHHhc
Confidence            478899999999999997764

>1gvn_B Zeta; postsegregational killing system, plasmid; 1.95A {Streptococcus pyogenes} SCOP: c.37.1.21 PDB: 3q8x_B*

Probab=96.87  E-value=0.00099  Score=40.02  Aligned_cols=23  Identities=17%  Similarity=0.261  Sum_probs=20.2

Q ss_pred             eeeEEEEeCCCCCHHHHHHHHHh
Q psy2514          12 KGTVVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus        12 ~~ki~v~G~~~vGKtsl~~~~~~   34 (71)
                      ..-+++.|.+|+||||++..+..
T Consensus        33 ~~livl~G~sGsGKSTla~~L~~   55 (287)
T 1gvn_B           33 PTAFLLGGQPGSGKTSLRSAIFE   55 (287)
T ss_dssp             CEEEEEECCTTSCTHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHH
Confidence            46789999999999999998874

>2f1r_A Molybdopterin-guanine dinucleotide biosynthesis protein B (MOBB); structural genomics, PSI, protein structure initiative; 2.10A {Archaeoglobus fulgidus}

Probab=96.87  E-value=0.00041  Score=38.97  Aligned_cols=21  Identities=33%  Similarity=0.574  Sum_probs=18.3

Q ss_pred             eEEEEeCCCCCHHHHHHHHHh
Q psy2514          14 TVVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus        14 ki~v~G~~~vGKtsl~~~~~~   34 (71)
                      .+.++|.+|+|||+|+..+..
T Consensus         4 ~v~IvG~SGsGKSTL~~~L~~   24 (171)
T 2f1r_A            4 ILSIVGTSDSGKTTLITRMMP   24 (171)
T ss_dssp             EEEEEESCHHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            688999999999999987763

>1ji0_A ABC transporter; ATP binding protein, structural genomics, PSI, protein structure initiative, midwest center for structural genomics, MCSG; HET: ATP; 2.00A {Thermotoga maritima} SCOP: c.37.1.12

Probab=96.87  E-value=0.00077  Score=39.51  Aligned_cols=21  Identities=19%  Similarity=0.468  Sum_probs=18.3

Q ss_pred             eEEEEeCCCCCHHHHHHHHHh
Q psy2514          14 TVVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus        14 ki~v~G~~~vGKtsl~~~~~~   34 (71)
                      .+.++|++|+|||||++.+..
T Consensus        34 ~~~l~G~nGsGKSTLl~~l~G   54 (240)
T 1ji0_A           34 IVTLIGANGAGKTTTLSAIAG   54 (240)
T ss_dssp             EEEEECSTTSSHHHHHHHHTT
T ss_pred             EEEEECCCCCCHHHHHHHHhC
Confidence            578999999999999987764

>1tq4_A IIGP1, interferon-inducible GTPase; interferon gamma, dimer, immunology, signaling protein; HET: GDP; 1.95A {Mus musculus} SCOP: c.37.1.8 PDB: 1tqd_A* 1tq6_A* 1tpz_A* 1tq2_A*

Probab=96.86  E-value=0.002  Score=40.77  Aligned_cols=24  Identities=29%  Similarity=0.272  Sum_probs=20.8

Q ss_pred             eeeEEEEeCCCCCHHHHHHHHHhC
Q psy2514          12 KGTVVIVGNGAVGKSSMIQRYCRG   35 (71)
Q Consensus        12 ~~ki~v~G~~~vGKtsl~~~~~~~   35 (71)
                      ...+.++|.+|+|||||++.+..-
T Consensus        69 ~~~valvG~nGaGKSTLln~L~Gl   92 (413)
T 1tq4_A           69 VLNVAVTGETGSGKSSFINTLRGI   92 (413)
T ss_dssp             CEEEEEEECTTSSHHHHHHHHHTC
T ss_pred             CeEEEEECCCCCcHHHHHHHHhCC
Confidence            347899999999999999988763

>2w58_A DNAI, primosome component (helicase loader); ATP-binding, nucleotide-binding, hydrolase; HET: ADP; 2.50A {Geobacillus kaustophilus HTA426}

Probab=96.86  E-value=0.00096  Score=37.49  Aligned_cols=22  Identities=18%  Similarity=0.301  Sum_probs=19.2

Q ss_pred             eeEEEEeCCCCCHHHHHHHHHh
Q psy2514          13 GTVVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus        13 ~ki~v~G~~~vGKtsl~~~~~~   34 (71)
                      ..+++.|++|+|||+++..+..
T Consensus        55 ~~~~l~G~~GtGKT~la~~i~~   76 (202)
T 2w58_A           55 KGLYLHGSFGVGKTYLLAAIAN   76 (202)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHH
T ss_pred             CeEEEECCCCCCHHHHHHHHHH
Confidence            5689999999999999987764

>1lv7_A FTSH; alpha/beta domain, four helix bundle, hydrolase; 1.50A {Escherichia coli} SCOP: c.37.1.20

Probab=96.86  E-value=0.00094  Score=38.94  Aligned_cols=22  Identities=23%  Similarity=0.371  Sum_probs=19.2

Q ss_pred             eeEEEEeCCCCCHHHHHHHHHh
Q psy2514          13 GTVVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus        13 ~ki~v~G~~~vGKtsl~~~~~~   34 (71)
                      ..+++.|++|+|||++++.+..
T Consensus        46 ~~vll~G~~GtGKT~la~~la~   67 (257)
T 1lv7_A           46 KGVLMVGPPGTGKTLLAKAIAG   67 (257)
T ss_dssp             CEEEEECCTTSCHHHHHHHHHH
T ss_pred             CeEEEECcCCCCHHHHHHHHHH
Confidence            3589999999999999998764

>2bwj_A Adenylate kinase 5; phosphoryl transfer reaction, transferase; HET: AMP; 2.3A {Homo sapiens}

Probab=96.86  E-value=0.0012  Score=36.74  Aligned_cols=22  Identities=18%  Similarity=0.424  Sum_probs=19.4

Q ss_pred             eeEEEEeCCCCCHHHHHHHHHh
Q psy2514          13 GTVVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus        13 ~ki~v~G~~~vGKtsl~~~~~~   34 (71)
                      ..|++.|.+|+|||++...+..
T Consensus        13 ~~I~l~G~~GsGKsT~a~~L~~   34 (199)
T 2bwj_A           13 KIIFIIGGPGSGKGTQCEKLVE   34 (199)
T ss_dssp             CEEEEEECTTSSHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHH
Confidence            5799999999999999988764

>2ghi_A Transport protein; multidrug resistance protein, MDR, structural genomics, structural genomics consortium, SGC; 2.20A {Plasmodium yoelii yoelii str}

Probab=96.86  E-value=0.00088  Score=39.77  Aligned_cols=22  Identities=32%  Similarity=0.495  Sum_probs=18.9

Q ss_pred             eeEEEEeCCCCCHHHHHHHHHh
Q psy2514          13 GTVVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus        13 ~ki~v~G~~~vGKtsl~~~~~~   34 (71)
                      -.+.++|++|+|||||++.+..
T Consensus        47 e~~~i~G~nGsGKSTLl~~l~G   68 (260)
T 2ghi_A           47 TTCALVGHTGSGKSTIAKLLYR   68 (260)
T ss_dssp             CEEEEECSTTSSHHHHHHHHTT
T ss_pred             CEEEEECCCCCCHHHHHHHHhc
Confidence            3578999999999999998764

>3aez_A Pantothenate kinase; transferase, homodimer, COA biosynthesis, nucleotide binding binding, cytoplasm, nucleotide-binding; HET: GDP PAZ; 2.20A {Mycobacterium tuberculosis} PDB: 2ges_A* 2geu_A* 2gev_A* 2zs7_A* 2zs8_A* 2zs9_A* 2zsa_A* 2zsb_A* 2zsd_A* 2zse_A* 2zsf_A* 2get_A* 3af0_A* 3af1_A* 3af2_A* 3af3_A* 3af4_A* 3avp_A* 3avo_A* 3avq_A*

Probab=96.85  E-value=0.00091  Score=40.76  Aligned_cols=25  Identities=24%  Similarity=0.251  Sum_probs=20.8

Q ss_pred             ceeeeEEEEeCCCCCHHHHHHHHHh
Q psy2514          10 SIKGTVVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus        10 ~~~~ki~v~G~~~vGKtsl~~~~~~   34 (71)
                      ....-+.++|.+|+|||||+..+..
T Consensus        88 ~~g~ivgI~G~sGsGKSTL~~~L~g  112 (312)
T 3aez_A           88 PVPFIIGVAGSVAVGKSTTARVLQA  112 (312)
T ss_dssp             CCCEEEEEECCTTSCHHHHHHHHHH
T ss_pred             CCCEEEEEECCCCchHHHHHHHHHh
Confidence            3456788999999999999987764

>2ixe_A Antigen peptide transporter 1; ABC ATPase, hydrolase; HET: ATP; 2.0A {Rattus norvegicus} PDB: 2ixg_A* 2ixf_A* 1jj7_A*

Probab=96.85  E-value=0.0009  Score=39.98  Aligned_cols=21  Identities=24%  Similarity=0.346  Sum_probs=18.4

Q ss_pred             eEEEEeCCCCCHHHHHHHHHh
Q psy2514          14 TVVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus        14 ki~v~G~~~vGKtsl~~~~~~   34 (71)
                      .++++|++|+|||||++.++.
T Consensus        47 ~~~i~G~nGsGKSTLlk~l~G   67 (271)
T 2ixe_A           47 VTALVGPNGSGKSTVAALLQN   67 (271)
T ss_dssp             EEEEECSTTSSHHHHHHHHTT
T ss_pred             EEEEECCCCCCHHHHHHHHhc
Confidence            578999999999999987764

>2qi9_C Vitamin B12 import ATP-binding protein BTUD; inner membrane, membrane, transmembrane, transport, ATP- binding, hydrolase, nucleotide-binding, periplasm; HET: 1PE; 2.60A {Escherichia coli} PDB: 1l7v_C* 4dbl_C

Probab=96.84  E-value=0.00085  Score=39.70  Aligned_cols=21  Identities=29%  Similarity=0.556  Sum_probs=18.3

Q ss_pred             eEEEEeCCCCCHHHHHHHHHh
Q psy2514          14 TVVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus        14 ki~v~G~~~vGKtsl~~~~~~   34 (71)
                      .+.++|++|+|||||++.+..
T Consensus        28 ~~~liG~NGsGKSTLlk~l~G   48 (249)
T 2qi9_C           28 ILHLVGPNGAGKSTLLARMAG   48 (249)
T ss_dssp             EEEEECCTTSSHHHHHHHHTT
T ss_pred             EEEEECCCCCcHHHHHHHHhC
Confidence            578999999999999997764

>2cvh_A DNA repair and recombination protein RADB; filament formation, homologous recombination, ATPase domain, hyperthermophIle; HET: DNA; 2.20A {Thermococcus kodakarensis} PDB: 2cvf_A*

Probab=96.84  E-value=0.00096  Score=37.68  Aligned_cols=22  Identities=18%  Similarity=0.117  Sum_probs=19.4

Q ss_pred             eeEEEEeCCCCCHHHHHHHHHh
Q psy2514          13 GTVVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus        13 ~ki~v~G~~~vGKtsl~~~~~~   34 (71)
                      --++++|++|+|||+|+..++.
T Consensus        21 ~~~~i~G~~GsGKTtl~~~l~~   42 (220)
T 2cvh_A           21 VLTQVYGPYASGKTTLALQTGL   42 (220)
T ss_dssp             SEEEEECSTTSSHHHHHHHHHH
T ss_pred             EEEEEECCCCCCHHHHHHHHHH
Confidence            3578899999999999999876

>2ihy_A ABC transporter, ATP-binding protein; ATPase, ABC cassette, hydrolase; HET: MSE; 1.90A {Staphylococcus aureus}

Probab=96.84  E-value=0.00095  Score=40.10  Aligned_cols=21  Identities=14%  Similarity=0.338  Sum_probs=18.4

Q ss_pred             eEEEEeCCCCCHHHHHHHHHh
Q psy2514          14 TVVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus        14 ki~v~G~~~vGKtsl~~~~~~   34 (71)
                      .++++|++|+|||||++.++.
T Consensus        49 ~~~liG~NGsGKSTLlk~l~G   69 (279)
T 2ihy_A           49 KWILYGLNGAGKTTLLNILNA   69 (279)
T ss_dssp             EEEEECCTTSSHHHHHHHHTT
T ss_pred             EEEEECCCCCcHHHHHHHHhC
Confidence            578999999999999997764

>1n0w_A DNA repair protein RAD51 homolog 1; DNA repair, homologous recombination, breast cancer susceptibility, RECA-like ATPase, protein complex; HET: DNA MSE; 1.70A {Homo sapiens} SCOP: c.37.1.11

Probab=96.83  E-value=0.001  Score=38.12  Aligned_cols=23  Identities=13%  Similarity=0.198  Sum_probs=19.8

Q ss_pred             eeEEEEeCCCCCHHHHHHHHHhC
Q psy2514          13 GTVVIVGNGAVGKSSMIQRYCRG   35 (71)
Q Consensus        13 ~ki~v~G~~~vGKtsl~~~~~~~   35 (71)
                      --+.++|++|+|||+|+..++..
T Consensus        25 ~~~~i~G~~GsGKTtl~~~l~~~   47 (243)
T 1n0w_A           25 SITEMFGEFRTGKTQICHTLAVT   47 (243)
T ss_dssp             SEEEEECCTTSSHHHHHHHHHHH
T ss_pred             eEEEEECCCCCcHHHHHHHHHHH
Confidence            35788999999999999998863

>2xb4_A Adenylate kinase; ATP-binding, nucleotide-binding, transferase; HET: SRT; 1.80A {Desulfovibrio gigas} PDB: 3l0s_A* 3l0p_A*

Probab=96.83  E-value=0.0012  Score=38.03  Aligned_cols=21  Identities=19%  Similarity=0.249  Sum_probs=18.7

Q ss_pred             eEEEEeCCCCCHHHHHHHHHh
Q psy2514          14 TVVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus        14 ki~v~G~~~vGKtsl~~~~~~   34 (71)
                      .|++.|.+|+|||+++..+..
T Consensus         2 ~I~l~G~~GsGKsT~a~~La~   22 (223)
T 2xb4_A            2 NILIFGPNGSGKGTQGNLVKD   22 (223)
T ss_dssp             EEEEECCTTSCHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            589999999999999988764

>1vpl_A ABC transporter, ATP-binding protein; TM0544, structural GENO joint center for structural genomics, JCSG, protein structu initiative, PSI; 2.10A {Thermotoga maritima} SCOP: c.37.1.12

Probab=96.82  E-value=0.00091  Score=39.72  Aligned_cols=21  Identities=14%  Similarity=0.352  Sum_probs=18.4

Q ss_pred             eEEEEeCCCCCHHHHHHHHHh
Q psy2514          14 TVVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus        14 ki~v~G~~~vGKtsl~~~~~~   34 (71)
                      .+.++|++|+|||||++.++.
T Consensus        43 i~~l~G~NGsGKSTLlk~l~G   63 (256)
T 1vpl_A           43 IFGLIGPNGAGKTTTLRIIST   63 (256)
T ss_dssp             EEEEECCTTSSHHHHHHHHTT
T ss_pred             EEEEECCCCCCHHHHHHHHhc
Confidence            578999999999999997764

>1iy2_A ATP-dependent metalloprotease FTSH; AAA domain fold, hydrolase; 3.20A {Thermus thermophilus} SCOP: c.37.1.20

Probab=96.82  E-value=0.0011  Score=39.28  Aligned_cols=20  Identities=30%  Similarity=0.531  Sum_probs=18.3

Q ss_pred             EEEEeCCCCCHHHHHHHHHh
Q psy2514          15 VVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus        15 i~v~G~~~vGKtsl~~~~~~   34 (71)
                      ++++|++|+|||++++.+..
T Consensus        76 vll~Gp~GtGKTtl~~~i~~   95 (278)
T 1iy2_A           76 VLLVGPPGVGKTHLARAVAG   95 (278)
T ss_dssp             EEEECCTTSSHHHHHHHHHH
T ss_pred             EEEECCCcChHHHHHHHHHH
Confidence            89999999999999998774

>1rj9_A FTSY, signal recognition protein; SRP-GTPase domain, heterodimer, nucleotide twinning, protein complex, protein transport; HET: GCP; 1.90A {Thermus aquaticus} SCOP: a.24.13.1 c.37.1.10 PDB: 2q9c_A* 2q9b_A* 2q9a_A* 1okk_D* 2xkv_D 2iyl_D* 2cnw_D* 2j7p_D*

Probab=96.81  E-value=0.001  Score=40.46  Aligned_cols=22  Identities=32%  Similarity=0.531  Sum_probs=19.1

Q ss_pred             eeeEEEEeCCCCCHHHHHHHHH
Q psy2514          12 KGTVVIVGNGAVGKSSMIQRYC   33 (71)
Q Consensus        12 ~~ki~v~G~~~vGKtsl~~~~~   33 (71)
                      .-.++++|.+|+||||++..+.
T Consensus       102 g~vi~lvG~nGsGKTTll~~La  123 (304)
T 1rj9_A          102 GRVVLVVGVNGVGKTTTIAKLG  123 (304)
T ss_dssp             SSEEEEECSTTSSHHHHHHHHH
T ss_pred             CeEEEEECCCCCcHHHHHHHHH
Confidence            3478889999999999999876

>2ze6_A Isopentenyl transferase; crown GALL tumor, cytokinin biosynthesis; HET: DST AMP; 2.10A {Agrobacterium tumefaciens} PDB: 2ze5_A* 2ze7_A* 2ze8_A

Probab=96.81  E-value=0.0011  Score=39.06  Aligned_cols=21  Identities=24%  Similarity=0.346  Sum_probs=18.3

Q ss_pred             eEEEEeCCCCCHHHHHHHHHh
Q psy2514          14 TVVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus        14 ki~v~G~~~vGKtsl~~~~~~   34 (71)
                      -++++|.+|+|||++...++.
T Consensus         3 li~I~G~~GSGKSTla~~La~   23 (253)
T 2ze6_A            3 LHLIYGPTCSGKTDMAIQIAQ   23 (253)
T ss_dssp             EEEEECCTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCcCHHHHHHHHHh
Confidence            478899999999999998763

>3syl_A Protein CBBX; photosynthesis, rubisco activase, AAA+ protein, calvin cycle chaperone; 3.00A {Rhodobacter sphaeroides} PDB: 3syk_A 3zuh_A*

Probab=96.80  E-value=0.0016  Score=38.69  Aligned_cols=23  Identities=17%  Similarity=0.273  Sum_probs=19.2

Q ss_pred             eeeeEEEEeCCCCCHHHHHHHHH
Q psy2514          11 IKGTVVIVGNGAVGKSSMIQRYC   33 (71)
Q Consensus        11 ~~~ki~v~G~~~vGKtsl~~~~~   33 (71)
                      ....+++.|++|+|||++++.+.
T Consensus        66 ~~~~vll~G~~GtGKT~la~~la   88 (309)
T 3syl_A           66 PTLHMSFTGNPGTGKTTVALKMA   88 (309)
T ss_dssp             CCCEEEEEECTTSSHHHHHHHHH
T ss_pred             CCceEEEECCCCCCHHHHHHHHH
Confidence            34579999999999999998554

>2qz4_A Paraplegin; AAA+, SPG7, protease, ADP, structural genomics, structural G consortium, SGC, ATP-binding, nucleotide-binding, hydrolase; HET: ADP; 2.22A {Homo sapiens}

Probab=96.79  E-value=0.0011  Score=38.40  Aligned_cols=22  Identities=14%  Similarity=0.308  Sum_probs=19.2

Q ss_pred             eeEEEEeCCCCCHHHHHHHHHh
Q psy2514          13 GTVVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus        13 ~ki~v~G~~~vGKtsl~~~~~~   34 (71)
                      ..+++.|++|+|||++++.+..
T Consensus        40 ~~vll~G~~GtGKT~la~~la~   61 (262)
T 2qz4_A           40 KGALLLGPPGCGKTLLAKAVAT   61 (262)
T ss_dssp             CEEEEESCTTSSHHHHHHHHHH
T ss_pred             ceEEEECCCCCCHHHHHHHHHH
Confidence            4588999999999999998764

>2x8a_A Nuclear valosin-containing protein-like; nuclear protein; 2.60A {Homo sapiens}

Probab=96.79  E-value=0.0011  Score=39.61  Aligned_cols=20  Identities=20%  Similarity=0.409  Sum_probs=18.4

Q ss_pred             EEEEeCCCCCHHHHHHHHHh
Q psy2514          15 VVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus        15 i~v~G~~~vGKtsl~~~~~~   34 (71)
                      ++++|++|+|||+|++.++.
T Consensus        47 vlL~Gp~GtGKTtLakala~   66 (274)
T 2x8a_A           47 VLLAGPPGCGKTLLAKAVAN   66 (274)
T ss_dssp             EEEESSTTSCHHHHHHHHHH
T ss_pred             EEEECCCCCcHHHHHHHHHH
Confidence            89999999999999998774

>1cr0_A DNA primase/helicase; RECA-type protein fold, transferase; HET: DNA; 2.30A {Enterobacteria phage T7} SCOP: c.37.1.11 PDB: 1cr1_A* 1cr2_A* 1cr4_A* 1e0j_A* 1e0k_A*

Probab=96.79  E-value=0.0011  Score=39.45  Aligned_cols=21  Identities=14%  Similarity=0.460  Sum_probs=18.4

Q ss_pred             eEEEEeCCCCCHHHHHHHHHh
Q psy2514          14 TVVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus        14 ki~v~G~~~vGKtsl~~~~~~   34 (71)
                      -++++|.+|+|||+|+..++.
T Consensus        37 ~~~i~G~~G~GKTTl~~~ia~   57 (296)
T 1cr0_A           37 VIMVTSGSGMGKSTFVRQQAL   57 (296)
T ss_dssp             EEEEEESTTSSHHHHHHHHHH
T ss_pred             EEEEEeCCCCCHHHHHHHHHH
Confidence            478899999999999998774

>2pbr_A DTMP kinase, thymidylate kinase; transferase, nucleotide biosynthesis, TMP-binding, A binding, structural genomics, NPPSFA; 1.96A {Aquifex aeolicus}

Probab=96.79  E-value=0.0013  Score=36.35  Aligned_cols=21  Identities=14%  Similarity=0.311  Sum_probs=18.6

Q ss_pred             eEEEEeCCCCCHHHHHHHHHh
Q psy2514          14 TVVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus        14 ki~v~G~~~vGKtsl~~~~~~   34 (71)
                      .|++.|.+|+|||++...+..
T Consensus         2 ~I~l~G~~GsGKsT~~~~L~~   22 (195)
T 2pbr_A            2 LIAFEGIDGSGKTTQAKKLYE   22 (195)
T ss_dssp             EEEEECSTTSCHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            488999999999999988765

>1in4_A RUVB, holliday junction DNA helicase RUVB; AAA+-class ATPase, winged-helix domain, ATP hydrolysis, walker A, walker B, sensor 1, sensor 2; HET: ADP; 1.60A {Thermotoga maritima} SCOP: a.4.5.11 c.37.1.20 PDB: 1in5_A* 1in6_A* 1in8_A* 1in7_A* 1j7k_A*

Probab=96.78  E-value=0.0011  Score=40.44  Aligned_cols=22  Identities=18%  Similarity=0.418  Sum_probs=19.1

Q ss_pred             eeEEEEeCCCCCHHHHHHHHHh
Q psy2514          13 GTVVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus        13 ~ki~v~G~~~vGKtsl~~~~~~   34 (71)
                      -.++++|++|+|||++++.++.
T Consensus        52 ~~~ll~Gp~G~GKTTLa~~ia~   73 (334)
T 1in4_A           52 DHVLLAGPPGLGKTTLAHIIAS   73 (334)
T ss_dssp             CCEEEESSTTSSHHHHHHHHHH
T ss_pred             CeEEEECCCCCcHHHHHHHHHH
Confidence            3488999999999999998774

>1rz3_A Hypothetical protein rbstp0775; MCSG, structural genomics, PSI, protein structure initiative; 1.90A {Geobacillus stearothermophilus} SCOP: c.37.1.6

Probab=96.78  E-value=0.0019  Score=36.56  Aligned_cols=24  Identities=17%  Similarity=0.202  Sum_probs=20.1

Q ss_pred             eeeeEEEEeCCCCCHHHHHHHHHh
Q psy2514          11 IKGTVVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus        11 ~~~ki~v~G~~~vGKtsl~~~~~~   34 (71)
                      ....+.++|.+|+|||+++..+..
T Consensus        21 ~~~~i~i~G~~GsGKstl~~~l~~   44 (201)
T 1rz3_A           21 GRLVLGIDGLSRSGKTTLANQLSQ   44 (201)
T ss_dssp             SSEEEEEEECTTSSHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHH
Confidence            346789999999999999987763

>2yz2_A Putative ABC transporter ATP-binding protein TM_0; cobalt transport, TM02 hydrolase, inner membrane, membrane, nucleotide-binding; 2.30A {Thermotoga maritima}

Probab=96.78  E-value=0.00098  Score=39.66  Aligned_cols=21  Identities=29%  Similarity=0.523  Sum_probs=18.2

Q ss_pred             eEEEEeCCCCCHHHHHHHHHh
Q psy2514          14 TVVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus        14 ki~v~G~~~vGKtsl~~~~~~   34 (71)
                      .+.++|++|+|||||++.+..
T Consensus        35 ~~~liG~nGsGKSTLl~~i~G   55 (266)
T 2yz2_A           35 CLLVAGNTGSGKSTLLQIVAG   55 (266)
T ss_dssp             EEEEECSTTSSHHHHHHHHTT
T ss_pred             EEEEECCCCCcHHHHHHHHhC
Confidence            578999999999999997764

>3h4m_A Proteasome-activating nucleotidase; ATPase, PAN, ATP-binding, nucleotide-binding, HY; HET: ADP; 3.11A {Methanocaldococcus jannaschii}

Probab=96.77  E-value=0.0011  Score=39.04  Aligned_cols=23  Identities=13%  Similarity=0.287  Sum_probs=19.9

Q ss_pred             eeeEEEEeCCCCCHHHHHHHHHh
Q psy2514          12 KGTVVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus        12 ~~ki~v~G~~~vGKtsl~~~~~~   34 (71)
                      ...+++.|++|+|||++++.+..
T Consensus        51 ~~~~ll~G~~GtGKT~la~~la~   73 (285)
T 3h4m_A           51 PKGILLYGPPGTGKTLLAKAVAT   73 (285)
T ss_dssp             CSEEEEESSSSSSHHHHHHHHHH
T ss_pred             CCeEEEECCCCCcHHHHHHHHHH
Confidence            34689999999999999998874

>2nq2_C Hypothetical ABC transporter ATP-binding protein HI1470; putative iron chelatin ABC transporter, nucleotide binding domain; 2.40A {Haemophilus influenzae}

Probab=96.77  E-value=0.001  Score=39.42  Aligned_cols=21  Identities=19%  Similarity=0.472  Sum_probs=18.3

Q ss_pred             eEEEEeCCCCCHHHHHHHHHh
Q psy2514          14 TVVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus        14 ki~v~G~~~vGKtsl~~~~~~   34 (71)
                      .+.++|++|+|||||++.+..
T Consensus        33 ~~~l~G~nGsGKSTLl~~l~G   53 (253)
T 2nq2_C           33 ILAVLGQNGCGKSTLLDLLLG   53 (253)
T ss_dssp             EEEEECCSSSSHHHHHHHHTT
T ss_pred             EEEEECCCCCCHHHHHHHHhC
Confidence            478999999999999997764

>2qby_A CDC6 homolog 1, cell division control protein 6 homolog 1; winged-helix domain, helix-turn-helix, AAA+ ATPase domain, protein-DNA complex; HET: DNA SPD ADP; 3.35A {Sulfolobus solfataricus}

Probab=96.77  E-value=0.0012  Score=39.87  Aligned_cols=23  Identities=17%  Similarity=0.320  Sum_probs=19.9

Q ss_pred             eeeEEEEeCCCCCHHHHHHHHHh
Q psy2514          12 KGTVVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus        12 ~~ki~v~G~~~vGKtsl~~~~~~   34 (71)
                      .--+++.|++|+|||+++..+..
T Consensus        45 ~~~vli~G~~G~GKTtl~~~l~~   67 (386)
T 2qby_A           45 PNNIFIYGLTGTGKTAVVKFVLS   67 (386)
T ss_dssp             CCCEEEEECTTSSHHHHHHHHHH
T ss_pred             CCeEEEECCCCCCHHHHHHHHHH
Confidence            34688999999999999998775

>1ak2_A Adenylate kinase isoenzyme-2; nucleoside monophosphate kinase, phosphotransferase; 1.92A {Bos taurus} SCOP: c.37.1.1 g.41.2.1 PDB: 2ak2_A 2c9y_A*

Probab=96.77  E-value=0.0015  Score=37.73  Aligned_cols=23  Identities=17%  Similarity=0.346  Sum_probs=20.0

Q ss_pred             eeeEEEEeCCCCCHHHHHHHHHh
Q psy2514          12 KGTVVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus        12 ~~ki~v~G~~~vGKtsl~~~~~~   34 (71)
                      ...|++.|.+|+|||++...+..
T Consensus        16 ~~~I~l~G~~GsGKsT~a~~La~   38 (233)
T 1ak2_A           16 GVRAVLLGPPGAGKGTQAPKLAK   38 (233)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHH
Confidence            46799999999999999988764

>3b85_A Phosphate starvation-inducible protein; PHOH2, ATPase, PFAM: PF02562, ST genomics, PSI-2, protein structure initiative; 2.35A {Corynebacterium glutamicum atcc 13032}

Probab=96.77  E-value=0.00072  Score=38.99  Aligned_cols=22  Identities=18%  Similarity=0.170  Sum_probs=18.9

Q ss_pred             eEEEEeCCCCCHHHHHHHHHhC
Q psy2514          14 TVVIVGNGAVGKSSMIQRYCRG   35 (71)
Q Consensus        14 ki~v~G~~~vGKtsl~~~~~~~   35 (71)
                      .+.++|++|+|||+|+..++.-
T Consensus        24 ~~~liG~nGsGKSTLl~~l~Gl   45 (208)
T 3b85_A           24 IVFGLGPAGSGKTYLAMAKAVQ   45 (208)
T ss_dssp             EEEEECCTTSSTTHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHhcC
Confidence            4788999999999999987753

>3rlf_A Maltose/maltodextrin import ATP-binding protein M; integral membrane protein, ATPase, ABC transporter, membrane transmembrane; HET: UMQ MAL PGV ANP; 2.20A {Escherichia coli} PDB: 1q1e_A 1q12_A* 2awo_A* 3fh6_A 3puv_A* 3puw_A* 3pux_A* 3puy_A* 3puz_A* 3pv0_A* 2awn_A* 2r6g_A* 1q1b_A

Probab=96.76  E-value=0.0011  Score=41.62  Aligned_cols=21  Identities=33%  Similarity=0.529  Sum_probs=18.4

Q ss_pred             eEEEEeCCCCCHHHHHHHHHh
Q psy2514          14 TVVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus        14 ki~v~G~~~vGKtsl~~~~~~   34 (71)
                      -+.++|++|+|||+|++.+..
T Consensus        31 ~~~llGpsGsGKSTLLr~iaG   51 (381)
T 3rlf_A           31 FVVFVGPSGCGKSTLLRMIAG   51 (381)
T ss_dssp             EEEEECCTTSSHHHHHHHHHT
T ss_pred             EEEEEcCCCchHHHHHHHHHc
Confidence            468899999999999998764

>2pjz_A Hypothetical protein ST1066; ATP binding protein, structural genomics, NPPSFA; 1.90A {Sulfolobus tokodaii}

Probab=96.76  E-value=0.0012  Score=39.38  Aligned_cols=22  Identities=23%  Similarity=0.475  Sum_probs=19.1

Q ss_pred             eEEEEeCCCCCHHHHHHHHHhC
Q psy2514          14 TVVIVGNGAVGKSSMIQRYCRG   35 (71)
Q Consensus        14 ki~v~G~~~vGKtsl~~~~~~~   35 (71)
                      .+.++|++|+|||||++.++.-
T Consensus        32 ~~~i~G~NGsGKSTLlk~l~Gl   53 (263)
T 2pjz_A           32 KVIILGPNGSGKTTLLRAISGL   53 (263)
T ss_dssp             EEEEECCTTSSHHHHHHHHTTS
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            5789999999999999987653

>2qen_A Walker-type ATPase; unknown function; HET: ADP; 2.25A {Pyrococcus abyssi}

Probab=96.76  E-value=0.0012  Score=39.46  Aligned_cols=23  Identities=26%  Similarity=0.478  Sum_probs=19.7

Q ss_pred             eeEEEEeCCCCCHHHHHHHHHhC
Q psy2514          13 GTVVIVGNGAVGKSSMIQRYCRG   35 (71)
Q Consensus        13 ~ki~v~G~~~vGKtsl~~~~~~~   35 (71)
                      --+++.|++|+|||+|+..+...
T Consensus        32 ~~v~i~G~~G~GKT~Ll~~~~~~   54 (350)
T 2qen_A           32 PLTLLLGIRRVGKSSLLRAFLNE   54 (350)
T ss_dssp             SEEEEECCTTSSHHHHHHHHHHH
T ss_pred             CeEEEECCCcCCHHHHHHHHHHH
Confidence            35788999999999999998753

>3t15_A Ribulose bisphosphate carboxylase/oxygenase activ chloroplastic; photosynthesis, rubisco activase, AAA+ protein; 2.95A {Nicotiana tabacum} PDB: 3zw6_A

Probab=96.75  E-value=0.0013  Score=39.42  Aligned_cols=22  Identities=27%  Similarity=0.142  Sum_probs=18.4

Q ss_pred             eeEEEEeCCCCCHHHHHHHHHh
Q psy2514          13 GTVVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus        13 ~ki~v~G~~~vGKtsl~~~~~~   34 (71)
                      .-+++.|++|+|||++++.++.
T Consensus        37 ~~lLl~GppGtGKT~la~aiA~   58 (293)
T 3t15_A           37 LILGIWGGKGQGKSFQCELVFR   58 (293)
T ss_dssp             SEEEEEECTTSCHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHH
Confidence            4567779999999999998764

>1z47_A CYSA, putative ABC-transporter ATP-binding protein; alpha/beta motif, beta sandwich, ligand binding protein; 1.90A {Alicyclobacillus acidocaldarius}

Probab=96.75  E-value=0.0011  Score=41.19  Aligned_cols=21  Identities=19%  Similarity=0.412  Sum_probs=18.4

Q ss_pred             eEEEEeCCCCCHHHHHHHHHh
Q psy2514          14 TVVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus        14 ki~v~G~~~vGKtsl~~~~~~   34 (71)
                      -+.++|++|+|||||++.++.
T Consensus        43 ~~~llGpnGsGKSTLLr~iaG   63 (355)
T 1z47_A           43 MVGLLGPSGSGKTTILRLIAG   63 (355)
T ss_dssp             EEEEECSTTSSHHHHHHHHHT
T ss_pred             EEEEECCCCCcHHHHHHHHhC
Confidence            478899999999999998764

>1e6c_A Shikimate kinase; phosphoryl transfer, ADP, shikimate pathway, P-loop protein, transferase; 1.8A {Erwinia chrysanthemi} SCOP: c.37.1.2 PDB: 1shk_A 2shk_A*

Probab=96.75  E-value=0.0014  Score=35.82  Aligned_cols=21  Identities=19%  Similarity=0.436  Sum_probs=18.7

Q ss_pred             eEEEEeCCCCCHHHHHHHHHh
Q psy2514          14 TVVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus        14 ki~v~G~~~vGKtsl~~~~~~   34 (71)
                      .|++.|.+|+|||++...+..
T Consensus         4 ~I~l~G~~GsGKsT~a~~La~   24 (173)
T 1e6c_A            4 PIFMVGARGCGMTTVGRELAR   24 (173)
T ss_dssp             CEEEESCTTSSHHHHHHHHHH
T ss_pred             eEEEECCCCCCHHHHHHHHHH
Confidence            589999999999999988764

>2it1_A 362AA long hypothetical maltose/maltodextrin transport ATP-binding protein; structural genomics, NPPSFA; 1.94A {Pyrococcus horikoshii}

Probab=96.75  E-value=0.0012  Score=41.21  Aligned_cols=21  Identities=19%  Similarity=0.409  Sum_probs=18.4

Q ss_pred             eEEEEeCCCCCHHHHHHHHHh
Q psy2514          14 TVVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus        14 ki~v~G~~~vGKtsl~~~~~~   34 (71)
                      .+.++|++|+|||||++.++.
T Consensus        31 ~~~llGpnGsGKSTLLr~iaG   51 (362)
T 2it1_A           31 FMALLGPSGSGKSTLLYTIAG   51 (362)
T ss_dssp             EEEEECCTTSSHHHHHHHHHT
T ss_pred             EEEEECCCCchHHHHHHHHhc
Confidence            468899999999999998764

>2yyz_A Sugar ABC transporter, ATP-binding protein; sugar transport, alpha and beta proteins (A/B) TM0421, structural genomics, NPPSFA; 2.11A {Thermotoga maritima}

Probab=96.75  E-value=0.0011  Score=41.20  Aligned_cols=21  Identities=19%  Similarity=0.377  Sum_probs=18.4

Q ss_pred             eEEEEeCCCCCHHHHHHHHHh
Q psy2514          14 TVVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus        14 ki~v~G~~~vGKtsl~~~~~~   34 (71)
                      .+.++|++|+|||||++.++.
T Consensus        31 ~~~llGpnGsGKSTLLr~iaG   51 (359)
T 2yyz_A           31 FVALLGPSGCGKTTTLLMLAG   51 (359)
T ss_dssp             EEEEECSTTSSHHHHHHHHHT
T ss_pred             EEEEEcCCCchHHHHHHHHHC
Confidence            468899999999999998764

>2fna_A Conserved hypothetical protein; structural genomics, joint center for structural genomics, J protein structure initiative, PSI-2; HET: MSE ADP; 2.00A {Sulfolobus solfataricus} SCOP: a.4.5.11 c.37.1.20

Probab=96.75  E-value=0.0013  Score=39.36  Aligned_cols=21  Identities=29%  Similarity=0.368  Sum_probs=18.9

Q ss_pred             eEEEEeCCCCCHHHHHHHHHh
Q psy2514          14 TVVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus        14 ki~v~G~~~vGKtsl~~~~~~   34 (71)
                      -+++.|++|+|||+|+..+..
T Consensus        32 ~v~i~G~~G~GKT~L~~~~~~   52 (357)
T 2fna_A           32 ITLVLGLRRTGKSSIIKIGIN   52 (357)
T ss_dssp             EEEEEESTTSSHHHHHHHHHH
T ss_pred             cEEEECCCCCCHHHHHHHHHH
Confidence            578899999999999998875

>3q5d_A Atlastin-1; G protein, GTPase, GDP/GTP binding, hydrolase; HET: GDP; 2.70A {Homo sapiens} PDB: 3q5e_A* 3qnu_A* 3qof_A*

Probab=96.74  E-value=0.0026  Score=40.70  Aligned_cols=26  Identities=23%  Similarity=0.165  Sum_probs=22.2

Q ss_pred             CceeeeEEEEeCCCCCHHHHHHHHHh
Q psy2514           9 GSIKGTVVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus         9 ~~~~~ki~v~G~~~vGKtsl~~~~~~   34 (71)
                      .....-|.|+|..++|||+|++++..
T Consensus        64 ~~~v~vVsV~G~~~~GKStLLN~llg   89 (447)
T 3q5d_A           64 DKEVVAVSVAGAFRKGKSFLMDFMLR   89 (447)
T ss_dssp             TSBEEEEEEEESTTSSHHHHHHHHHH
T ss_pred             CCceEEEEEECCCCCcHHHHHHHHhh
Confidence            34567788999999999999999974

>1g29_1 MALK, maltose transport protein MALK; ATPase, active transport, maltose uptake and regulation, sugar binding protein; 1.90A {Thermococcus litoralis} SCOP: b.40.6.3 b.40.6.3 c.37.1.12 PDB: 2d62_A

Probab=96.73  E-value=0.0012  Score=41.27  Aligned_cols=21  Identities=14%  Similarity=0.434  Sum_probs=18.3

Q ss_pred             eEEEEeCCCCCHHHHHHHHHh
Q psy2514          14 TVVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus        14 ki~v~G~~~vGKtsl~~~~~~   34 (71)
                      -+.++|++|+|||||++.++.
T Consensus        31 ~~~llGpnGsGKSTLLr~iaG   51 (372)
T 1g29_1           31 FMILLGPSGCGKTTTLRMIAG   51 (372)
T ss_dssp             EEEEECSTTSSHHHHHHHHHT
T ss_pred             EEEEECCCCcHHHHHHHHHHc
Confidence            468899999999999998764

>1gtv_A TMK, thymidylate kinase; transferase, transferase (ATP:TMP phosphotransferase); HET: TYD TMP; 1.55A {Mycobacterium tuberculosis} SCOP: c.37.1.1 PDB: 1g3u_A* 1gsi_A* 1mrn_A* 1mrs_A* 1n5i_A* 1n5j_A* 1n5k_A* 1n5l_A* 1w2g_A* 1w2h_A*

Probab=96.72  E-value=0.00044  Score=39.05  Aligned_cols=21  Identities=19%  Similarity=0.471  Sum_probs=18.4

Q ss_pred             eEEEEeCCCCCHHHHHHHHHh
Q psy2514          14 TVVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus        14 ki~v~G~~~vGKtsl~~~~~~   34 (71)
                      -|++.|.+|+||||++..+..
T Consensus         2 ~I~i~G~~GsGKsTl~~~L~~   22 (214)
T 1gtv_A            2 LIAIEGVDGAGKRTLVEKLSG   22 (214)
T ss_dssp             EEEEEEEEEEEHHHHHHHHHH
T ss_pred             EEEEEcCCCCCHHHHHHHHHH
Confidence            478999999999999998764

>1ofh_A ATP-dependent HSL protease ATP-binding subunit HSLU; chaperone, hydrolase, ATP-binding; HET: ADP; 2.5A {Haemophilus influenzae} SCOP: c.37.1.20 PDB: 1ofi_A*

Probab=96.72  E-value=0.0014  Score=38.81  Aligned_cols=23  Identities=22%  Similarity=0.586  Sum_probs=19.8

Q ss_pred             eeeEEEEeCCCCCHHHHHHHHHh
Q psy2514          12 KGTVVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus        12 ~~ki~v~G~~~vGKtsl~~~~~~   34 (71)
                      ...+++.|++|+|||++++.+..
T Consensus        50 ~~~vll~G~~GtGKT~la~~la~   72 (310)
T 1ofh_A           50 PKNILMIGPTGVGKTEIARRLAK   72 (310)
T ss_dssp             CCCEEEECCTTSSHHHHHHHHHH
T ss_pred             CceEEEECCCCCCHHHHHHHHHH
Confidence            35689999999999999988764

>3n70_A Transport activator; sigma-54, ntpase, PSI, MCSG, structural genomics, center for structural genomics; 2.80A {Escherichia coli}

Probab=96.72  E-value=0.0015  Score=35.21  Aligned_cols=24  Identities=13%  Similarity=0.059  Sum_probs=20.3

Q ss_pred             eeeEEEEeCCCCCHHHHHHHHHhC
Q psy2514          12 KGTVVIVGNGAVGKSSMIQRYCRG   35 (71)
Q Consensus        12 ~~ki~v~G~~~vGKtsl~~~~~~~   35 (71)
                      ...+++.|++|+|||.+++.+...
T Consensus        24 ~~~vll~G~~GtGKt~lA~~i~~~   47 (145)
T 3n70_A           24 DIAVWLYGAPGTGRMTGARYLHQF   47 (145)
T ss_dssp             CSCEEEESSTTSSHHHHHHHHHHS
T ss_pred             CCCEEEECCCCCCHHHHHHHHHHh
Confidence            356899999999999999887654

>3b9p_A CG5977-PA, isoform A; AAA ATPase, ATP-binding, nucleotide-binding, hydrolase; 2.70A {Drosophila melanogaster}

Probab=96.72  E-value=0.0013  Score=39.05  Aligned_cols=23  Identities=13%  Similarity=0.257  Sum_probs=20.0

Q ss_pred             eeeEEEEeCCCCCHHHHHHHHHh
Q psy2514          12 KGTVVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus        12 ~~ki~v~G~~~vGKtsl~~~~~~   34 (71)
                      ...+++.|++|+|||++++.+..
T Consensus        54 ~~~vll~Gp~GtGKT~la~~la~   76 (297)
T 3b9p_A           54 AKGLLLFGPPGNGKTLLARAVAT   76 (297)
T ss_dssp             CSEEEEESSSSSCHHHHHHHHHH
T ss_pred             CCeEEEECcCCCCHHHHHHHHHH
Confidence            35789999999999999998874

>2dr3_A UPF0273 protein PH0284; RECA superfamily ATPase, hexamer, structural genomics; HET: ADP; 2.00A {Pyrococcus horikoshii}

Probab=96.71  E-value=0.0015  Score=37.45  Aligned_cols=21  Identities=24%  Similarity=0.452  Sum_probs=17.9

Q ss_pred             eEEEEeCCCCCHHHHHHHHHh
Q psy2514          14 TVVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus        14 ki~v~G~~~vGKtsl~~~~~~   34 (71)
                      -+++.|++|+|||+|+.+++.
T Consensus        25 ~~~i~G~~GsGKTtl~~~~~~   45 (247)
T 2dr3_A           25 VVLLSGGPGTGKTIFSQQFLW   45 (247)
T ss_dssp             EEEEEECTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            468889999999999887764

>1v43_A Sugar-binding transport ATP-binding protein; ATPase, active transport, sugar uptake and regulation, transport protein; 2.20A {Pyrococcus horikoshii} SCOP: b.40.6.3 b.40.6.3 c.37.1.12 PDB: 1vci_A*

Probab=96.71  E-value=0.0013  Score=41.17  Aligned_cols=21  Identities=19%  Similarity=0.442  Sum_probs=18.3

Q ss_pred             eEEEEeCCCCCHHHHHHHHHh
Q psy2514          14 TVVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus        14 ki~v~G~~~vGKtsl~~~~~~   34 (71)
                      .++++|++|+|||||++.+..
T Consensus        39 ~~~llGpnGsGKSTLLr~iaG   59 (372)
T 1v43_A           39 FLVLLGPSGCGKTTTLRMIAG   59 (372)
T ss_dssp             EEEEECCTTSSHHHHHHHHHT
T ss_pred             EEEEECCCCChHHHHHHHHHc
Confidence            468899999999999998764

>2xtz_A Guanine nucleotide-binding protein alpha-1 subuni; hydrolase, G-protein signaling, SELF-activation, RAS-like DO; HET: GSP; 2.34A {Arabidopsis thaliana}

Probab=96.71  E-value=0.0019  Score=40.09  Aligned_cols=25  Identities=24%  Similarity=0.518  Sum_probs=21.3

Q ss_pred             cCceeeeEEEEeCCCCCHHHHHHHH
Q psy2514           8 RGSIKGTVVIVGNGAVGKSSMIQRY   32 (71)
Q Consensus         8 ~~~~~~ki~v~G~~~vGKtsl~~~~   32 (71)
                      +.....|++++|.+++|||+++.++
T Consensus         5 ~~~~~~k~lllG~~~sGKsT~~kq~   29 (354)
T 2xtz_A            5 SGIHIRKLLLLGAGESGKSTIFKQI   29 (354)
T ss_dssp             CCCEEEEEEEECSTTSSHHHHHHHH
T ss_pred             CCCCceeEEEECCCCCcHHHHHHHH
Confidence            4556789999999999999998854

>3e70_C DPA, signal recognition particle receptor; FTSY, SRP-GTPase, protein-targeting, transport protein; HET: GDP; 1.97A {Pyrococcus furiosus} PDB: 3dmd_B 3dm9_B*

Probab=96.71  E-value=0.0014  Score=40.32  Aligned_cols=24  Identities=21%  Similarity=0.353  Sum_probs=20.3

Q ss_pred             eeeeEEEEeCCCCCHHHHHHHHHh
Q psy2514          11 IKGTVVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus        11 ~~~ki~v~G~~~vGKtsl~~~~~~   34 (71)
                      ..--++++|++|+||||++..+..
T Consensus       128 ~g~vi~lvG~nGaGKTTll~~Lag  151 (328)
T 3e70_C          128 KPYVIMFVGFNGSGKTTTIAKLAN  151 (328)
T ss_dssp             SSEEEEEECCTTSSHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHH
Confidence            346788999999999999998763

>2vli_A Antibiotic resistance protein; transferase, tunicamycin, phosphotransferase; 1.95A {Deinococcus radiodurans}

Probab=96.71  E-value=0.00083  Score=37.03  Aligned_cols=22  Identities=23%  Similarity=0.218  Sum_probs=15.3

Q ss_pred             eeEEEEeCCCCCHHHHHHHHHh
Q psy2514          13 GTVVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus        13 ~ki~v~G~~~vGKtsl~~~~~~   34 (71)
                      ..|++.|.+|+|||++...+..
T Consensus         6 ~~I~l~G~~GsGKST~a~~La~   27 (183)
T 2vli_A            6 PIIWINGPFGVGKTHTAHTLHE   27 (183)
T ss_dssp             CEEEEECCC----CHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHH
Confidence            5689999999999999998763

>2bbs_A Cystic fibrosis transmembrane conductance regulator; ATP binding cassette, transport protein; HET: ATP; 2.05A {Homo sapiens} PDB: 2bbt_A* 1xmi_A* 1xmj_A* 2bbo_A* 3si7_A* 1r0w_A 1q3h_A 1r0x_A* 1r0y_A* 1r0z_A* 1r10_A* 1xf9_A* 1xfa_A*

Probab=96.71  E-value=0.0014  Score=39.60  Aligned_cols=22  Identities=18%  Similarity=0.359  Sum_probs=18.7

Q ss_pred             eeEEEEeCCCCCHHHHHHHHHh
Q psy2514          13 GTVVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus        13 ~ki~v~G~~~vGKtsl~~~~~~   34 (71)
                      -.+.++|++|+|||+|++.+..
T Consensus        65 e~~~i~G~NGsGKSTLlk~l~G   86 (290)
T 2bbs_A           65 QLLAVAGSTGAGKTSLLMMIMG   86 (290)
T ss_dssp             CEEEEEESTTSSHHHHHHHHTT
T ss_pred             CEEEEECCCCCcHHHHHHHHhc
Confidence            3578999999999999987764

>1uj2_A Uridine-cytidine kinase 2; alpha/beta mononucleotide-binding HOLD, transferase; HET: C5P ADP; 1.80A {Homo sapiens} SCOP: c.37.1.6 PDB: 1uei_A* 1uej_A* 1udw_A 1ufq_A* 1xrj_A*

Probab=96.70  E-value=0.0018  Score=37.89  Aligned_cols=24  Identities=25%  Similarity=0.243  Sum_probs=20.7

Q ss_pred             eeeeEEEEeCCCCCHHHHHHHHHh
Q psy2514          11 IKGTVVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus        11 ~~~ki~v~G~~~vGKtsl~~~~~~   34 (71)
                      ..+.|.+.|.+|+|||++...+..
T Consensus        21 ~~~iI~I~G~~GSGKST~a~~L~~   44 (252)
T 1uj2_A           21 EPFLIGVSGGTASGKSSVCAKIVQ   44 (252)
T ss_dssp             CCEEEEEECSTTSSHHHHHHHHHH
T ss_pred             CcEEEEEECCCCCCHHHHHHHHHH
Confidence            447899999999999999988764

>2iyv_A Shikimate kinase, SK; transferase, aromatic amino acid biosynthesis, P-loop kinase, metal- binding, shikimate pathway; HET: ADP; 1.35A {Mycobacterium tuberculosis} SCOP: c.37.1.2 PDB: 2iyr_A* 2iyq_A* 2iyt_A 2iyu_A* 2iys_A* 2iyw_A* 2iyx_A* 2iyy_A* 2iyz_A* 2g1k_A* 1l4y_A* 1u8a_A* 1we2_A* 1zyu_A* 2dfn_A* 2dft_A* 2g1j_A 1l4u_A* 3baf_A*

Probab=96.70  E-value=0.0016  Score=36.10  Aligned_cols=21  Identities=33%  Similarity=0.512  Sum_probs=18.5

Q ss_pred             eEEEEeCCCCCHHHHHHHHHh
Q psy2514          14 TVVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus        14 ki~v~G~~~vGKtsl~~~~~~   34 (71)
                      .|++.|.+|+|||++...+..
T Consensus         4 ~I~l~G~~GsGKsT~a~~La~   24 (184)
T 2iyv_A            4 KAVLVGLPGSGKSTIGRRLAK   24 (184)
T ss_dssp             SEEEECSTTSSHHHHHHHHHH
T ss_pred             eEEEECCCCCCHHHHHHHHHH
Confidence            589999999999999987764

>3a4m_A L-seryl-tRNA(SEC) kinase; P-loop motif, walker A motif, ATP binding motif, ATP- binding, nucleotide-binding, transferase; HET: ADP; 1.79A {Methanocaldococcus jannaschii} PDB: 3a4l_A* 3a4n_A 3am1_A* 3add_A* 3adc_A* 3adb_A*

Probab=96.70  E-value=0.0015  Score=38.51  Aligned_cols=22  Identities=23%  Similarity=0.431  Sum_probs=19.4

Q ss_pred             eeEEEEeCCCCCHHHHHHHHHh
Q psy2514          13 GTVVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus        13 ~ki~v~G~~~vGKtsl~~~~~~   34 (71)
                      ..|++.|.+|+|||++...+..
T Consensus         5 ~lIvl~G~pGSGKSTla~~La~   26 (260)
T 3a4m_A            5 MLIILTGLPGVGKSTFSKNLAK   26 (260)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHH
T ss_pred             EEEEEEcCCCCCHHHHHHHHHH
Confidence            4689999999999999998764

>3kta_A Chromosome segregation protein SMC; structural maintenance of chromosomes, ABC ATPase, CFTR adenylate kinase, AP5A, transferase; HET: AP5; 1.63A {Pyrococcus furiosus} PDB: 1xex_A* 1xew_X*

Probab=96.70  E-value=0.0016  Score=35.94  Aligned_cols=20  Identities=30%  Similarity=0.343  Sum_probs=17.2

Q ss_pred             eEEEEeCCCCCHHHHHHHHH
Q psy2514          14 TVVIVGNGAVGKSSMIQRYC   33 (71)
Q Consensus        14 ki~v~G~~~vGKtsl~~~~~   33 (71)
                      -.+++|+.|+|||+++..+.
T Consensus        28 ~~~i~G~NGsGKStll~ai~   47 (182)
T 3kta_A           28 FTAIVGANGSGKSNIGDAIL   47 (182)
T ss_dssp             EEEEEECTTSSHHHHHHHHH
T ss_pred             cEEEECCCCCCHHHHHHHHH
Confidence            45788999999999998765

>3gd7_A Fusion complex of cystic fibrosis transmembrane conductance regulator, residues 1193-1427...; CFTR, ABC transporter, nucleotide binding domain, NBD; HET: B44; 2.70A {Homo sapiens}

Probab=96.69  E-value=0.0014  Score=41.20  Aligned_cols=22  Identities=27%  Similarity=0.543  Sum_probs=18.8

Q ss_pred             eeEEEEeCCCCCHHHHHHHHHh
Q psy2514          13 GTVVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus        13 ~ki~v~G~~~vGKtsl~~~~~~   34 (71)
                      =.+.++|++|+|||+|++.+..
T Consensus        48 e~~~llGpsGsGKSTLLr~iaG   69 (390)
T 3gd7_A           48 QRVGLLGRTGSGKSTLLSAFLR   69 (390)
T ss_dssp             CEEEEEESTTSSHHHHHHHHHT
T ss_pred             CEEEEECCCCChHHHHHHHHhC
Confidence            3578999999999999987764

>1l8q_A Chromosomal replication initiator protein DNAA; AAA+, helix-turn-helix, nucleotide-binding, DNA binding, REP initiation, DNA binding protein; HET: ADP; 2.70A {Aquifex aeolicus} SCOP: a.4.12.2 c.37.1.20 PDB: 3r8f_A* 2hcb_A*

Probab=96.69  E-value=0.0014  Score=39.47  Aligned_cols=22  Identities=23%  Similarity=0.398  Sum_probs=19.2

Q ss_pred             eeEEEEeCCCCCHHHHHHHHHh
Q psy2514          13 GTVVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus        13 ~ki~v~G~~~vGKtsl~~~~~~   34 (71)
                      --+++.|++|+|||++++.+..
T Consensus        38 ~~lll~G~~GtGKT~la~~i~~   59 (324)
T 1l8q_A           38 NPIFIYGSVGTGKTHLLQAAGN   59 (324)
T ss_dssp             SSEEEECSSSSSHHHHHHHHHH
T ss_pred             CeEEEECCCCCcHHHHHHHHHH
Confidence            4588999999999999998775

>4fid_A G protein alpha subunit; RAS-like domain, all-helical domain, GTP binding, nucleotide signaling protein, transducer, lipoprotein; HET: MLY MSE GDP; 2.62A {Entamoeba histolytica}

Probab=96.68  E-value=0.0017  Score=40.19  Aligned_cols=27  Identities=15%  Similarity=0.092  Sum_probs=18.0

Q ss_pred             ccCCcceeeEEEEEEeCCEEEEEEEcCCCC
Q psy2514          41 YKKTIGVKSSMIQRYCRGTFTRDYKKTIGA   70 (71)
Q Consensus        41 ~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~   70 (71)
                      +.||+|...  ..+.. +.+.++||||+|+
T Consensus       145 ~~~TiGi~~--~~~~~-~~v~l~iwDtaGQ  171 (340)
T 4fid_A          145 RTKTTGIHE--YDFVV-KDIPFHLIDVGGQ  171 (340)
T ss_dssp             CCCCCSCEE--EEEES-SSCEEEEEECCSC
T ss_pred             ccceeeeEE--EEEEe-eeeeeccccCCCc
Confidence            456677543  33333 4588999999996

>2kjq_A DNAA-related protein; solution structure, NESG, structural genomics, PSI-2, protei structure initiative; NMR {Neisseria meningitidis serogroup B}

Probab=96.68  E-value=0.00076  Score=36.88  Aligned_cols=22  Identities=23%  Similarity=0.449  Sum_probs=18.9

Q ss_pred             eeEEEEeCCCCCHHHHHHHHHh
Q psy2514          13 GTVVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus        13 ~ki~v~G~~~vGKtsl~~~~~~   34 (71)
                      -.++++|++|+|||+|+..+..
T Consensus        37 ~~~~l~G~~G~GKTtL~~~i~~   58 (149)
T 2kjq_A           37 QFIYVWGEEGAGKSHLLQAWVA   58 (149)
T ss_dssp             SEEEEESSSTTTTCHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHH
Confidence            3578899999999999998765

>4e22_A Cytidylate kinase; P-loop, CMP/ATP binding, transferase; 2.32A {Yersinia pseudotuberculosis}

Probab=96.67  E-value=0.0017  Score=38.13  Aligned_cols=22  Identities=14%  Similarity=0.347  Sum_probs=19.6

Q ss_pred             eeeEEEEeCCCCCHHHHHHHHH
Q psy2514          12 KGTVVIVGNGAVGKSSMIQRYC   33 (71)
Q Consensus        12 ~~ki~v~G~~~vGKtsl~~~~~   33 (71)
                      ...+.++|.+|+|||++++.+.
T Consensus        27 g~~I~I~G~~GsGKSTl~k~La   48 (252)
T 4e22_A           27 APVITVDGPSGAGKGTLCKALA   48 (252)
T ss_dssp             SCEEEEECCTTSSHHHHHHHHH
T ss_pred             CcEEEEECCCCCCHHHHHHHHH
Confidence            3579999999999999999877

>3tqc_A Pantothenate kinase; biosynthesis of cofactors, prosthetic groups, carriers, TRAN; HET: ADP; 2.30A {Coxiella burnetii}

Probab=96.66  E-value=0.0022  Score=39.34  Aligned_cols=23  Identities=30%  Similarity=0.286  Sum_probs=19.6

Q ss_pred             eeeeEEEEeCCCCCHHHHHHHHH
Q psy2514          11 IKGTVVIVGNGAVGKSSMIQRYC   33 (71)
Q Consensus        11 ~~~ki~v~G~~~vGKtsl~~~~~   33 (71)
                      ..+-+.++|.+|+||||++..+.
T Consensus        91 ~p~iigI~GpsGSGKSTl~~~L~  113 (321)
T 3tqc_A           91 VPYIIGIAGSVAVGKSTTSRVLK  113 (321)
T ss_dssp             CCEEEEEECCTTSSHHHHHHHHH
T ss_pred             CCEEEEEECCCCCCHHHHHHHHH
Confidence            34678999999999999998775

>1yrb_A ATP(GTP)binding protein; GTPase, P-loop, rossman fold, GDP, HYDR; HET: GDP; 1.75A {Pyrococcus abyssi} SCOP: c.37.1.10 PDB: 1yr6_A* 1yr8_A* 1yr9_A* 1yra_A* 1yr7_A* 2oxr_A*

Probab=96.66  E-value=0.0022  Score=37.23  Aligned_cols=24  Identities=25%  Similarity=0.412  Sum_probs=21.2

Q ss_pred             ceeeeEEEEeCCCCCHHHHHHHHH
Q psy2514          10 SIKGTVVIVGNGAVGKSSMIQRYC   33 (71)
Q Consensus        10 ~~~~ki~v~G~~~vGKtsl~~~~~   33 (71)
                      .....+++.|.+||||||++.+++
T Consensus        12 ~~~~i~~~~GkgGvGKTTl~~~La   35 (262)
T 1yrb_A           12 MASMIVVFVGTAGSGKTTLTGEFG   35 (262)
T ss_dssp             CCCEEEEEECSTTSSHHHHHHHHH
T ss_pred             cceEEEEEeCCCCCCHHHHHHHHH
Confidence            345788999999999999999997

>1sq5_A Pantothenate kinase; P-loop, transferase; HET: PAU ADP; 2.20A {Escherichia coli} SCOP: c.37.1.6 PDB: 1esm_A* 1esn_A*

Probab=96.64  E-value=0.0024  Score=38.54  Aligned_cols=24  Identities=33%  Similarity=0.329  Sum_probs=20.3

Q ss_pred             eeeeEEEEeCCCCCHHHHHHHHHh
Q psy2514          11 IKGTVVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus        11 ~~~ki~v~G~~~vGKtsl~~~~~~   34 (71)
                      ....+.++|.+|+||||++..+..
T Consensus        79 ~g~iigI~G~~GsGKSTl~~~L~~  102 (308)
T 1sq5_A           79 IPYIISIAGSVAVGKSTTARVLQA  102 (308)
T ss_dssp             CCEEEEEEECTTSSHHHHHHHHHH
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHH
Confidence            346789999999999999987764

>3tui_C Methionine import ATP-binding protein METN; ABC-transporter, type I ABC type importer, methionine uptake transporter, membrane protein; HET: ADP; 2.90A {Escherichia coli} PDB: 3tuj_C 3tuz_C* 3dhw_C

Probab=96.63  E-value=0.0016  Score=40.77  Aligned_cols=21  Identities=24%  Similarity=0.366  Sum_probs=18.1

Q ss_pred             eEEEEeCCCCCHHHHHHHHHh
Q psy2514          14 TVVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus        14 ki~v~G~~~vGKtsl~~~~~~   34 (71)
                      -+.++|++|+|||||++.+..
T Consensus        56 i~~IiGpnGaGKSTLlr~i~G   76 (366)
T 3tui_C           56 IYGVIGASGAGKSTLIRCVNL   76 (366)
T ss_dssp             EEEEECCTTSSHHHHHHHHHT
T ss_pred             EEEEEcCCCchHHHHHHHHhc
Confidence            468899999999999987764

>1d2n_A N-ethylmaleimide-sensitive fusion protein; hexamerization domain, ATPase, transport; HET: ANP; 1.75A {Cricetulus griseus} SCOP: c.37.1.20 PDB: 1nsf_A*

Probab=96.63  E-value=0.0026  Score=37.36  Aligned_cols=25  Identities=16%  Similarity=0.275  Sum_probs=21.1

Q ss_pred             ceeeeEEEEeCCCCCHHHHHHHHHh
Q psy2514          10 SIKGTVVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus        10 ~~~~ki~v~G~~~vGKtsl~~~~~~   34 (71)
                      .....+++.|++|+|||+++..+..
T Consensus        62 ~~~~~vLl~G~~GtGKT~la~~ia~   86 (272)
T 1d2n_A           62 TPLVSVLLEGPPHSGKTALAAKIAE   86 (272)
T ss_dssp             CSEEEEEEECSTTSSHHHHHHHHHH
T ss_pred             CCCeEEEEECCCCCcHHHHHHHHHH
Confidence            3446789999999999999998875

>1xjc_A MOBB protein homolog; structural genomics, midwest center for structural GEN PSI, protein structure initiative, MCSG; 2.10A {Geobacillus stearothermophilus} SCOP: c.37.1.10

Probab=96.63  E-value=0.0019  Score=36.35  Aligned_cols=22  Identities=18%  Similarity=0.472  Sum_probs=18.9

Q ss_pred             eeEEEEeCCCCCHHHHHHHHHh
Q psy2514          13 GTVVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus        13 ~ki~v~G~~~vGKtsl~~~~~~   34 (71)
                      .-+.++|.+|+|||+++.+++.
T Consensus         5 ~~i~i~G~sGsGKTTl~~~L~~   26 (169)
T 1xjc_A            5 NVWQVVGYKHSGKTTLMEKWVA   26 (169)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHH
T ss_pred             EEEEEECCCCCCHHHHHHHHHH
Confidence            4578999999999999998774

>3b9q_A Chloroplast SRP receptor homolog, alpha subunit CPFTSY; protein translocation, GTP-binding, nucleotide-binding, protein transport; 1.75A {Arabidopsis thaliana}

Probab=96.63  E-value=0.0029  Score=38.38  Aligned_cols=23  Identities=22%  Similarity=0.450  Sum_probs=19.4

Q ss_pred             eeeEEEEeCCCCCHHHHHHHHHh
Q psy2514          12 KGTVVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus        12 ~~ki~v~G~~~vGKtsl~~~~~~   34 (71)
                      .--++++|.+|+||||++..++.
T Consensus       100 g~vi~lvG~nGsGKTTll~~Lag  122 (302)
T 3b9q_A          100 PAVIMIVGVNGGGKTTSLGKLAH  122 (302)
T ss_dssp             CEEEEEECCTTSCHHHHHHHHHH
T ss_pred             CcEEEEEcCCCCCHHHHHHHHHH
Confidence            35688999999999999997763

>2pez_A Bifunctional 3'-phosphoadenosine 5'- phosphosulfate synthetase 1 (PAPS synthetase...; NMP-kinase fold, protein in complex with nucleic acid; HET: GGZ DAT; 1.40A {Homo sapiens} PDB: 2pey_A* 2ax4_A*

Probab=96.62  E-value=0.0024  Score=35.24  Aligned_cols=23  Identities=22%  Similarity=0.234  Sum_probs=19.5

Q ss_pred             eeeEEEEeCCCCCHHHHHHHHHh
Q psy2514          12 KGTVVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus        12 ~~ki~v~G~~~vGKtsl~~~~~~   34 (71)
                      ...+++.|.+|+|||++...+..
T Consensus         5 g~~i~l~G~~GsGKST~~~~L~~   27 (179)
T 2pez_A            5 GCTVWLTGLSGAGKTTVSMALEE   27 (179)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHH
T ss_pred             CcEEEEECCCCCCHHHHHHHHHH
Confidence            35688999999999999887764

>1t9h_A YLOQ, probable GTPase ENGC; N-terminal beta-barrel domain with oligonucleotide binding fold, central GTP binding domain; 1.60A {Bacillus subtilis} SCOP: b.40.4.5 c.37.1.8

Probab=96.60  E-value=0.00042  Score=42.34  Aligned_cols=23  Identities=35%  Similarity=0.510  Sum_probs=19.6

Q ss_pred             eeEEEEeCCCCCHHHHHHHHHhC
Q psy2514          13 GTVVIVGNGAVGKSSMIQRYCRG   35 (71)
Q Consensus        13 ~ki~v~G~~~vGKtsl~~~~~~~   35 (71)
                      -.++++|.+|+|||||++.+...
T Consensus       174 ~~~~lvG~sG~GKSTLln~L~g~  196 (307)
T 1t9h_A          174 KTTVFAGQSGVGKSSLLNAISPE  196 (307)
T ss_dssp             SEEEEEESHHHHHHHHHHHHCC-
T ss_pred             CEEEEECCCCCCHHHHHHHhccc
Confidence            47899999999999999988743

>3uk6_A RUVB-like 2; hexameric AAA+ ATP-ASE, DNA unwinding, hydrolase; HET: ADP; 2.95A {Homo sapiens} PDB: 2xsz_D*

Probab=96.60  E-value=0.0019  Score=39.27  Aligned_cols=22  Identities=23%  Similarity=0.440  Sum_probs=19.6

Q ss_pred             eeEEEEeCCCCCHHHHHHHHHh
Q psy2514          13 GTVVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus        13 ~ki~v~G~~~vGKtsl~~~~~~   34 (71)
                      -.+++.|++|+|||++++.+..
T Consensus        71 ~~vLl~GppGtGKT~la~~la~   92 (368)
T 3uk6_A           71 RAVLIAGQPGTGKTAIAMGMAQ   92 (368)
T ss_dssp             CEEEEEESTTSSHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHH
Confidence            4789999999999999998874

>2p5t_B PEZT; postsegregational killing system, phosphoryltransferase, HEL helix motif, transcription regulator; 3.20A {Streptococcus pneumoniae}

Probab=96.59  E-value=0.0013  Score=38.53  Aligned_cols=24  Identities=13%  Similarity=0.234  Sum_probs=20.4

Q ss_pred             eeeeEEEEeCCCCCHHHHHHHHHh
Q psy2514          11 IKGTVVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus        11 ~~~ki~v~G~~~vGKtsl~~~~~~   34 (71)
                      ....++++|.+|+|||++...+..
T Consensus        31 ~~~~i~l~G~~GsGKSTla~~L~~   54 (253)
T 2p5t_B           31 QPIAILLGGQSGAGKTTIHRIKQK   54 (253)
T ss_dssp             SCEEEEEESCGGGTTHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHH
Confidence            346799999999999999998764

>1fnn_A CDC6P, cell division control protein 6; ORC1, AAA protein, DNA replication initation factor, cell cycle control factor; HET: ADP; 2.00A {Pyrobaculum aerophilum} SCOP: a.4.5.11 c.37.1.20

Probab=96.58  E-value=0.0019  Score=39.29  Aligned_cols=22  Identities=14%  Similarity=0.335  Sum_probs=19.4

Q ss_pred             eEEEEeCCCCCHHHHHHHHHhC
Q psy2514          14 TVVIVGNGAVGKSSMIQRYCRG   35 (71)
Q Consensus        14 ki~v~G~~~vGKtsl~~~~~~~   35 (71)
                      .+++.|++|+|||+++..+...
T Consensus        46 ~~li~G~~G~GKTtl~~~l~~~   67 (389)
T 1fnn_A           46 RATLLGRPGTGKTVTLRKLWEL   67 (389)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHH
T ss_pred             eEEEECCCCCCHHHHHHHHHHH
Confidence            6899999999999999988753

>3nh6_A ATP-binding cassette SUB-family B member 6, mitoc; ABC-transporter, ABCB6, nucleotide binding domain, heme BIOS transport protein; 2.00A {Homo sapiens} PDB: 3nh9_A* 3nha_A* 3nhb_A*

Probab=96.58  E-value=0.00093  Score=40.75  Aligned_cols=22  Identities=32%  Similarity=0.581  Sum_probs=18.7

Q ss_pred             eeEEEEeCCCCCHHHHHHHHHh
Q psy2514          13 GTVVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus        13 ~ki~v~G~~~vGKtsl~~~~~~   34 (71)
                      -.+.++|++|+|||||++-+..
T Consensus        81 e~vaivG~sGsGKSTLl~ll~g  102 (306)
T 3nh6_A           81 QTLALVGPSGAGKSTILRLLFR  102 (306)
T ss_dssp             CEEEEESSSCHHHHHHHHHHTT
T ss_pred             CEEEEECCCCchHHHHHHHHHc
Confidence            4688999999999999986653

>3umf_A Adenylate kinase; rossmann fold, transferase; 2.05A {Schistosoma mansoni}

Probab=96.57  E-value=0.002  Score=37.47  Aligned_cols=20  Identities=15%  Similarity=0.476  Sum_probs=17.1

Q ss_pred             EEEEeCCCCCHHHHHHHHHh
Q psy2514          15 VVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus        15 i~v~G~~~vGKtsl~~~~~~   34 (71)
                      |+++|.+|+||++.+.+++.
T Consensus        32 I~llGpPGsGKgTqa~~L~~   51 (217)
T 3umf_A           32 IFVLGGPGSGKGTQCEKLVQ   51 (217)
T ss_dssp             EEEECCTTCCHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHH
Confidence            56789999999999988764

>1nlf_A Regulatory protein REPA; replicative DNA helicase structural changes, replication; 1.95A {Escherichia coli} SCOP: c.37.1.11 PDB: 1g8y_A 1olo_A

Probab=96.55  E-value=0.0021  Score=38.05  Aligned_cols=21  Identities=24%  Similarity=0.352  Sum_probs=18.6

Q ss_pred             eEEEEeCCCCCHHHHHHHHHh
Q psy2514          14 TVVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus        14 ki~v~G~~~vGKtsl~~~~~~   34 (71)
                      -++++|++|+|||+|+..++.
T Consensus        32 i~~i~G~~GsGKTtl~~~l~~   52 (279)
T 1nlf_A           32 VGALVSPGGAGKSMLALQLAA   52 (279)
T ss_dssp             EEEEEESTTSSHHHHHHHHHH
T ss_pred             EEEEEcCCCCCHHHHHHHHHH
Confidence            578889999999999998874

>3d31_A Sulfate/molybdate ABC transporter, ATP-binding protein; ATP-binding, nucleotide-binding, membrane, transmembrane, transport protein; 3.00A {Methanosarcina acetivorans} SCOP: b.40.6.3 c.37.1.12

Probab=96.55  E-value=0.0011  Score=41.18  Aligned_cols=21  Identities=24%  Similarity=0.390  Sum_probs=18.4

Q ss_pred             eEEEEeCCCCCHHHHHHHHHh
Q psy2514          14 TVVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus        14 ki~v~G~~~vGKtsl~~~~~~   34 (71)
                      .++++|++|+|||||++.++.
T Consensus        28 ~~~llGpnGsGKSTLLr~iaG   48 (348)
T 3d31_A           28 YFVILGPTGAGKTLFLELIAG   48 (348)
T ss_dssp             EEEEECCCTHHHHHHHHHHHT
T ss_pred             EEEEECCCCccHHHHHHHHHc
Confidence            578899999999999998764

>2gza_A Type IV secretion system protein VIRB11; ATPase, hydrolase; 2.60A {Brucella suis}

Probab=96.55  E-value=0.002  Score=39.90  Aligned_cols=22  Identities=18%  Similarity=0.519  Sum_probs=19.6

Q ss_pred             eeEEEEeCCCCCHHHHHHHHHh
Q psy2514          13 GTVVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus        13 ~ki~v~G~~~vGKtsl~~~~~~   34 (71)
                      -.++++|.+|+||||+++.+..
T Consensus       176 ~~i~ivG~sGsGKSTll~~l~~  197 (361)
T 2gza_A          176 RVIVVAGETGSGKTTLMKALMQ  197 (361)
T ss_dssp             CCEEEEESSSSCHHHHHHHHHT
T ss_pred             CEEEEECCCCCCHHHHHHHHHh
Confidence            4789999999999999998875

>2p67_A LAO/AO transport system kinase; ARGK, structural GEN PSI-2, protein structure initiative, NEW YORK SGX research for structural genomics; 1.80A {Escherichia coli} SCOP: c.37.1.10

Probab=96.54  E-value=0.0032  Score=38.56  Aligned_cols=24  Identities=17%  Similarity=0.320  Sum_probs=20.9

Q ss_pred             ceeeeEEEEeCCCCCHHHHHHHHH
Q psy2514          10 SIKGTVVIVGNGAVGKSSMIQRYC   33 (71)
Q Consensus        10 ~~~~ki~v~G~~~vGKtsl~~~~~   33 (71)
                      .....+.++|.+|+||||++..++
T Consensus        54 ~~~~~i~i~G~~g~GKSTl~~~l~   77 (341)
T 2p67_A           54 GNTLRLGVTGTPGAGKSTFLEAFG   77 (341)
T ss_dssp             SCSEEEEEEECTTSCHHHHHHHHH
T ss_pred             CCCEEEEEEcCCCCCHHHHHHHHH
Confidence            445788999999999999999986

>1cip_A Protein (guanine nucleotide-binding protein alpha-1 subunit); GTPase, hydrolase; HET: GNP; 1.50A {Rattus norvegicus} SCOP: a.66.1.1 c.37.1.8 PDB: 1agr_A* 1bof_A* 1gdd_A* 1gfi_A* 1gia_A* 1gp2_A* 3ffa_A* 3ffb_A* 1gg2_A* 1git_A* 1svs_A* 1svk_A* 2zjz_A* 2zjy_A* 3ums_A* 2pz2_A* 2pz3_A* 1as0_A* 1as2_A* 1as3_A* ...

Probab=96.53  E-value=0.0024  Score=39.59  Aligned_cols=24  Identities=21%  Similarity=0.545  Sum_probs=19.7

Q ss_pred             CceeeeEEEEeCCCCCHHHHHHHH
Q psy2514           9 GSIKGTVVIVGNGAVGKSSMIQRY   32 (71)
Q Consensus         9 ~~~~~ki~v~G~~~vGKtsl~~~~   32 (71)
                      ....+|++++|..++|||+++.++
T Consensus        29 ~~~~~klLlLG~geSGKST~~KQm   52 (353)
T 1cip_A           29 AAREVKLLLLGAGESGKSTIVKQM   52 (353)
T ss_dssp             --CEEEEEEECSTTSSHHHHHHHH
T ss_pred             hcccceEEEEcCCCCCchhHHHHH
Confidence            345799999999999999998754

>3cf0_A Transitional endoplasmic reticulum ATPase; AAA, P97/VCP, ERAD, CDC48, ATP-binding, lipid-binding, nucle binding, nucleus, phosphoprotein, transport; HET: ADP; 3.00A {Mus musculus}

Probab=96.53  E-value=0.002  Score=38.61  Aligned_cols=22  Identities=18%  Similarity=0.300  Sum_probs=19.3

Q ss_pred             eeEEEEeCCCCCHHHHHHHHHh
Q psy2514          13 GTVVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus        13 ~ki~v~G~~~vGKtsl~~~~~~   34 (71)
                      -.+++.|++|+|||++++.+..
T Consensus        50 ~~vLL~Gp~GtGKT~la~ala~   71 (301)
T 3cf0_A           50 KGVLFYGPPGCGKTLLAKAIAN   71 (301)
T ss_dssp             SEEEEECSSSSSHHHHHHHHHH
T ss_pred             ceEEEECCCCcCHHHHHHHHHH
Confidence            4589999999999999998774

>3ohm_A Guanine nucleotide-binding protein G(Q) subunit A; PH domain, EF hand, TIM barrel, C2 domain, GTPase, lipase, C binding, GTP binding; HET: GDP; 2.70A {Mus musculus} PDB: 2bcj_Q* 2rgn_A* 3ah8_A*

Probab=96.53  E-value=0.0026  Score=39.17  Aligned_cols=25  Identities=24%  Similarity=0.473  Sum_probs=21.0

Q ss_pred             CceeeeEEEEeCCCCCHHHHHHHHH
Q psy2514           9 GSIKGTVVIVGNGAVGKSSMIQRYC   33 (71)
Q Consensus         9 ~~~~~ki~v~G~~~vGKtsl~~~~~   33 (71)
                      ....+|++++|..++|||+++.+..
T Consensus         4 ~~~~~klLlLG~geSGKSTi~KQmk   28 (327)
T 3ohm_A            4 ARRELKLLLLGTGESGKSTFIKQMR   28 (327)
T ss_dssp             -CCEEEEEEECSTTSSHHHHHHHHH
T ss_pred             hcccceEEEEcCCCccHHHHHHHHH
Confidence            3457999999999999999998654

>3jvv_A Twitching mobility protein; hexameric P-loop ATPase, secretion ATPase, ATP-binding, FIMB nucleotide-binding, transport; HET: ACP CIT; 2.60A {Pseudomonas aeruginosa} PDB: 3jvu_A*

Probab=96.53  E-value=0.002  Score=39.95  Aligned_cols=21  Identities=24%  Similarity=0.382  Sum_probs=18.7

Q ss_pred             eEEEEeCCCCCHHHHHHHHHh
Q psy2514          14 TVVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus        14 ki~v~G~~~vGKtsl~~~~~~   34 (71)
                      .++++|++|+||||+++.++.
T Consensus       125 ~i~I~GptGSGKTTlL~~l~g  145 (356)
T 3jvv_A          125 LVLVTGPTGSGKSTTLAAMLD  145 (356)
T ss_dssp             EEEEECSTTSCHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHh
Confidence            789999999999999997763

>1m7g_A Adenylylsulfate kinase; APS kinase, transferase, sulfate Met nucleotide 2 kinase; HET: AV2 ADX ADP; 1.43A {Penicillium chrysogenum} SCOP: c.37.1.4 PDB: 1d6j_A* 1m7h_A* 3cr7_A*

Probab=96.52  E-value=0.0023  Score=36.35  Aligned_cols=23  Identities=26%  Similarity=0.258  Sum_probs=19.1

Q ss_pred             eeeEEEEeCCCCCHHHHHHHHHh
Q psy2514          12 KGTVVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus        12 ~~ki~v~G~~~vGKtsl~~~~~~   34 (71)
                      ..-++++|.+|+|||+++..+..
T Consensus        25 ~~~i~~~G~~GsGKsT~~~~l~~   47 (211)
T 1m7g_A           25 GLTIWLTGLSASGKSTLAVELEH   47 (211)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHHH
Confidence            35688999999999999987653

>3nwj_A ATSK2; P loop, shikimate, nucleoside monophosphate kinase, shikimat ATP binding, chloroplast, transferase; 2.35A {Arabidopsis thaliana}

Probab=96.52  E-value=0.0021  Score=38.06  Aligned_cols=23  Identities=22%  Similarity=0.299  Sum_probs=19.7

Q ss_pred             eeeEEEEeCCCCCHHHHHHHHHh
Q psy2514          12 KGTVVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus        12 ~~ki~v~G~~~vGKtsl~~~~~~   34 (71)
                      .-.++++|.+|+|||++.+.+..
T Consensus        48 g~~i~l~G~~GsGKSTl~~~La~   70 (250)
T 3nwj_A           48 GRSMYLVGMMGSGKTTVGKIMAR   70 (250)
T ss_dssp             TCCEEEECSTTSCHHHHHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHHH
Confidence            34799999999999999988764

>1vht_A Dephospho-COA kinase; structural genomics, transferase; HET: BA3; 1.59A {Escherichia coli} SCOP: c.37.1.1 PDB: 1vhl_A* 1viy_A 1t3h_A 1n3b_A

Probab=96.52  E-value=0.0031  Score=35.84  Aligned_cols=22  Identities=23%  Similarity=0.356  Sum_probs=19.7

Q ss_pred             eeEEEEeCCCCCHHHHHHHHHh
Q psy2514          13 GTVVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus        13 ~ki~v~G~~~vGKtsl~~~~~~   34 (71)
                      +.|++.|.+|+|||++...+..
T Consensus         5 ~~I~i~G~~GSGKST~~~~L~~   26 (218)
T 1vht_A            5 YIVALTGGIGSGKSTVANAFAD   26 (218)
T ss_dssp             EEEEEECCTTSCHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHH
Confidence            5789999999999999998865

>1ltq_A Polynucleotide kinase; phosphatase, alpha/beta, P-loop, transferase; HET: ADP; 2.33A {Enterobacteria phage T4} SCOP: c.108.1.9 c.37.1.1 PDB: 1rc8_A* 1rpz_A* 1rrc_A* 2ia5_A

Probab=96.51  E-value=0.0023  Score=38.05  Aligned_cols=22  Identities=18%  Similarity=0.386  Sum_probs=19.6

Q ss_pred             eeEEEEeCCCCCHHHHHHHHHh
Q psy2514          13 GTVVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus        13 ~ki~v~G~~~vGKtsl~~~~~~   34 (71)
                      ..|++.|.+|+|||++..++..
T Consensus         3 ~~I~l~G~~GsGKST~a~~L~~   24 (301)
T 1ltq_A            3 KIILTIGCPGSGKSTWAREFIA   24 (301)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHH
Confidence            4588999999999999998876

>2obl_A ESCN; ATPase, hydrolase; 1.80A {Escherichia coli O127} PDB: 2obm_A*

Probab=96.51  E-value=0.0026  Score=39.30  Aligned_cols=24  Identities=29%  Similarity=0.569  Sum_probs=20.6

Q ss_pred             eeeEEEEeCCCCCHHHHHHHHHhC
Q psy2514          12 KGTVVIVGNGAVGKSSMIQRYCRG   35 (71)
Q Consensus        12 ~~ki~v~G~~~vGKtsl~~~~~~~   35 (71)
                      .-++.++|++|+|||+|+..++..
T Consensus        71 Gq~~gIiG~nGaGKTTLl~~I~g~   94 (347)
T 2obl_A           71 GQRIGIFAGSGVGKSTLLGMICNG   94 (347)
T ss_dssp             TCEEEEEECTTSSHHHHHHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHhcC
Confidence            357899999999999999888764

>4fcw_A Chaperone protein CLPB; AAA domain; HET: ADP; 2.35A {Thermus thermophilus} PDB: 4fcv_A* 4fd2_A* 4fct_A*

Probab=96.51  E-value=0.0031  Score=37.42  Aligned_cols=22  Identities=23%  Similarity=0.546  Sum_probs=19.3

Q ss_pred             eeEEEEeCCCCCHHHHHHHHHh
Q psy2514          13 GTVVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus        13 ~ki~v~G~~~vGKtsl~~~~~~   34 (71)
                      -.+++.|++|+|||++++.+..
T Consensus        48 ~~~ll~G~~GtGKt~la~~la~   69 (311)
T 4fcw_A           48 GSFLFLGPTGVGKTELAKTLAA   69 (311)
T ss_dssp             EEEEEESCSSSSHHHHHHHHHH
T ss_pred             eEEEEECCCCcCHHHHHHHHHH
Confidence            4689999999999999987764

>3pfi_A Holliday junction ATP-dependent DNA helicase RUVB; probable holliday junction DNA helicase; HET: ADP; 2.69A {Campylobacter jejuni subsp}

Probab=96.50  E-value=0.0022  Score=38.62  Aligned_cols=22  Identities=14%  Similarity=0.363  Sum_probs=19.5

Q ss_pred             eeEEEEeCCCCCHHHHHHHHHh
Q psy2514          13 GTVVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus        13 ~ki~v~G~~~vGKtsl~~~~~~   34 (71)
                      ..+++.|++|+|||++++.+..
T Consensus        56 ~~vll~G~~GtGKT~la~~ia~   77 (338)
T 3pfi_A           56 DHILFSGPAGLGKTTLANIISY   77 (338)
T ss_dssp             CCEEEECSTTSSHHHHHHHHHH
T ss_pred             CeEEEECcCCCCHHHHHHHHHH
Confidence            4689999999999999998864

>2f6r_A COA synthase, bifunctional coenzyme A synthase; 18044849, bifunctional coenzyme A synthase (COA synthase), S genomics; HET: ACO UNL; 1.70A {Mus musculus}

Probab=96.50  E-value=0.0031  Score=37.69  Aligned_cols=23  Identities=30%  Similarity=0.205  Sum_probs=20.2

Q ss_pred             eeeeEEEEeCCCCCHHHHHHHHH
Q psy2514          11 IKGTVVIVGNGAVGKSSMIQRYC   33 (71)
Q Consensus        11 ~~~ki~v~G~~~vGKtsl~~~~~   33 (71)
                      ..+.|++.|.+|+|||++...+.
T Consensus        74 ~~~iI~I~G~~GSGKSTva~~La   96 (281)
T 2f6r_A           74 GLYVLGLTGISGSGKSSVAQRLK   96 (281)
T ss_dssp             TCEEEEEEECTTSCHHHHHHHHH
T ss_pred             CCEEEEEECCCCCCHHHHHHHHH
Confidence            35789999999999999998876

>2v1u_A Cell division control protein 6 homolog; DNA replication, nucleotide-binding, replication, archaea; HET: ADP; 3.10A {Aeropyrum pernix}

Probab=96.50  E-value=0.0018  Score=39.27  Aligned_cols=23  Identities=17%  Similarity=0.313  Sum_probs=19.9

Q ss_pred             eeeEEEEeCCCCCHHHHHHHHHh
Q psy2514          12 KGTVVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus        12 ~~ki~v~G~~~vGKtsl~~~~~~   34 (71)
                      .-.+++.|++|+|||+++..+..
T Consensus        44 ~~~vll~G~~G~GKT~l~~~~~~   66 (387)
T 2v1u_A           44 PSNALLYGLTGTGKTAVARLVLR   66 (387)
T ss_dssp             CCCEEECBCTTSSHHHHHHHHHH
T ss_pred             CCcEEEECCCCCCHHHHHHHHHH
Confidence            45789999999999999998774

>2qby_B CDC6 homolog 3, cell division control protein 6 homolog 3; winged-helix domain, helix-turn-helix, AAA+ ATPase domain, protein-DNA complex; HET: DNA SPD ADP; 3.35A {Sulfolobus solfataricus}

Probab=96.49  E-value=0.0025  Score=38.79  Aligned_cols=22  Identities=14%  Similarity=0.131  Sum_probs=19.4

Q ss_pred             eeEEEEeCCCCCHHHHHHHHHh
Q psy2514          13 GTVVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus        13 ~ki~v~G~~~vGKtsl~~~~~~   34 (71)
                      --+++.|++|+|||+++..+..
T Consensus        46 ~~vll~G~~G~GKT~la~~l~~   67 (384)
T 2qby_B           46 FSNLFLGLTGTGKTFVSKYIFN   67 (384)
T ss_dssp             CEEEEEECTTSSHHHHHHHHHH
T ss_pred             CcEEEECCCCCCHHHHHHHHHH
Confidence            4689999999999999988875

>2ewv_A Twitching motility protein PILT; pilus retraction motor, ATPase, hexameric PILT, protein TRAN; HET: ADP; 2.80A {Aquifex aeolicus} PDB: 2eww_A* 2gsz_A*

Probab=96.48  E-value=0.0022  Score=39.89  Aligned_cols=22  Identities=27%  Similarity=0.490  Sum_probs=19.2

Q ss_pred             eeEEEEeCCCCCHHHHHHHHHh
Q psy2514          13 GTVVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus        13 ~ki~v~G~~~vGKtsl~~~~~~   34 (71)
                      -.++++|++|+||||++..++.
T Consensus       137 ~~i~ivG~~GsGKTTll~~l~~  158 (372)
T 2ewv_A          137 GLILVTGPTGSGKSTTIASMID  158 (372)
T ss_dssp             EEEEEECSSSSSHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHh
Confidence            4689999999999999997764

>2npi_A Protein CLP1; CLP1-PCF11 complex, ATP binding, ternary complex, transcript; HET: ATP; 2.95A {Saccharomyces cerevisiae}

Probab=96.47  E-value=0.0023  Score=40.96  Aligned_cols=23  Identities=39%  Similarity=0.661  Sum_probs=19.5

Q ss_pred             eeeEEEEeCCCCCHHHHHHHHHh
Q psy2514          12 KGTVVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus        12 ~~ki~v~G~~~vGKtsl~~~~~~   34 (71)
                      .-.++++|.+|+|||||++-++.
T Consensus       138 Ge~v~IvGpnGsGKSTLlr~L~G  160 (460)
T 2npi_A          138 GPRVVIVGGSQTGKTSLSRTLCS  160 (460)
T ss_dssp             CCCEEEEESTTSSHHHHHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHhC
Confidence            34688999999999999997764

>2og2_A Putative signal recognition particle receptor; nucleotide-binding, protein transport; 2.00A {Arabidopsis thaliana}

Probab=96.47  E-value=0.0024  Score=39.77  Aligned_cols=23  Identities=22%  Similarity=0.450  Sum_probs=19.4

Q ss_pred             eeeEEEEeCCCCCHHHHHHHHHh
Q psy2514          12 KGTVVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus        12 ~~ki~v~G~~~vGKtsl~~~~~~   34 (71)
                      .--++++|.+|+||||++..++.
T Consensus       157 g~vi~lvG~nGsGKTTll~~Lag  179 (359)
T 2og2_A          157 PAVIMIVGVNGGGKTTSLGKLAH  179 (359)
T ss_dssp             SEEEEEECCTTSCHHHHHHHHHH
T ss_pred             CeEEEEEcCCCChHHHHHHHHHh
Confidence            35688999999999999997663

>2dpy_A FLII, flagellum-specific ATP synthase; beta barrel, alpha-beta structure, hydrolase; HET: ADP; 2.40A {Salmonella typhimurium}

Probab=96.47  E-value=0.0028  Score=40.32  Aligned_cols=24  Identities=21%  Similarity=0.266  Sum_probs=20.3

Q ss_pred             eeeEEEEeCCCCCHHHHHHHHHhC
Q psy2514          12 KGTVVIVGNGAVGKSSMIQRYCRG   35 (71)
Q Consensus        12 ~~ki~v~G~~~vGKtsl~~~~~~~   35 (71)
                      .-++.++|++|+|||+|+..++..
T Consensus       157 Gq~~~IvG~sGsGKSTLl~~Iag~  180 (438)
T 2dpy_A          157 GQRMGLFAGSGVGKSVLLGMMARY  180 (438)
T ss_dssp             TCEEEEEECTTSSHHHHHHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHhcc
Confidence            347889999999999999887754

>1sxj_C Activator 1 40 kDa subunit; clamp loader, processivity clamp, DNA sliding clamp, AAA+ at polymerase, DNA-binding protein; HET: AGS ADP; 2.85A {Saccharomyces cerevisiae} SCOP: a.80.1.1 c.37.1.20

Probab=96.45  E-value=0.0024  Score=38.73  Aligned_cols=21  Identities=29%  Similarity=0.434  Sum_probs=18.7

Q ss_pred             EEEEeCCCCCHHHHHHHHHhC
Q psy2514          15 VVIVGNGAVGKSSMIQRYCRG   35 (71)
Q Consensus        15 i~v~G~~~vGKtsl~~~~~~~   35 (71)
                      +++.|++|+|||+++..++..
T Consensus        49 ~ll~Gp~G~GKTtla~~la~~   69 (340)
T 1sxj_C           49 LLFYGPPGTGKTSTIVALARE   69 (340)
T ss_dssp             EEEECSSSSSHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHH
Confidence            899999999999999987753

>4eaq_A DTMP kinase, thymidylate kinase; structural genomics, PSI-biology, midwest center for structu genomics, MCSG, MTBI, transferase; HET: ATM; 1.85A {Staphylococcus aureus subsp} PDB: 4dwj_A* 4f4i_A

Probab=96.44  E-value=0.004  Score=36.17  Aligned_cols=24  Identities=17%  Similarity=0.362  Sum_probs=20.5

Q ss_pred             eeeeEEEEeCCCCCHHHHHHHHHh
Q psy2514          11 IKGTVVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus        11 ~~~ki~v~G~~~vGKtsl~~~~~~   34 (71)
                      ...-+++.|.+|+|||+++..+..
T Consensus        25 ~g~~i~i~G~~GsGKsT~~~~l~~   48 (229)
T 4eaq_A           25 MSAFITFEGPEGSGKTTVINEVYH   48 (229)
T ss_dssp             CCEEEEEECCTTSCHHHHHHHHHH
T ss_pred             CCeEEEEEcCCCCCHHHHHHHHHH
Confidence            346789999999999999998764

>1zuh_A Shikimate kinase; alpha-beta protein, transferase; 1.80A {Helicobacter pylori} PDB: 1zui_A* 3hr7_A 3muf_A* 3mrs_A 3n2e_A*

Probab=96.44  E-value=0.0033  Score=34.31  Aligned_cols=22  Identities=32%  Similarity=0.371  Sum_probs=19.1

Q ss_pred             eeEEEEeCCCCCHHHHHHHHHh
Q psy2514          13 GTVVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus        13 ~ki~v~G~~~vGKtsl~~~~~~   34 (71)
                      -.+++.|.+|+|||++...+..
T Consensus         8 ~~i~l~G~~GsGKSTva~~La~   29 (168)
T 1zuh_A            8 QHLVLIGFMGSGKSSLAQELGL   29 (168)
T ss_dssp             CEEEEESCTTSSHHHHHHHHHH
T ss_pred             ceEEEECCCCCCHHHHHHHHHH
Confidence            4688999999999999988764

>2xtz_A Guanine nucleotide-binding protein alpha-1 subuni; hydrolase, G-protein signaling, SELF-activation, RAS-like DO; HET: GSP; 2.34A {Arabidopsis thaliana}

Probab=96.44  E-value=0.00023  Score=44.14  Aligned_cols=34  Identities=9%  Similarity=-0.284  Sum_probs=20.1

Q ss_pred             CCCCccCCcceeeEEEE---------EEeC-----CEEEEEEEcCCCC
Q psy2514          37 FTRDYKKTIGVKSSMIQ---------RYCR-----GTFTRDYKKTIGA   70 (71)
Q Consensus        37 f~~~~~~t~~~~~~~~~---------~~~~-----~~~~l~i~Dt~G~   70 (71)
                      +.++|.||+++.+..+.         +..+     +.+.++||||+|+
T Consensus       146 ~~~~Y~PT~~D~~~~r~~T~Gi~e~~f~~~~~~~~~~v~l~iwDtaGQ  193 (354)
T 2xtz_A          146 SDINYIPTKEDVLYARVRTTGVVEIQFSPVGENKKSGEVYRLFDVGGQ  193 (354)
T ss_dssp             HSTTCCCCHHHHHHCCCCCCSEEEEEECCCCE------EEEEEEECCS
T ss_pred             hcCCCCCCchheeeecccccceeeEEEEeccCccccceeeEEEECCCc
Confidence            45568888776543221         1122     4689999999996

>3szr_A Interferon-induced GTP-binding protein MX1; interferon-induced antiviral GTPase, membrane associated, PR binding; 3.50A {Homo sapiens} PDB: 3zys_B

Probab=96.43  E-value=0.0014  Score=43.11  Aligned_cols=25  Identities=20%  Similarity=0.482  Sum_probs=20.3

Q ss_pred             eEEEEeCCCCCHHHHHHHHHhCcCC
Q psy2514          14 TVVIVGNGAVGKSSMIQRYCRGTFT   38 (71)
Q Consensus        14 ki~v~G~~~vGKtsl~~~~~~~~f~   38 (71)
                      .++++|++|+|||||++.+..-.++
T Consensus        47 ~iaIvG~nGsGKSTLL~~I~Gl~~P   71 (608)
T 3szr_A           47 AIAVIGDQSSGKSSVLEALSGVALP   71 (608)
T ss_dssp             CEECCCCTTSCHHHHHHHHHSCC--
T ss_pred             eEEEECCCCChHHHHHHHHhCCCCC
Confidence            4899999999999999988765434

>1sxj_D Activator 1 41 kDa subunit; clamp loader, processivity clamp, DNA sliding clamp, AAA+ at polymerase, DNA-binding protein; HET: AGS ADP; 2.85A {Saccharomyces cerevisiae} SCOP: a.80.1.1 c.37.1.20

Probab=96.42  E-value=0.0027  Score=38.24  Aligned_cols=20  Identities=25%  Similarity=0.414  Sum_probs=18.1

Q ss_pred             EEEEeCCCCCHHHHHHHHHh
Q psy2514          15 VVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus        15 i~v~G~~~vGKtsl~~~~~~   34 (71)
                      +++.|++|+|||++++.+..
T Consensus        61 ~ll~G~~G~GKT~la~~la~   80 (353)
T 1sxj_D           61 MLFYGPPGTGKTSTILALTK   80 (353)
T ss_dssp             EEEECSTTSSHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHH
Confidence            89999999999999987764

>1sxj_E Activator 1 40 kDa subunit; clamp loader, processivity clamp, DNA sliding clamp, AAA+ at polymerase, DNA-binding protein; HET: AGS ADP; 2.85A {Saccharomyces cerevisiae} SCOP: a.80.1.1 c.37.1.20

Probab=96.42  E-value=0.002  Score=38.93  Aligned_cols=20  Identities=15%  Similarity=0.298  Sum_probs=18.4

Q ss_pred             EEEEeCCCCCHHHHHHHHHh
Q psy2514          15 VVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus        15 i~v~G~~~vGKtsl~~~~~~   34 (71)
                      +++.|++|+|||++++.+..
T Consensus        39 ~ll~Gp~G~GKTtl~~~la~   58 (354)
T 1sxj_E           39 LLLYGPNGTGKKTRCMALLE   58 (354)
T ss_dssp             EEEECSTTSSHHHHHHTHHH
T ss_pred             EEEECCCCCCHHHHHHHHHH
Confidence            89999999999999998765

>2bjv_A PSP operon transcriptional activator; AAA, transcription activation, gene regulation, sigma54 activator, enhancer binding protein, PSPF; 1.7A {Escherichia coli} PDB: 2bjw_A 2c96_A* 2c98_A* 2c99_A* 2c9c_A* 2vii_A*

Probab=96.42  E-value=0.0028  Score=37.04  Aligned_cols=24  Identities=25%  Similarity=0.373  Sum_probs=20.5

Q ss_pred             eeEEEEeCCCCCHHHHHHHHHhCc
Q psy2514          13 GTVVIVGNGAVGKSSMIQRYCRGT   36 (71)
Q Consensus        13 ~ki~v~G~~~vGKtsl~~~~~~~~   36 (71)
                      ..+++.|++|+|||++++.+....
T Consensus        30 ~~vll~G~~GtGKt~la~~i~~~~   53 (265)
T 2bjv_A           30 KPVLIIGERGTGKELIASRLHYLS   53 (265)
T ss_dssp             SCEEEECCTTSCHHHHHHHHHHTS
T ss_pred             CCEEEECCCCCcHHHHHHHHHHhc
Confidence            568999999999999999887543

>3r20_A Cytidylate kinase; structural genomics, seattle structural genomics center for infectious disease, ssgcid, ADP, DCMP, D transferase; 2.00A {Mycobacterium smegmatis} SCOP: c.37.1.0 PDB: 3r8c_A 4die_A*

Probab=96.41  E-value=0.0033  Score=36.99  Aligned_cols=22  Identities=27%  Similarity=0.321  Sum_probs=19.6

Q ss_pred             eeeEEEEeCCCCCHHHHHHHHH
Q psy2514          12 KGTVVIVGNGAVGKSSMIQRYC   33 (71)
Q Consensus        12 ~~ki~v~G~~~vGKtsl~~~~~   33 (71)
                      .+.+++.|.+|+|||++...+.
T Consensus         9 ~~~i~i~G~~GsGKsTla~~la   30 (233)
T 3r20_A            9 SLVVAVDGPAGTGKSSVSRGLA   30 (233)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHH
Confidence            4789999999999999998776

>1um8_A ATP-dependent CLP protease ATP-binding subunit CL; CLPP binding loop, chaperone; HET: ADP; 2.60A {Helicobacter pylori} SCOP: c.37.1.20

Probab=96.41  E-value=0.0028  Score=38.97  Aligned_cols=23  Identities=26%  Similarity=0.543  Sum_probs=20.0

Q ss_pred             eeeEEEEeCCCCCHHHHHHHHHh
Q psy2514          12 KGTVVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus        12 ~~ki~v~G~~~vGKtsl~~~~~~   34 (71)
                      ...+++.|++|+|||++++.+..
T Consensus        72 ~~~ill~Gp~GtGKT~la~~la~   94 (376)
T 1um8_A           72 KSNILLIGPTGSGKTLMAQTLAK   94 (376)
T ss_dssp             CCCEEEECCTTSSHHHHHHHHHH
T ss_pred             CCCEEEECCCCCCHHHHHHHHHH
Confidence            45699999999999999998774

>3eie_A Vacuolar protein sorting-associated protein 4; AAA ATPase, ATP-binding cassette, ATP-binding, endosome, MEM nucleotide-binding; 2.70A {Saccharomyces cerevisiae} PDB: 3eih_A* 2rko_A 3mhv_C

Probab=96.40  E-value=0.0027  Score=38.39  Aligned_cols=23  Identities=17%  Similarity=0.332  Sum_probs=20.0

Q ss_pred             eeeEEEEeCCCCCHHHHHHHHHh
Q psy2514          12 KGTVVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus        12 ~~ki~v~G~~~vGKtsl~~~~~~   34 (71)
                      ...+++.|++|+|||++++.+..
T Consensus        51 ~~~vLl~GppGtGKT~la~aia~   73 (322)
T 3eie_A           51 TSGILLYGPPGTGKSYLAKAVAT   73 (322)
T ss_dssp             CCEEEEECSSSSCHHHHHHHHHH
T ss_pred             CCeEEEECCCCCcHHHHHHHHHH
Confidence            35699999999999999998874

>2yhs_A FTSY, cell division protein FTSY; cell cycle, protein targeting, simibi class GTPase, GTP-BIND membrane, nucleotide-binding; 1.60A {Escherichia coli} PDB: 2qy9_A 2xxa_B* 1fts_A

Probab=96.39  E-value=0.004  Score=40.51  Aligned_cols=22  Identities=27%  Similarity=0.487  Sum_probs=19.0

Q ss_pred             eeeEEEEeCCCCCHHHHHHHHH
Q psy2514          12 KGTVVIVGNGAVGKSSMIQRYC   33 (71)
Q Consensus        12 ~~ki~v~G~~~vGKtsl~~~~~   33 (71)
                      .--++++|.+|+||||++..+.
T Consensus       293 GeVI~LVGpNGSGKTTLl~~LA  314 (503)
T 2yhs_A          293 PFVILMVGVNGVGKTTTIGKLA  314 (503)
T ss_dssp             TEEEEEECCTTSSHHHHHHHHH
T ss_pred             CeEEEEECCCcccHHHHHHHHH
Confidence            4568899999999999998766

>1xwi_A SKD1 protein; VPS4B, AAA ATPase, protein transport; 2.80A {Homo sapiens}

Probab=96.38  E-value=0.0028  Score=38.54  Aligned_cols=22  Identities=18%  Similarity=0.342  Sum_probs=19.7

Q ss_pred             eeEEEEeCCCCCHHHHHHHHHh
Q psy2514          13 GTVVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus        13 ~ki~v~G~~~vGKtsl~~~~~~   34 (71)
                      -.+++.|++|+|||++++.+..
T Consensus        46 ~~iLL~GppGtGKT~la~ala~   67 (322)
T 1xwi_A           46 RGILLFGPPGTGKSYLAKAVAT   67 (322)
T ss_dssp             SEEEEESSSSSCHHHHHHHHHH
T ss_pred             ceEEEECCCCccHHHHHHHHHH
Confidence            5689999999999999998875

>1oxx_K GLCV, glucose, ABC transporter, ATP binding protein; ABC-ATPase, ATP-binding cassette, ATPase, transport protein; 1.45A {Sulfolobus solfataricus} SCOP: b.40.6.3 c.37.1.12 PDB: 1oxs_C 1oxt_A 1oxu_A* 1oxv_A*

Probab=96.37  E-value=0.0011  Score=41.19  Aligned_cols=21  Identities=19%  Similarity=0.381  Sum_probs=18.4

Q ss_pred             eEEEEeCCCCCHHHHHHHHHh
Q psy2514          14 TVVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus        14 ki~v~G~~~vGKtsl~~~~~~   34 (71)
                      .+.++|++|+|||||++.++.
T Consensus        33 ~~~llGpnGsGKSTLLr~iaG   53 (353)
T 1oxx_K           33 RFGILGPSGAGKTTFMRIIAG   53 (353)
T ss_dssp             EEEEECSCHHHHHHHHHHHHT
T ss_pred             EEEEECCCCCcHHHHHHHHhC
Confidence            478899999999999998764

>2pt7_A CAG-ALFA; ATPase, protein-protein complex, type IV secretion, hydrolas binding complex; 2.40A {Helicobacter pylori} SCOP: c.37.1.11 PDB: 1nly_A* 1nlz_A 1opx_A* 1g6o_A

Probab=96.36  E-value=0.0025  Score=39.02  Aligned_cols=22  Identities=23%  Similarity=0.472  Sum_probs=19.2

Q ss_pred             eeEEEEeCCCCCHHHHHHHHHh
Q psy2514          13 GTVVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus        13 ~ki~v~G~~~vGKtsl~~~~~~   34 (71)
                      -.++++|.+|+|||+|++.+..
T Consensus       172 ~~v~i~G~~GsGKTTll~~l~g  193 (330)
T 2pt7_A          172 KNVIVCGGTGSGKTTYIKSIME  193 (330)
T ss_dssp             CCEEEEESTTSCHHHHHHHGGG
T ss_pred             CEEEEECCCCCCHHHHHHHHhC
Confidence            4688999999999999987764

>1azs_C GS-alpha; complex (lyase/hydrolase), hydrolase, signal transducing protein, cyclase, effector enzyme; HET: GSP FKP; 2.30A {Bos taurus} SCOP: a.66.1.1 c.37.1.8 PDB: 1azt_A* 3c14_C* 3c15_C* 3c16_C* 1cjt_C* 1cjk_C* 1cju_C* 1cjv_C* 1tl7_C* 1cs4_C* 1u0h_C* 2gvd_C* 2gvz_C* 3e8a_C* 3g82_C* 3maa_C* 1cul_C* 3sn6_A*

Probab=96.36  E-value=0.004  Score=39.37  Aligned_cols=25  Identities=20%  Similarity=0.445  Sum_probs=21.3

Q ss_pred             CceeeeEEEEeCCCCCHHHHHHHHH
Q psy2514           9 GSIKGTVVIVGNGAVGKSSMIQRYC   33 (71)
Q Consensus         9 ~~~~~ki~v~G~~~vGKtsl~~~~~   33 (71)
                      ....+|++++|...+|||+++.+..
T Consensus        37 ~~~~~klLLLG~geSGKSTi~KQmk   61 (402)
T 1azs_C           37 YRATHRLLLLGAGESGKSTIVKQMR   61 (402)
T ss_dssp             CTTEEEEEEEESTTSSHHHHHHHHH
T ss_pred             hhccceEEEecCCCCchhhHHHHHH
Confidence            3457999999999999999998643

>2zts_A Putative uncharacterized protein PH0186; KAIC like protein, ATP-binding, nucleotide-binding, ATP- binding protein; HET: ADP; 2.07A {Pyrococcus horikoshii}

Probab=96.33  E-value=0.0034  Score=35.97  Aligned_cols=21  Identities=24%  Similarity=0.540  Sum_probs=17.9

Q ss_pred             eEEEEeCCCCCHHHHHHHHHh
Q psy2514          14 TVVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus        14 ki~v~G~~~vGKtsl~~~~~~   34 (71)
                      -+++.|++|+|||+|+.+++.
T Consensus        32 l~~i~G~pG~GKT~l~l~~~~   52 (251)
T 2zts_A           32 TVLLTGGTGTGKTTFAAQFIY   52 (251)
T ss_dssp             EEEEECCTTSSHHHHHHHHHH
T ss_pred             EEEEEeCCCCCHHHHHHHHHH
Confidence            467889999999999988763

>3pxg_A Negative regulator of genetic competence CLPC/MEC; CLPB, proteolysis, CLPX, HSP100/CLP, AAA+ proteins, PR binding; 3.65A {Bacillus subtilis}

Probab=96.32  E-value=0.0026  Score=40.53  Aligned_cols=24  Identities=25%  Similarity=0.517  Sum_probs=20.1

Q ss_pred             eeeEEEEeCCCCCHHHHHHHHHhC
Q psy2514          12 KGTVVIVGNGAVGKSSMIQRYCRG   35 (71)
Q Consensus        12 ~~ki~v~G~~~vGKtsl~~~~~~~   35 (71)
                      .-.++++|++|+|||+++..+...
T Consensus       201 ~~~~LL~G~pG~GKT~la~~la~~  224 (468)
T 3pxg_A          201 KNNPVLIGEPGVGKTAIAEGLAQQ  224 (468)
T ss_dssp             SCEEEEESCTTTTTHHHHHHHHHH
T ss_pred             CCCeEEECCCCCCHHHHHHHHHHH
Confidence            457899999999999999877643

>2qmh_A HPR kinase/phosphorylase; V267F mutation, ATP-binding, carbohydrate metabolism, magnesium, metal-binding, multifunctional enzyme; 2.60A {Lactobacillus casei} PDB: 1jb1_A 1kkl_A 1kkm_A*

Probab=96.31  E-value=0.0029  Score=36.78  Aligned_cols=23  Identities=30%  Similarity=0.391  Sum_probs=20.2

Q ss_pred             eeEEEEeCCCCCHHHHHHHHHhC
Q psy2514          13 GTVVIVGNGAVGKSSMIQRYCRG   35 (71)
Q Consensus        13 ~ki~v~G~~~vGKtsl~~~~~~~   35 (71)
                      ..++++|++|+|||+++..+...
T Consensus        35 ~~ilI~GpsGsGKStLA~~La~~   57 (205)
T 2qmh_A           35 LGVLITGDSGVGKSETALELVQR   57 (205)
T ss_dssp             EEEEEECCCTTTTHHHHHHHHTT
T ss_pred             EEEEEECCCCCCHHHHHHHHHHh
Confidence            56899999999999999998754

>3zvl_A Bifunctional polynucleotide phosphatase/kinase; hydrolase-transferase complex, base excision repair, BER, non-homologous END-joining, NHEJ; 1.65A {Mus musculus} PDB: 3zvm_A* 3zvn_A* 1yj5_A 3u7e_B* 3u7f_B* 3u7h_B* 3u7g_A*

Probab=96.29  E-value=0.0031  Score=39.66  Aligned_cols=23  Identities=39%  Similarity=0.393  Sum_probs=19.7

Q ss_pred             eeeEEEEeCCCCCHHHHHHHHHh
Q psy2514          12 KGTVVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus        12 ~~ki~v~G~~~vGKtsl~~~~~~   34 (71)
                      ..-|+++|.+|+|||++.+++..
T Consensus       258 ~~lIil~G~pGSGKSTla~~L~~  280 (416)
T 3zvl_A          258 PEVVVAVGFPGAGKSTFIQEHLV  280 (416)
T ss_dssp             CCEEEEESCTTSSHHHHHHHHTG
T ss_pred             CEEEEEECCCCCCHHHHHHHHHH
Confidence            35688899999999999999874

>3hws_A ATP-dependent CLP protease ATP-binding subunit CL; CLPXP, AAA+ molecular machine, hexamer, asymmetric,, ATP-BIN chaperone, metal-binding; HET: ADP; 3.25A {Escherichia coli} PDB: 3hte_A

Probab=96.26  E-value=0.0037  Score=38.26  Aligned_cols=23  Identities=22%  Similarity=0.536  Sum_probs=20.0

Q ss_pred             eeeEEEEeCCCCCHHHHHHHHHh
Q psy2514          12 KGTVVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus        12 ~~ki~v~G~~~vGKtsl~~~~~~   34 (71)
                      ...+++.|++|+|||++++.+..
T Consensus        51 ~~~vll~GppGtGKT~la~~ia~   73 (363)
T 3hws_A           51 KSNILLIGPTGSGKTLLAETLAR   73 (363)
T ss_dssp             CCCEEEECCTTSSHHHHHHHHHH
T ss_pred             CCeEEEECCCCCCHHHHHHHHHH
Confidence            45799999999999999988764

>1nij_A Hypothetical protein YJIA; structural genomics, P-loop protein, GTP binding, structure function project, S2F, unknown function; 2.00A {Escherichia coli} SCOP: c.37.1.10 d.237.1.1

Probab=96.25  E-value=0.0027  Score=38.59  Aligned_cols=22  Identities=14%  Similarity=0.336  Sum_probs=19.3

Q ss_pred             eEEEEeCCCCCHHHHHHHHHhC
Q psy2514          14 TVVIVGNGAVGKSSMIQRYCRG   35 (71)
Q Consensus        14 ki~v~G~~~vGKtsl~~~~~~~   35 (71)
                      -++++|..|+||||+++.+...
T Consensus         6 v~~i~G~~GaGKTTll~~l~~~   27 (318)
T 1nij_A            6 VTLLTGFLGAGKTTLLRHILNE   27 (318)
T ss_dssp             EEEEEESSSSSCHHHHHHHHHS
T ss_pred             EEEEEecCCCCHHHHHHHHHhh
Confidence            4678899999999999998864

>1pzn_A RAD51, DNA repair and recombination protein RAD51, RADA; heptameric ring, heptamer, ring, oligomer, RAD51 polymerizat motif; HET: DNA; 2.85A {Pyrococcus furiosus} SCOP: a.60.4.1 c.37.1.11

Probab=96.25  E-value=0.0038  Score=38.46  Aligned_cols=23  Identities=13%  Similarity=0.183  Sum_probs=19.6

Q ss_pred             eeEEEEeCCCCCHHHHHHHHHhC
Q psy2514          13 GTVVIVGNGAVGKSSMIQRYCRG   35 (71)
Q Consensus        13 ~ki~v~G~~~vGKtsl~~~~~~~   35 (71)
                      --+.++|++|+|||+|+..++..
T Consensus       132 ~i~~I~G~~GsGKTTL~~~l~~~  154 (349)
T 1pzn_A          132 AITEVFGEFGSGKTQLAHTLAVM  154 (349)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHH
Confidence            35778899999999999998853

>3b60_A Lipid A export ATP-binding/permease protein MSBA; ABC transporter, lipid flippase, hydrolase, inner membrane, lipid transport, membrane; HET: ANP; 3.70A {Salmonella typhimurium} SCOP: c.37.1.12 f.37.1.1 PDB: 3b5y_A* 3b5z_A* 3b5w_A

Probab=96.24  E-value=0.0038  Score=40.76  Aligned_cols=22  Identities=36%  Similarity=0.525  Sum_probs=19.1

Q ss_pred             eeEEEEeCCCCCHHHHHHHHHh
Q psy2514          13 GTVVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus        13 ~ki~v~G~~~vGKtsl~~~~~~   34 (71)
                      -.+.++|++|+|||||++.+..
T Consensus       370 ~~~~ivG~sGsGKSTLl~~l~g  391 (582)
T 3b60_A          370 KTVALVGRSGSGKSTIASLITR  391 (582)
T ss_dssp             CEEEEEECTTSSHHHHHHHHTT
T ss_pred             CEEEEECCCCCCHHHHHHHHhh
Confidence            4689999999999999997754

>3a8t_A Adenylate isopentenyltransferase; rossmann fold protein; HET: ATP; 2.37A {Humulus lupulus}

Probab=96.23  E-value=0.004  Score=38.62  Aligned_cols=22  Identities=23%  Similarity=0.356  Sum_probs=19.4

Q ss_pred             eeEEEEeCCCCCHHHHHHHHHh
Q psy2514          13 GTVVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus        13 ~ki~v~G~~~vGKtsl~~~~~~   34 (71)
                      .-++++|++|+|||+|...++.
T Consensus        41 ~lIvI~GPTgsGKTtLa~~LA~   62 (339)
T 3a8t_A           41 KLLVLMGATGTGKSRLSIDLAA   62 (339)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHT
T ss_pred             ceEEEECCCCCCHHHHHHHHHH
Confidence            3588999999999999998875

>3d8b_A Fidgetin-like protein 1; AAA+, ATPase, ADP, SGC, structural genomics consortium, ATP- hydrolase, magnesium, metal-binding, nucleotide-binding; HET: ADP; 2.00A {Homo sapiens}

Probab=96.23  E-value=0.0038  Score=38.35  Aligned_cols=23  Identities=13%  Similarity=0.229  Sum_probs=20.0

Q ss_pred             eeeEEEEeCCCCCHHHHHHHHHh
Q psy2514          12 KGTVVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus        12 ~~ki~v~G~~~vGKtsl~~~~~~   34 (71)
                      ...+++.|++|+|||++++.+..
T Consensus       117 ~~~vLl~GppGtGKT~la~aia~  139 (357)
T 3d8b_A          117 PKGILLFGPPGTGKTLIGKCIAS  139 (357)
T ss_dssp             CSEEEEESSTTSSHHHHHHHHHH
T ss_pred             CceEEEECCCCCCHHHHHHHHHH
Confidence            45789999999999999998874

>2qp9_X Vacuolar protein sorting-associated protein 4; ATPase domain, beta domain, C-terminal helix, ATP-binding, E nucleotide-binding; 2.90A {Saccharomyces cerevisiae} PDB: 2qpa_A*

Probab=96.23  E-value=0.0038  Score=38.37  Aligned_cols=22  Identities=18%  Similarity=0.345  Sum_probs=19.3

Q ss_pred             eeEEEEeCCCCCHHHHHHHHHh
Q psy2514          13 GTVVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus        13 ~ki~v~G~~~vGKtsl~~~~~~   34 (71)
                      ..+++.|++|+|||++++.+..
T Consensus        85 ~~iLL~GppGtGKT~la~ala~  106 (355)
T 2qp9_X           85 SGILLYGPPGTGKSYLAKAVAT  106 (355)
T ss_dssp             CCEEEECSTTSCHHHHHHHHHH
T ss_pred             ceEEEECCCCCcHHHHHHHHHH
Confidence            4589999999999999998774

>3crm_A TRNA delta(2)-isopentenylpyrophosphate transferase; ATP-binding, nucleotide-binding, nucleotidyltransferase, tRNA processing; 1.90A {Pseudomonas aeruginosa} PDB: 3crq_A 3crr_A

Probab=96.23  E-value=0.0053  Score=37.83  Aligned_cols=22  Identities=18%  Similarity=0.397  Sum_probs=19.3

Q ss_pred             eeEEEEeCCCCCHHHHHHHHHh
Q psy2514          13 GTVVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus        13 ~ki~v~G~~~vGKtsl~~~~~~   34 (71)
                      ..++++|.+|+|||++...+..
T Consensus         6 ~~i~i~GptGsGKTtla~~La~   27 (323)
T 3crm_A            6 PAIFLMGPTAAGKTDLAMALAD   27 (323)
T ss_dssp             EEEEEECCTTSCHHHHHHHHHH
T ss_pred             cEEEEECCCCCCHHHHHHHHHH
Confidence            3689999999999999988774

>2qgz_A Helicase loader, putative primosome component; structural genomics, PSI-2, protein structure initiative; 2.40A {Streptococcus pyogenes serotype M3}

Probab=96.22  E-value=0.0045  Score=37.49  Aligned_cols=23  Identities=17%  Similarity=0.384  Sum_probs=19.6

Q ss_pred             eeeEEEEeCCCCCHHHHHHHHHh
Q psy2514          12 KGTVVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus        12 ~~ki~v~G~~~vGKtsl~~~~~~   34 (71)
                      ...+++.|++|+|||.|+..+..
T Consensus       152 ~~~lll~G~~GtGKT~La~aia~  174 (308)
T 2qgz_A          152 QKGLYLYGDMGIGKSYLLAAMAH  174 (308)
T ss_dssp             CCEEEEECSTTSSHHHHHHHHHH
T ss_pred             CceEEEECCCCCCHHHHHHHHHH
Confidence            36789999999999999887664

>2r8r_A Sensor protein; KDPD, PFAM02702, MCSG, structural genomics, protein structure initiative, midwest center for structural genomics, kinase; 2.30A {Pseudomonas syringae PV}

Probab=96.22  E-value=0.0059  Score=36.00  Aligned_cols=24  Identities=17%  Similarity=0.122  Sum_probs=20.1

Q ss_pred             ceeeeEEEEeCCCCCHHHHHHHHH
Q psy2514          10 SIKGTVVIVGNGAVGKSSMIQRYC   33 (71)
Q Consensus        10 ~~~~ki~v~G~~~vGKtsl~~~~~   33 (71)
                      +-++++++.|.+|||||+++.+..
T Consensus         4 ~g~l~I~~~~kgGvGKTt~a~~la   27 (228)
T 2r8r_A            4 RGRLKVFLGAAPGVGKTYAMLQAA   27 (228)
T ss_dssp             CCCEEEEEESSTTSSHHHHHHHHH
T ss_pred             CceEEEEEECCCCCcHHHHHHHHH
Confidence            346899999999999999976654

>2r62_A Cell division protease FTSH homolog; ATPase domain, ATP-binding, cell CELL division, hydrolase, membrane, metal-binding; 3.30A {Helicobacter pylori} PDB: 2r65_A*

Probab=96.22  E-value=0.0013  Score=38.48  Aligned_cols=21  Identities=24%  Similarity=0.404  Sum_probs=18.5

Q ss_pred             eEEEEeCCCCCHHHHHHHHHh
Q psy2514          14 TVVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus        14 ki~v~G~~~vGKtsl~~~~~~   34 (71)
                      .+++.|++|+|||+++..+..
T Consensus        46 ~vll~G~~GtGKT~la~~la~   66 (268)
T 2r62_A           46 GVLLVGPPGTGKTLLAKAVAG   66 (268)
T ss_dssp             CCCCBCSSCSSHHHHHHHHHH
T ss_pred             eEEEECCCCCcHHHHHHHHHH
Confidence            478899999999999998774

>3exa_A TRNA delta(2)-isopentenylpyrophosphate transferase; alpha-beta protein, structural genomics, PSI-2, protein structure initiative; 2.30A {Bacillus halodurans} PDB: 2qgn_A

Probab=96.21  E-value=0.0045  Score=38.22  Aligned_cols=22  Identities=36%  Similarity=0.425  Sum_probs=19.1

Q ss_pred             eEEEEeCCCCCHHHHHHHHHhC
Q psy2514          14 TVVIVGNGAVGKSSMIQRYCRG   35 (71)
Q Consensus        14 ki~v~G~~~vGKtsl~~~~~~~   35 (71)
                      -++++|++|+|||+|...++..
T Consensus         5 ~i~i~GptgsGKt~la~~La~~   26 (322)
T 3exa_A            5 LVAIVGPTAVGKTKTSVMLAKR   26 (322)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHT
T ss_pred             EEEEECCCcCCHHHHHHHHHHh
Confidence            4788999999999999998753

>3co5_A Putative two-component system transcriptional RES regulator; structural genomics, APC89341.1; 2.40A {Neisseria gonorrhoeae}

Probab=96.20  E-value=0.0017  Score=34.96  Aligned_cols=22  Identities=9%  Similarity=0.276  Sum_probs=18.5

Q ss_pred             eeEEEEeCCCCCHHHHHHHHHh
Q psy2514          13 GTVVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus        13 ~ki~v~G~~~vGKtsl~~~~~~   34 (71)
                      ..+++.|++|+|||++++.+..
T Consensus        28 ~~vll~G~~GtGKt~lA~~i~~   49 (143)
T 3co5_A           28 SPVFLTGEAGSPFETVARYFHK   49 (143)
T ss_dssp             SCEEEEEETTCCHHHHHGGGCC
T ss_pred             CcEEEECCCCccHHHHHHHHHH
Confidence            4689999999999998876654

>1q3t_A Cytidylate kinase; nucleotide monophosphate kinase, CMP kinase, transferase; NMR {Streptococcus pneumoniae} SCOP: c.37.1.1

Probab=96.20  E-value=0.0054  Score=35.44  Aligned_cols=24  Identities=21%  Similarity=0.279  Sum_probs=20.4

Q ss_pred             eeeeEEEEeCCCCCHHHHHHHHHh
Q psy2514          11 IKGTVVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus        11 ~~~ki~v~G~~~vGKtsl~~~~~~   34 (71)
                      ....+.++|.+|+|||++...+..
T Consensus        15 ~~~~i~i~G~~gsGKst~~~~l~~   38 (236)
T 1q3t_A           15 KTIQIAIDGPASSGKSTVAKIIAK   38 (236)
T ss_dssp             CCCEEEEECSSCSSHHHHHHHHHH
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHH
Confidence            456799999999999999887764

>2px0_A Flagellar biosynthesis protein FLHF; SRP GTPase, flagellum, protein transport, biosynthetic protein; HET: GNP; 3.00A {Bacillus subtilis} PDB: 2px3_A* 3syn_A*

Probab=96.19  E-value=0.0044  Score=37.45  Aligned_cols=22  Identities=18%  Similarity=0.478  Sum_probs=18.8

Q ss_pred             eeeEEEEeCCCCCHHHHHHHHH
Q psy2514          12 KGTVVIVGNGAVGKSSMIQRYC   33 (71)
Q Consensus        12 ~~ki~v~G~~~vGKtsl~~~~~   33 (71)
                      .-.++++|.+|+|||+++..++
T Consensus       105 g~vi~lvG~~GsGKTTl~~~LA  126 (296)
T 2px0_A          105 SKYIVLFGSTGAGKTTTLAKLA  126 (296)
T ss_dssp             SSEEEEEESTTSSHHHHHHHHH
T ss_pred             CcEEEEECCCCCCHHHHHHHHH
Confidence            3468889999999999998765

>3lda_A DNA repair protein RAD51; DNA binding protein, ATP-binding, DNA damage, DNA recombinat repair, nucleotide-binding; HET: DNA; 2.50A {Saccharomyces cerevisiae} PDB: 1szp_A*

Probab=96.19  E-value=0.0042  Score=39.14  Aligned_cols=20  Identities=20%  Similarity=0.293  Sum_probs=17.9

Q ss_pred             eEEEEeCCCCCHHHHHHHHH
Q psy2514          14 TVVIVGNGAVGKSSMIQRYC   33 (71)
Q Consensus        14 ki~v~G~~~vGKtsl~~~~~   33 (71)
                      -+.++|++|+|||+|+..++
T Consensus       180 i~~I~G~sGsGKTTLl~~la  199 (400)
T 3lda_A          180 ITELFGEFRTGKSQLCHTLA  199 (400)
T ss_dssp             EEEEEESTTSSHHHHHHHHH
T ss_pred             EEEEEcCCCCChHHHHHHHH
Confidence            47788999999999999876

>1hqc_A RUVB; extended AAA-ATPase domain, complex with nucleotide, hydrolase; HET: ADE; 3.20A {Thermus thermophilus} SCOP: a.4.5.11 c.37.1.20 PDB: 1ixs_B* 1ixr_C*

Probab=96.17  E-value=0.0022  Score=38.27  Aligned_cols=22  Identities=14%  Similarity=0.398  Sum_probs=19.3

Q ss_pred             eeEEEEeCCCCCHHHHHHHHHh
Q psy2514          13 GTVVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus        13 ~ki~v~G~~~vGKtsl~~~~~~   34 (71)
                      ..+++.|++|+|||+++..+..
T Consensus        39 ~~vll~G~~GtGKT~la~~i~~   60 (324)
T 1hqc_A           39 EHLLLFGPPGLGKTTLAHVIAH   60 (324)
T ss_dssp             CCCEEECCTTCCCHHHHHHHHH
T ss_pred             CcEEEECCCCCCHHHHHHHHHH
Confidence            5689999999999999998764

>1p9r_A General secretion pathway protein E; bacterial type II secretion system cytoplasmic protein - GSPE, putative ATPase/ ATP binding protein; 2.50A {Vibrio cholerae} SCOP: c.37.1.11 PDB: 1p9w_A*

Probab=96.17  E-value=0.0042  Score=39.35  Aligned_cols=22  Identities=23%  Similarity=0.418  Sum_probs=19.1

Q ss_pred             eeEEEEeCCCCCHHHHHHHHHh
Q psy2514          13 GTVVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus        13 ~ki~v~G~~~vGKtsl~~~~~~   34 (71)
                      --++++|++|+||||+++.++.
T Consensus       168 gii~I~GpnGSGKTTlL~allg  189 (418)
T 1p9r_A          168 GIILVTGPTGSGKSTTLYAGLQ  189 (418)
T ss_dssp             EEEEEECSTTSCHHHHHHHHHH
T ss_pred             CeEEEECCCCCCHHHHHHHHHh
Confidence            3588999999999999998774

>3tqf_A HPR(Ser) kinase; transferase, hydrolase; 2.80A {Coxiella burnetii}

Probab=96.16  E-value=0.0064  Score=34.73  Aligned_cols=23  Identities=26%  Similarity=0.349  Sum_probs=20.1

Q ss_pred             eeEEEEeCCCCCHHHHHHHHHhC
Q psy2514          13 GTVVIVGNGAVGKSSMIQRYCRG   35 (71)
Q Consensus        13 ~ki~v~G~~~vGKtsl~~~~~~~   35 (71)
                      .-+++.|++|+|||+++..+...
T Consensus        17 ~gvli~G~SGaGKStlal~L~~r   39 (181)
T 3tqf_A           17 MGVLITGEANIGKSELSLALIDR   39 (181)
T ss_dssp             EEEEEEESSSSSHHHHHHHHHHT
T ss_pred             EEEEEEcCCCCCHHHHHHHHHHc
Confidence            46899999999999999988763

>1jr3_A DNA polymerase III subunit gamma; processivity, processivity clamp, clamp loader, AAA+ ATPase, transferase; HET: DNA; 2.70A {Escherichia coli} SCOP: a.80.1.1 c.37.1.20 PDB: 1xxh_B* 3glh_B* 3glf_B* 3gli_B* 3glg_B* 1xxi_B*

Probab=96.16  E-value=0.0045  Score=37.53  Aligned_cols=21  Identities=24%  Similarity=0.461  Sum_probs=18.6

Q ss_pred             eEEEEeCCCCCHHHHHHHHHh
Q psy2514          14 TVVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus        14 ki~v~G~~~vGKtsl~~~~~~   34 (71)
                      -+++.|++|+|||+++..+..
T Consensus        40 ~~ll~G~~G~GKT~la~~la~   60 (373)
T 1jr3_A           40 AYLFSGTRGVGKTSIARLLAK   60 (373)
T ss_dssp             EEEEESCTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            478999999999999998874

>1tf7_A KAIC; homohexamer, hexamer, circadian clock protein; HET: ATP; 2.80A {Synechococcus SP} SCOP: c.37.1.11 c.37.1.11 PDB: 3s1a_A* 1u9i_A* 2gbl_A* 3dvl_A* 3k0a_A* 3k09_A* 3jzm_A* 3k0e_A* 4dug_A* 3ua2_A* 3k0c_A* 3k0f_A*

Probab=96.16  E-value=0.0043  Score=40.01  Aligned_cols=19  Identities=16%  Similarity=0.476  Sum_probs=17.3

Q ss_pred             eEEEEeCCCCCHHHHHHHH
Q psy2514          14 TVVIVGNGAVGKSSMIQRY   32 (71)
Q Consensus        14 ki~v~G~~~vGKtsl~~~~   32 (71)
                      -++++|++|+|||+|+..+
T Consensus        41 ~~~l~G~nGsGKSTL~~~~   59 (525)
T 1tf7_A           41 STLVSGTSGTGKTLFSIQF   59 (525)
T ss_dssp             EEEEEESTTSSHHHHHHHH
T ss_pred             EEEEEcCCCCCHHHHHHHH
Confidence            5788999999999999996

>3pvs_A Replication-associated recombination protein A; maintenance of genome stability Pro recombination; 2.50A {Escherichia coli}

Probab=96.15  E-value=0.0043  Score=39.49  Aligned_cols=22  Identities=18%  Similarity=0.434  Sum_probs=19.4

Q ss_pred             eeEEEEeCCCCCHHHHHHHHHh
Q psy2514          13 GTVVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus        13 ~ki~v~G~~~vGKtsl~~~~~~   34 (71)
                      ..+++.|++|+|||++++.+..
T Consensus        51 ~~vLL~GppGtGKTtlAr~ia~   72 (447)
T 3pvs_A           51 HSMILWGPPGTGKTTLAEVIAR   72 (447)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHH
T ss_pred             cEEEEECCCCCcHHHHHHHHHH
Confidence            4689999999999999998774

>2r44_A Uncharacterized protein; putative ATPase, structural genomics, joint center for struc genomics, JCSG; HET: MSE PG4; 2.00A {Cytophaga hutchinsonii atcc 33406}

Probab=96.14  E-value=0.0025  Score=38.37  Aligned_cols=22  Identities=14%  Similarity=0.391  Sum_probs=19.3

Q ss_pred             eeEEEEeCCCCCHHHHHHHHHh
Q psy2514          13 GTVVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus        13 ~ki~v~G~~~vGKtsl~~~~~~   34 (71)
                      -.+++.|++|+|||++++.+..
T Consensus        47 ~~vll~G~pGtGKT~la~~la~   68 (331)
T 2r44_A           47 GHILLEGVPGLAKTLSVNTLAK   68 (331)
T ss_dssp             CCEEEESCCCHHHHHHHHHHHH
T ss_pred             CeEEEECCCCCcHHHHHHHHHH
Confidence            3689999999999999998775

>3vfd_A Spastin; ATPase, microtubule severing, hydrolase; 3.30A {Homo sapiens}

Probab=96.14  E-value=0.0044  Score=38.36  Aligned_cols=23  Identities=13%  Similarity=0.263  Sum_probs=20.2

Q ss_pred             eeeEEEEeCCCCCHHHHHHHHHh
Q psy2514          12 KGTVVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus        12 ~~ki~v~G~~~vGKtsl~~~~~~   34 (71)
                      ...+++.|++|+|||++++.++.
T Consensus       148 ~~~vLL~GppGtGKT~la~aia~  170 (389)
T 3vfd_A          148 ARGLLLFGPPGNGKTMLAKAVAA  170 (389)
T ss_dssp             CSEEEEESSTTSCHHHHHHHHHH
T ss_pred             CceEEEECCCCCCHHHHHHHHHH
Confidence            35799999999999999998874

>2z4s_A Chromosomal replication initiator protein DNAA; AAA+ ATPase, domain III (ATPase domain), ATP-binding, cytoplasm, DNA replication; HET: ADP; 3.00A {Thermotoga maritima} PDB: 2z4r_A*

Probab=96.13  E-value=0.0044  Score=39.24  Aligned_cols=22  Identities=23%  Similarity=0.427  Sum_probs=19.1

Q ss_pred             eeEEEEeCCCCCHHHHHHHHHh
Q psy2514          13 GTVVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus        13 ~ki~v~G~~~vGKtsl~~~~~~   34 (71)
                      --+++.|++|+|||+|++.+..
T Consensus       131 ~~lll~Gp~G~GKTtLa~aia~  152 (440)
T 2z4s_A          131 NPLFIYGGVGLGKTHLLQSIGN  152 (440)
T ss_dssp             CCEEEECSSSSSHHHHHHHHHH
T ss_pred             CeEEEECCCCCCHHHHHHHHHH
Confidence            4588999999999999987764

>3m6a_A ATP-dependent protease LA 1; alpha, beta, ATP-binding, hydrolase, nucleotide-binding, Pro serine protease, stress response; HET: ADP; 3.40A {Bacillus subtilis} PDB: 1x37_A

Probab=96.13  E-value=0.0042  Score=40.35  Aligned_cols=22  Identities=23%  Similarity=0.452  Sum_probs=18.8

Q ss_pred             eeEEEEeCCCCCHHHHHHHHHh
Q psy2514          13 GTVVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus        13 ~ki~v~G~~~vGKtsl~~~~~~   34 (71)
                      --++++|++|+|||++++.+..
T Consensus       109 ~~vll~Gp~GtGKTtlar~ia~  130 (543)
T 3m6a_A          109 PILCLAGPPGVGKTSLAKSIAK  130 (543)
T ss_dssp             CEEEEESSSSSSHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHH
Confidence            3588999999999999987763

>1svm_A Large T antigen; AAA+ fold, viral protein; HET: ATP; 1.94A {Simian virus 40} SCOP: c.37.1.20 PDB: 1svl_A* 1svo_A 1n25_A 2h1l_A

Probab=96.11  E-value=0.0048  Score=38.64  Aligned_cols=24  Identities=17%  Similarity=0.134  Sum_probs=19.8

Q ss_pred             eeeeEEEEeCCCCCHHHHHHHHHh
Q psy2514          11 IKGTVVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus        11 ~~~ki~v~G~~~vGKtsl~~~~~~   34 (71)
                      ..-.++++|++|+|||+++..+..
T Consensus       168 ~~~~i~l~G~~GsGKSTl~~~l~~  191 (377)
T 1svm_A          168 KKRYWLFKGPIDSGKTTLAAALLE  191 (377)
T ss_dssp             TCCEEEEECSTTSSHHHHHHHHHH
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHh
Confidence            345788999999999999987763

>1vma_A Cell division protein FTSY; TM0570, structural genomics, JCS protein structure initiative, PSI, joint center for structu genomics; HET: CIT; 1.60A {Thermotoga maritima} SCOP: a.24.13.1 c.37.1.10

Probab=96.10  E-value=0.0051  Score=37.42  Aligned_cols=21  Identities=19%  Similarity=0.379  Sum_probs=18.4

Q ss_pred             eeEEEEeCCCCCHHHHHHHHH
Q psy2514          13 GTVVIVGNGAVGKSSMIQRYC   33 (71)
Q Consensus        13 ~ki~v~G~~~vGKtsl~~~~~   33 (71)
                      --++++|.+|+|||+++..++
T Consensus       105 ~vi~ivG~~GsGKTTl~~~LA  125 (306)
T 1vma_A          105 FVIMVVGVNGTGKTTSCGKLA  125 (306)
T ss_dssp             EEEEEECCTTSSHHHHHHHHH
T ss_pred             eEEEEEcCCCChHHHHHHHHH
Confidence            468899999999999998776

>3d3q_A TRNA delta(2)-isopentenylpyrophosphate transferase; alpha-beta protein, structural genomics, PSI-2; 2.70A {Staphylococcus epidermidis atcc 12228}

Probab=96.10  E-value=0.005  Score=38.19  Aligned_cols=22  Identities=32%  Similarity=0.403  Sum_probs=19.2

Q ss_pred             eeEEEEeCCCCCHHHHHHHHHh
Q psy2514          13 GTVVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus        13 ~ki~v~G~~~vGKtsl~~~~~~   34 (71)
                      .-+++.|.+|+|||++...+..
T Consensus         8 ~lI~I~GptgSGKTtla~~La~   29 (340)
T 3d3q_A            8 FLIVIVGPTASGKTELSIEVAK   29 (340)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHH
T ss_pred             ceEEEECCCcCcHHHHHHHHHH
Confidence            4688999999999999988774

>2oap_1 GSPE-2, type II secretion system protein; hexameric ATPase, hydrolase; HET: ANP; 2.95A {Archaeoglobus fulgidus} PDB: 2oaq_1

Probab=96.09  E-value=0.005  Score=39.91  Aligned_cols=22  Identities=23%  Similarity=0.389  Sum_probs=19.2

Q ss_pred             eeEEEEeCCCCCHHHHHHHHHh
Q psy2514          13 GTVVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus        13 ~ki~v~G~~~vGKtsl~~~~~~   34 (71)
                      ..++++|.+|+||||+++.++.
T Consensus       261 ~~i~I~GptGSGKTTlL~aL~~  282 (511)
T 2oap_1          261 FSAIVVGETASGKTTTLNAIMM  282 (511)
T ss_dssp             CCEEEEESTTSSHHHHHHHHGG
T ss_pred             CEEEEECCCCCCHHHHHHHHHh
Confidence            3489999999999999998764

>1iqp_A RFCS; clamp loader, extended AAA-ATPase domain, complex with ADP, replication; HET: ADP; 2.80A {Pyrococcus furiosus} SCOP: a.80.1.1 c.37.1.20

Probab=96.09  E-value=0.0052  Score=36.49  Aligned_cols=22  Identities=23%  Similarity=0.394  Sum_probs=19.1

Q ss_pred             eEEEEeCCCCCHHHHHHHHHhC
Q psy2514          14 TVVIVGNGAVGKSSMIQRYCRG   35 (71)
Q Consensus        14 ki~v~G~~~vGKtsl~~~~~~~   35 (71)
                      .+++.|++|+|||+++..+...
T Consensus        48 ~~ll~G~~G~GKT~la~~l~~~   69 (327)
T 1iqp_A           48 HLLFAGPPGVGKTTAALALARE   69 (327)
T ss_dssp             EEEEESCTTSSHHHHHHHHHHH
T ss_pred             eEEEECcCCCCHHHHHHHHHHH
Confidence            3899999999999999887753

>3euj_A Chromosome partition protein MUKB, linker; MUKB, MUKE, chromosome condensation, condensin, SMC, N subunit, ABC-type ATPase, WHD, ATP-binding; HET: AGS; 3.10A {Haemophilus ducreyi} PDB: 3euk_A*

Probab=96.08  E-value=0.005  Score=39.80  Aligned_cols=21  Identities=19%  Similarity=0.393  Sum_probs=18.1

Q ss_pred             eeEEEEeCCCCCHHHHHHHHH
Q psy2514          13 GTVVIVGNGAVGKSSMIQRYC   33 (71)
Q Consensus        13 ~ki~v~G~~~vGKtsl~~~~~   33 (71)
                      -.+.++|++|+|||||+..+.
T Consensus        30 e~~~liG~nGsGKSTLl~~l~   50 (483)
T 3euj_A           30 LVTTLSGGNGAGKSTTMAGFV   50 (483)
T ss_dssp             SEEEEECCTTSSHHHHHHHHH
T ss_pred             ceEEEECCCCCcHHHHHHHHh
Confidence            357889999999999998766

>3ake_A Cytidylate kinase; CMP kinase, CMP complex, open conformation, nucleotide metab transferase; HET: C5P; 1.50A {Thermus thermophilus} PDB: 3akc_A* 3akd_A*

Probab=96.08  E-value=0.0058  Score=34.19  Aligned_cols=21  Identities=43%  Similarity=0.499  Sum_probs=18.4

Q ss_pred             eEEEEeCCCCCHHHHHHHHHh
Q psy2514          14 TVVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus        14 ki~v~G~~~vGKtsl~~~~~~   34 (71)
                      .+.+.|.+|+|||++...+..
T Consensus         4 ~i~i~G~~GsGKst~~~~la~   24 (208)
T 3ake_A            4 IVTIDGPSASGKSSVARRVAA   24 (208)
T ss_dssp             EEEEECSTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            688999999999999987764

>1yqt_A RNAse L inhibitor; ATP-binding cassette, ribosome biogenesis, hydrolyase/translation complex; HET: ADP; 1.90A {Pyrococcus furiosus}

Probab=96.07  E-value=0.0075  Score=39.23  Aligned_cols=23  Identities=30%  Similarity=0.351  Sum_probs=19.5

Q ss_pred             eeEEEEeCCCCCHHHHHHHHHhC
Q psy2514          13 GTVVIVGNGAVGKSSMIQRYCRG   35 (71)
Q Consensus        13 ~ki~v~G~~~vGKtsl~~~~~~~   35 (71)
                      =.+.++|++|+|||||++-+..-
T Consensus        48 e~~~LvG~NGaGKSTLlk~l~Gl   70 (538)
T 1yqt_A           48 MVVGIVGPNGTGKSTAVKILAGQ   70 (538)
T ss_dssp             SEEEEECCTTSSHHHHHHHHHTS
T ss_pred             CEEEEECCCCCCHHHHHHHHhCC
Confidence            36789999999999999987653

>4b4t_K 26S protease regulatory subunit 6B homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=96.06  E-value=0.005  Score=39.20  Aligned_cols=22  Identities=18%  Similarity=0.392  Sum_probs=19.4

Q ss_pred             eeEEEEeCCCCCHHHHHHHHHh
Q psy2514          13 GTVVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus        13 ~ki~v~G~~~vGKtsl~~~~~~   34 (71)
                      --+++.|++|+|||+++..++.
T Consensus       207 rGiLL~GPPGtGKT~lakAiA~  228 (428)
T 4b4t_K          207 RGVLLYGPPGTGKTMLVKAVAN  228 (428)
T ss_dssp             CEEEEESCTTTTHHHHHHHHHH
T ss_pred             ceEEEECCCCCCHHHHHHHHHH
Confidence            4589999999999999998874

>1c9k_A COBU, adenosylcobinamide kinase; alpha/beta structure rossmann fold P-loop, transferase; HET: 5GP; 2.20A {Salmonella typhimurium} SCOP: c.37.1.11 PDB: 1cbu_A

Probab=96.04  E-value=0.0065  Score=34.52  Aligned_cols=21  Identities=19%  Similarity=0.362  Sum_probs=19.0

Q ss_pred             EEEEeCCCCCHHHHHHHHHhC
Q psy2514          15 VVIVGNGAVGKSSMIQRYCRG   35 (71)
Q Consensus        15 i~v~G~~~vGKtsl~~~~~~~   35 (71)
                      ++++|.+++|||++..++...
T Consensus         2 ilV~Gg~~SGKS~~A~~la~~   22 (180)
T 1c9k_A            2 ILVTGGARSGKSRHAEALIGD   22 (180)
T ss_dssp             EEEEECTTSSHHHHHHHHHCS
T ss_pred             EEEECCCCCcHHHHHHHHHhc
Confidence            689999999999999999854

>2chq_A Replication factor C small subunit; DNA-binding protein, DNA replication, clamp loader, AAA+ ATP ATP-binding, nucleotide-binding; HET: ANP; 3.5A {Archaeoglobus fulgidus} PDB: 2chv_A

Probab=96.02  E-value=0.0056  Score=36.22  Aligned_cols=22  Identities=18%  Similarity=0.330  Sum_probs=18.9

Q ss_pred             eEEEEeCCCCCHHHHHHHHHhC
Q psy2514          14 TVVIVGNGAVGKSSMIQRYCRG   35 (71)
Q Consensus        14 ki~v~G~~~vGKtsl~~~~~~~   35 (71)
                      .+++.|++|+|||+++..+...
T Consensus        40 ~~ll~G~~G~GKt~la~~l~~~   61 (319)
T 2chq_A           40 HLLFSGPPGTGKTATAIALARD   61 (319)
T ss_dssp             CEEEESSSSSSHHHHHHHHHHH
T ss_pred             eEEEECcCCcCHHHHHHHHHHH
Confidence            3899999999999999887643

>1sxj_B Activator 1 37 kDa subunit; clamp loader, processivity clamp, DNA sliding clamp, AAA+ at polymerase, DNA-binding protein; HET: AGS ADP; 2.85A {Saccharomyces cerevisiae} SCOP: a.80.1.1 c.37.1.20

Probab=96.02  E-value=0.0059  Score=36.18  Aligned_cols=21  Identities=19%  Similarity=0.444  Sum_probs=18.6

Q ss_pred             EEEEeCCCCCHHHHHHHHHhC
Q psy2514          15 VVIVGNGAVGKSSMIQRYCRG   35 (71)
Q Consensus        15 i~v~G~~~vGKtsl~~~~~~~   35 (71)
                      +++.|++|+|||+++..+...
T Consensus        45 ~ll~G~~G~GKt~la~~l~~~   65 (323)
T 1sxj_B           45 MIISGMPGIGKTTSVHCLAHE   65 (323)
T ss_dssp             EEEECSTTSSHHHHHHHHHHH
T ss_pred             EEEECcCCCCHHHHHHHHHHH
Confidence            899999999999999887643

>2grj_A Dephospho-COA kinase; TM1387, EC 2.7.1.24, dephosphocoenzyme kinase, structural genomics, joint center for structural GE JCSG; HET: ADP COD; 2.60A {Thermotoga maritima}

Probab=96.01  E-value=0.0092  Score=33.93  Aligned_cols=26  Identities=15%  Similarity=0.139  Sum_probs=21.5

Q ss_pred             ceeeeEEEEeCCCCCHHHHHHHHHhC
Q psy2514          10 SIKGTVVIVGNGAVGKSSMIQRYCRG   35 (71)
Q Consensus        10 ~~~~ki~v~G~~~vGKtsl~~~~~~~   35 (71)
                      ...+.|.+.|.+|+|||++...+...
T Consensus        10 ~~~~iIgltG~~GSGKSTva~~L~~~   35 (192)
T 2grj_A           10 HHHMVIGVTGKIGTGKSTVCEILKNK   35 (192)
T ss_dssp             CCEEEEEEECSTTSSHHHHHHHHHHH
T ss_pred             ccceEEEEECCCCCCHHHHHHHHHHh
Confidence            34578899999999999999887653

>1g8p_A Magnesium-chelatase 38 kDa subunit; parallel beta sheet, P-loop, rossman fold, AAA+, photosynthesis, metal transport; 2.10A {Rhodobacter capsulatus} SCOP: c.37.1.20 PDB: 2x31_G

Probab=96.01  E-value=0.0022  Score=38.59  Aligned_cols=21  Identities=24%  Similarity=0.514  Sum_probs=18.9

Q ss_pred             eEEEEeCCCCCHHHHHHHHHh
Q psy2514          14 TVVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus        14 ki~v~G~~~vGKtsl~~~~~~   34 (71)
                      .+++.|++|+|||++++.+..
T Consensus        47 ~vLl~G~~GtGKT~la~~la~   67 (350)
T 1g8p_A           47 GVLVFGDRGTGKSTAVRALAA   67 (350)
T ss_dssp             CEEEECCGGGCTTHHHHHHHH
T ss_pred             eEEEECCCCccHHHHHHHHHH
Confidence            499999999999999998875

>4fn5_A EF-G 1, elongation factor G 1; translation, translation-antibiotic compl; HET: 0UO; 2.90A {Pseudomonas aeruginosa}

Probab=95.99  E-value=0.027  Score=37.74  Aligned_cols=23  Identities=17%  Similarity=0.182  Sum_probs=20.6

Q ss_pred             eeeeEEEEeCCCCCHHHHHHHHH
Q psy2514          11 IKGTVVIVGNGAVGKSSMIQRYC   33 (71)
Q Consensus        11 ~~~ki~v~G~~~vGKtsl~~~~~   33 (71)
                      ..-+++++|..+.|||||..+++
T Consensus        12 ~IRNi~IiaHvd~GKTTL~d~LL   34 (709)
T 4fn5_A           12 RYRNIGICAHVDAGKTTTTERVL   34 (709)
T ss_dssp             GEEEEEEECCSSSCHHHHHHHHH
T ss_pred             HCeEEEEEcCCCCCHHHHHHHHH
Confidence            45789999999999999999876

>1sxj_A Activator 1 95 kDa subunit; clamp loader, processivity clamp, DNA sliding clamp, AAA+ at polymerase, DNA-binding protein; HET: AGS ADP; 2.85A {Saccharomyces cerevisiae} SCOP: a.80.1.1 c.37.1.20

Probab=95.99  E-value=0.0057  Score=39.36  Aligned_cols=22  Identities=14%  Similarity=0.333  Sum_probs=19.5

Q ss_pred             eeEEEEeCCCCCHHHHHHHHHh
Q psy2514          13 GTVVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus        13 ~ki~v~G~~~vGKtsl~~~~~~   34 (71)
                      --+++.|++|+|||++++.+..
T Consensus        78 ~~lLL~GppGtGKTtla~~la~   99 (516)
T 1sxj_A           78 RAAMLYGPPGIGKTTAAHLVAQ   99 (516)
T ss_dssp             SEEEEECSTTSSHHHHHHHHHH
T ss_pred             cEEEEECCCCCCHHHHHHHHHH
Confidence            4788999999999999998874

>3b5x_A Lipid A export ATP-binding/permease protein MSBA; ABC transporter, lipid flippase, hydrolase, inner membrane, lipid transport, membrane; 5.50A {Vibrio cholerae}

Probab=95.96  E-value=0.0074  Score=39.39  Aligned_cols=23  Identities=35%  Similarity=0.577  Sum_probs=19.5

Q ss_pred             eeeEEEEeCCCCCHHHHHHHHHh
Q psy2514          12 KGTVVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus        12 ~~ki~v~G~~~vGKtsl~~~~~~   34 (71)
                      .-.+.++|++|+|||||++-+..
T Consensus       369 G~~~~ivG~sGsGKSTll~~l~g  391 (582)
T 3b5x_A          369 GKTVALVGRSGSGKSTIANLFTR  391 (582)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhc
Confidence            34688999999999999987764

>2j37_W Signal recognition particle 54 kDa protein (SRP54); ribosome, SRP, translation/RNA; 8.00A {Canis SP} PDB: 1wgw_A

Probab=95.95  E-value=0.0078  Score=39.05  Aligned_cols=23  Identities=17%  Similarity=0.371  Sum_probs=19.5

Q ss_pred             eeeeEEEEeCCCCCHHHHHHHHH
Q psy2514          11 IKGTVVIVGNGAVGKSSMIQRYC   33 (71)
Q Consensus        11 ~~~ki~v~G~~~vGKtsl~~~~~   33 (71)
                      ....|+++|.+|+||||++.+++
T Consensus       100 ~~~vI~ivG~~GvGKTTl~~kLA  122 (504)
T 2j37_W          100 KQNVIMFVGLQGSGKTTTCSKLA  122 (504)
T ss_dssp             --EEEEEECSTTSSHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHH
Confidence            34679999999999999999987

>3foz_A TRNA delta(2)-isopentenylpyrophosphate transferas; nucleoside modification, isopentenyl-tRNA transferase, transferase-RNA complex; 2.50A {Escherichia coli k-12} PDB: 2zxu_A* 2zm5_A

Probab=95.95  E-value=0.0092  Score=36.74  Aligned_cols=22  Identities=18%  Similarity=0.403  Sum_probs=19.0

Q ss_pred             eeEEEEeCCCCCHHHHHHHHHh
Q psy2514          13 GTVVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus        13 ~ki~v~G~~~vGKtsl~~~~~~   34 (71)
                      .-++++|++|+|||+|...+..
T Consensus        11 ~~i~i~GptgsGKt~la~~La~   32 (316)
T 3foz_A           11 KAIFLMGPTASGKTALAIELRK   32 (316)
T ss_dssp             EEEEEECCTTSCHHHHHHHHHH
T ss_pred             cEEEEECCCccCHHHHHHHHHH
Confidence            3578899999999999998874

>1z6t_A APAF-1, apoptotic protease activating factor 1; caspase activation, ADP, nucleotide binding, CARD, apoptosis; HET: ADP; 2.21A {Homo sapiens}

Probab=95.94  E-value=0.006  Score=39.33  Aligned_cols=22  Identities=36%  Similarity=0.450  Sum_probs=19.0

Q ss_pred             eeEEEEeCCCCCHHHHHHHHHh
Q psy2514          13 GTVVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus        13 ~ki~v~G~~~vGKtsl~~~~~~   34 (71)
                      --+++.|.+|+|||+|+..+..
T Consensus       148 ~~v~I~G~~GiGKTtLa~~~~~  169 (591)
T 1z6t_A          148 GWVTIHGMAGCGKSVLAAEAVR  169 (591)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHC
T ss_pred             ceEEEEcCCCCCHHHHHHHHHh
Confidence            3578999999999999998864

>2zan_A Vacuolar protein sorting-associating protein 4B; SKD1, VPS4B, AAA ATPase, ATP-binding, coiled coil, membrane, nucleotide-binding, phosphorylation; HET: ATP; 3.00A {Mus musculus} PDB: 2zam_A* 2zao_A* 2jqh_A 2jqk_A 1wr0_A 2jq9_A 2k3w_A 1yxr_A

Probab=95.94  E-value=0.0063  Score=38.53  Aligned_cols=23  Identities=17%  Similarity=0.316  Sum_probs=20.2

Q ss_pred             eeEEEEeCCCCCHHHHHHHHHhC
Q psy2514          13 GTVVIVGNGAVGKSSMIQRYCRG   35 (71)
Q Consensus        13 ~ki~v~G~~~vGKtsl~~~~~~~   35 (71)
                      ..+++.|++|+|||+++..+...
T Consensus       168 ~~vLL~GppGtGKT~lA~aia~~  190 (444)
T 2zan_A          168 RGILLFGPPGTGKSYLAKAVATE  190 (444)
T ss_dssp             SEEEEECSTTSSHHHHHHHHHHH
T ss_pred             ceEEEECCCCCCHHHHHHHHHHH
Confidence            56899999999999999988753

>1f2t_A RAD50 ABC-ATPase; DNA double-strand break repair, replication; 1.60A {Pyrococcus furiosus} SCOP: c.37.1.12 PDB: 1f2u_A* 1us8_A*

Probab=95.91  E-value=0.0068  Score=33.01  Aligned_cols=19  Identities=32%  Similarity=0.559  Sum_probs=16.2

Q ss_pred             EEEEeCCCCCHHHHHHHHH
Q psy2514          15 VVIVGNGAVGKSSMIQRYC   33 (71)
Q Consensus        15 i~v~G~~~vGKtsl~~~~~   33 (71)
                      .+++|+.|+|||+++..+.
T Consensus        26 ~~I~G~NGsGKStil~Ai~   44 (149)
T 1f2t_A           26 NLIIGQNGSGKSSLLDAIL   44 (149)
T ss_dssp             EEEECCTTSSHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHH
Confidence            4678999999999988754

>4b4t_M 26S protease regulatory subunit 6A; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=95.89  E-value=0.0068  Score=38.69  Aligned_cols=23  Identities=13%  Similarity=0.242  Sum_probs=20.0

Q ss_pred             eeeEEEEeCCCCCHHHHHHHHHh
Q psy2514          12 KGTVVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus        12 ~~ki~v~G~~~vGKtsl~~~~~~   34 (71)
                      .-.+++.|++|+|||.++..++.
T Consensus       215 prGvLLyGPPGTGKTllAkAiA~  237 (434)
T 4b4t_M          215 PKGALMYGPPGTGKTLLARACAA  237 (434)
T ss_dssp             CCEEEEESCTTSSHHHHHHHHHH
T ss_pred             CCeeEEECcCCCCHHHHHHHHHH
Confidence            35789999999999999998774

>1ko7_A HPR kinase/phosphatase; protein kinase, phosphotransfer, protein phosphatase, dual activity, product, substrate, transferase, hydrolase; 1.95A {Staphylococcus xylosus} SCOP: c.98.2.1 c.91.1.2

Probab=95.88  E-value=0.0083  Score=36.84  Aligned_cols=23  Identities=26%  Similarity=0.404  Sum_probs=20.4

Q ss_pred             eeEEEEeCCCCCHHHHHHHHHhC
Q psy2514          13 GTVVIVGNGAVGKSSMIQRYCRG   35 (71)
Q Consensus        13 ~ki~v~G~~~vGKtsl~~~~~~~   35 (71)
                      .-+++.|++|+|||+++..+...
T Consensus       145 ~~vl~~G~sG~GKSt~a~~l~~~  167 (314)
T 1ko7_A          145 VGVLITGDSGIGKSETALELIKR  167 (314)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHT
T ss_pred             EEEEEEeCCCCCHHHHHHHHHhc
Confidence            56899999999999999998864

>1w5s_A Origin recognition complex subunit 2 ORC2; replication, CDC6, DNA replication initiation, DNA BIND protein, AAA+ ATPase; HET: ADP; 2.4A {Aeropyrum pernix} SCOP: a.4.5.11 c.37.1.20 PDB: 1w5t_A*

Probab=95.88  E-value=0.0041  Score=38.11  Aligned_cols=21  Identities=14%  Similarity=0.456  Sum_probs=17.4

Q ss_pred             eEEE--EeCCCCCHHHHHHHHHh
Q psy2514          14 TVVI--VGNGAVGKSSMIQRYCR   34 (71)
Q Consensus        14 ki~v--~G~~~vGKtsl~~~~~~   34 (71)
                      -+++  .|++|+|||+++..+..
T Consensus        52 ~~li~i~G~~G~GKT~L~~~~~~   74 (412)
T 1w5s_A           52 NMIYGSIGRVGIGKTTLAKFTVK   74 (412)
T ss_dssp             EEEEECTTCCSSSHHHHHHHHHH
T ss_pred             EEEEeCcCcCCCCHHHHHHHHHH
Confidence            4555  69999999999998874

>1azs_C GS-alpha; complex (lyase/hydrolase), hydrolase, signal transducing protein, cyclase, effector enzyme; HET: GSP FKP; 2.30A {Bos taurus} SCOP: a.66.1.1 c.37.1.8 PDB: 1azt_A* 3c14_C* 3c15_C* 3c16_C* 1cjt_C* 1cjk_C* 1cju_C* 1cjv_C* 1tl7_C* 1cs4_C* 1u0h_C* 2gvd_C* 2gvz_C* 3e8a_C* 3g82_C* 3maa_C* 1cul_C* 3sn6_A*

Probab=95.88  E-value=0.02  Score=36.24  Aligned_cols=24  Identities=13%  Similarity=-0.017  Sum_probs=15.6

Q ss_pred             CcceeeEEEEEEeCCEEEEEEEcCCCC
Q psy2514          44 TIGVKSSMIQRYCRGTFTRDYKKTIGA   70 (71)
Q Consensus        44 t~~~~~~~~~~~~~~~~~l~i~Dt~G~   70 (71)
                      |+|+++  ..+..++ +.++||||+|+
T Consensus       204 TiGi~~--~~~~~~~-v~l~iwDtaGQ  227 (402)
T 1azs_C          204 TSGIFE--TKFQVDK-VNFHMFDVGGQ  227 (402)
T ss_dssp             CCSEEE--EEEEETT-EEEEEEEECCS
T ss_pred             eeeeEE--EEeecCC-ccceecccchh
Confidence            444433  2344444 89999999996

>4b4t_L 26S protease subunit RPT4; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=95.86  E-value=0.0071  Score=38.63  Aligned_cols=23  Identities=17%  Similarity=0.286  Sum_probs=20.0

Q ss_pred             eeeEEEEeCCCCCHHHHHHHHHh
Q psy2514          12 KGTVVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus        12 ~~ki~v~G~~~vGKtsl~~~~~~   34 (71)
                      .--+++.|++|+|||.++..++.
T Consensus       215 prGvLL~GPPGtGKTllAkAiA~  237 (437)
T 4b4t_L          215 PKGVLLYGPPGTGKTLLAKAVAA  237 (437)
T ss_dssp             CCEEEEESCTTSSHHHHHHHHHH
T ss_pred             CCeEEEECCCCCcHHHHHHHHHH
Confidence            35789999999999999998774

>3bh0_A DNAB-like replicative helicase; ATPase, replication; 2.35A {Bacillus phage SPP1}

Probab=95.85  E-value=0.0075  Score=36.55  Aligned_cols=21  Identities=19%  Similarity=0.395  Sum_probs=18.3

Q ss_pred             eEEEEeCCCCCHHHHHHHHHh
Q psy2514          14 TVVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus        14 ki~v~G~~~vGKtsl~~~~~~   34 (71)
                      -+++.|.+|+|||+|+.+++.
T Consensus        70 l~li~G~pG~GKTtl~l~ia~   90 (315)
T 3bh0_A           70 FVLIAARPSMGKTAFALKQAK   90 (315)
T ss_dssp             EEEEECCTTSSHHHHHHHHHH
T ss_pred             EEEEEeCCCCCHHHHHHHHHH
Confidence            477889999999999998874

>1tf7_A KAIC; homohexamer, hexamer, circadian clock protein; HET: ATP; 2.80A {Synechococcus SP} SCOP: c.37.1.11 c.37.1.11 PDB: 3s1a_A* 1u9i_A* 2gbl_A* 3dvl_A* 3k0a_A* 3k09_A* 3jzm_A* 3k0e_A* 4dug_A* 3ua2_A* 3k0c_A* 3k0f_A*

Probab=95.81  E-value=0.0083  Score=38.68  Aligned_cols=22  Identities=18%  Similarity=0.533  Sum_probs=19.2

Q ss_pred             eEEEEeCCCCCHHHHHHHHHhC
Q psy2514          14 TVVIVGNGAVGKSSMIQRYCRG   35 (71)
Q Consensus        14 ki~v~G~~~vGKtsl~~~~~~~   35 (71)
                      -++++|++|+|||+|+..++..
T Consensus       283 i~~i~G~~GsGKSTLl~~l~g~  304 (525)
T 1tf7_A          283 IILATGATGTGKTLLVSRFVEN  304 (525)
T ss_dssp             EEEEEECTTSSHHHHHHHHHHH
T ss_pred             EEEEEeCCCCCHHHHHHHHHHH
Confidence            5788899999999999998753

>1r6b_X CLPA protein; AAA+, N-terminal domain, CLPS, crystal, binding mechanism, hydrolase; HET: ADP; 2.25A {Escherichia coli} SCOP: a.174.1.1 c.37.1.20 c.37.1.20 PDB: 1ksf_X*

Probab=95.80  E-value=0.0083  Score=40.06  Aligned_cols=24  Identities=25%  Similarity=0.465  Sum_probs=20.2

Q ss_pred             eeeeEEEEeCCCCCHHHHHHHHHh
Q psy2514          11 IKGTVVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus        11 ~~~ki~v~G~~~vGKtsl~~~~~~   34 (71)
                      ....++++|++|+|||++++.+..
T Consensus       206 ~~~~vlL~G~~GtGKT~la~~la~  229 (758)
T 1r6b_X          206 RKNNPLLVGESGVGKTAIAEGLAW  229 (758)
T ss_dssp             SSCEEEEECCTTSSHHHHHHHHHH
T ss_pred             CCCCeEEEcCCCCCHHHHHHHHHH
Confidence            345689999999999999987764

>2ce7_A Cell division protein FTSH; metalloprotease; HET: ADP; 2.44A {Thermotoga maritima} SCOP: a.269.1.1 c.37.1.20 PDB: 2cea_A* 3kds_E*

Probab=95.80  E-value=0.0079  Score=38.74  Aligned_cols=21  Identities=19%  Similarity=0.400  Sum_probs=18.7

Q ss_pred             eEEEEeCCCCCHHHHHHHHHh
Q psy2514          14 TVVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus        14 ki~v~G~~~vGKtsl~~~~~~   34 (71)
                      -++++|++|+|||++++.+..
T Consensus        51 gvLL~GppGtGKT~Laraia~   71 (476)
T 2ce7_A           51 GILLVGPPGTGKTLLARAVAG   71 (476)
T ss_dssp             EEEEECCTTSSHHHHHHHHHH
T ss_pred             eEEEECCCCCCHHHHHHHHHH
Confidence            489999999999999998774

>1tue_A Replication protein E1; helicase, replication, E1E2 complex, AAA+ protein; 2.10A {Human papillomavirus type 18} SCOP: c.37.1.20

Probab=95.80  E-value=0.0061  Score=35.60  Aligned_cols=22  Identities=27%  Similarity=0.383  Sum_probs=17.8

Q ss_pred             eeeEEEEeCCCCCHHHHHHHHH
Q psy2514          12 KGTVVIVGNGAVGKSSMIQRYC   33 (71)
Q Consensus        12 ~~ki~v~G~~~vGKtsl~~~~~   33 (71)
                      +-.+++.|++|+|||+++..++
T Consensus        58 kn~ili~GPPGtGKTt~a~ala   79 (212)
T 1tue_A           58 KNCLVFCGPANTGKSYFGMSFI   79 (212)
T ss_dssp             CSEEEEESCGGGCHHHHHHHHH
T ss_pred             ccEEEEECCCCCCHHHHHHHHH
Confidence            3458999999999998876655

>2a5y_B CED-4; apoptosis; HET: ATP; 2.60A {Caenorhabditis elegans} SCOP: a.4.5.80 a.77.1.3 c.37.1.20 PDB: 3lqq_A* 3lqr_A*

Probab=95.79  E-value=0.011  Score=38.13  Aligned_cols=22  Identities=18%  Similarity=0.194  Sum_probs=19.5

Q ss_pred             eeEEEEeCCCCCHHHHHHHHHh
Q psy2514          13 GTVVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus        13 ~ki~v~G~~~vGKtsl~~~~~~   34 (71)
                      --+.++|.+|+|||+|+..+.+
T Consensus       153 ~vv~I~G~gGvGKTtLA~~v~~  174 (549)
T 2a5y_B          153 FFLFLHGRAGSGKSVIASQALS  174 (549)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHH
T ss_pred             eEEEEEcCCCCCHHHHHHHHHH
Confidence            4578899999999999999885

>1ojl_A Transcriptional regulatory protein ZRAR; response regulator, two component system, AAA domain, NTRC family, DNA-binding; HET: ATP; 3.0A {Salmonella typhimurium}

Probab=95.79  E-value=0.0083  Score=36.19  Aligned_cols=23  Identities=26%  Similarity=0.408  Sum_probs=19.8

Q ss_pred             eeeEEEEeCCCCCHHHHHHHHHh
Q psy2514          12 KGTVVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus        12 ~~ki~v~G~~~vGKtsl~~~~~~   34 (71)
                      ...+++.|++|+|||.+++.+..
T Consensus        25 ~~~vLi~Ge~GtGKt~lAr~i~~   47 (304)
T 1ojl_A           25 DATVLIHGDSGTGKELVARALHA   47 (304)
T ss_dssp             TSCEEEESCTTSCHHHHHHHHHH
T ss_pred             CCcEEEECCCCchHHHHHHHHHH
Confidence            35689999999999999988765

>3pxi_A Negative regulator of genetic competence CLPC/MEC; CLPB, proteolysis, CLPX, HSP100/CLP, AAA+ proteins, PR binding; 6.93A {Bacillus subtilis}

Probab=95.79  E-value=0.0063  Score=40.75  Aligned_cols=25  Identities=24%  Similarity=0.489  Sum_probs=20.5

Q ss_pred             eeeeEEEEeCCCCCHHHHHHHHHhC
Q psy2514          11 IKGTVVIVGNGAVGKSSMIQRYCRG   35 (71)
Q Consensus        11 ~~~ki~v~G~~~vGKtsl~~~~~~~   35 (71)
                      ..-.+++.|++|+|||++++.+...
T Consensus       200 ~~~~vLL~G~pGtGKT~la~~la~~  224 (758)
T 3pxi_A          200 TKNNPVLIGEPGVGKTAIAEGLAQQ  224 (758)
T ss_dssp             SSCEEEEESCTTTTTHHHHHHHHHH
T ss_pred             CCCCeEEECCCCCCHHHHHHHHHHH
Confidence            3456899999999999999877643

>3qf4_B Uncharacterized ABC transporter ATP-binding prote TM_0288; multidrug transporter, transport protein; HET: ANP; 2.90A {Thermotoga maritima}

Probab=95.78  E-value=0.0048  Score=40.46  Aligned_cols=23  Identities=26%  Similarity=0.472  Sum_probs=19.4

Q ss_pred             eeeEEEEeCCCCCHHHHHHHHHh
Q psy2514          12 KGTVVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus        12 ~~ki~v~G~~~vGKtsl~~~~~~   34 (71)
                      .-.+.++|++|+|||||++-+..
T Consensus       381 G~~~~ivG~sGsGKSTll~~l~g  403 (598)
T 3qf4_B          381 GQKVALVGPTGSGKTTIVNLLMR  403 (598)
T ss_dssp             TCEEEEECCTTSSTTHHHHHHTT
T ss_pred             CCEEEEECCCCCcHHHHHHHHhc
Confidence            35789999999999999987653

>2ga8_A Hypothetical 39.9 kDa protein; YFR007W, YFH7, unknown function; HET: CME; 1.77A {Saccharomyces cerevisiae} PDB: 2gaa_A*

Probab=95.78  E-value=0.012  Score=36.76  Aligned_cols=23  Identities=30%  Similarity=0.654  Sum_probs=19.2

Q ss_pred             eeeeEEEEeCCCCCHHHHHHHHH
Q psy2514          11 IKGTVVIVGNGAVGKSSMIQRYC   33 (71)
Q Consensus        11 ~~~ki~v~G~~~vGKtsl~~~~~   33 (71)
                      ....++++|.+|+|||++...+.
T Consensus        23 ~~~~i~l~G~~G~GKTTl~~~la   45 (359)
T 2ga8_A           23 YRVCVILVGSPGSGKSTIAEELC   45 (359)
T ss_dssp             SCEEEEEECCTTSSHHHHHHHHH
T ss_pred             CeeEEEEECCCCCcHHHHHHHHH
Confidence            34679999999999999987554

>3hr8_A Protein RECA; alpha and beta proteins (A/B, A+B), ATP-binding, cytoplasm, damage, DNA recombination, DNA repair, DNA-binding; 1.95A {Thermotoga maritima}

Probab=95.77  E-value=0.0086  Score=37.28  Aligned_cols=21  Identities=24%  Similarity=0.343  Sum_probs=18.0

Q ss_pred             eEEEEeCCCCCHHHHHHHHHh
Q psy2514          14 TVVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus        14 ki~v~G~~~vGKtsl~~~~~~   34 (71)
                      -+.+.|++|+|||+|+.+++.
T Consensus        63 i~~I~GppGsGKSTLal~la~   83 (356)
T 3hr8_A           63 IVEIFGQESSGKTTLALHAIA   83 (356)
T ss_dssp             EEEEEESTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            467889999999999998774

>3j16_B RLI1P; ribosome recycling, translation, eukarya, ribosome; HET: ATP; 7.20A {Saccharomyces cerevisiae}

Probab=95.77  E-value=0.011  Score=39.17  Aligned_cols=22  Identities=23%  Similarity=0.440  Sum_probs=19.0

Q ss_pred             eeEEEEeCCCCCHHHHHHHHHh
Q psy2514          13 GTVVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus        13 ~ki~v~G~~~vGKtsl~~~~~~   34 (71)
                      =.+.++|++|+|||||++-+..
T Consensus       104 ei~~LvGpNGaGKSTLLkiL~G  125 (608)
T 3j16_B          104 QVLGLVGTNGIGKSTALKILAG  125 (608)
T ss_dssp             SEEEEECCTTSSHHHHHHHHHT
T ss_pred             CEEEEECCCCChHHHHHHHHhc
Confidence            3578999999999999998765

>3eph_A TRNA isopentenyltransferase; transferase, alternative initiation, ATP-binding, cytoplasm, mitochondrion, nucleotide-binding, nucleus; 2.95A {Saccharomyces cerevisiae} PDB: 3epj_A 3epk_A* 3epl_A*

Probab=95.76  E-value=0.0089  Score=37.97  Aligned_cols=21  Identities=33%  Similarity=0.561  Sum_probs=18.3

Q ss_pred             eEEEEeCCCCCHHHHHHHHHh
Q psy2514          14 TVVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus        14 ki~v~G~~~vGKtsl~~~~~~   34 (71)
                      -+++.|++|+|||+|...+..
T Consensus         4 ~i~i~GptgsGKttla~~La~   24 (409)
T 3eph_A            4 VIVIAGTTGVGKSQLSIQLAQ   24 (409)
T ss_dssp             EEEEEECSSSSHHHHHHHHHH
T ss_pred             EEEEECcchhhHHHHHHHHHH
Confidence            478899999999999988874

>2dhr_A FTSH; AAA+ protein, hexameric Zn metalloprotease, hydrolase; HET: ADP; 3.90A {Thermus thermophilus}

Probab=95.75  E-value=0.008  Score=38.92  Aligned_cols=21  Identities=29%  Similarity=0.488  Sum_probs=18.6

Q ss_pred             eEEEEeCCCCCHHHHHHHHHh
Q psy2514          14 TVVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus        14 ki~v~G~~~vGKtsl~~~~~~   34 (71)
                      -++++|++|+|||+|++.+..
T Consensus        66 GvLL~GppGtGKTtLaraIa~   86 (499)
T 2dhr_A           66 GVLLVGPPGVGKTHLARAVAG   86 (499)
T ss_dssp             EEEEECSSSSSHHHHHHHHHH
T ss_pred             eEEEECCCCCCHHHHHHHHHH
Confidence            389999999999999998764

>3nbx_X ATPase RAVA; AAA+ ATPase, alpha-beta-alpha structure, rossman fold, hydro; HET: ADP; 2.91A {Escherichia coli}

Probab=95.73  E-value=0.0068  Score=39.25  Aligned_cols=22  Identities=23%  Similarity=0.338  Sum_probs=19.4

Q ss_pred             eeEEEEeCCCCCHHHHHHHHHh
Q psy2514          13 GTVVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus        13 ~ki~v~G~~~vGKtsl~~~~~~   34 (71)
                      ..+++.|++|+|||.+++.+..
T Consensus        42 ~~VLL~GpPGtGKT~LAraLa~   63 (500)
T 3nbx_X           42 ESVFLLGPPGIAKSLIARRLKF   63 (500)
T ss_dssp             CEEEEECCSSSSHHHHHHHGGG
T ss_pred             CeeEeecCchHHHHHHHHHHHH
Confidence            4789999999999999998765

>3k1j_A LON protease, ATP-dependent protease LON; ATP-binding, nucleotide-binding, Pro hydrolase; HET: ADP PE8; 2.00A {Thermococcus onnurineus}

Probab=95.73  E-value=0.0085  Score=39.29  Aligned_cols=23  Identities=26%  Similarity=0.342  Sum_probs=20.0

Q ss_pred             eeEEEEeCCCCCHHHHHHHHHhC
Q psy2514          13 GTVVIVGNGAVGKSSMIQRYCRG   35 (71)
Q Consensus        13 ~ki~v~G~~~vGKtsl~~~~~~~   35 (71)
                      -.++++|++|+|||++++.+..-
T Consensus        61 ~~vll~Gp~GtGKTtlar~ia~~   83 (604)
T 3k1j_A           61 RHVLLIGEPGTGKSMLGQAMAEL   83 (604)
T ss_dssp             CCEEEECCTTSSHHHHHHHHHHT
T ss_pred             CEEEEEeCCCCCHHHHHHHHhcc
Confidence            36899999999999999988764

---

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	71
d1vg8a_	184	c.37.1.8 (A:) Rab7 {Rat (Rattus norvegicus) [TaxId	4e-10
d2ngra_	191	c.37.1.8 (A:) CDC42 {Human (Homo sapiens) [TaxId:	1e-09
d1kaoa_	167	c.37.1.8 (A:) Rap2a {Human (Homo sapiens) [TaxId:	3e-09
d1kmqa_	177	c.37.1.8 (A:) RhoA {Human (Homo sapiens) [TaxId: 9	4e-09
d1mh1a_	183	c.37.1.8 (A:) Rac {Human (Homo sapiens) [TaxId: 96	6e-09
d1u8za_	168	c.37.1.8 (A:) Ras-related protein RalA {Cotton-top	1e-08
d2fn4a1	173	c.37.1.8 (A:24-196) r-Ras {Human (Homo sapiens) [T	1e-08
d1ctqa_	166	c.37.1.8 (A:) cH-p21 Ras protein {Human (Homo sapi	1e-08
d1m7ba_	179	c.37.1.8 (A:) RhoE (RND3) {Mouse (Mus musculus) [T	1e-08
d1yzqa1	164	c.37.1.8 (A:14-177) Rab6 {Human (Homo sapiens) [Ta	1e-08
d1c1ya_	167	c.37.1.8 (A:) Rap1A {Human (Homo sapiens) [TaxId:	2e-08
d2erxa1	171	c.37.1.8 (A:6-176) di-Ras2 {Human (Homo sapiens) [	2e-08
d2bcgy1	194	c.37.1.8 (Y:3-196) GTPase Ytp1 {Baker's yeast (Sac	2e-08
d1ky3a_	175	c.37.1.8 (A:) Rab-related protein ypt7p {Baker's y	2e-08
d2erya1	171	c.37.1.8 (A:10-180) r-Ras2 {Human (Homo sapiens) [	3e-08
d1wmsa_	174	c.37.1.8 (A:) Rab9a {Human (Homo sapiens) [TaxId:	3e-08
d2atva1	168	c.37.1.8 (A:5-172) Ras-like estrogen-regulated gro	4e-08
d1x1ra1	169	c.37.1.8 (A:10-178) Ras-related protein M-Ras (XRa	4e-08
d2atxa1	185	c.37.1.8 (A:9-193) RhoQ {Human (Homo sapiens) [Tax	6e-08
d1ek0a_	170	c.37.1.8 (A:) Ypt51 {Baker's yeast (Saccharomyces	7e-08
d2fu5c1	173	c.37.1.8 (C:3-175) Rab8a {Mouse (Mus musculus) [Ta	8e-08
d2f7sa1	186	c.37.1.8 (A:5-190) Rab27b {Human (Homo sapiens) [T	9e-08
d1z06a1	165	c.37.1.8 (A:32-196) Rab-33b {Mouse (Mus musculus)	1e-07
d1xtqa1	167	c.37.1.8 (A:3-169) GTP-binding protein RheB {Human	1e-07
d1g16a_	166	c.37.1.8 (A:) Rab-related protein Sec4 {Baker's ye	2e-07
d2f9la1	175	c.37.1.8 (A:8-182) Rab11b {Human (Homo sapiens) [T	2e-07
d1zd9a1	164	c.37.1.8 (A:18-181) ADP-ribosylation factor {Human	2e-07
d1z2aa1	164	c.37.1.8 (A:8-171) Rab23 {Mouse (Mus musculus) [Ta	2e-07
d1x3sa1	177	c.37.1.8 (A:2-178) Rab18 {Human (Homo sapiens) [Ta	2e-07
d1i2ma_	170	c.37.1.8 (A:) Ran {Human (Homo sapiens) [TaxId: 96	2e-07
d2a5ja1	173	c.37.1.8 (A:9-181) Rab2b {Human (Homo sapiens) [Ta	2e-07
d1z0ja1	167	c.37.1.8 (A:2-168) Rab-22a {Mouse (Mus musculus) [	3e-07
d2ew1a1	171	c.37.1.8 (A:4-174) Rab30 {Human (Homo sapiens) [Ta	4e-07
d2bcjq2	200	c.37.1.8 (Q:38-66,Q:184-354) Transducin (alpha sub	4e-07
d1z08a1	167	c.37.1.8 (A:17-183) Rab21 {Human (Homo sapiens) [T	4e-07
d1r2qa_	170	c.37.1.8 (A:) Rab5a {Human (Homo sapiens) [TaxId:	5e-07
d3raba_	169	c.37.1.8 (A:) Rab3a {Rat (Rattus norvegicus) [TaxI	1e-06
d1zcba2	200	c.37.1.8 (A:47-75,A:202-372) Transducin (alpha sub	1e-06
d1z0fa1	166	c.37.1.8 (A:8-173) Rab14 {Human (Homo sapiens) [Ta	1e-06
d2bmja1	175	c.37.1.8 (A:66-240) Centaurin gamma 1, G domain {H	2e-06
d2bmea1	174	c.37.1.8 (A:6-179) Rab4a {Human (Homo sapiens) [Ta	5e-06
d2g3ya1	172	c.37.1.8 (A:73-244) GTP-binding protein GEM {Human	5e-06
d2fh5b1	207	c.37.1.8 (B:63-269) Signal recognition particle re	8e-06
d2g6ba1	170	c.37.1.8 (A:58-227) Rab26 {Human (Homo sapiens) [T	8e-06
d1azta2	221	c.37.1.8 (A:35-65,A:202-391) Transducin (alpha sub	1e-05
d1svsa1	195	c.37.1.8 (A:32-60,A:182-347) Transducin (alpha sub	2e-05
d1zj6a1	177	c.37.1.8 (A:2-178) ADP-ribosylation factor {Human	3e-05
d2qtvb1	166	c.37.1.8 (B:24-189) SAR1 {Baker's yeast (Saccharom	4e-05
d1r8sa_	160	c.37.1.8 (A:) ADP-ribosylation factor {Human (Homo	4e-05
d1upta_	169	c.37.1.8 (A:) ADP-ribosylation factor {Human (Homo	1e-04
d2gjsa1	168	c.37.1.8 (A:91-258) Rad {Human (Homo sapiens) [Tax	1e-04
d1nrjb_	209	c.37.1.8 (B:) Signal recognition particle receptor	2e-04
d1f6ba_	186	c.37.1.8 (A:) SAR1 {Chinese hamster (Cricetulus gr	3e-04
d1ksha_	165	c.37.1.8 (A:) ADP-ribosylation factor {Mouse (Mus	4e-04
d1e0sa_	173	c.37.1.8 (A:) ADP-ribosylation factor {Human (Homo	6e-04
d1fzqa_	176	c.37.1.8 (A:) ADP-ribosylation factor {Mouse (Mus	0.001
d1moza_	182	c.37.1.8 (A:) ADP-ribosylation factor {Baker's yea	0.001
d2mysa2	794	c.37.1.9 (A:4-33,A:80-843) Myosin S1, motor domain	0.002

>d1vg8a_ c.37.1.8 (A:) Rab7 {Rat (Rattus norvegicus) [TaxId: 10116]} Length = 184

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab7
species: Rat (Rattus norvegicus) [TaxId: 10116]

 Score = 50.5 bits (119), Expect = 4e-10
 Identities = 14/45 (31%), Positives = 23/45 (51%)

Query: 15 VVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRGT 59
          V+I+G+  VGK+S++ +Y    F+  YK TIG      +      
Sbjct: 5  VIILGDSGVGKTSLMNQYVNKKFSNQYKATIGADFLTKEVMVDDR 49

>d2ngra_ c.37.1.8 (A:) CDC42 {Human (Homo sapiens) [TaxId: 9606]} Length = 191

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: CDC42
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 49.6 bits (117), Expect = 1e-09
 Identities = 14/47 (29%), Positives = 24/47 (51%), Gaps = 2/47 (4%)

Query: 10 SIKGTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYC 56
          +IK   V+VG+GAVGK+ ++  Y    F  +Y  T+    ++     
Sbjct: 3  TIK--CVVVGDGAVGKTCLLISYTTNKFPSEYVPTVFDNYAVTVMIG 47

>d1kaoa_ c.37.1.8 (A:) Rap2a {Human (Homo sapiens) [TaxId: 9606]} Length = 167

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rap2a
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 48.0 bits (113), Expect = 3e-09
 Identities = 16/55 (29%), Positives = 24/55 (43%)

Query: 15 VVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRGTFTRDYKKTIG 69
          VV++G+G VGKS++  ++  GTF   Y  TI                 +   T G
Sbjct: 6  VVVLGSGGVGKSALTVQFVTGTFIEKYDPTIEDFYRKEIEVDSSPSVLEILDTAG 60

>d1kmqa_ c.37.1.8 (A:) RhoA {Human (Homo sapiens) [TaxId: 9606]} Length = 177

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: RhoA
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 47.7 bits (112), Expect = 4e-09
 Identities = 12/46 (26%), Positives = 20/46 (43%)

Query: 11 IKGTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYC 56
          I+  +VIVG+GA GK+ ++    +  F   Y  T+           
Sbjct: 1  IRKKLVIVGDGACGKTCLLIVNSKDQFPEVYVPTVFENYVADIEVD 46

>d1mh1a_ c.37.1.8 (A:) Rac {Human (Homo sapiens) [TaxId: 9606]} Length = 183

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rac
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 47.3 bits (111), Expect = 6e-09
 Identities = 16/58 (27%), Positives = 24/58 (41%), Gaps = 2/58 (3%)

Query: 10 SIKGTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRGTFTRDYKKT 67
          +IK   V+VG+GAVGK+ ++  Y    F  +Y  T+    S                T
Sbjct: 5  AIK--CVVVGDGAVGKTCLLISYTTNAFPGEYIPTVFDNYSANVMVDGKPVNLGLWDT 60

>d1u8za_ c.37.1.8 (A:) Ras-related protein RalA {Cotton-top tamarin (Saguinus oedipus) [TaxId: 9490]} Length = 168

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Ras-related protein RalA
species: Cotton-top tamarin (Saguinus oedipus) [TaxId: 9490]

 Score = 46.5 bits (109), Expect = 1e-08
 Identities = 15/55 (27%), Positives = 23/55 (41%)

Query: 15 VVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRGTFTRDYKKTIG 69
          V++VG+G VGKS++  ++    F  DY+ T                  D   T G
Sbjct: 7  VIMVGSGGVGKSALTLQFMYDEFVEDYEPTKADSYRKKVVLDGEEVQIDILDTAG 61

>d2fn4a1 c.37.1.8 (A:24-196) r-Ras {Human (Homo sapiens) [TaxId: 9606]} Length = 173

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: r-Ras
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 46.6 bits (109), Expect = 1e-08
 Identities = 17/55 (30%), Positives = 25/55 (45%)

Query: 15 VVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRGTFTRDYKKTIG 69
          +V+VG G VGKS++  ++ +  F  DY  TI    + I          D   T G
Sbjct: 9  LVVVGGGGVGKSALTIQFIQSYFVSDYDPTIEDSYTKICSVDGIPARLDILDTAG 63

>d1ctqa_ c.37.1.8 (A:) cH-p21 Ras protein {Human (Homo sapiens) [TaxId: 9606]} Length = 166

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: cH-p21 Ras protein
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 46.1 bits (108), Expect = 1e-08
 Identities = 16/55 (29%), Positives = 23/55 (41%)

Query: 15 VVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRGTFTRDYKKTIG 69
          +V+VG G VGKS++  +  +  F  +Y  TI             T   D   T G
Sbjct: 6  LVVVGAGGVGKSALTIQLIQNHFVDEYDPTIEDSYRKQVVIDGETCLLDILDTAG 60

>d1m7ba_ c.37.1.8 (A:) RhoE (RND3) {Mouse (Mus musculus) [TaxId: 10090]} Length = 179

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: RhoE (RND3)
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 46.6 bits (109), Expect = 1e-08
 Identities = 9/54 (16%), Positives = 22/54 (40%)

Query: 11 IKGTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRGTFTRDY 64
          +K  +V+VG+   GK++++  + +  F  +Y  T+    +              
Sbjct: 1  VKCKIVVVGDSQCGKTALLHVFAKDCFPENYVPTVFENYTASFEIDTQRIELSL 54

>d1yzqa1 c.37.1.8 (A:14-177) Rab6 {Human (Homo sapiens) [TaxId: 9606]} Length = 164

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab6
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 46.1 bits (108), Expect = 1e-08
 Identities = 14/44 (31%), Positives = 23/44 (52%)

Query: 15 VVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRG 58
          +V +G  +VGK+S+I R+   +F   Y+ TIG+       Y   
Sbjct: 3  LVFLGEQSVGKTSLITRFMYDSFDNTYQATIGIDFLSKTMYLED 46

>d1c1ya_ c.37.1.8 (A:) Rap1A {Human (Homo sapiens) [TaxId: 9606]} Length = 167

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rap1A
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 46.1 bits (108), Expect = 2e-08
 Identities = 14/55 (25%), Positives = 24/55 (43%)

Query: 15 VVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRGTFTRDYKKTIG 69
          +V++G+G VGKS++  ++ +G F   Y  TI                 +   T G
Sbjct: 6  LVVLGSGGVGKSALTVQFVQGIFVEKYDPTIEDSYRKQVEVDCQQCMLEILDTAG 60

>d2erxa1 c.37.1.8 (A:6-176) di-Ras2 {Human (Homo sapiens) [TaxId: 9606]} Length = 171

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: di-Ras2
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 46.1 bits (108), Expect = 2e-08
 Identities = 17/55 (30%), Positives = 25/55 (45%)

Query: 15 VVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRGTFTRDYKKTIG 69
          V + G G VGKSS++ R+ +GTF   Y  T+      +    +   T     T G
Sbjct: 5  VAVFGAGGVGKSSLVLRFVKGTFRESYIPTVEDTYRQVISCDKSICTLQITDTTG 59

>d2bcgy1 c.37.1.8 (Y:3-196) GTPase Ytp1 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 194

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: GTPase Ytp1
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

 Score = 46.0 bits (108), Expect = 2e-08
 Identities = 15/33 (45%), Positives = 23/33 (69%)

Query: 15 VVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGV 47
          ++++GN  VGKS ++ R+   T+T DY  TIGV
Sbjct: 9  LLLIGNSGVGKSCLLLRFSDDTYTNDYISTIGV 41

>d1ky3a_ c.37.1.8 (A:) Rab-related protein ypt7p {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 175

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab-related protein ypt7p
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

 Score = 45.8 bits (107), Expect = 2e-08
 Identities = 15/50 (30%), Positives = 25/50 (50%)

Query: 15 VVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRGTFTRDY 64
          V+I+G+  VGK+S++ RY    +++ YK TIG      +    G      
Sbjct: 5  VIILGDSGVGKTSLMHRYVNDKYSQQYKATIGADFLTKEVTVDGDKVATM 54

>d2erya1 c.37.1.8 (A:10-180) r-Ras2 {Human (Homo sapiens) [TaxId: 9606]} Length = 171

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: r-Ras2
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 45.4 bits (106), Expect = 3e-08
 Identities = 16/55 (29%), Positives = 24/55 (43%)

Query: 15 VVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRGTFTRDYKKTIG 69
          +V+VG G VGKS++  ++ +  F  DY  TI    +            D   T G
Sbjct: 8  LVVVGGGGVGKSALTIQFIQSYFVTDYDPTIEDSYTKQCVIDDRAARLDILDTAG 62

>d1wmsa_ c.37.1.8 (A:) Rab9a {Human (Homo sapiens) [TaxId: 9606]} Length = 174

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab9a
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 45.3 bits (106), Expect = 3e-08
 Identities = 17/55 (30%), Positives = 24/55 (43%)

Query: 15 VVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRGTFTRDYKKTIG 69
          V+++G+G VGKSS++ RY    F      TIGV+         G F         
Sbjct: 9  VILLGDGGVGKSSLMNRYVTNKFDTQLFHTIGVEFLNKDLEVDGHFVTMQIWDTA 63

>d2atva1 c.37.1.8 (A:5-172) Ras-like estrogen-regulated growth inhibitor, RERG {Human (Homo sapiens) [TaxId: 9606]} Length = 168

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Ras-like estrogen-regulated growth inhibitor, RERG
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 45.0 bits (105), Expect = 4e-08
 Identities = 10/47 (21%), Positives = 18/47 (38%)

Query: 15 VVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRGTFT 61
          + I G   VGKS+++ R+    F  +Y  T+               +
Sbjct: 5  LAIFGRAGVGKSALVVRFLTKRFIWEYDPTLESTYRHQATIDDEVVS 51

>d1x1ra1 c.37.1.8 (A:10-178) Ras-related protein M-Ras (XRas) {Mouse (Mus musculus) [TaxId: 10090]} Length = 169

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Ras-related protein M-Ras (XRas)
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 45.0 bits (105), Expect = 4e-08
 Identities = 16/55 (29%), Positives = 24/55 (43%)

Query: 15 VVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRGTFTRDYKKTIG 69
          +V+VG+G VGKS++  ++ +  F  DY  TI                 D   T G
Sbjct: 7  LVVVGDGGVGKSALTIQFFQKIFVPDYDPTIEDSYLKHTEIDNQWAILDVLDTAG 61

>d2atxa1 c.37.1.8 (A:9-193) RhoQ {Human (Homo sapiens) [TaxId: 9606]} Length = 185

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: RhoQ
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 44.6 bits (104), Expect = 6e-08
 Identities = 12/50 (24%), Positives = 22/50 (44%)

Query: 15 VVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRGTFTRDY 64
           V+VG+GAVGK+ ++  Y    F  +Y  T+    ++        +    
Sbjct: 12 CVVVGDGAVGKTCLLMSYANDAFPEEYVPTVFDHYAVSVTVGGKQYLLGL 61

>d1ek0a_ c.37.1.8 (A:) Ypt51 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 170

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Ypt51
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

 Score = 44.7 bits (104), Expect = 7e-08
 Identities = 16/47 (34%), Positives = 25/47 (53%), Gaps = 2/47 (4%)

Query: 10 SIKGTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYC 56
          SIK  +V++G  AVGKSS++ R+    F  + + TIG      +   
Sbjct: 3  SIK--LVLLGEAAVGKSSIVLRFVSNDFAENKEPTIGAAFLTQRVTI 47

>d2fu5c1 c.37.1.8 (C:3-175) Rab8a {Mouse (Mus musculus) [TaxId: 10090]} Length = 173

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab8a
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 44.0 bits (103), Expect = 8e-08
 Identities = 9/33 (27%), Positives = 20/33 (60%)

Query: 15 VVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGV 47
          ++++G+  VGK+ ++ R+    F   +  TIG+
Sbjct: 9  LLLIGDSGVGKTCVLFRFSEDAFNSTFISTIGI 41

>d2f7sa1 c.37.1.8 (A:5-190) Rab27b {Human (Homo sapiens) [TaxId: 9606]} Length = 186

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab27b
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 44.1 bits (103), Expect = 9e-08
 Identities = 9/33 (27%), Positives = 19/33 (57%)

Query: 15 VVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGV 47
          ++ +G+  VGK++ + RY    F   +  T+G+
Sbjct: 8  LLALGDSGVGKTTFLYRYTDNKFNPKFITTVGI 40

>d1z06a1 c.37.1.8 (A:32-196) Rab-33b {Mouse (Mus musculus) [TaxId: 10090]} Length = 165

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab-33b
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 43.9 bits (102), Expect = 1e-07
 Identities = 12/42 (28%), Positives = 21/42 (50%)

Query: 15 VVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYC 56
          ++++G+  VGK+ +  R+C G F    + TIGV         
Sbjct: 5  IIVIGDSNVGKTCLTYRFCAGRFPDRTEATIGVDFRERAVDI 46

>d1xtqa1 c.37.1.8 (A:3-169) GTP-binding protein RheB {Human (Homo sapiens) [TaxId: 9606]} Length = 167

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: GTP-binding protein RheB
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 43.6 bits (101), Expect = 1e-07
 Identities = 14/55 (25%), Positives = 23/55 (41%)

Query: 15 VVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRGTFTRDYKKTIG 69
          + I+G  +VGKSS+  ++  G F   Y  TI    + +       +      T G
Sbjct: 7  IAILGYRSVGKSSLTIQFVEGQFVDSYDPTIENTFTKLITVNGQEYHLQLVDTAG 61

>d1g16a_ c.37.1.8 (A:) Rab-related protein Sec4 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 166

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab-related protein Sec4
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

 Score = 43.2 bits (101), Expect = 2e-07
 Identities = 10/33 (30%), Positives = 20/33 (60%)

Query: 15 VVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGV 47
          ++++G+  VGKS ++ R+    F   +  TIG+
Sbjct: 5  ILLIGDSGVGKSCLLVRFVEDKFNPSFITTIGI 37

>d2f9la1 c.37.1.8 (A:8-182) Rab11b {Human (Homo sapiens) [TaxId: 9606]} Length = 175

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab11b
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 43.3 bits (101), Expect = 2e-07
 Identities = 16/48 (33%), Positives = 27/48 (56%)

Query: 15 VVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRGTFTR 62
          VV++G+  VGKS+++ R+ R  F  + K TIGV+ +       G   +
Sbjct: 7  VVLIGDSGVGKSNLLSRFTRNEFNLESKSTIGVEFATRSIQVDGKTIK 54

>d1zd9a1 c.37.1.8 (A:18-181) ADP-ribosylation factor {Human (Homo sapiens), ARL8A [TaxId: 9606]} Length = 164

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Human (Homo sapiens), ARL8A [TaxId: 9606]

 Score = 43.1 bits (100), Expect = 2e-07
 Identities = 10/42 (23%), Positives = 17/42 (40%)

Query: 15 VVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYC 56
          + +VG    GK++ +     G F  D   T+G     I +  
Sbjct: 5  LTLVGLQYSGKTTFVNVIASGQFNEDMIPTVGFNMRKITKGN 46

>d1z2aa1 c.37.1.8 (A:8-171) Rab23 {Mouse (Mus musculus) [TaxId: 10090]} Length = 164

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab23
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 43.2 bits (100), Expect = 2e-07
 Identities = 32/60 (53%), Positives = 37/60 (61%), Gaps = 2/60 (3%)

Query: 10 SIKGTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRGTFTRDYKKTIG 69
          +IK  +V+VGNGAVGKSSMIQRYC+G FT+DYKKTIGV     Q        R       
Sbjct: 2  AIK--MVVVGNGAVGKSSMIQRYCKGIFTKDYKKTIGVDFLERQIQVNDEDVRLMLWDTA 59

>d1x3sa1 c.37.1.8 (A:2-178) Rab18 {Human (Homo sapiens) [TaxId: 9606]} Length = 177

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab18
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 43.3 bits (101), Expect = 2e-07
 Identities = 13/32 (40%), Positives = 20/32 (62%)

Query: 15 VVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIG 46
          ++I+G   VGKSS++ R+   TF  +   TIG
Sbjct: 10 ILIIGESGVGKSSLLLRFTDDTFDPELAATIG 41

>d1i2ma_ c.37.1.8 (A:) Ran {Human (Homo sapiens) [TaxId: 9606]} Length = 170

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Ran
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 43.1 bits (100), Expect = 2e-07
 Identities = 11/35 (31%), Positives = 23/35 (65%)

Query: 11 IKGTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTI 45
          ++  +V+VG+G  GK++ ++R+  G F + Y  T+
Sbjct: 2  VQFKLVLVGDGGTGKTTFVKRHLTGEFEKKYVATL 36

>d2a5ja1 c.37.1.8 (A:9-181) Rab2b {Human (Homo sapiens) [TaxId: 9606]} Length = 173

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab2b
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 42.9 bits (100), Expect = 2e-07
 Identities = 11/56 (19%), Positives = 21/56 (37%), Gaps = 1/56 (1%)

Query: 15 VVIVGNGAVGKSSMIQRYCRGTFTRDYKKTI-GVKSSMIQRYCRGTFTRDYKKTIG 69
           +I+G+  VGKS ++ ++    F   +  TI     + +              T G
Sbjct: 6  YIIIGDTGVGKSCLLLQFTDKRFQPVHDLTIGVEFGARMVNIDGKQIKLQIWDTAG 61

>d1z0ja1 c.37.1.8 (A:2-168) Rab-22a {Mouse (Mus musculus) [TaxId: 10090]} Length = 167

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab-22a
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 42.7 bits (99), Expect = 3e-07
 Identities = 12/43 (27%), Positives = 21/43 (48%)

Query: 15 VVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCR 57
          V ++G+  VGKSS++ R+   +F  +   TIG          +
Sbjct: 7  VCLLGDTGVGKSSIMWRFVEDSFDPNINPTIGASFMTKTVQYQ 49

>d2ew1a1 c.37.1.8 (A:4-174) Rab30 {Human (Homo sapiens) [TaxId: 9606]} Length = 171

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab30
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 42.5 bits (99), Expect = 4e-07
 Identities = 13/33 (39%), Positives = 22/33 (66%)

Query: 15 VVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGV 47
          +V++GN  VGK+ +++R+ +G F      TIGV
Sbjct: 8  IVLIGNAGVGKTCLVRRFTQGLFPPGQGATIGV 40

>d2bcjq2 c.37.1.8 (Q:38-66,Q:184-354) Transducin (alpha subunit) {Mouse (Mus musculus) [TaxId: 10090]} Length = 200

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Transducin (alpha subunit)
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 42.6 bits (99), Expect = 4e-07
 Identities = 8/42 (19%), Positives = 16/42 (38%), Gaps = 2/42 (4%)

Query: 15 VVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYC 56
          ++++G G  GKS+ I++            T G+         
Sbjct: 5  LLLLGTGESGKSTFIKQMRIIHG--SGVPTTGIIEYPFDLQS 44

>d1z08a1 c.37.1.8 (A:17-183) Rab21 {Human (Homo sapiens) [TaxId: 9606]} Length = 167

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab21
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 42.2 bits (98), Expect = 4e-07
 Identities = 15/50 (30%), Positives = 23/50 (46%)

Query: 15 VVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRGTFTRDY 64
          VV++G G VGK+S++ RYC   F   +  T+G      +    G      
Sbjct: 6  VVLLGEGCVGKTSLVLRYCENKFNDKHITTLGASFLTKKLNIGGKRVNLA 55

>d1r2qa_ c.37.1.8 (A:) Rab5a {Human (Homo sapiens) [TaxId: 9606]} Length = 170

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab5a
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 41.9 bits (97), Expect = 5e-07
 Identities = 14/43 (32%), Positives = 22/43 (51%)

Query: 15 VVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCR 57
          +V++G  AVGKSS++ R+ +G F    + TIG           
Sbjct: 9  LVLLGESAVGKSSLVLRFVKGQFHEFQESTIGAAFLTQTVCLD 51

>d3raba_ c.37.1.8 (A:) Rab3a {Rat (Rattus norvegicus) [TaxId: 10116]} Length = 169

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab3a
species: Rat (Rattus norvegicus) [TaxId: 10116]

 Score = 41.4 bits (96), Expect = 1e-06
 Identities = 14/42 (33%), Positives = 25/42 (59%)

Query: 15 VVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYC 56
          ++I+GN +VGK+S + RY   +FT  +  T+G+   +   Y 
Sbjct: 8  ILIIGNSSVGKTSFLFRYADDSFTPAFVSTVGIDFKVKTIYR 49

>d1zcba2 c.37.1.8 (A:47-75,A:202-372) Transducin (alpha subunit) {Mouse (Mus musculus) [TaxId: 10090]} Length = 200

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Transducin (alpha subunit)
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 41.0 bits (95), Expect = 1e-06
 Identities = 8/49 (16%), Positives = 18/49 (36%), Gaps = 3/49 (6%)

Query: 15 VVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRGTFTRD 63
          ++++G G  GKS+ +++            T G+     +         D
Sbjct: 5  ILLLGAGESGKSTFLKQMR---IIHGQDPTKGIHEYDFEIKNVPFKMVD 50

>d1z0fa1 c.37.1.8 (A:8-173) Rab14 {Human (Homo sapiens) [TaxId: 9606]} Length = 166

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab14
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 41.0 bits (95), Expect = 1e-06
 Identities = 13/44 (29%), Positives = 21/44 (47%)

Query: 15 VVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRG 58
           +I+G+  VGKS ++ ++    F  D   TIGV+         G
Sbjct: 7  YIIIGDMGVGKSCLLHQFTEKKFMADCPHTIGVEFGTRIIEVSG 50

>d2bmja1 c.37.1.8 (A:66-240) Centaurin gamma 1, G domain {Human (Homo sapiens) [TaxId: 9606]} Length = 175

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Centaurin gamma 1, G domain
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 40.4 bits (93), Expect = 2e-06
 Identities = 9/30 (30%), Positives = 17/30 (56%)

Query: 15 VVIVGNGAVGKSSMIQRYCRGTFTRDYKKT 44
          + ++G+   GKSS+I R+  G++    K  
Sbjct: 8  LGVLGDARSGKSSLIHRFLTGSYQVLEKTE 37

>d2bmea1 c.37.1.8 (A:6-179) Rab4a {Human (Homo sapiens) [TaxId: 9606]} Length = 174

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab4a
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 39.5 bits (91), Expect = 5e-06
 Identities = 7/28 (25%), Positives = 14/28 (50%)

Query: 15 VVIVGNGAVGKSSMIQRYCRGTFTRDYK 42
           +++GN   GKS ++ ++    F  D  
Sbjct: 8  FLVIGNAGTGKSCLLHQFIEKKFKDDSN 35

>d2g3ya1 c.37.1.8 (A:73-244) GTP-binding protein GEM {Human (Homo sapiens) [TaxId: 9606]} Length = 172

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: GTP-binding protein GEM
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 39.4 bits (90), Expect = 5e-06
 Identities = 8/42 (19%), Positives = 18/42 (42%)

Query: 15 VVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYC 56
          VV++G   VGKS++   +     + D    +  + +  +   
Sbjct: 6  VVLIGEQGVGKSTLANIFAGVHDSMDSDCEVLGEDTYERTLM 47

>d2fh5b1 c.37.1.8 (B:63-269) Signal recognition particle receptor beta-subunit {Mouse (Mus musculus) [TaxId: 10090]} Length = 207

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Signal recognition particle receptor beta-subunit
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 39.2 bits (90), Expect = 8e-06
 Identities = 10/42 (23%), Positives = 19/42 (45%), Gaps = 1/42 (2%)

Query: 15 VVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYC 56
          V+ VG    GK+ +  R   G +  D + +I   S++ +   
Sbjct: 3  VLFVGLCDSGKTLLFVRLLTGQYR-DTQTSITDSSAIYKVNN 43

>d2g6ba1 c.37.1.8 (A:58-227) Rab26 {Human (Homo sapiens) [TaxId: 9606]} Length = 170

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab26
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 38.7 bits (89), Expect = 8e-06
 Identities = 12/45 (26%), Positives = 22/45 (48%), Gaps = 1/45 (2%)

Query: 15 VVIVGNGAVGKSSMIQRYCRGTFTRD-YKKTIGVKSSMIQRYCRG 58
          V++VG+  VGK+ ++ R+  G F    +  T+G+          G
Sbjct: 9  VMLVGDSGVGKTCLLVRFKDGAFLAGTFISTVGIDFRNKVLDVDG 53

>d1azta2 c.37.1.8 (A:35-65,A:202-391) Transducin (alpha subunit) {Cow (Bos taurus) [TaxId: 9913]} Length = 221

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Transducin (alpha subunit)
species: Cow (Bos taurus) [TaxId: 9913]

 Score = 38.6 bits (89), Expect = 1e-05
 Identities = 8/39 (20%), Positives = 19/39 (48%), Gaps = 4/39 (10%)

Query: 15 VVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQ 53
          ++++G G  GKS+++++            T G+  +  Q
Sbjct: 9  LLLLGAGESGKSTIVKQMRILHVV----LTSGIFETKFQ 43

>d1svsa1 c.37.1.8 (A:32-60,A:182-347) Transducin (alpha subunit) {Rat (Rattus norvegicus) [TaxId: 10116]} Length = 195

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Transducin (alpha subunit)
species: Rat (Rattus norvegicus) [TaxId: 10116]

 Score = 37.6 bits (86), Expect = 2e-05
 Identities = 7/51 (13%), Positives = 18/51 (35%), Gaps = 5/51 (9%)

Query: 15 VVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRGTFTRDYK 65
          ++++G G  GKS+++++              G+  +            D  
Sbjct: 5  LLLLGAGESGKSTIVKQMKIIHEA-----GTGIVETHFTFKDLHFKMFDVG 50

>d1zj6a1 c.37.1.8 (A:2-178) ADP-ribosylation factor {Human (Homo sapiens), ARL5A [TaxId: 9606]} Length = 177

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Human (Homo sapiens), ARL5A [TaxId: 9606]

 Score = 37.3 bits (85), Expect = 3e-05
 Identities = 9/58 (15%), Positives = 20/58 (34%)

Query: 3  NLWVLRGSIKGTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRGTF 60
           +W L    +  V+IVG    GK++++ ++                  ++    R   
Sbjct: 6  RIWRLFNHQEHKVIIVGLDNAGKTTILYQFSMNEVVHTSPTIGSNVEEIVINNTRFLM 63

>d2qtvb1 c.37.1.8 (B:24-189) SAR1 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 166

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: SAR1
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

 Score = 37.0 bits (84), Expect = 4e-05
 Identities = 5/36 (13%), Positives = 13/36 (36%), Gaps = 1/36 (2%)

Query: 13 GTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVK 48
          G ++ +G    GK++++            + T    
Sbjct: 1  GKLLFLGLDNAGKTTLLHMLKNDRLA-TLQPTWHPT 35

>d1r8sa_ c.37.1.8 (A:) ADP-ribosylation factor {Human (Homo sapiens), ARF1 [TaxId: 9606]} Length = 160

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Human (Homo sapiens), ARF1 [TaxId: 9606]

 Score = 36.9 bits (84), Expect = 4e-05
 Identities = 6/27 (22%), Positives = 14/27 (51%)

Query: 15 VVIVGNGAVGKSSMIQRYCRGTFTRDY 41
          +++VG  A GK++++ +   G      
Sbjct: 3  ILMVGLDAAGKTTILYKLKLGEIVTTI 29

>d1upta_ c.37.1.8 (A:) ADP-ribosylation factor {Human (Homo sapiens), ARL1 [TaxId: 9606]} Length = 169

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Human (Homo sapiens), ARL1 [TaxId: 9606]

 Score = 35.8 bits (81), Expect = 1e-04
 Identities = 6/24 (25%), Positives = 13/24 (54%)

Query: 15 VVIVGNGAVGKSSMIQRYCRGTFT 38
          ++I+G    GK++++ R   G   
Sbjct: 8  ILILGLDGAGKTTILYRLQVGEVV 31

>d2gjsa1 c.37.1.8 (A:91-258) Rad {Human (Homo sapiens) [TaxId: 9606]} Length = 168

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rad
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 35.5 bits (80), Expect = 1e-04
 Identities = 7/42 (16%), Positives = 16/42 (38%)

Query: 15 VVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYC 56
          V+++G   VGKS++ + +       + +         I    
Sbjct: 4  VLLLGAPGVGKSALARIFGGVEDGPEAEAAGHTYDRSIVVDG 45

>d1nrjb_ c.37.1.8 (B:) Signal recognition particle receptor beta-subunit {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 209

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Signal recognition particle receptor beta-subunit
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

 Score = 35.0 bits (79), Expect = 2e-04
 Identities = 6/29 (20%), Positives = 14/29 (48%)

Query: 10 SIKGTVVIVGNGAVGKSSMIQRYCRGTFT 38
          S + +++I G    GK+S++      +  
Sbjct: 1  SYQPSIIIAGPQNSGKTSLLTLLTTDSVR 29

>d1f6ba_ c.37.1.8 (A:) SAR1 {Chinese hamster (Cricetulus griseus) [TaxId: 10029]} Length = 186

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: SAR1
species: Chinese hamster (Cricetulus griseus) [TaxId: 10029]

 Score = 34.7 bits (78), Expect = 3e-04
 Identities = 5/30 (16%), Positives = 12/30 (40%)

Query: 12 KGTVVIVGNGAVGKSSMIQRYCRGTFTRDY 41
           G +V +G    GK++++         +  
Sbjct: 13 TGKLVFLGLDNAGKTTLLHMLKDDRLGQHV 42

>d1ksha_ c.37.1.8 (A:) ADP-ribosylation factor {Mouse (Mus musculus), ARL2 [TaxId: 10090]} Length = 165

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Mouse (Mus musculus), ARL2 [TaxId: 10090]

 Score = 34.3 bits (77), Expect = 4e-04
 Identities = 3/24 (12%), Positives = 14/24 (58%)

Query: 15 VVIVGNGAVGKSSMIQRYCRGTFT 38
          ++++G    GK+++++++      
Sbjct: 5  LLMLGLDNAGKTTILKKFNGEDVD 28

>d1e0sa_ c.37.1.8 (A:) ADP-ribosylation factor {Human (Homo sapiens), ARF6 [TaxId: 9606]} Length = 173

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Human (Homo sapiens), ARF6 [TaxId: 9606]

 Score = 33.8 bits (76), Expect = 6e-04
 Identities = 6/54 (11%), Positives = 22/54 (40%)

Query: 7  LRGSIKGTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRGTF 60
          + G+ +  ++++G  A GK++++ +   G              ++  +  +   
Sbjct: 7  IFGNKEMRILMLGLDAAGKTTILYKLKLGQSVTTIPTVGFNVETVTYKNVKFNV 60

>d1fzqa_ c.37.1.8 (A:) ADP-ribosylation factor {Mouse (Mus musculus), ARL3 [TaxId: 10090]} Length = 176

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Mouse (Mus musculus), ARL3 [TaxId: 10090]

 Score = 33.0 bits (74), Expect = 0.001
 Identities = 3/30 (10%), Positives = 14/30 (46%)

Query: 15 VVIVGNGAVGKSSMIQRYCRGTFTRDYKKT 44
          ++++G    GK++++++      +      
Sbjct: 19 ILLLGLDNAGKTTLLKQLASEDISHITPTQ 48

>d1moza_ c.37.1.8 (A:) ADP-ribosylation factor {Baker's yeast (Saccharomyces cerevisiae), ARL1 [TaxId: 4932]} Length = 182

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Baker's yeast (Saccharomyces cerevisiae), ARL1 [TaxId: 4932]

 Score = 33.0 bits (74), Expect = 0.001
 Identities = 10/39 (25%), Positives = 18/39 (46%), Gaps = 1/39 (2%)

Query: 15 VVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQ 53
          ++I+G    GK++++ R   G      K TIG     + 
Sbjct: 20 ILILGLDGAGKTTILYRLQIGEVV-TTKPTIGFNVETLS 57

>d2mysa2 c.37.1.9 (A:4-33,A:80-843) Myosin S1, motor domain {Chicken (Gallus gallus), pectoral muscle [TaxId: 9031]} Length = 794

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Motor proteins
domain: Myosin S1, motor domain
species: Chicken (Gallus gallus), pectoral muscle [TaxId: 9031]

 Score = 32.4 bits (73), Expect = 0.002
 Identities = 10/38 (26%), Positives = 15/38 (39%), Gaps = 3/38 (7%)

Query: 28  MIQRYCRGTFTR-DYKKTIGVKSSM--IQRYCRGTFTR 62
             Q  CRG   R +Y+  +  + S+  IQ   R     
Sbjct: 740 ATQARCRGFLMRVEYRAMVERRESIFCIQYNVRSFMNV 777

Homologous Domains Detected by HHsearch

Original result of HHsearch against SCOP70(version1.75) database

ID	Length	Definition	Probability
Query	71
d2atva1	168	Ras-like estrogen-regulated growth inhibitor, RERG	99.82
d2ew1a1	171	Rab30 {Human (Homo sapiens) [TaxId: 9606]}	99.79
d1ek0a_	170	Ypt51 {Baker's yeast (Saccharomyces cerevisiae) [T	99.78
d1g16a_	166	Rab-related protein Sec4 {Baker's yeast (Saccharom	99.78
d3raba_	169	Rab3a {Rat (Rattus norvegicus) [TaxId: 10116]}	99.78
d1z08a1	167	Rab21 {Human (Homo sapiens) [TaxId: 9606]}	99.78
d2atxa1	185	RhoQ {Human (Homo sapiens) [TaxId: 9606]}	99.78
d2erxa1	171	di-Ras2 {Human (Homo sapiens) [TaxId: 9606]}	99.77
d1c1ya_	167	Rap1A {Human (Homo sapiens) [TaxId: 9606]}	99.77
d1u8za_	168	Ras-related protein RalA {Cotton-top tamarin (Sagu	99.77
d1kmqa_	177	RhoA {Human (Homo sapiens) [TaxId: 9606]}	99.77
d1xtqa1	167	GTP-binding protein RheB {Human (Homo sapiens) [Ta	99.77
d1mh1a_	183	Rac {Human (Homo sapiens) [TaxId: 9606]}	99.77
d1i2ma_	170	Ran {Human (Homo sapiens) [TaxId: 9606]}	99.77
d2ngra_	191	CDC42 {Human (Homo sapiens) [TaxId: 9606]}	99.77
d1z0fa1	166	Rab14 {Human (Homo sapiens) [TaxId: 9606]}	99.76
d1m7ba_	179	RhoE (RND3) {Mouse (Mus musculus) [TaxId: 10090]}	99.76
d2bcgy1	194	GTPase Ytp1 {Baker's yeast (Saccharomyces cerevisi	99.76
d2g6ba1	170	Rab26 {Human (Homo sapiens) [TaxId: 9606]}	99.76
d1x1ra1	169	Ras-related protein M-Ras (XRas) {Mouse (Mus muscu	99.75
d2fn4a1	173	r-Ras {Human (Homo sapiens) [TaxId: 9606]}	99.75
d1kaoa_	167	Rap2a {Human (Homo sapiens) [TaxId: 9606]}	99.75
d1z2aa1	164	Rab23 {Mouse (Mus musculus) [TaxId: 10090]}	99.75
d1yzqa1	164	Rab6 {Human (Homo sapiens) [TaxId: 9606]}	99.75
d2erya1	171	r-Ras2 {Human (Homo sapiens) [TaxId: 9606]}	99.75
d2bmea1	174	Rab4a {Human (Homo sapiens) [TaxId: 9606]}	99.75
d1z0ja1	167	Rab-22a {Mouse (Mus musculus) [TaxId: 10090]}	99.75
d1ctqa_	166	cH-p21 Ras protein {Human (Homo sapiens) [TaxId: 9	99.73
d1r2qa_	170	Rab5a {Human (Homo sapiens) [TaxId: 9606]}	99.73
d2fu5c1	173	Rab8a {Mouse (Mus musculus) [TaxId: 10090]}	99.73
d1wmsa_	174	Rab9a {Human (Homo sapiens) [TaxId: 9606]}	99.72
d1x3sa1	177	Rab18 {Human (Homo sapiens) [TaxId: 9606]}	99.71
d1vg8a_	184	Rab7 {Rat (Rattus norvegicus) [TaxId: 10116]}	99.7
d2f9la1	175	Rab11b {Human (Homo sapiens) [TaxId: 9606]}	99.7
d2bmja1	175	Centaurin gamma 1, G domain {Human (Homo sapiens)	99.69
d2a5ja1	173	Rab2b {Human (Homo sapiens) [TaxId: 9606]}	99.69
d1ky3a_	175	Rab-related protein ypt7p {Baker's yeast (Saccharo	99.64
d1zd9a1	164	ADP-ribosylation factor {Human (Homo sapiens), ARL	99.64
d2bcjq2	200	Transducin (alpha subunit) {Mouse (Mus musculus) [	99.64
d2gjsa1	168	Rad {Human (Homo sapiens) [TaxId: 9606]}	99.63
d2f7sa1	186	Rab27b {Human (Homo sapiens) [TaxId: 9606]}	99.63
d1z06a1	165	Rab-33b {Mouse (Mus musculus) [TaxId: 10090]}	99.61
d1svsa1	195	Transducin (alpha subunit) {Rat (Rattus norvegicus	99.56
d1zcba2	200	Transducin (alpha subunit) {Mouse (Mus musculus) [	99.55
d1ksha_	165	ADP-ribosylation factor {Mouse (Mus musculus), ARL	99.54
d2g3ya1	172	GTP-binding protein GEM {Human (Homo sapiens) [Tax	99.5
d1fzqa_	176	ADP-ribosylation factor {Mouse (Mus musculus), ARL	99.48
d1azta2	221	Transducin (alpha subunit) {Cow (Bos taurus) [TaxI	99.41
d1e0sa_	173	ADP-ribosylation factor {Human (Homo sapiens), ARF	99.41
d1moza_	182	ADP-ribosylation factor {Baker's yeast (Saccharomy	99.4
d1r8sa_	160	ADP-ribosylation factor {Human (Homo sapiens), ARF	99.4
d2fh5b1	207	Signal recognition particle receptor beta-subunit	99.33
d1upta_	169	ADP-ribosylation factor {Human (Homo sapiens), ARL	99.26
d2qtvb1	166	SAR1 {Baker's yeast (Saccharomyces cerevisiae) [Ta	99.22
d1udxa2	180	Obg GTP-binding protein middle domain {Thermus the	99.16
d2gj8a1	161	Probable tRNA modification GTPase TrmE (MnmE), G d	99.16
d1zj6a1	177	ADP-ribosylation factor {Human (Homo sapiens), ARL	99.13
d1nrjb_	209	Signal recognition particle receptor beta-subunit	99.11
d1wf3a1	178	GTPase Era, N-terminal domain {Thermus thermophilu	99.11
d1f6ba_	186	SAR1 {Chinese hamster (Cricetulus griseus) [TaxId:	99.09
d1xzpa2	160	TrmE GTPase domain {Thermotoga maritima [TaxId: 23	99.07
d1lnza2	185	Obg GTP-binding protein middle domain {Bacillus su	98.98
d1h65a_	257	Chloroplast protein translocon GTPase Toc34 {Garde	98.95
d1mkya1	171	Probable GTPase Der, N-terminal and middle domains	98.85
d2cxxa1	184	GTP-binding protein engB {Pyrococcus horikoshii [T	98.81
d1mkya2	186	Probable GTPase Der, N-terminal and middle domains	98.8
d1egaa1	179	GTPase Era, N-terminal domain {Escherichia coli [T	98.72
d1tq4a_	400	Interferon-inducible GTPase {Mouse (Mus musculus)	98.71
d1puia_	188	Probable GTPase EngB {Escherichia coli [TaxId: 562	98.62
d1svia_	195	Probable GTPase EngB {Bacillus subtilis [TaxId: 14	98.4
d1wb1a4	179	Elongation factor SelB, N-terminal domain {Methano	98.4
d1wxqa1	319	GTP-binding protein PH0525 {Pyrococcus horikoshii	98.38
d1puja_	273	Probable GTPase YlqF {Bacillus subtilis [TaxId: 14	98.32
d1jala1	278	YchF GTP-binding protein N-terminal domain {Haemop	98.26
d1ni3a1	296	YchF GTP-binding protein N-terminal domain {Fissio	98.21
d2c78a3	204	Elongation factor Tu (EF-Tu), N-terminal (G) domai	98.17
d1g7sa4	227	Initiation factor IF2/eIF5b, N-terminal (G) domain	98.1
d1ye8a1	178	Hypothetical kinase-like protein Aq_1292 {Aquifex	98.09
d1u0la2	225	Probable GTPase EngC (YjeQ), C-terminal domain {Th	98.04
d1y63a_	174	Probable kinase LmjF30.1890 {Leishmania major [Tax	97.96
d1lw7a2	192	Transcriptional regulator NadR, ribosylnicotinamid	97.94
d1d2ea3	196	Elongation factor Tu (EF-Tu), N-terminal (G) domai	97.9
d1rkba_	173	Adenylate kinase {Human (Homo sapiens), isoenzyme	97.89
d1ak2a1	190	Adenylate kinase {Cow (Bos taurus), mitochondrial	97.78
d2bv3a2	276	Elongation factor G (EF-G), N-terminal (G) domain	97.76
d1qf9a_	194	UMP/CMP kinase {Dictyostelium discoideum [TaxId: 4	97.76
d2dy1a2	267	Elongation factor G (EF-G), N-terminal (G) domain	97.74
d1t9ha2	231	Probable GTPase EngC (YjeQ), C-terminal domain {Ba	97.74
d2akab1	299	Dynamin G domain {Rat (Rattus norvegicus) [TaxId:	97.74
d1f60a3	239	Elongation factor eEF-1alpha, N-terminal (G) domai	97.73
d1kk1a3	195	Initiation factor eIF2 gamma subunit, N-terminal (	97.73
d1kaga_	169	Shikimate kinase (AroK) {Escherichia coli [TaxId:	97.7
d1np6a_	170	Molybdopterin-guanine dinucleotide biosynthesis pr	97.69
d2ak3a1	189	Adenylate kinase {Cow (Bos taurus), mitochondrial	97.66
d1zina1	182	Adenylate kinase {Bacillus stearothermophilus [Tax	97.64
d1ly1a_	152	Polynucleotide kinase, kinase domain {Bacteriophag	97.61
d2bdta1	176	Hypothetical protein BH3686 {Bacillus halodurans [	97.61
d2cdna1	181	Adenylate kinase {Mycobacterium tuberculosis [TaxI	97.59
d2i3ba1	189	Cancer-related NTPase, C1orf57 {Human (Homo sapien	97.58
d1zunb3	222	Sulfate adenylate transferase subunit cysN/C, EF-T	97.58
d1s3ga1	182	Adenylate kinase {Bacillus globisporus [TaxId: 145	97.58
d1akya1	180	Adenylate kinase {Baker's yeast (Saccharomyces cer	97.54
d1e4va1	179	Adenylate kinase {Escherichia coli [TaxId: 562]}	97.53
d1jnya3	224	Elongation factor eEF-1alpha, N-terminal (G) domai	97.53
d1jbka_	195	ClpB, AAA+ modules {Escherichia coli [TaxId: 562]}	97.52
d1gkya_	186	Guanylate kinase {Baker's yeast (Saccharomyces cer	97.52
d1zaka1	189	Adenylate kinase {Maize (Zea mays) [TaxId: 4577]}	97.51
d1jwyb_	306	Dynamin G domain {Dictyostelium discoideum [TaxId:	97.51
d1r6bx2	268	ClpA, an Hsp100 chaperone, AAA+ modules {Escherich	97.47
d1f5na2	277	Interferon-induced guanylate-binding protein 1 (GB	97.46
d2iyva1	165	Shikimate kinase (AroK) {Mycobacterium tuberculosi	97.45
d1m8pa3	183	ATP sulfurylase C-terminal domain {Fungus (Penicil	97.45
d1bifa1	213	6-phosphofructo-2-kinase/fructose-2,6-bisphosphata	97.45
d1yj5a2	172	5' polynucleotide kinase-3' phosphatase, C-termina	97.42
d1kgda_	178	Guanylate kinase-like domain of Cask {Human (Homo	97.42
d1lvga_	190	Guanylate kinase {Mouse (Mus musculus) [TaxId: 100	97.41
d1znwa1	182	Guanylate kinase {Mycobacterium tuberculosis [TaxI	97.41
d2fnaa2	283	Archaeal ATPase SSO1545 {Sulfolobus solfataricus [	97.4
d1n0ua2	341	Elongation factor 2 (eEF-2), N-terminal (G) domain	97.37
d1knqa_	171	Gluconate kinase {Escherichia coli [TaxId: 562]}	97.36
d1s96a_	205	Guanylate kinase {Escherichia coli [TaxId: 562]}	97.35
d1rz3a_	198	Hypothetical protein rbstp0775 {Bacillus stearothe	97.33
d1yrba1	244	ATP(GTP)-binding protein PAB0955 {Pyrococcus abyss	97.33
d1gvnb_	273	Plasmid maintenance system epsilon/zeta, toxin zet	97.33
d1xjca_	165	Molybdopterin-guanine dinucleotide biosynthesis pr	97.31
d1zp6a1	176	Hypothetical protein Atu3015 {Agrobacterium tumefa	97.31
d1viaa_	161	Shikimate kinase (AroK) {Campylobacter jejuni [Tax	97.28
d1khta_	190	Adenylate kinase {Archaeon Methanococcus voltae [T	97.27
d1teva_	194	UMP/CMP kinase {Human (Homo sapiens) [TaxId: 9606]	97.26
d1in4a2	238	Holliday junction helicase RuvB {Thermotoga mariti	97.26
d1qhxa_	178	Chloramphenicol phosphotransferase {Streptomyces v	97.25
d2p67a1	327	LAO/AO transport system kinase ArgK {Escherichia c	97.23
d1ukza_	196	Uridylate kinase {Baker's yeast (Saccharomyces cer	97.21
d1ixsb2	239	Holliday junction helicase RuvB {Thermus thermophi	97.19
d2pmka1	241	Haemolysin B ATP-binding protein {Escherichia coli	97.15
d1ofha_	309	HslU {Haemophilus influenzae [TaxId: 727]}	97.13
d1e6ca_	170	Shikimate kinase (AroK) {Erwinia chrysanthemi [Tax	97.12
d3b60a1	253	Multidrug resistance ABC transporter MsbA, C-termi	97.12
d1fnna2	276	CDC6, N-domain {Archaeon Pyrobaculum aerophilum [T	97.11
d1qvra2	387	ClpB, AAA+ modules {Thermus thermophilus [TaxId: 2	97.1
d1l2ta_	230	MJ0796 {Archaeon Methanococcus jannaschii [TaxId:	97.07
d1jj7a_	251	Peptide transporter Tap1, C-terminal ABC domain {H	97.06
d1q3ta_	223	CMP kinase {Streptococcus pneumoniae [TaxId: 1313]	97.06
d1mv5a_	242	Multidrug resistance ABC transporter LmrA, C-termi	97.06
d3adka_	194	Adenylate kinase {Pig (Sus scrofa) [TaxId: 9823]}	97.06
d2onka1	240	Molybdate/tungstate import ATP-binding protein Wtp	97.05
d2awna2	232	Maltose transport protein MalK, N-terminal domain	97.05
d1nksa_	194	Adenylate kinase {Archaeon Sulfolobus acidocaldari	97.05
d1d2na_	246	Hexamerization domain of N-ethylmalemide-sensitive	97.03
d1r0wa_	281	Cystic fibrosis transmembrane conductance regulato	97.03
d1sgwa_	200	Putative ABC transporter PF0895 {Pyrococcus furios	97.01
d1sxja2	253	Replication factor C1 {Baker's yeast (Saccharomyce	97.01
d2qm8a1	323	Metallochaperone MeaB {Methylobacterium extorquens	97.0
d1r5ba3	245	Eukaryotic peptide chain release factor ERF2, G do	97.0
d1sxje2	252	Replication factor C5 {Baker's yeast (Saccharomyce	96.98
d1v43a3	239	Hypothetical protein PH0022, N-terminal domain {Py	96.97
d1vmaa2	213	GTPase domain of the signal recognition particle r	96.94
d3dhwc1	240	Methionine import ATP-binding protein MetN {Escher	96.94
d1iqpa2	231	Replication factor C {Archaeon Pyrococcus furiosus	96.94
d1x6va3	195	Adenosine-5'phosphosulfate kinase (APS kinase) {Hu	96.93
d1w5sa2	287	CDC6-like protein APE0152, N-terminal domain {Aero	96.93
d1g41a_	443	HslU {Haemophilus influenzae [TaxId: 727]}	96.9
d1g2912	240	Maltose transport protein MalK, N-terminal domain	96.88
d1pzna2	254	DNA repair protein Rad51, catalytic domain {Archae	96.85
d2hyda1	255	Putative multidrug export ATP-binding/permease pro	96.84
d1sxjd2	237	Replication factor C2 {Baker's yeast (Saccharomyce	96.82
d1sxjb2	224	Replication factor C4 {Baker's yeast (Saccharomyce	96.81
d1n0wa_	242	DNA repair protein Rad51, catalytic domain {Human	96.78
d1ixza_	247	AAA domain of cell division protein FtsH {Thermus	96.76
d3d31a2	229	Sulfate/molybdate ABC transporter, ATP-binding pro	96.76
d2qn6a3	205	Initiation factor eIF2 gamma subunit, N-terminal (	96.72
d1um8a_	364	ClpX {Helicobacter pylori [TaxId: 210]}	96.7
d1sxjc2	227	Replication factor C3 {Baker's yeast (Saccharomyce	96.69
d1szpa2	251	DNA repair protein Rad51, catalytic domain {Baker'	96.68
d1m7ga_	208	Adenosine-5'phosphosulfate kinase (APS kinase) {Fu	96.64
d2vp4a1	197	Deoxyribonucleoside kinase {Fruit fly (Drosophila	96.62
d1l7vc_	231	ABC transporter involved in vitamin B12 uptake, Bt	96.6
d1lv7a_	256	AAA domain of cell division protein FtsH {Escheric	96.59
d2qy9a2	211	GTPase domain of the signal recognition particle r	96.59
d2i1qa2	258	DNA repair protein Rad51, catalytic domain {Archae	96.58
d1tf7a2	242	Circadian clock protein KaiC {Synechococcus sp. st	96.58
d1b0ua_	258	ATP-binding subunit of the histidine permease {Sal	96.56
d1uj2a_	213	Uridine-cytidine kinase 2 {Human (Homo sapiens) [T	96.55
d1r6bx3	315	ClpA, an Hsp100 chaperone, AAA+ modules {Escherich	96.54
d1v5wa_	258	Meiotic recombination protein DMC1/LIM15 homolog {	96.53
d1ckea_	225	CMP kinase {Escherichia coli [TaxId: 562]}	96.52
d1ji0a_	240	Branched chain aminoacid ABC transporter {Thermoto	96.52
d1oxxk2	242	Glucose transport protein GlcV, N-terminal domain	96.5
d1e32a2	258	Membrane fusion ATPase VCP/p97 {Mouse (Mus musculu	96.5
d1kkma_	176	HPr kinase HprK C-terminal domain {Lactobacillus c	96.48
d1j8yf2	211	GTPase domain of the signal sequence recognition p	96.46
d1okkd2	207	GTPase domain of the signal recognition particle r	96.46
d1vpla_	238	Putative ABC transporter TM0544 {Thermotoga mariti	96.44
g1f2t.1	292	Rad50 {Archaeon Pyrococcus furiosus [TaxId: 2261]}	96.38
d1g6ha_	254	MJ1267 {Archaeon Methanococcus jannaschii [TaxId:	96.37
d1g6oa_	323	Hexameric traffic ATPase, HP0525 {Helicobacter pyl	96.37
d1ls1a2	207	GTPase domain of the signal sequence recognition p	96.36
d1g8pa_	333	ATPase subunit of magnesium chelatase, BchI {Rhodo	96.34
d1knxa2	177	HPr kinase HprK C-terminal domain {Mycoplasma pneu	96.31
d1tf7a1	242	Circadian clock protein KaiC {Synechococcus sp. st	96.29
d1htwa_	158	Hypothetical protein HI0065 {Haemophilus influenza	96.27
d1r7ra3	265	Membrane fusion ATPase VCP/p97 {Mouse (Mus musculu	96.26
d1ko7a2	169	HPr kinase HprK C-terminal domain {Staphylococcus	96.25
d1gsia_	208	Thymidylate kinase {Mycobacterium tuberculosis [Ta	96.24
d2a5yb3	277	CED-4, NB-ARC domain {Caenorhabditis elegans [TaxI	96.23
d1uf9a_	191	Dephospho-CoA kinase {Thermus thermophilus [TaxId:	96.19
d1l8qa2	213	Chromosomal replication initiation factor DnaA {Aq	96.04
d1svma_	362	Papillomavirus large T antigen helicase domain {Si	95.93
d1sq5a_	308	Pantothenate kinase PanK {Escherichia coli [TaxId:	95.92
g1ii8.1	369	Rad50 {Archaeon Pyrococcus furiosus [TaxId: 2261]}	95.88
d1w44a_	321	NTPase P4 {Bacteriophage phi-12 [TaxId: 161736]}	95.86
d1nija1	222	Hypothetical protein YjiA, N-terminal domain {Esch	95.75
d1nlfa_	274	Hexameric replicative helicase repA {Escherichia c	95.75
d1njfa_	239	delta prime subunit of DNA polymerase III, N-domai	95.72
d4tmka_	210	Thymidylate kinase {Escherichia coli [TaxId: 562]}	95.71
d1cr2a_	277	Gene 4 protein (g4p, DNA primase), helicase domain	95.68
d1a5ta2	207	delta prime subunit of DNA polymerase III, N-domai	95.65
d1vhta_	208	Dephospho-CoA kinase {Escherichia coli [TaxId: 562	95.64
g1xew.1	329	Smc head domain {Pyrococcus furiosus [TaxId: 2261]	95.58
d1p5zb_	241	Deoxycytidine kinase {Human (Homo sapiens) [TaxId:	95.42
d1cp2a_	269	Nitrogenase iron protein {Clostridium pasteurianum	95.36
d1nn5a_	209	Thymidylate kinase {Human (Homo sapiens) [TaxId: 9	95.35
d1e69a_	308	Smc head domain {Thermotoga maritima [TaxId: 2336]	95.31
d1xpua3	289	Transcription termination factor Rho, ATPase domai	95.3
d1jjva_	205	Dephospho-CoA kinase {Haemophilus influenzae [TaxI	95.29
d1qhla_	222	Cell division protein MukB {Escherichia coli [TaxI	95.21
d1a7ja_	288	Phosphoribulokinase {Rhodobacter sphaeroides [TaxI	95.18
d1qvra3	315	ClpB, AAA+ modules {Thermus thermophilus [TaxId: 2	95.12
d1w1wa_	427	Smc head domain {Baker's yeast (Saccharomyces cere	95.01
d2ocpa1	241	Deoxyguanosine kinase {Human (Homo sapiens) [TaxId	95.01
d1odfa_	286	Hypothetical protein Ygr205W {Baker's yeast (Sacch	94.95
d1e9ra_	433	Bacterial conjugative coupling protein TrwB {Esche	94.8
d2afhe1	289	Nitrogenase iron protein {Azotobacter vinelandii [	94.77
d1pjra1	318	DEXX box DNA helicase {Bacillus stearothermophilus	94.51
d1tmka_	214	Thymidylate kinase {Baker's yeast (Saccharomyces c	94.5
d1ihua1	296	Arsenite-translocating ATPase ArsA {Escherichia co	94.4
d2jdid3	276	Central domain of beta subunit of F1 ATP synthase	94.38
d1p6xa_	333	Thymidine kinase {Equine herpesvirus type 4 [TaxId	94.33
d1tuea_	205	Replication protein E1 helicase domain {Human papi	94.32
d1uaaa1	306	DEXX box DNA helicase {Escherichia coli, RepD [Tax	94.31
d1byia_	224	Dethiobiotin synthetase {Escherichia coli [TaxId:	94.31
d1ihua2	279	Arsenite-translocating ATPase ArsA {Escherichia co	94.16
d1e2ka_	329	Thymidine kinase {Herpes simplex virus type 1, dif	94.03
d1osna_	331	Thymidine kinase {Varicella-zoster virus [TaxId: 1	94.03
d1p9ra_	401	Extracellular secretion NTPase EpsE {Vibrio choler	93.45
d1u94a1	263	RecA protein, ATPase-domain {Escherichia coli [Tax	93.38
d1c9ka_	180	Adenosylcobinamide kinase/adenosylcobinamide phosp	93.17
d1ny5a2	247	Transcriptional activator sigm54 (NtrC1), C-termin	92.66
d1w36d1	359	Exodeoxyribonuclease V alpha chain (RecD) {Escheri	92.61
d1deka_	241	Deoxynucleoside monophosphate kinase {Bacteriophag	92.44
d2jdia3	285	Central domain of alpha subunit of F1 ATP synthase	91.69
d1u0ja_	267	Rep 40 protein helicase domain {Adeno-associated v	91.3
d1g8fa3	122	ATP sulfurylase C-terminal domain {Baker's yeast (	91.12
d1fx0a3	276	Central domain of alpha subunit of F1 ATP synthase	91.03
g1qhh.1	623	DEXX box DNA helicase {Bacillus stearothermophilus	90.56
d1xp8a1	268	RecA protein, ATPase-domain {Deinococcus radiodura	89.92
d1mo6a1	269	RecA protein, ATPase-domain {Mycobacterium tubercu	89.86
d1hyqa_	232	Cell division regulator MinD {Archaeon Archaeoglob	88.93
d1g3qa_	237	Cell division regulator MinD {Archaeon Pyrococcus	88.73
d1wb9a2	234	DNA repair protein MutS, the C-terminal domain {Es	88.54
d1j3ba1	318	Phosphoenolpyruvate (PEP) carboxykinase (ATP-oxalo	88.28
d2olra1	313	Phosphoenolpyruvate (PEP) carboxykinase (ATP-oxalo	88.06
d2eyqa3	233	Transcription-repair coupling factor, TRCF {Escher	87.65
d2gnoa2	198	gamma subunit of DNA polymerase III, N-domain {The	87.47
d1lkxa_	684	Myosin S1, motor domain {Dictyostelium discoideum,	87.43
d1ewqa2	224	DNA repair protein MutS, the C-terminal domain {Th	87.32
d1a1va1	136	HCV helicase domain {Human hepatitis C virus (HCV)	87.03
d1d0xa2	712	Myosin S1, motor domain {Dictyostelium discoideum	86.97
d2mysa2	794	Myosin S1, motor domain {Chicken (Gallus gallus),	86.59
d1ii2a1	323	Phosphoenolpyruvate (PEP) carboxykinase (ATP-oxalo	86.44
d1br2a2	710	Myosin S1, motor domain {Chicken (Gallus gallus),	86.19
d1kk8a2	789	Myosin S1, motor domain {Bay scallop (Aequipecten	85.65
d1gm5a3	264	RecG helicase domain {Thermotoga maritima [TaxId:	85.58
d1wp9a1	200	putative ATP-dependent RNA helicase PF2015 {Pyroco	84.34
d1p3da1	96	UDP-N-acetylmuramate-alanine ligase MurC {Haemophi	83.88
d1w7ja2	730	Myosin S1, motor domain {Chicken (Gallus gallus),	83.84
d1w36b1	485	Exodeoxyribonuclease V beta chain (RecB), N-termin	80.38
d1xbta1	133	Thymidine kinase, TK1, N-terminal domain {Human (H	80.29

>d2atva1 c.37.1.8 (A:5-172) Ras-like estrogen-regulated growth inhibitor, RERG {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Ras-like estrogen-regulated growth inhibitor, RERG
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.82  E-value=3.5e-20  Score=102.73  Aligned_cols=59  Identities=20%  Similarity=0.318  Sum_probs=54.2

Q ss_pred             eeeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCCEEEEEEEcCCCC
Q psy2514          12 KGTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRGTFTRDYKKTIGA   70 (71)
Q Consensus        12 ~~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~   70 (71)
                      .+||+++|+++||||||+.||+.+.|.++|.||++.+|.......+..+.+++||++|.
T Consensus         2 eiKi~lvG~~~vGKTsli~r~~~~~f~~~~~pTi~~~~~~~~~~~~~~~~l~i~D~~g~   60 (168)
T d2atva1           2 EVKLAIFGRAGVGKSALVVRFLTKRFIWEYDPTLESTYRHQATIDDEVVSMEILDTAGQ   60 (168)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHHSCCCSCCCTTCCEEEEEEEEETTEEEEEEEEECCCC
T ss_pred             cEEEEEECCCCCCHHHHHHHHHhCCCCCccCCceeccccccccccccceEEEEeecccc
Confidence            48999999999999999999999999999999999998877776666899999999985

>d2ew1a1 c.37.1.8 (A:4-174) Rab30 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab30
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.79  E-value=6.6e-19  Score=97.56  Aligned_cols=61  Identities=26%  Similarity=0.423  Sum_probs=56.3

Q ss_pred             ceeeeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCC-EEEEEEEcCCCC
Q psy2514          10 SIKGTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRG-TFTRDYKKTIGA   70 (71)
Q Consensus        10 ~~~~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~-~~~l~i~Dt~G~   70 (71)
                      +..+|++++|+++||||||++++..+.|...+.|+.+.++..+.+..++ .+.+++|||+|+
T Consensus         3 ~~~~Ki~lvG~~~vGKTsLi~~l~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~l~i~Dt~G~   64 (171)
T d2ew1a1           3 DFLFKIVLIGNAGVGKTCLVRRFTQGLFPPGQGATIGVDFMIKTVEINGEKVKLQIWDTAGQ   64 (171)
T ss_dssp             SEEEEEEEEESTTSSHHHHHHHHHHSSCCTTCCCCCSEEEEEEEEEETTEEEEEEEEEECCS
T ss_pred             CEEEEEEEECCCCcCHHHHHHHHHhCCCCCcccccccceEEEEEEEECCEEEEEEEEECCCc
Confidence            5679999999999999999999999999999999999999988888776 789999999995

>d1ek0a_ c.37.1.8 (A:) Ypt51 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Ypt51
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=99.78  E-value=6.7e-19  Score=97.36  Aligned_cols=59  Identities=27%  Similarity=0.364  Sum_probs=54.6

Q ss_pred             eeeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCC-EEEEEEEcCCCC
Q psy2514          12 KGTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRG-TFTRDYKKTIGA   70 (71)
Q Consensus        12 ~~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~-~~~l~i~Dt~G~   70 (71)
                      .+|++++|+++||||||+.||..++|.+.+.||.+.++..+.+..++ .+.+++|||+|.
T Consensus         3 ~iKi~vvG~~~vGKTsLi~~~~~~~f~~~~~~t~~~~~~~~~i~~~~~~~~l~i~d~~g~   62 (170)
T d1ek0a_           3 SIKLVLLGEAAVGKSSIVLRFVSNDFAENKEPTIGAAFLTQRVTINEHTVKFEIWDTAGQ   62 (170)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHSCCCTTCCCCSSEEEEEEEEEETTEEEEEEEEEECCS
T ss_pred             EEEEEEECCCCcCHHHHHHHHHhCCCCccccccccceeeccccccccccccccccccCCc
Confidence            58999999999999999999999999999999999999888888776 789999999985

>d1g16a_ c.37.1.8 (A:) Rab-related protein Sec4 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab-related protein Sec4
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=99.78  E-value=4.1e-19  Score=97.91  Aligned_cols=59  Identities=22%  Similarity=0.419  Sum_probs=47.8

Q ss_pred             eeeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCC-EEEEEEEcCCCC
Q psy2514          12 KGTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRG-TFTRDYKKTIGA   70 (71)
Q Consensus        12 ~~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~-~~~l~i~Dt~G~   70 (71)
                      .+||+++|+++||||||+++++.++|...+.||++.++..+.+..++ .+.+++|||+|+
T Consensus         2 ~~Ki~vvG~~~vGKTSli~~l~~~~~~~~~~~t~~~~~~~~~i~~~~~~~~~~i~Dt~G~   61 (166)
T d1g16a_           2 IMKILLIGDSGVGKSCLLVRFVEDKFNPSFITTIGIDFKIKTVDINGKKVKLQIWDTAGQ   61 (166)
T ss_dssp             EEEEEEEESTTSSHHHHHHHHHHCCCCC-------CCEEEEEEESSSCEEEEEEECCTTG
T ss_pred             EEEEEEECCCCcCHHHHHHHHHhCCCCCccCCccceeEEEEEEEECCEEEEEEEEECCCc
Confidence            48999999999999999999999999999999999999988887765 899999999985

>d3raba_ c.37.1.8 (A:) Rab3a {Rat (Rattus norvegicus) [TaxId: 10116]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab3a
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=99.78  E-value=1.1e-18  Score=96.57  Aligned_cols=62  Identities=26%  Similarity=0.415  Sum_probs=55.9

Q ss_pred             CceeeeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCC-EEEEEEEcCCCC
Q psy2514           9 GSIKGTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRG-TFTRDYKKTIGA   70 (71)
Q Consensus         9 ~~~~~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~-~~~l~i~Dt~G~   70 (71)
                      .++.+||+++|+++||||||+.++..++|...+.|+.+.++..+.+.... .+.+++|||+|+
T Consensus         2 ~~~~~Ki~vvG~~~vGKTsLi~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~wDt~G~   64 (169)
T d3raba_           2 FDYMFKILIIGNSSVGKTSFLFRYADDSFTPAFVSTVGIDFKVKTIYRNDKRIKLQIWDTAGQ   64 (169)
T ss_dssp             CSEEEEEEEECSTTSSHHHHHHHHHHSCCCSSCCCCCSEEEEEEEEEETTEEEEEEEEEECCS
T ss_pred             CCeEEEEEEECCCCcCHHHHHHHHHcCCCCcccccccccceeeEEEEeecceEEEEEEECCCc
Confidence            35679999999999999999999999999999999999888887777765 789999999995

>d1z08a1 c.37.1.8 (A:17-183) Rab21 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab21
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.78  E-value=1e-18  Score=96.51  Aligned_cols=60  Identities=28%  Similarity=0.440  Sum_probs=55.5

Q ss_pred             eeeeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCC-EEEEEEEcCCCC
Q psy2514          11 IKGTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRG-TFTRDYKKTIGA   70 (71)
Q Consensus        11 ~~~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~-~~~l~i~Dt~G~   70 (71)
                      +.+||+++|+++||||||+.|+..+.|.+++.||.+.++..+....++ .+.+++||++|.
T Consensus         2 y~fKivlvG~~~vGKTsLi~r~~~~~f~~~~~~t~~~~~~~~~~~~~~~~~~~~~~d~~g~   62 (167)
T d1z08a1           2 YSFKVVLLGEGCVGKTSLVLRYCENKFNDKHITTLGASFLTKKLNIGGKRVNLAIWDTAGQ   62 (167)
T ss_dssp             EEEEEEEECCTTSCHHHHHHHHHHCCCCSSCCCCCSCEEEEEEEESSSCEEEEEEEECCCC
T ss_pred             ceEEEEEECCCCcCHHHHHHHHHhCCCCcccccccccchheeeeccCCccceeeeeccCCc
Confidence            579999999999999999999999999999999999998888887766 899999999986

>d2atxa1 c.37.1.8 (A:9-193) RhoQ {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: RhoQ
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.78  E-value=6e-19  Score=98.98  Aligned_cols=62  Identities=24%  Similarity=0.414  Sum_probs=52.9

Q ss_pred             cCceeeeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeC-CEEEEEEEcCCCC
Q psy2514           8 RGSIKGTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCR-GTFTRDYKKTIGA   70 (71)
Q Consensus         8 ~~~~~~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~-~~~~l~i~Dt~G~   70 (71)
                      .+...+||+++|+++||||||+.||+.+.|.++|.||++..+ .+.+..+ ..+.+++|||+|+
T Consensus         5 ~~~~~~Ki~lvG~~~vGKTsLi~r~~~~~f~~~~~~Ti~~~~-~~~~~~~~~~~~l~i~D~~g~   67 (185)
T d2atxa1           5 PGALMLKCVVVGDGAVGKTCLLMSYANDAFPEEYVPTVFDHY-AVSVTVGGKQYLLGLYDTAGQ   67 (185)
T ss_dssp             CEEEEEEEEEEECTTSSHHHHHHHHHHSSCCCSCCCSSCCCE-EEEEESSSCEEEEEEECCCCS
T ss_pred             CCCcEEEEEEECCCCCCHHHHHHHHhhCCCCCcCCCceeeee-eEEEeeCCceEEeeccccccc
Confidence            356789999999999999999999999999999999998544 4444444 4899999999985

>d2erxa1 c.37.1.8 (A:6-176) di-Ras2 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: di-Ras2
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.77  E-value=1.1e-18  Score=96.50  Aligned_cols=59  Identities=29%  Similarity=0.460  Sum_probs=51.6

Q ss_pred             eeeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCCEEEEEEEcCCCC
Q psy2514          12 KGTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRGTFTRDYKKTIGA   70 (71)
Q Consensus        12 ~~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~   70 (71)
                      .+||+++|+++||||||+.||+.+.|.++|.||++..+.......+..+.+.+||++|+
T Consensus         2 ~~Ki~viG~~~vGKTsLi~r~~~~~f~~~~~~T~~~~~~~~~~~~~~~~~l~~~d~~g~   60 (171)
T d2erxa1           2 DYRVAVFGAGGVGKSSLVLRFVKGTFRESYIPTVEDTYRQVISCDKSICTLQITDTTGS   60 (171)
T ss_dssp             EEEEEEECCTTSSHHHHHHHHHTCCCCSSCCCCSCEEEEEEEEETTEEEEEEEEECCSC
T ss_pred             CeEEEEECCCCCCHHHHHHHHHhCCCCCccCcceeeccccceeeccccceecccccccc
Confidence            58999999999999999999999999999999999877655444445789999999986

>d1c1ya_ c.37.1.8 (A:) Rap1A {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rap1A
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.77  E-value=9e-19  Score=96.69  Aligned_cols=60  Identities=23%  Similarity=0.341  Sum_probs=53.3

Q ss_pred             eeeeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCCEEEEEEEcCCCC
Q psy2514          11 IKGTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRGTFTRDYKKTIGA   70 (71)
Q Consensus        11 ~~~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~   70 (71)
                      ..+||+++|+++||||||++|+..++|.++|.||++..+.......+..+.+.+||++|.
T Consensus         2 r~~KivvvG~~~vGKTsli~r~~~~~f~~~~~~t~~~~~~~~~~~~~~~~~~~~~d~~g~   61 (167)
T d1c1ya_           2 REYKLVVLGSGGVGKSALTVQFVQGIFVEKYDPTIEDSYRKQVEVDCQQCMLEILDTAGT   61 (167)
T ss_dssp             CEEEEEEECSTTSSHHHHHHHHHHCCCCCSCCCCSEEEEEEEEESSSCEEEEEEEEECSS
T ss_pred             ceeEEEEECCCCCCHHHHHHHHHcCCCCCccCCccccccceeEEeeeeEEEeccccccCc
Confidence            368999999999999999999999999999999999887666555556899999999985

>d1u8za_ c.37.1.8 (A:) Ras-related protein RalA {Cotton-top tamarin (Saguinus oedipus) [TaxId: 9490]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Ras-related protein RalA
species: Cotton-top tamarin (Saguinus oedipus) [TaxId: 9490]

Probab=99.77  E-value=1.2e-18  Score=96.57  Aligned_cols=60  Identities=25%  Similarity=0.315  Sum_probs=52.2

Q ss_pred             eeeeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCCEEEEEEEcCCCC
Q psy2514          11 IKGTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRGTFTRDYKKTIGA   70 (71)
Q Consensus        11 ~~~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~   70 (71)
                      +.+||+++|+++||||||+.|++.++|.++|.||++.++.......+..+.+++||++|.
T Consensus         3 ~~~KivlvG~~~vGKTsli~~~~~~~f~~~~~~T~~~~~~~~~~~~~~~~~l~i~d~~g~   62 (168)
T d1u8za_           3 ALHKVIMVGSGGVGKSALTLQFMYDEFVEDYEPTKADSYRKKVVLDGEEVQIDILDTAGQ   62 (168)
T ss_dssp             CEEEEEEECSTTSSHHHHHHHHHHSCCCSCCCTTCCEEEEEEEEETTEEEEEEEEECCC-
T ss_pred             ceeEEEEECCCCcCHHHHHHHHHhCCCCcccCCccccccccccccccccccccccccccc
Confidence            458999999999999999999999999999999999888765554445899999999985

>d1kmqa_ c.37.1.8 (A:) RhoA {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: RhoA
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.77  E-value=1.1e-18  Score=97.06  Aligned_cols=59  Identities=22%  Similarity=0.241  Sum_probs=50.8

Q ss_pred             eeeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCCEEEEEEEcCCCC
Q psy2514          12 KGTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRGTFTRDYKKTIGA   70 (71)
Q Consensus        12 ~~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~   70 (71)
                      +.||+++|+++||||||+.|+..+.|.+.+.||++..+.......+..+.+++||++|.
T Consensus         2 r~KivvvG~~~vGKTsLi~~~~~~~f~~~~~~t~~~~~~~~~~~~~~~~~l~i~D~~g~   60 (177)
T d1kmqa_           2 RKKLVIVGDGACGKTCLLIVNSKDQFPEVYVPTVFENYVADIEVDGKQVELALWDTAGL   60 (177)
T ss_dssp             EEEEEEEESTTSSHHHHHHHHHHSCCCSSCCCCSEEEEEEEEEETTEEEEEEEEEECCS
T ss_pred             cEEEEEECCCCcCHHHHHHHHHhCCCCCCcCCceeeeccccccccccceeeeccccCcc
Confidence            68999999999999999999999999999999999655544444445889999999985

>d1xtqa1 c.37.1.8 (A:3-169) GTP-binding protein RheB {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: GTP-binding protein RheB
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.77  E-value=1.7e-18  Score=95.44  Aligned_cols=61  Identities=25%  Similarity=0.367  Sum_probs=52.3

Q ss_pred             ceeeeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCCEEEEEEEcCCCC
Q psy2514          10 SIKGTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRGTFTRDYKKTIGA   70 (71)
Q Consensus        10 ~~~~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~   70 (71)
                      .+.+||+++|+++||||||+++++.+.|.+.|.||++.++.......+..+.+++|||+|.
T Consensus         2 ~k~~Kv~liG~~~vGKTsLl~~~~~~~f~~~~~~t~~~~~~~~~~~~~~~~~l~i~d~~g~   62 (167)
T d1xtqa1           2 SKSRKIAILGYRSVGKSSLTIQFVEGQFVDSYDPTIENTFTKLITVNGQEYHLQLVDTAGQ   62 (167)
T ss_dssp             CEEEEEEEEESTTSSHHHHHHHHHHSCCCSCCCSSCCEEEEEEEEETTEEEEEEEEECCCC
T ss_pred             CcceEEEEECCCCcCHHHHHHHHHhCCCCcccCcceecccceEEecCcEEEEeeecccccc
Confidence            3568999999999999999999999999999999999987644333344899999999985

>d1mh1a_ c.37.1.8 (A:) Rac {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rac
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.77  E-value=1.6e-18  Score=96.95  Aligned_cols=62  Identities=24%  Similarity=0.277  Sum_probs=53.0

Q ss_pred             CceeeeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCCEEEEEEEcCCCC
Q psy2514           9 GSIKGTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRGTFTRDYKKTIGA   70 (71)
Q Consensus         9 ~~~~~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~   70 (71)
                      .+..+||+++|+++||||||+.||+.+.|.++|.||++..+.......+..+.+++||++|+
T Consensus         2 ~p~~iKivviG~~~vGKTsli~~~~~~~f~~~~~~ti~~~~~~~~~~~~~~~~~~~~d~~g~   63 (183)
T d1mh1a_           2 SPQAIKCVVVGDGAVGKTCLLISYTTNAFPGEYIPTVFDNYSANVMVDGKPVNLGLWDTAGQ   63 (183)
T ss_dssp             CCEEEEEEEECSTTSSHHHHHHHHHHSSCCSSCCCCSCCEEEEEEEETTEEEEEEEECCCCS
T ss_pred             CceeEEEEEECCCCCCHHHHHHHHHhCCCCcccccceeeceeeeeeccCcceEEEeeccccc
Confidence            35679999999999999999999999999999999999665555444445889999999985

>d1i2ma_ c.37.1.8 (A:) Ran {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Ran
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.77  E-value=2.8e-19  Score=99.23  Aligned_cols=60  Identities=25%  Similarity=0.449  Sum_probs=50.0

Q ss_pred             eeeeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCC-EEEEEEEcCCCC
Q psy2514          11 IKGTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRG-TFTRDYKKTIGA   70 (71)
Q Consensus        11 ~~~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~-~~~l~i~Dt~G~   70 (71)
                      .++|++++|+++||||||+.+++.+.|..+|.||++.++..+....++ .+.+.+|||+|.
T Consensus         2 ~~~Ki~vvG~~~vGKTsli~~~~~~~f~~~~~~Ti~~~~~~~~~~~~~~~~~l~i~D~~g~   62 (170)
T d1i2ma_           2 VQFKLVLVGDGGTGKTTFVKRHLTGEFEKKYVATLGVEVHPLVFHTNRGPIKFNVWDTAGQ   62 (170)
T ss_dssp             EEEEEEEEECTTSSHHHHHHTTC-----CCEEEETTEEEEEEEECBTTCCEEEEEEECTTH
T ss_pred             eeEEEEEECCCCcCHHHHHHHHHhCCCCcccccceeccccccccccccccccccccccccc
Confidence            468999999999999999999999999999999999999888777665 899999999984

>d2ngra_ c.37.1.8 (A:) CDC42 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: CDC42
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.77  E-value=1.5e-18  Score=97.62  Aligned_cols=59  Identities=25%  Similarity=0.375  Sum_probs=51.1

Q ss_pred             eeeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCCEEEEEEEcCCCC
Q psy2514          12 KGTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRGTFTRDYKKTIGA   70 (71)
Q Consensus        12 ~~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~   70 (71)
                      .+||+++|+++||||||+.||+.+.|..+|.||++..+.......+..+.+++|||+|+
T Consensus         3 ~iKvvllG~~~vGKTSli~r~~~~~f~~~~~~t~~~~~~~~~~~~~~~~~l~i~D~~g~   61 (191)
T d2ngra_           3 TIKCVVVGDGAVGKTCLLISYTTNKFPSEYVPTVFDNYAVTVMIGGEPYTLGLFDTAGQ   61 (191)
T ss_dssp             EEEEEEEESTTSSHHHHHHHHHHSCCCSSCCCCSEEEEEEEEEETTEEEEEEEEEECCS
T ss_pred             ceEEEEECCCCcCHHHHHHHHHhCCCCCCcCCceeeecceeEeeCCceeeeeccccccc
Confidence            58999999999999999999999999999999999765555444445889999999985

>d1z0fa1 c.37.1.8 (A:8-173) Rab14 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab14
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.76  E-value=2.6e-18  Score=94.70  Aligned_cols=61  Identities=26%  Similarity=0.346  Sum_probs=55.9

Q ss_pred             ceeeeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCC-EEEEEEEcCCCC
Q psy2514          10 SIKGTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRG-TFTRDYKKTIGA   70 (71)
Q Consensus        10 ~~~~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~-~~~l~i~Dt~G~   70 (71)
                      ++.+|++++|+++||||||++|+..++|..++.|+.+.++..+....++ .+.+++|||+|.
T Consensus         2 ~y~~KivlvG~~~vGKTsli~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~i~D~~g~   63 (166)
T d1z0fa1           2 SYIFKYIIIGDMGVGKSCLLHQFTEKKFMADCPHTIGVEFGTRIIEVSGQKIKLQIWDTAGQ   63 (166)
T ss_dssp             SEEEEEEEECSTTSSHHHHHHHHHHSCCCSSCTTSCCCCEEEEEEEETTEEEEEEEEECTTG
T ss_pred             cEEEEEEEECCCCcCHHHHHHHHHhCCCCCcccccccccceeEEEEECCEEEEEEEeccCCc
Confidence            4679999999999999999999999999999999999999888888776 789999999984

>d1m7ba_ c.37.1.8 (A:) RhoE (RND3) {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: RhoE (RND3)
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.76  E-value=1.8e-18  Score=96.77  Aligned_cols=59  Identities=19%  Similarity=0.324  Sum_probs=51.3

Q ss_pred             eeeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCCEEEEEEEcCCCC
Q psy2514          12 KGTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRGTFTRDYKKTIGA   70 (71)
Q Consensus        12 ~~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~   70 (71)
                      ++|++++|+++||||||+.||+.+.|+++|.||++..+.......+..+.+++||++|.
T Consensus         2 ~~KivliG~~~vGKTsli~r~~~~~f~~~~~~t~~~~~~~~~~~~~~~~~~~i~D~~g~   60 (179)
T d1m7ba_           2 KCKIVVVGDSQCGKTALLHVFAKDCFPENYVPTVFENYTASFEIDTQRIELSLWDTSGS   60 (179)
T ss_dssp             EEEEEEEESTTSSHHHHHHHHHHSCCCSSCCCCSEEEEEEEEECSSCEEEEEEEEECCS
T ss_pred             ceEEEEECCCCcCHHHHHHHHHhCCCCCccCCceeecccccccccceEEeecccccccc
Confidence            68999999999999999999999999999999998666555444456899999999985

>d2bcgy1 c.37.1.8 (Y:3-196) GTPase Ytp1 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: GTPase Ytp1
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=99.76  E-value=3.6e-18  Score=96.36  Aligned_cols=62  Identities=31%  Similarity=0.432  Sum_probs=56.0

Q ss_pred             CceeeeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCC-EEEEEEEcCCCC
Q psy2514           9 GSIKGTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRG-TFTRDYKKTIGA   70 (71)
Q Consensus         9 ~~~~~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~-~~~l~i~Dt~G~   70 (71)
                      .+..+||+++|+++||||||++++..+.|...+.||.+..+....+..++ .+.+++|||+|.
T Consensus         3 ~~~~~KivvvG~~~vGKTsli~~l~~~~~~~~~~~t~~~~~~~~~i~~~~~~~~l~i~Dt~G~   65 (194)
T d2bcgy1           3 YDYLFKLLLIGNSGVGKSCLLLRFSDDTYTNDYISTIGVDFKIKTVELDGKTVKLQIWDTAGQ   65 (194)
T ss_dssp             CSEEEEEEEEESTTSSHHHHHHHHHHCCCCTTCCCSSCCCEEEEEEEETTEEEEEEEECCTTT
T ss_pred             CCEEEEEEEECCCCcCHHHHHHHHhhCCCCCCcCCccceeEEEEEEEEeeEEEEEEEEECCCc
Confidence            35779999999999999999999999999999999999988877777765 889999999984

>d2g6ba1 c.37.1.8 (A:58-227) Rab26 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab26
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.76  E-value=4.9e-18  Score=93.90  Aligned_cols=61  Identities=23%  Similarity=0.396  Sum_probs=52.5

Q ss_pred             ceeeeEEEEeCCCCCHHHHHHHHHhCcCCCC-ccCCcceeeEEEEEEeCC-EEEEEEEcCCCC
Q psy2514          10 SIKGTVVIVGNGAVGKSSMIQRYCRGTFTRD-YKKTIGVKSSMIQRYCRG-TFTRDYKKTIGA   70 (71)
Q Consensus        10 ~~~~ki~v~G~~~vGKtsl~~~~~~~~f~~~-~~~t~~~~~~~~~~~~~~-~~~l~i~Dt~G~   70 (71)
                      +..+||+++|+++||||||+.+++.++|... +.++++.++....+..++ .+.++||||+|+
T Consensus         4 d~~fKi~vvG~~~vGKTsli~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~i~Dt~G~   66 (170)
T d2g6ba1           4 DVAFKVMLVGDSGVGKTCLLVRFKDGAFLAGTFISTVGIDFRNKVLDVDGVKVKLQMWDTAGQ   66 (170)
T ss_dssp             SEEEEEEEECSTTSSHHHHHHHHHHSCCCCCCCCCCCSCEEEEEEEEETTEEEEEEEEECCCC
T ss_pred             ceEEEEEEECCCCcCHHHHHHHHHhCCCCcccccceeeeeeEEEEEEecCcEEEEEEEECCCc
Confidence            4679999999999999999999999998654 567778888887777766 789999999995

>d1x1ra1 c.37.1.8 (A:10-178) Ras-related protein M-Ras (XRas) {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Ras-related protein M-Ras (XRas)
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.75  E-value=3.5e-18  Score=94.66  Aligned_cols=60  Identities=27%  Similarity=0.305  Sum_probs=52.0

Q ss_pred             eeeeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCCEEEEEEEcCCCC
Q psy2514          11 IKGTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRGTFTRDYKKTIGA   70 (71)
Q Consensus        11 ~~~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~   70 (71)
                      +.+|++++|+++||||||+.+|+.+.|.+.|.||++..+.......+..+.+++||++|.
T Consensus         3 pt~Ki~lvG~~~vGKTsll~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~i~d~~g~   62 (169)
T d1x1ra1           3 PTYKLVVVGDGGVGKSALTIQFFQKIFVPDYDPTIEDSYLKHTEIDNQWAILDVLDTAGQ   62 (169)
T ss_dssp             CEEEEEEECCTTSSHHHHHHHHHHSSCCTTCCTTCCEEEEEEEEETTEEEEEEEEECCSC
T ss_pred             CcEEEEEECCCCcCHHHHHHHHHhCCCCcccCcceeeccccccccccccccccccccccc
Confidence            469999999999999999999999999999999999777555444445899999999985

>d2fn4a1 c.37.1.8 (A:24-196) r-Ras {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: r-Ras
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.75  E-value=5.1e-18  Score=94.22  Aligned_cols=61  Identities=31%  Similarity=0.387  Sum_probs=52.0

Q ss_pred             CceeeeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCC-EEEEEEEcCCCC
Q psy2514           9 GSIKGTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRG-TFTRDYKKTIGA   70 (71)
Q Consensus         9 ~~~~~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~-~~~l~i~Dt~G~   70 (71)
                      +...+||+++|+++||||||+.|++.+.|.+++.||... +..+.+..++ .+.+.+||++|.
T Consensus         3 ~~~~~Kv~lvG~~~vGKTsLi~r~~~~~f~~~~~~t~~~-~~~~~~~~~~~~~~l~~~d~~g~   64 (173)
T d2fn4a1           3 PSETHKLVVVGGGGVGKSALTIQFIQSYFVSDYDPTIED-SYTKICSVDGIPARLDILDTAGQ   64 (173)
T ss_dssp             SSCEEEEEEEECTTSSHHHHHHHHHHSSCCSSCCTTCCE-EEEEEEEETTEEEEEEEEECCCT
T ss_pred             CCCeEEEEEECCCCcCHHHHHHHHHhCCCCccccccccc-ceeeEeccCCeeeeeeccccccc
Confidence            456799999999999999999999999999999898765 4445566565 899999999985

>d1kaoa_ c.37.1.8 (A:) Rap2a {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rap2a
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.75  E-value=4.3e-18  Score=93.84  Aligned_cols=59  Identities=27%  Similarity=0.370  Sum_probs=50.7

Q ss_pred             eeeeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeC-CEEEEEEEcCCCC
Q psy2514          11 IKGTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCR-GTFTRDYKKTIGA   70 (71)
Q Consensus        11 ~~~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~-~~~~l~i~Dt~G~   70 (71)
                      ..+||+++|+++||||||+.|++.+.|.+++.|+++..+. .....+ ..+.+++||++|.
T Consensus         2 k~~Ki~lvG~~~vGKTsLi~r~~~~~f~~~~~~t~~~~~~-~~~~~~~~~~~l~~~d~~g~   61 (167)
T d1kaoa_           2 REYKVVVLGSGGVGKSALTVQFVTGTFIEKYDPTIEDFYR-KEIEVDSSPSVLEILDTAGT   61 (167)
T ss_dssp             CEEEEEEECCTTSSHHHHHHHHHHSCCCSCCCTTCCEEEE-EEEEETTEEEEEEEEECCCT
T ss_pred             ceeEEEEECCCCcCHHHHHHHHHhCCCCCccCCceeeeee-eeeecCcceEeeccccCCCc
Confidence            4699999999999999999999999999999999996544 444444 4899999999985

>d1z2aa1 c.37.1.8 (A:8-171) Rab23 {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab23
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.75  E-value=5.1e-18  Score=93.37  Aligned_cols=59  Identities=53%  Similarity=0.706  Sum_probs=53.9

Q ss_pred             eeeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCC-EEEEEEEcCCCC
Q psy2514          12 KGTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRG-TFTRDYKKTIGA   70 (71)
Q Consensus        12 ~~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~-~~~l~i~Dt~G~   70 (71)
                      .+||+++|+++||||||++|+..+.|..++.||++.++.......++ .+.+.+|||+|.
T Consensus         2 ~iKv~liG~~~vGKSsLi~rl~~~~~~~~~~~ti~~~~~~~~~~~~~~~~~~~i~d~~g~   61 (164)
T d1z2aa1           2 AIKMVVVGNGAVGKSSMIQRYCKGIFTKDYKKTIGVDFLERQIQVNDEDVRLMLWDTAGQ   61 (164)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHCCCCCCSSCCCSSSEEEEEEEETTEEEEEEEECCTTG
T ss_pred             eEEEEEECCCCcCHHHHHHHHHhCCCCcccccccccccceeeeeecCceeeeeeeccCCc
Confidence            58999999999999999999999999999999999888887777766 789999999985

>d1yzqa1 c.37.1.8 (A:14-177) Rab6 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab6
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.75  E-value=4.9e-18  Score=93.28  Aligned_cols=58  Identities=29%  Similarity=0.458  Sum_probs=53.0

Q ss_pred             eeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCC-EEEEEEEcCCCC
Q psy2514          13 GTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRG-TFTRDYKKTIGA   70 (71)
Q Consensus        13 ~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~-~~~l~i~Dt~G~   70 (71)
                      +||+++|+++||||||++|+..++|...|.|+++.+........++ .+.+.+||++|+
T Consensus         1 fKv~vvG~~~vGKTsLi~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~d~~g~   59 (164)
T d1yzqa1           1 FKLVFLGEQSVGKTSLITRFMYDSFDNTYQATIGIDFLSKTMYLEDRTIRLQLWDTAGQ   59 (164)
T ss_dssp             CEEEEEESTTSSHHHHHHHHHHSCCCSSCCCCCSEEEEEEEEECSSCEEEEEEEEECCS
T ss_pred             CEEEEECCCCcCHHHHHHHHHhCCCCCccccceeeeccceeeccCCCceeeeecccCCc
Confidence            6999999999999999999999999999999999888877777765 899999999985

>d2erya1 c.37.1.8 (A:10-180) r-Ras2 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: r-Ras2
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.75  E-value=4.9e-18  Score=93.99  Aligned_cols=59  Identities=29%  Similarity=0.353  Sum_probs=48.9

Q ss_pred             eeeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCCEEEEEEEcCCCC
Q psy2514          12 KGTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRGTFTRDYKKTIGA   70 (71)
Q Consensus        12 ~~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~   70 (71)
                      ++||+++|+++||||||++|++.+.|..+|.||.+..+.......+..+.+.+||++|.
T Consensus         5 ~~Ki~lvG~~~vGKTsLi~r~~~~~f~~~~~~t~~~~~~~~~~~~~~~~~~~~~d~~g~   63 (171)
T d2erya1           5 KYRLVVVGGGGVGKSALTIQFIQSYFVTDYDPTIEDSYTKQCVIDDRAARLDILDTAGQ   63 (171)
T ss_dssp             EEEEEEEECTTSSHHHHHHHHHHSCCCSSCCTTCCEEEEEEEEETTEEEEEEEEECC--
T ss_pred             ceEEEEECCCCCCHHHHHHHHHhCCCCcccCcccccceeeeeeeccccccccccccccc
Confidence            48999999999999999999999999999999999655544444344789999999985

>d2bmea1 c.37.1.8 (A:6-179) Rab4a {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab4a
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.75  E-value=1e-17  Score=92.83  Aligned_cols=62  Identities=23%  Similarity=0.312  Sum_probs=55.3

Q ss_pred             CceeeeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCC-EEEEEEEcCCCC
Q psy2514           9 GSIKGTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRG-TFTRDYKKTIGA   70 (71)
Q Consensus         9 ~~~~~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~-~~~l~i~Dt~G~   70 (71)
                      .+..+||+++|+++||||||+.|+..++|...+.|+.+.......+..+. .+.+++|||+|.
T Consensus         2 ~~~~~KI~lvG~~~vGKTsll~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~   64 (174)
T d2bmea1           2 YDFLFKFLVIGNAGTGKSCLLHQFIEKKFKDDSNHTIGVEFGSKIINVGGKYVKLQIWDTAGQ   64 (174)
T ss_dssp             CSEEEEEEEEESTTSSHHHHHHHHHHSSCCTTCCCCSEEEEEEEEEEETTEEEEEEEEEECCS
T ss_pred             ccEEEEEEEECCCCcCHHHHHHHHHhCCCCcccccccccceeeEEEEecCcceeEEEEECCCc
Confidence            35679999999999999999999999999999999999888777776665 788999999995

>d1z0ja1 c.37.1.8 (A:2-168) Rab-22a {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab-22a
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.75  E-value=8.6e-18  Score=92.68  Aligned_cols=60  Identities=23%  Similarity=0.275  Sum_probs=54.8

Q ss_pred             eeeeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCC-EEEEEEEcCCCC
Q psy2514          11 IKGTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRG-TFTRDYKKTIGA   70 (71)
Q Consensus        11 ~~~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~-~~~l~i~Dt~G~   70 (71)
                      ..+||+++|+++||||||++|+..++|.++|.||.+..+.......+. .+.+++|||+|.
T Consensus         3 k~~Ki~lvG~~~vGKTsli~rl~~~~f~~~~~~t~~~~~~~~~~~~~~~~~~~~i~d~~g~   63 (167)
T d1z0ja1           3 RELKVCLLGDTGVGKSSIMWRFVEDSFDPNINPTIGASFMTKTVQYQNELHKFLIWDTAGL   63 (167)
T ss_dssp             EEEEEEEECCTTSSHHHHHHHHHHSCCCTTCCCCCSEEEEEEEEEETTEEEEEEEEEECCS
T ss_pred             ceeEEEEECCCCcCHHHHHHHHHhCCCCcccccccccccccccccccccccceeeeecCCc
Confidence            468999999999999999999999999999999999988888887776 778999999985

>d1ctqa_ c.37.1.8 (A:) cH-p21 Ras protein {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: cH-p21 Ras protein
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.73  E-value=1.3e-17  Score=91.89  Aligned_cols=60  Identities=27%  Similarity=0.305  Sum_probs=53.8

Q ss_pred             eeeeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCCEEEEEEEcCCCC
Q psy2514          11 IKGTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRGTFTRDYKKTIGA   70 (71)
Q Consensus        11 ~~~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~   70 (71)
                      ..+||+++|+++||||||+.|++.+.|+..+.|+++.++.......+..+.+.+||+.|.
T Consensus         2 ~e~Ki~viG~~~vGKTsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~d~~~~   61 (166)
T d1ctqa_           2 TEYKLVVVGAGGVGKSALTIQLIQNHFVDEYDPTIEDSYRKQVVIDGETCLLDILDTAGQ   61 (166)
T ss_dssp             EEEEEEEEESTTSSHHHHHHHHHHCCCCCSCCCCSEEEEEEEEEETTEEEEEEEEEECCC
T ss_pred             CeeEEEEECCCCCCHHHHHHHHHhCCCCCccCCccceeeccceeeeceeeeeeeeeccCc
Confidence            358999999999999999999999999999999999988777666566899999999884

>d1r2qa_ c.37.1.8 (A:) Rab5a {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab5a
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.73  E-value=1.9e-17  Score=91.53  Aligned_cols=61  Identities=28%  Similarity=0.354  Sum_probs=55.3

Q ss_pred             ceeeeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCC-EEEEEEEcCCCC
Q psy2514          10 SIKGTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRG-TFTRDYKKTIGA   70 (71)
Q Consensus        10 ~~~~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~-~~~l~i~Dt~G~   70 (71)
                      ...+||+++|+++||||||+.|+..+.|.+.+.||.+.++.......++ .+.+.+|||+|+
T Consensus         4 ~~~~Ki~vvG~~~vGKTsLi~~l~~~~f~~~~~~t~~~~~~~~~~~~~~~~~~~~~~d~~g~   65 (170)
T d1r2qa_           4 ICQFKLVLLGESAVGKSSLVLRFVKGQFHEFQESTIGAAFLTQTVCLDDTTVKFEIWDTAGQ   65 (170)
T ss_dssp             EEEEEEEEECSTTSSHHHHHHHHHHSCCCTTCCCCSSEEEEEEEEEETTEEEEEEEEEECCS
T ss_pred             eeEEEEEEECCCCcCHHHHHHHHHhCCCCcccccccccccccceeeccceEEEEEeccCCCc
Confidence            4568999999999999999999999999999999999988877777766 789999999985

>d2fu5c1 c.37.1.8 (C:3-175) Rab8a {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab8a
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.73  E-value=2.1e-18  Score=95.73  Aligned_cols=61  Identities=20%  Similarity=0.371  Sum_probs=38.2

Q ss_pred             ceeeeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCC-EEEEEEEcCCCC
Q psy2514          10 SIKGTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRG-TFTRDYKKTIGA   70 (71)
Q Consensus        10 ~~~~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~-~~~l~i~Dt~G~   70 (71)
                      +..+||+++|+++||||||+++++.+.|..++.||++.++..+.+..++ .+.+++|||+|.
T Consensus         4 ~~~~Ki~vvG~~~vGKTsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~G~   65 (173)
T d2fu5c1           4 DYLFKLLLIGDSGVGKTCVLFRFSEDAFNSTFISTIGIDFKIRTIELDGKRIKLQIWDTAGQ   65 (173)
T ss_dssp             SEEEEEEEECCCCC----------------CHHHHHCEEEEEEEEEETTEEEEEEEEEC---
T ss_pred             cEEEEEEEECCCCcCHHHHHHHHHhCCCCCccCccccceEEEEEEEECCEEEEEEEEECCCc
Confidence            5679999999999999999999999999999999999999888888876 799999999984

>d1wmsa_ c.37.1.8 (A:) Rab9a {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab9a
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.72  E-value=3.8e-17  Score=90.56  Aligned_cols=61  Identities=33%  Similarity=0.419  Sum_probs=51.6

Q ss_pred             ceeeeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCC-EEEEEEEcCCCC
Q psy2514          10 SIKGTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRG-TFTRDYKKTIGA   70 (71)
Q Consensus        10 ~~~~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~-~~~l~i~Dt~G~   70 (71)
                      ...+||+++|+++||||||++|+..+.|..+|.+|++..+..+....++ .+.+++||++|+
T Consensus         4 ~~~~KI~vvG~~~vGKSSli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~d~~g~   65 (174)
T d1wmsa_           4 SSLFKVILLGDGGVGKSSLMNRYVTNKFDTQLFHTIGVEFLNKDLEVDGHFVTMQIWDTAGQ   65 (174)
T ss_dssp             EEEEEEEEECCTTSSHHHHHHHHHHSCCCC----CCSEEEEEEEEEETTEEEEEEEEECCCC
T ss_pred             CceEEEEEECCCCCCHHHHHHHHHhCCCCCccccceeeeeeeeeeeecCceeeEeeecccCc
Confidence            4578999999999999999999999999999999999988888777776 789999999985

>d1x3sa1 c.37.1.8 (A:2-178) Rab18 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab18
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.71  E-value=4e-17  Score=90.76  Aligned_cols=60  Identities=28%  Similarity=0.403  Sum_probs=54.4

Q ss_pred             eeeeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCC-EEEEEEEcCCCC
Q psy2514          11 IKGTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRG-TFTRDYKKTIGA   70 (71)
Q Consensus        11 ~~~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~-~~~l~i~Dt~G~   70 (71)
                      ..+||+++|+++||||||++++..++|..++.++.+..+..+.+..++ .+.+.+|||+|.
T Consensus         6 ~~iKi~vvG~~~vGKTsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~Dt~G~   66 (177)
T d1x3sa1           6 TTLKILIIGESGVGKSSLLLRFTDDTFDPELAATIGVDFKVKTISVDGNKAKLAIWDTAGQ   66 (177)
T ss_dssp             EEEEEEEECSTTSSHHHHHHHHHHSCCCTTCCCCCSEEEEEEEEEETTEEEEEEEEEECSS
T ss_pred             ceeEEEEECCCCcCHHHHHHHHHhCCCCCccccceeecceeEEEEEeccccEEEEEECCCc
Confidence            468999999999999999999999999999999999888887777765 789999999985

>d1vg8a_ c.37.1.8 (A:) Rab7 {Rat (Rattus norvegicus) [TaxId: 10116]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab7
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=99.70  E-value=5.2e-17  Score=90.67  Aligned_cols=59  Identities=29%  Similarity=0.440  Sum_probs=53.7

Q ss_pred             eeeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCC-EEEEEEEcCCCC
Q psy2514          12 KGTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRG-TFTRDYKKTIGA   70 (71)
Q Consensus        12 ~~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~-~~~l~i~Dt~G~   70 (71)
                      .+||+++|+++||||||+.+++.+.|..+|.||++.++..+.....+ .+.+.+|||+|+
T Consensus         2 ~~Kv~vvG~~~vGKSSLi~~l~~~~f~~~~~~t~~~~~~~~~~~~~~~~~~~~~~d~~g~   61 (184)
T d1vg8a_           2 LLKVIILGDSGVGKTSLMNQYVNKKFSNQYKATIGADFLTKEVMVDDRLVTMQIWDTAGQ   61 (184)
T ss_dssp             EEEEEEECCTTSSHHHHHHHHHHSCCCSSCCCCCSEEEEEEEEESSSCEEEEEEEEECSS
T ss_pred             EEEEEEECCCCcCHHHHHHHHHhCCCCCCcCCccceeeeeeeeeeCCceEEEEeeecCCc
Confidence            48999999999999999999999999999999999988887777654 889999999985

>d2f9la1 c.37.1.8 (A:8-182) Rab11b {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab11b
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.70  E-value=6.8e-17  Score=89.65  Aligned_cols=61  Identities=31%  Similarity=0.463  Sum_probs=52.1

Q ss_pred             ceeeeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCC-EEEEEEEcCCCC
Q psy2514          10 SIKGTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRG-TFTRDYKKTIGA   70 (71)
Q Consensus        10 ~~~~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~-~~~l~i~Dt~G~   70 (71)
                      +..+||+++|+++||||||++++..+.|...+.++.+.+.....+..++ .+.+++||++|.
T Consensus         2 ~~~~Ki~vvG~~~vGKTsLi~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~d~~g~   63 (175)
T d2f9la1           2 DYLFKVVLIGDSGVGKSNLLSRFTRNEFNLESKSTIGVEFATRSIQVDGKTIKAQIWDTAGQ   63 (175)
T ss_dssp             SEEEEEEEESSTTSSHHHHHHHHHHSCCCC---CCCSCEEEEEEEEETTEEEEEEEEECSSG
T ss_pred             CEEEEEEEECCCCcCHHHHHHHHHhCCCCCcccccccceeeeEEEEECCEEEEEEecccCCc
Confidence            4679999999999999999999999999999999999888778777776 789999999884

>d2bmja1 c.37.1.8 (A:66-240) Centaurin gamma 1, G domain {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Centaurin gamma 1, G domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.69  E-value=9.7e-17  Score=89.55  Aligned_cols=58  Identities=24%  Similarity=0.344  Sum_probs=48.7

Q ss_pred             eeeeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCC-EEEEEEEcCCCC
Q psy2514          11 IKGTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRG-TFTRDYKKTIGA   70 (71)
Q Consensus        11 ~~~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~-~~~l~i~Dt~G~   70 (71)
                      +.+|++++|+++||||||+.+|+.++|.. +.++.+..+. +.+..++ .+.++||||+|+
T Consensus         4 p~~ki~vlG~~~vGKTsLi~~~~~~~f~~-~~~t~~~~~~-~~i~v~~~~~~l~i~Dt~g~   62 (175)
T d2bmja1           4 PELRLGVLGDARSGKSSLIHRFLTGSYQV-LEKTESEQYK-KEMLVDGQTHLVLIREEAGA   62 (175)
T ss_dssp             CEEEEEEECCTTTTHHHHHHHHHHSCCCC-CCCSSCEEEE-EEEEETTEEEEEEEEECSSC
T ss_pred             CcEEEEEECCCCCCHHHHHHHHHhCCCCC-cCCccceeEE-EEeecCceEEEEEEeecccc
Confidence            46999999999999999999999999965 5688887665 4445554 899999999996

>d2a5ja1 c.37.1.8 (A:9-181) Rab2b {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab2b
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.69  E-value=1e-16  Score=88.82  Aligned_cols=60  Identities=23%  Similarity=0.279  Sum_probs=49.2

Q ss_pred             eeeeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCC-EEEEEEEcCCCC
Q psy2514          11 IKGTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRG-TFTRDYKKTIGA   70 (71)
Q Consensus        11 ~~~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~-~~~l~i~Dt~G~   70 (71)
                      +.+||+++|+++||||||+.|+..++|...+.|+.............+ .+.+.+||++|.
T Consensus         2 y~~KivvvG~~~vGKTsli~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~d~~g~   62 (173)
T d2a5ja1           2 YLFKYIIIGDTGVGKSCLLLQFTDKRFQPVHDLTIGVEFGARMVNIDGKQIKLQIWDTAGQ   62 (173)
T ss_dssp             EEEEEEEESSTTSSHHHHHHHHHHSCCCC-----CCSSEEEEEEEETTEEEEEEEECCTTG
T ss_pred             eeEEEEEECCCCcCHHHHHHHHhcCCCCCCcccceeeccceeeeeeeeeEEEEEeecccCc
Confidence            568999999999999999999999999999999998888777776665 789999999985

>d1ky3a_ c.37.1.8 (A:) Rab-related protein ypt7p {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab-related protein ypt7p
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=99.64  E-value=3.1e-16  Score=86.61  Aligned_cols=59  Identities=31%  Similarity=0.482  Sum_probs=46.7

Q ss_pred             eeeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCC--EEEEEEEcCCCC
Q psy2514          12 KGTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRG--TFTRDYKKTIGA   70 (71)
Q Consensus        12 ~~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~--~~~l~i~Dt~G~   70 (71)
                      .+||+++|+++||||||+.+|..++|...+.|+.+...........+  .+.+.+|||+|.
T Consensus         2 ~~Ki~~vG~~~vGKSsLi~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~~~d~~g~   62 (175)
T d1ky3a_           2 ILKVIILGDSGVGKTSLMHRYVNDKYSQQYKATIGADFLTKEVTVDGDKVATMQVWDTAGQ   62 (175)
T ss_dssp             EEEEEEECCTTSSHHHHHHHHHHSCCCTTC---CCCSCEEEEECCSSSCCEEEEEECCC--
T ss_pred             eEEEEEECCCCcCHHHHHHHHHcCCCCCccCcccccceeeeeeeecCcccccceeeccCCc
Confidence            58999999999999999999999999999999998877766655433  578999999984

>d1zd9a1 c.37.1.8 (A:18-181) ADP-ribosylation factor {Human (Homo sapiens), ARL8A [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Human (Homo sapiens), ARL8A [TaxId: 9606]

Probab=99.64  E-value=1.1e-15  Score=83.84  Aligned_cols=56  Identities=20%  Similarity=0.249  Sum_probs=48.4

Q ss_pred             eeeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCCEEEEEEEcCCCC
Q psy2514          12 KGTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRGTFTRDYKKTIGA   70 (71)
Q Consensus        12 ~~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~   70 (71)
                      ++|++++|+++||||||++++..++|.+++.||++.++.  .+..+ .+.+++||++|.
T Consensus         2 e~ki~i~G~~~~GKTsLl~~l~~~~~~~~~~~T~~~~~~--~~~~~-~~~~~i~D~~G~   57 (164)
T d1zd9a1           2 EMELTLVGLQYSGKTTFVNVIASGQFNEDMIPTVGFNMR--KITKG-NVTIKLWDIGGQ   57 (164)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHSCCCCSCCCCCSEEEE--EEEET-TEEEEEEEECCS
T ss_pred             eEEEEEECCCCCCHHHHHHHHHcCCCCCcccccceeeee--eeeee-eEEEEEeecccc
Confidence            689999999999999999999999999999999997654  33334 488999999985

>d2bcjq2 c.37.1.8 (Q:38-66,Q:184-354) Transducin (alpha subunit) {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Transducin (alpha subunit)
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.64  E-value=3.5e-16  Score=87.26  Aligned_cols=55  Identities=16%  Similarity=0.067  Sum_probs=46.1

Q ss_pred             eeeeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCCEEEEEEEcCCCC
Q psy2514          11 IKGTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRGTFTRDYKKTIGA   70 (71)
Q Consensus        11 ~~~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~   70 (71)
                      +.+||+++|+++||||||+.||..+.|  +|.||+|.++..  + ....+.+++||++|.
T Consensus         1 ke~Kiv~lG~~~vGKTsll~r~~~~~~--~~~pTiG~~~~~--~-~~~~~~~~~~d~~g~   55 (200)
T d2bcjq2           1 RELKLLLLGTGESGKSTFIKQMRIIHG--SGVPTTGIIEYP--F-DLQSVIFRMVDVGGQ   55 (200)
T ss_dssp             CEEEEEEEESTTSSHHHHHHHHHHHTS--SCCCCCSCEEEE--E-ECSSCEEEEEECCCS
T ss_pred             CeeEEEEECCCCCCHHHHHHHHhCCCC--CCCceeeEEEEE--E-eccceeeeecccccc
Confidence            368999999999999999999998888  478999977643  2 234688999999996

>d2gjsa1 c.37.1.8 (A:91-258) Rad {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rad
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.63  E-value=4.6e-16  Score=85.83  Aligned_cols=56  Identities=14%  Similarity=0.069  Sum_probs=38.1

Q ss_pred             eeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCC-EEEEEEEcCCCC
Q psy2514          13 GTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRG-TFTRDYKKTIGA   70 (71)
Q Consensus        13 ~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~-~~~l~i~Dt~G~   70 (71)
                      +||+++|+++||||||++++....+.. +.|+.+..+.. .+..++ .+.+.+|||+|+
T Consensus         2 fKi~lvG~~~vGKTsLi~~~~~~~~~~-~~~~~~~~~~~-~i~~~~~~~~l~i~D~~g~   58 (168)
T d2gjsa1           2 YKVLLLGAPGVGKSALARIFGGVEDGP-EAEAAGHTYDR-SIVVDGEEASLMVYDIWEQ   58 (168)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHTC----------CEEEEE-EEEETTEEEEEEEEECC--
T ss_pred             eEEEEECCCCcCHHHHHHHHhCCccCC-cCCeeeeeecc-eeeccccccceeeeecccc
Confidence            799999999999999999999877654 55777766554 444454 899999999984

>d2f7sa1 c.37.1.8 (A:5-190) Rab27b {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab27b
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.63  E-value=2.5e-16  Score=87.90  Aligned_cols=61  Identities=18%  Similarity=0.329  Sum_probs=52.4

Q ss_pred             ceeeeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCC-----------EEEEEEEcCCCC
Q psy2514          10 SIKGTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRG-----------TFTRDYKKTIGA   70 (71)
Q Consensus        10 ~~~~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~-----------~~~l~i~Dt~G~   70 (71)
                      +..+||+++|+++||||||+++++.+.|...+.++.+.++..+.+..++           .+.+.+|||+|+
T Consensus         3 d~~~Ki~ivG~~~vGKTsLi~~l~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~~~i~dt~G~   74 (186)
T d2f7sa1           3 DYLIKLLALGDSGVGKTTFLYRYTDNKFNPKFITTVGIDFREKRVVYNAQGPNGSSGKAFKVHLQLWDTAGQ   74 (186)
T ss_dssp             SEEEEEEEESCTTSSHHHHHHHHHCSCCCCEEEEEEEEEEEEEEEEEEC-------CCEEEEEEEEEEEESH
T ss_pred             CEEEEEEEECCCCcCHHHHHHHHhcCCCCCccCCcccceeeEEEEEEecccccccccccceEEeccccCCcc
Confidence            5679999999999999999999999999999999999888776665432           467999999884

>d1z06a1 c.37.1.8 (A:32-196) Rab-33b {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab-33b
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.61  E-value=3.5e-15  Score=81.61  Aligned_cols=59  Identities=25%  Similarity=0.432  Sum_probs=53.0

Q ss_pred             eeeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCC-EEEEEEEcCCCC
Q psy2514          12 KGTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRG-TFTRDYKKTIGA   70 (71)
Q Consensus        12 ~~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~-~~~l~i~Dt~G~   70 (71)
                      .+||+++|+++||||||++|+..++|...+.++.+..+..+...... ...+.+||+.|.
T Consensus         2 ~~Kv~liG~~~vGKTsLl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   61 (165)
T d1z06a1           2 IFKIIVIGDSNVGKTCLTYRFCAGRFPDRTEATIGVDFRERAVDIDGERIKIQLWDTAGQ   61 (165)
T ss_dssp             EEEEEEECCTTSSHHHHHHHHHHSSCCSSCCCCCSCCEEEEEEEETTEEEEEEEEECCCS
T ss_pred             EEEEEEECCCCcCHHHHHHHHHhCCCCCccCcccccccceeeeeeeccceEEEEEeccCc
Confidence            58999999999999999999999999999999999888877777665 788999999873

>d1svsa1 c.37.1.8 (A:32-60,A:182-347) Transducin (alpha subunit) {Rat (Rattus norvegicus) [TaxId: 10116]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Transducin (alpha subunit)
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=99.56  E-value=1.5e-15  Score=84.42  Aligned_cols=51  Identities=14%  Similarity=0.139  Sum_probs=39.4

Q ss_pred             eeeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCCEEEEEEEcCCCC
Q psy2514          12 KGTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRGTFTRDYKKTIGA   70 (71)
Q Consensus        12 ~~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~   70 (71)
                      .+|++++|+.+||||||++||..++|+.     .+.  ....+. ...+.+++|||+|+
T Consensus         2 e~KivllG~~~vGKTsl~~r~~~~~~~t-----~~~--~~~~~~-~~~~~~~i~D~~Gq   52 (195)
T d1svsa1           2 EVKLLLLGAGESGKSTIVKQMKIIHEAG-----TGI--VETHFT-FKDLHFKMFDVGGQ   52 (195)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHHHSCC-----CSE--EEEEEE-ETTEEEEEEEECCS
T ss_pred             ceEEEEECCCCCCHHHHHHHHhhCCCCC-----ccE--EEEEEE-eeeeeeeeeccccc
Confidence            6899999999999999999999887754     442  222222 24588999999996

>d1zcba2 c.37.1.8 (A:47-75,A:202-372) Transducin (alpha subunit) {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Transducin (alpha subunit)
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.55  E-value=4.7e-15  Score=82.89  Aligned_cols=53  Identities=15%  Similarity=0.237  Sum_probs=42.8

Q ss_pred             eeeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCCEEEEEEEcCCCC
Q psy2514          12 KGTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRGTFTRDYKKTIGA   70 (71)
Q Consensus        12 ~~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~   70 (71)
                      .+|++++|+++||||||+.||   .|.+.+.||+|..+  ..+.. +.+.+.+||++|.
T Consensus         2 ~iKivllG~~~vGKTsll~r~---~f~~~~~pTiG~~~--~~~~~-~~~~~~~~D~~gq   54 (200)
T d1zcba2           2 LVKILLLGAGESGKSTFLKQM---RIIHGQDPTKGIHE--YDFEI-KNVPFKMVDVGGQ   54 (200)
T ss_dssp             CEEEEEECSTTSSHHHHHHHH---HHHHSCCCCSSEEE--EEEEE-TTEEEEEEEECC-
T ss_pred             eEEEEEECCCCCCHHHHHHHH---hcCCCCCCeeeeEE--EEEee-eeeeeeeecccce
Confidence            489999999999999999999   36678899999654  33333 4588999999985

>d1ksha_ c.37.1.8 (A:) ADP-ribosylation factor {Mouse (Mus musculus), ARL2 [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Mouse (Mus musculus), ARL2 [TaxId: 10090]

Probab=99.54  E-value=2.1e-14  Score=78.50  Aligned_cols=55  Identities=15%  Similarity=0.258  Sum_probs=44.4

Q ss_pred             eeeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCCEEEEEEEcCCCC
Q psy2514          12 KGTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRGTFTRDYKKTIGA   70 (71)
Q Consensus        12 ~~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~   70 (71)
                      .+|++++|+++||||||++++..+.+. .+.||.+...  ..+..+ .+.+.+|||+|.
T Consensus         2 ~~ki~ivG~~~~GKTsLi~~l~~~~~~-~~~~t~~~~~--~~~~~~-~~~~~~~D~~G~   56 (165)
T d1ksha_           2 ELRLLMLGLDNAGKTTILKKFNGEDVD-TISPTLGFNI--KTLEHR-GFKLNIWDVGGQ   56 (165)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHTTCCCS-SCCCCSSEEE--EEEEET-TEEEEEEEECCS
T ss_pred             cEEEEEECCCCCCHHHHHHHHcCCCCC-cccceEeeee--eecccc-ccceeeeecCcc
Confidence            589999999999999999999887764 5789998543  334333 488999999984

>d2g3ya1 c.37.1.8 (A:73-244) GTP-binding protein GEM {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: GTP-binding protein GEM
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.50  E-value=6.8e-14  Score=77.26  Aligned_cols=58  Identities=17%  Similarity=0.122  Sum_probs=44.8

Q ss_pred             eeeEEEEeCCCCCHHHHHHHHHhCcCCC-CccCCcceeeEEEEEEeCC-EEEEEEEcCCC
Q psy2514          12 KGTVVIVGNGAVGKSSMIQRYCRGTFTR-DYKKTIGVKSSMIQRYCRG-TFTRDYKKTIG   69 (71)
Q Consensus        12 ~~ki~v~G~~~vGKtsl~~~~~~~~f~~-~~~~t~~~~~~~~~~~~~~-~~~l~i~Dt~G   69 (71)
                      .+||+++|+++||||||++++....+.. .+.++++.++..+.+..++ .+.+.+||+.+
T Consensus         3 ~~Kv~lvG~~~vGKTsLi~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~~d~~~   62 (172)
T d2g3ya1           3 YYRVVLIGEQGVGKSTLANIFAGVHDSMDSDCEVLGEDTYERTLMVDGESATIILLDMWE   62 (172)
T ss_dssp             EEEEEEECCTTSSHHHHHHHHHCCCCTTCCC---CCTTEEEEEEEETTEEEEEEEECCTT
T ss_pred             EEEEEEECCCCcCHHHHHHHHHhCcCCccccccceeeecceeeeccCCceeeeeeecccc
Confidence            5899999999999999999999877653 4567788888777777665 77888888643

>d1fzqa_ c.37.1.8 (A:) ADP-ribosylation factor {Mouse (Mus musculus), ARL3 [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Mouse (Mus musculus), ARL3 [TaxId: 10090]

Probab=99.48  E-value=3e-14  Score=78.41  Aligned_cols=60  Identities=12%  Similarity=0.187  Sum_probs=47.1

Q ss_pred             ccCceeeeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCCEEEEEEEcCCCC
Q psy2514           7 LRGSIKGTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRGTFTRDYKKTIGA   70 (71)
Q Consensus         7 ~~~~~~~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~   70 (71)
                      ..++..+||+++|+++||||||++++..++|.. +.|+.+.++  ..+..+ .+.+.+||++|.
T Consensus        11 ~~~~~~~kI~vvG~~~vGKSsLi~~l~~~~~~~-~~~~~~~~~--~~i~~~-~~~~~i~d~~g~   70 (176)
T d1fzqa_          11 SAPDQEVRILLLGLDNAGKTTLLKQLASEDISH-ITPTQGFNI--KSVQSQ-GFKLNVWDIGGQ   70 (176)
T ss_dssp             SCCSSCEEEEEEESTTSSHHHHHHHHCCSCCEE-EEEETTEEE--EEEEET-TEEEEEEECSSC
T ss_pred             CCCCCEEEEEEECCCCCCHHHHHHHHhcCCCCc-ceeeeeeeE--EEeccC-CeeEeEeecccc
Confidence            455678999999999999999999999998864 457777443  444444 488999999884

>d1azta2 c.37.1.8 (A:35-65,A:202-391) Transducin (alpha subunit) {Cow (Bos taurus) [TaxId: 9913]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Transducin (alpha subunit)
species: Cow (Bos taurus) [TaxId: 9913]

Probab=99.41  E-value=2.8e-13  Score=77.53  Aligned_cols=53  Identities=15%  Similarity=0.161  Sum_probs=42.9

Q ss_pred             eeeeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCCEEEEEEEcCCCC
Q psy2514          11 IKGTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRGTFTRDYKKTIGA   70 (71)
Q Consensus        11 ~~~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~   70 (71)
                      ..+|++++|+++||||||+.|+..+++    .||+|.+.  ..+..++ +.+++||++|+
T Consensus         5 ~~~KilllG~~~vGKTsll~~~~~~~~----~pTiG~~~--~~~~~~~-~~~~~~D~~Gq   57 (221)
T d1azta2           5 ATHRLLLLGAGESGKSTIVKQMRILHV----VLTSGIFE--TKFQVDK-VNFHMFDVGGQ   57 (221)
T ss_dssp             HSEEEEEECSTTSSHHHHHHHHHHHHC----CCCCSCEE--EEEEETT-EEEEEEECCCS
T ss_pred             hcCEEEEECCCCCCHHHHHHHHhcCCc----CCCCCeEE--EEEEECc-EEEEEEecCcc
Confidence            468999999999999999999986654    59999543  4444444 88999999986

>d1e0sa_ c.37.1.8 (A:) ADP-ribosylation factor {Human (Homo sapiens), ARF6 [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Human (Homo sapiens), ARF6 [TaxId: 9606]

Probab=99.41  E-value=1.8e-13  Score=75.39  Aligned_cols=58  Identities=16%  Similarity=0.200  Sum_probs=45.2

Q ss_pred             CceeeeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCCEEEEEEEcCCCC
Q psy2514           9 GSIKGTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRGTFTRDYKKTIGA   70 (71)
Q Consensus         9 ~~~~~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~   70 (71)
                      ..+.+||+++|+++||||||++|+..+.+.. ..||.+..+.  ... ...+.+.+||++|.
T Consensus         9 ~~k~~kIvlvG~~~vGKTSli~rl~~~~~~~-~~~t~~~~~~--~~~-~~~~~~~i~D~~g~   66 (173)
T d1e0sa_           9 GNKEMRILMLGLDAAGKTTILYKLKLGQSVT-TIPTVGFNVE--TVT-YKNVKFNVWDVGGQ   66 (173)
T ss_dssp             TTCCEEEEEEEETTSSHHHHHHHTTCCCCEE-EEEETTEEEE--EEE-ETTEEEEEEEESCC
T ss_pred             CCCeEEEEEECCCCCCHHHHHHHHhcCCCCC-ccceeeeeEE--Eee-ccceeeEEecCCCc
Confidence            3457999999999999999999999888765 4577775442  222 34589999999985

>d1moza_ c.37.1.8 (A:) ADP-ribosylation factor {Baker's yeast (Saccharomyces cerevisiae), ARL1 [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Baker's yeast (Saccharomyces cerevisiae), ARL1 [TaxId: 4932]

Probab=99.40  E-value=1.4e-13  Score=76.23  Aligned_cols=59  Identities=19%  Similarity=0.227  Sum_probs=45.1

Q ss_pred             cCceeeeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCCEEEEEEEcCCCC
Q psy2514           8 RGSIKGTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRGTFTRDYKKTIGA   70 (71)
Q Consensus         8 ~~~~~~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~   70 (71)
                      ...+.+||+++|+++||||||++++..+.+.. ..||.+..+.  .... +.+.+.+||++|.
T Consensus        13 ~~~k~~KI~lvG~~~vGKTsLi~~l~~~~~~~-~~~t~~~~~~--~~~~-~~~~~~i~D~~g~   71 (182)
T d1moza_          13 GSNKELRILILGLDGAGKTTILYRLQIGEVVT-TKPTIGFNVE--TLSY-KNLKLNVWDLGGQ   71 (182)
T ss_dssp             TCSSCEEEEEEEETTSSHHHHHHHTCCSEEEE-ECSSTTCCEE--EEEE-TTEEEEEEEEC--
T ss_pred             CCCceEEEEEECCCCCCHHHHHHHHhcCCCCc-cccccceEEE--EEee-CCEEEEEEecccc
Confidence            45568999999999999999999999888764 5688886543  3333 3588999999885

>d1r8sa_ c.37.1.8 (A:) ADP-ribosylation factor {Human (Homo sapiens), ARF1 [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Human (Homo sapiens), ARF1 [TaxId: 9606]

Probab=99.40  E-value=4.2e-13  Score=72.14  Aligned_cols=54  Identities=13%  Similarity=0.073  Sum_probs=41.8

Q ss_pred             eeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCCEEEEEEEcCCCC
Q psy2514          13 GTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRGTFTRDYKKTIGA   70 (71)
Q Consensus        13 ~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~   70 (71)
                      +||+++|+++||||||++++..++|...+..+....    .......+.+.+||++|.
T Consensus         1 ikivlvG~~~vGKSsLi~~l~~~~~~~~~~~~~~~~----~~~~~~~~~~~~~d~~g~   54 (160)
T d1r8sa_           1 MRILMVGLDAAGKTTILYKLKLGEIVTTIPTIGFNV----ETVEYKNISFTVWDVGGQ   54 (160)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHHHCSSCCCCCSSCCE----EEEECSSCEEEEEECCCC
T ss_pred             CEEEEECCCCCCHHHHHHHHhcCCCCccccceeeEE----EEEeeeeEEEEEecCCCc
Confidence            589999999999999999999999877654443321    122345788999999885

>d2fh5b1 c.37.1.8 (B:63-269) Signal recognition particle receptor beta-subunit {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Signal recognition particle receptor beta-subunit
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.33  E-value=1.3e-12  Score=73.46  Aligned_cols=56  Identities=18%  Similarity=0.213  Sum_probs=45.3

Q ss_pred             eEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCCEEEEEEEcCCCC
Q psy2514          14 TVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRGTFTRDYKKTIGA   70 (71)
Q Consensus        14 ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~   70 (71)
                      +|+++|++++|||||++++..+++... .||++.++..........+.+.+||++|.
T Consensus         2 ~V~ivG~~~~GKTsLl~~l~~~~~~~~-~~t~~~~~~~~~~~~~~~~~~~~~d~~g~   57 (207)
T d2fh5b1           2 AVLFVGLCDSGKTLLFVRLLTGQYRDT-QTSITDSSAIYKVNNNRGNSLTLIDLPGH   57 (207)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHSCCCCB-CCCCSCEEEEEECSSTTCCEEEEEECCCC
T ss_pred             EEEEECCCCCCHHHHHHHHHcCCCCcc-cCCeeEEEEEEEEeeeeeeeeeeeecccc
Confidence            689999999999999999999988765 48888766554444345788999999884

>d1upta_ c.37.1.8 (A:) ADP-ribosylation factor {Human (Homo sapiens), ARL1 [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Human (Homo sapiens), ARL1 [TaxId: 9606]

Probab=99.26  E-value=1.4e-11  Score=66.32  Aligned_cols=55  Identities=18%  Similarity=0.178  Sum_probs=40.8

Q ss_pred             eeeeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCCEEEEEEEcCCC
Q psy2514          11 IKGTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRGTFTRDYKKTIG   69 (71)
Q Consensus        11 ~~~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G   69 (71)
                      +.+|++++|+++||||||++++..++|.. ..++.+..+  .... .+.+.+.+||..|
T Consensus         4 ke~kI~ivG~~~vGKSSLi~~~~~~~~~~-~~~~~~~~~--~~~~-~~~~~~~~~~~~~   58 (169)
T d1upta_           4 REMRILILGLDGAGKTTILYRLQVGEVVT-TIPTIGFNV--ETVT-YKNLKFQVWDLGG   58 (169)
T ss_dssp             SCEEEEEECSTTSSHHHHHHHHHHSSCCC-CCCCSSEEE--EEEE-ETTEEEEEEEECC
T ss_pred             cceEEEEECCCCCCHHHHHHHHhCCCCcc-eecccceee--eeec-cCceEEEEeeccc
Confidence            45899999999999999999999999875 346766433  2222 3346777887765

>d2qtvb1 c.37.1.8 (B:24-189) SAR1 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: SAR1
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=99.22  E-value=1.6e-11  Score=65.63  Aligned_cols=53  Identities=13%  Similarity=0.153  Sum_probs=40.5

Q ss_pred             eEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCCEEEEEEEcCCCC
Q psy2514          14 TVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRGTFTRDYKKTIGA   70 (71)
Q Consensus        14 ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~   70 (71)
                      ||+++|+++||||||++++..+++. .+.||.+....  ... ...+...+||+.|.
T Consensus         2 KI~liG~~nvGKSSLln~l~~~~~~-~~~~t~~~~~~--~~~-~~~~~~~~~~~~~~   54 (166)
T d2qtvb1           2 KLLFLGLDNAGKTTLLHMLKNDRLA-TLQPTWHPTSE--ELA-IGNIKFTTFDLGGH   54 (166)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHSCCC-CCCCCCSCEEE--EEC-CTTCCEEEEECCCS
T ss_pred             EEEEECCCCCCHHHHHHHHhCCCCC-eeeceeeEeEE--Eec-cCCeeEEEEeeccc
Confidence            8999999999999999999998886 46788875442  222 23466788888763

>d1udxa2 c.37.1.8 (A:157-336) Obg GTP-binding protein middle domain {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Obg GTP-binding protein middle domain
species: Thermus thermophilus [TaxId: 274]

Probab=99.16  E-value=1.6e-11  Score=67.66  Aligned_cols=56  Identities=16%  Similarity=0.045  Sum_probs=37.9

Q ss_pred             eEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCCEEEEEEEcCCC
Q psy2514          14 TVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRGTFTRDYKKTIG   69 (71)
Q Consensus        14 ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G   69 (71)
                      .|.++|.++||||||+++++.........+..................+.+|||+|
T Consensus         3 ~VaivG~~nvGKSTLin~L~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~DtpG   58 (180)
T d1udxa2           3 DVGLVGYPNAGKSSLLAAMTRAHPKIAPYPFTTLSPNLGVVEVSEEERFTLADIPG   58 (180)
T ss_dssp             SEEEECCGGGCHHHHHHHHCSSCCEECCCTTCSSCCEEEEEECSSSCEEEEEECCC
T ss_pred             EEEEECCCCCCHHHHHHHHhCCCCceeccCCCceeeeeceeeecCCCeEEEcCCCe
Confidence            58999999999999999998654432222223323333444445556788999998

>d2gj8a1 c.37.1.8 (A:216-376) Probable tRNA modification GTPase TrmE (MnmE), G domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Probable tRNA modification GTPase TrmE (MnmE), G domain
species: Escherichia coli [TaxId: 562]

Probab=99.16  E-value=1.8e-10  Score=62.06  Aligned_cols=57  Identities=19%  Similarity=0.099  Sum_probs=40.3

Q ss_pred             eeEEEEeCCCCCHHHHHHHHHhCcCC-CCccCCcceeeEEEEEEeCCEEEEEEEcCCCC
Q psy2514          13 GTVVIVGNGAVGKSSMIQRYCRGTFT-RDYKKTIGVKSSMIQRYCRGTFTRDYKKTIGA   70 (71)
Q Consensus        13 ~ki~v~G~~~vGKtsl~~~~~~~~f~-~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~   70 (71)
                      +||+++|+++||||||+++++..+.. ..+.|....+.........+ ..+.+||++|.
T Consensus         2 ~kI~lvG~~nvGKSsLin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~d~~g~   59 (161)
T d2gj8a1           2 MKVVIAGRPNAGKSSLLNALAGREAAIVTDIAGTTRDVLREHIHIDG-MPLHIIDTAGL   59 (161)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHTSCCSCCCSSTTCCCSCEEEEEEETT-EEEEEEECCCC
T ss_pred             CEEEEECCCCCCHHHHHHHHhCCCceEeecccccccceEeeeeeccC-ceeeecccccc
Confidence            79999999999999999999976543 23344444344444444444 67889999884

>d1zj6a1 c.37.1.8 (A:2-178) ADP-ribosylation factor {Human (Homo sapiens), ARL5A [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Human (Homo sapiens), ARL5A [TaxId: 9606]

Probab=99.13  E-value=8.3e-11  Score=64.14  Aligned_cols=58  Identities=17%  Similarity=0.193  Sum_probs=42.1

Q ss_pred             CceeeeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCCEEEEEEEcCCCC
Q psy2514           9 GSIKGTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRGTFTRDYKKTIGA   70 (71)
Q Consensus         9 ~~~~~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~   70 (71)
                      ..+.+||+++|+++||||||+.|+..+++... .++.+...  ..... ..+.+.+||+.+.
T Consensus        12 ~~k~~kI~vvG~~~~GKSsLi~rl~~~~~~~~-~~~~~~~~--~~~~~-~~~~~~~~d~~~~   69 (177)
T d1zj6a1          12 NHQEHKVIIVGLDNAGKTTILYQFSMNEVVHT-SPTIGSNV--EEIVI-NNTRFLMWDIGGQ   69 (177)
T ss_dssp             TTSCEEEEEEESTTSSHHHHHHHHHTTSCEEE-ECCSCSSC--EEEEE-TTEEEEEEECCC-
T ss_pred             CCCeEEEEEECCCCCCHHHHHHHHhcCCCCcc-ccccceeE--EEEee-cceEEEEeccccc
Confidence            35679999999999999999999999888743 45555322  22332 3478889998663

>d1nrjb_ c.37.1.8 (B:) Signal recognition particle receptor beta-subunit {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Signal recognition particle receptor beta-subunit
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=99.11  E-value=1.1e-11  Score=69.32  Aligned_cols=55  Identities=13%  Similarity=0.149  Sum_probs=39.6

Q ss_pred             eeeeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCCEEEEEEEcCCCC
Q psy2514          11 IKGTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRGTFTRDYKKTIGA   70 (71)
Q Consensus        11 ~~~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~   70 (71)
                      +...|+++|.++||||||+++++.+++.    |++..+.....+..+ ...+.+|||+|.
T Consensus         2 ~~p~V~lvG~~n~GKTSLln~l~~~~~~----~~tt~~~~~~~~~~~-~~~~~l~D~~g~   56 (209)
T d1nrjb_           2 YQPSIIIAGPQNSGKTSLLTLLTTDSVR----PTVVSQEPLSAADYD-GSGVTLVDFPGH   56 (209)
T ss_dssp             CCCEEEEECSTTSSHHHHHHHHHHSSCC----CBCCCSSCEEETTGG-GSSCEEEECCCC
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCCCC----CeEEecceEEEEEeC-CeEEEEEecccc
Confidence            3468999999999999999999987764    444444443333323 356789999984

>d1wf3a1 c.37.1.8 (A:3-180) GTPase Era, N-terminal domain {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: GTPase Era, N-terminal domain
species: Thermus thermophilus [TaxId: 274]

Probab=99.11  E-value=2.4e-10  Score=62.79  Aligned_cols=59  Identities=22%  Similarity=0.136  Sum_probs=39.7

Q ss_pred             ceeeeEEEEeCCCCCHHHHHHHHHhCcCC--CCccCCcceeeEEEEEEeCCEEEEEEEcCCCC
Q psy2514          10 SIKGTVVIVGNGAVGKSSMIQRYCRGTFT--RDYKKTIGVKSSMIQRYCRGTFTRDYKKTIGA   70 (71)
Q Consensus        10 ~~~~ki~v~G~~~vGKtsl~~~~~~~~f~--~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~   70 (71)
                      .+.-+|+++|.+++|||||+++++..+..  .....+.. +.........+ ..+.+|||+|.
T Consensus         3 ~~~~~I~lvG~~~~GKSSLin~l~~~~~~~~~~~~~tt~-~~~~~~~~~~~-~~~~~~DtpG~   63 (178)
T d1wf3a1           3 TYSGFVAIVGKPNVGKSTLLNNLLGVKVAPISPRPQTTR-KRLRGILTEGR-RQIVFVDTPGL   63 (178)
T ss_dssp             CEEEEEEEECSTTSSHHHHHHHHHTSCCSCCCSSSCCCC-SCEEEEEEETT-EEEEEEECCCC
T ss_pred             ccCcEEEEECCCCCCHHHHHHHHhCCCceeecccCCccc-ccccceeeeee-eeeeecccccc
Confidence            34567999999999999999999976542  22222332 33333333333 67899999985

>d1f6ba_ c.37.1.8 (A:) SAR1 {Chinese hamster (Cricetulus griseus) [TaxId: 10029]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: SAR1
species: Chinese hamster (Cricetulus griseus) [TaxId: 10029]

Probab=99.09  E-value=1.1e-10  Score=63.62  Aligned_cols=57  Identities=18%  Similarity=0.172  Sum_probs=37.7

Q ss_pred             CceeeeEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCCEEEEEEEcCCC
Q psy2514           9 GSIKGTVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRGTFTRDYKKTIG   69 (71)
Q Consensus         9 ~~~~~ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G   69 (71)
                      ..+..||+++|+++||||||++++..+.+.. ..|+.+....  .+..++ .....||+.+
T Consensus        10 ~~k~~kI~lvG~~~vGKTsLl~~l~~~~~~~-~~~~~~~~~~--~~~~~~-~~~~~~~~~~   66 (186)
T d1f6ba_          10 YKKTGKLVFLGLDNAGKTTLLHMLKDDRLGQ-HVPTLHPTSE--ELTIAG-MTFTTFDLGG   66 (186)
T ss_dssp             TTCCEEEEEEEETTSSHHHHHHHHSCC-------CCCCCSCE--EEEETT-EEEEEEEECC
T ss_pred             cCCCCEEEEECCCCCCHHHHHHHHhCCCCcc-eeccccccee--EEEecc-cccccccccc
Confidence            3557899999999999999999999888865 4577665443  333344 4566777655

>d1xzpa2 c.37.1.8 (A:212-371) TrmE GTPase domain {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: TrmE GTPase domain
species: Thermotoga maritima [TaxId: 2336]

Probab=99.07  E-value=4.7e-11  Score=64.37  Aligned_cols=56  Identities=23%  Similarity=0.174  Sum_probs=37.8

Q ss_pred             eeEEEEeCCCCCHHHHHHHHHhCcCC-CCccCCcceeeEEEEEEeCCEEEEEEEcCCC
Q psy2514          13 GTVVIVGNGAVGKSSMIQRYCRGTFT-RDYKKTIGVKSSMIQRYCRGTFTRDYKKTIG   69 (71)
Q Consensus        13 ~ki~v~G~~~vGKtsl~~~~~~~~f~-~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G   69 (71)
                      +||+++|.++||||||+++++..+.. ....|.............++ ..+.+|||+|
T Consensus         1 ikI~liG~~n~GKSSLin~l~g~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~Dt~G   57 (160)
T d1xzpa2           1 LRMVIVGKPNVGKSTLLNRLLNEDRAIVTDIPGTTRDVISEEIVIRG-ILFRIVDTAG   57 (160)
T ss_dssp             EEEEEECCHHHHTCHHHHHHHHHTBCCCCCSSCCSSCSCCEEEEETT-EEEEEEESSC
T ss_pred             CEEEEECCCCCCHHHHHHHHhCCCceeeeccccccccceeEEEEeCC-eeEEeccccc
Confidence            58999999999999999999865432 22233333223333333444 6788999988

>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=98.98  E-value=5.9e-11  Score=65.50  Aligned_cols=56  Identities=21%  Similarity=0.136  Sum_probs=35.8

Q ss_pred             eeEEEEeCCCCCHHHHHHHHHhCcC-CCCccCCcceeeEEEEEEeCCEEEEEEEcCCC
Q psy2514          13 GTVVIVGNGAVGKSSMIQRYCRGTF-TRDYKKTIGVKSSMIQRYCRGTFTRDYKKTIG   69 (71)
Q Consensus        13 ~ki~v~G~~~vGKtsl~~~~~~~~f-~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G   69 (71)
                      -+|.++|.++||||||++++..... ..++.+++.. .........+...+.+|||+|
T Consensus         2 ~~VaiiG~~nvGKSSLin~L~~~~~~~~~~~~~T~~-~~~~~~~~~~~~~~~~~DtpG   58 (185)
T d1lnza2           2 ADVGLVGFPSVGKSTLLSVVSSAKPKIADYHFTTLV-PNLGMVETDDGRSFVMADLPG   58 (185)
T ss_dssp             CCEEEESSTTSSHHHHHHHSEEECCEESSTTSSCCC-CCEEEEECSSSCEEEEEEHHH
T ss_pred             CeEEEECCCCCCHHHHHHHHhCCCCceecCCCceEe-eeeceeEecCCcEEEEecCCC
Confidence            3689999999999999999975442 2233333322 222333333334578999987

>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=98.95  E-value=1.7e-09  Score=62.88  Aligned_cols=59  Identities=25%  Similarity=0.345  Sum_probs=40.5

Q ss_pred             CceeeeEEEEeCCCCCHHHHHHHHHhCc-CCCC-ccCCcceeeEEEEEEeCCEEEEEEEcCCC
Q psy2514           9 GSIKGTVVIVGNGAVGKSSMIQRYCRGT-FTRD-YKKTIGVKSSMIQRYCRGTFTRDYKKTIG   69 (71)
Q Consensus         9 ~~~~~ki~v~G~~~vGKtsl~~~~~~~~-f~~~-~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G   69 (71)
                      ....++|+++|.+|+||||+++.++... |... ..+++.. ........++ ..+.++||.|
T Consensus        29 ~~~~l~I~LvG~tg~GKSSliN~ilg~~~~~vs~~~~~T~~-~~~~~~~~~g-~~i~viDTPG   89 (257)
T d1h65a_          29 DVNSLTILVMGKGGVGKSSTVNSIIGERVVSISPFQSEGPR-PVMVSRSRAG-FTLNIIDTPG   89 (257)
T ss_dssp             TCCEEEEEEEESTTSSHHHHHHHHHTSCCSCCCSSSCCCSS-CEEEEEEETT-EEEEEEECCC
T ss_pred             CCCCcEEEEECCCCCcHHHHHHHHhCCCceeecCCCCccee-EEEEEEEecc-EEEEEEeeec
Confidence            4567999999999999999999998654 3322 2333332 2333334444 5789999998

>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=98.85  E-value=2.1e-09  Score=58.55  Aligned_cols=55  Identities=24%  Similarity=0.174  Sum_probs=32.0

Q ss_pred             eEEEEeCCCCCHHHHHHHHHhCcCC--CCccCCcceeeEEEEEEeCCEEEEEEEcCCCC
Q psy2514          14 TVVIVGNGAVGKSSMIQRYCRGTFT--RDYKKTIGVKSSMIQRYCRGTFTRDYKKTIGA   70 (71)
Q Consensus        14 ki~v~G~~~vGKtsl~~~~~~~~f~--~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~   70 (71)
                      .|+++|.+++|||||+++++.....  ..+..+... ..... .......+.+||++|-
T Consensus         2 ~V~liG~~n~GKSsLi~~L~~~~~~~~~~~~~~t~~-~~~~~-~~~~~~~~~~~d~~g~   58 (171)
T d1mkya1           2 TVLIVGRPNVGKSTLFNKLVKKKKAIVEDEEGVTRD-PVQDT-VEWYGKTFKLVDTCGV   58 (171)
T ss_dssp             EEEEECCTTSSHHHHHHHHHC--------------C-CSEEE-EEETTEEEEEEECTTT
T ss_pred             EEEEECCCCCCHHHHHHHHhCCCcceecccCceeec-ccccc-ccccccccccccccce
Confidence            6899999999999999999865442  222222221 22222 2334577899999873

>d2cxxa1 c.37.1.8 (A:2-185) GTP-binding protein engB {Pyrococcus horikoshii [TaxId: 53953]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: GTP-binding protein engB
species: Pyrococcus horikoshii [TaxId: 53953]

Probab=98.81  E-value=5.8e-09  Score=56.97  Aligned_cols=51  Identities=24%  Similarity=0.334  Sum_probs=33.7

Q ss_pred             eEEEEeCCCCCHHHHHHHHHhCcCCCCccCCcceeeEEEEEEeCCEEEEEEEcCCC
Q psy2514          14 TVVIVGNGAVGKSSMIQRYCRGTFTRDYKKTIGVKSSMIQRYCRGTFTRDYKKTIG   69 (71)
Q Consensus        14 ki~v~G~~~vGKtsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G   69 (71)
                      .|+++|.++||||||++++..........|..-.+.  ......+   +.+|||+|
T Consensus         2 ~I~lvG~~nvGKSsLin~l~~~~~~~~~~~g~T~~~--~~~~~~~---~~ivDtpG   52 (184)
T d2cxxa1           2 TIIFAGRSNVGKSTLIYRLTGKKVRRGKRPGVTRKI--IEIEWKN---HKIIDMPG   52 (184)
T ss_dssp             EEEEEEBTTSSHHHHHHHHHSCCCSSSSSTTCTTSC--EEEEETT---EEEEECCC
T ss_pred             EEEEECCCCCCHHHHHHHHhCCCceeeCCCCEeecc--ccccccc---ceecccCC
Confidence            589999999999999999987665433334221122  1222233   56899988

>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=98.80  E-value=8e-09  Score=56.61  Aligned_cols=57  Identities=21%  Similarity=0.149  Sum_probs=35.5

Q ss_pred             eeeEEEEeCCCCCHHHHHHHHHhCcC--CCCccCCcceeeEEEEEEeCCEEEEEEEcCCCC
Q psy2514          12 KGTVVIVGNGAVGKSSMIQRYCRGTF--TRDYKKTIGVKSSMIQRYCRGTFTRDYKKTIGA   70 (71)
Q Consensus        12 ~~ki~v~G~~~vGKtsl~~~~~~~~f--~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~   70 (71)
                      .+||+++|.+++|||||+.+++....  ...+..+..... ......++ ..+.++|+.|.
T Consensus         8 ~~kV~iiG~~~~GKSTLin~l~~~~~~~~~~~~~t~~~~~-~~~~~~~~-~~~~~~d~~g~   66 (186)
T d1mkya2           8 AIKVAIVGRPNVGKSTLFNAILNKERALVSPIPGTTRDPV-DDEVFIDG-RKYVFVDTAGL   66 (186)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHTSTTEEECCCC------C-CEEEEETT-EEEEESSCSCC
T ss_pred             CCEEEEECCCCCCHHHHHHHHHCCCcceeecccccccccc-eeeeccCC-ceeeeeccCCc
Confidence            58999999999999999999986543  233333332222 22233344 45778888774

>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=98.72  E-value=2.5e-08  Score=54.15  Aligned_cols=58  Identities=21%  Similarity=0.243  Sum_probs=35.6

Q ss_pred             eeeeEEEEeCCCCCHHHHHHHHHhCcCC-CCccCCcceeeEEEEEEeCCEEEEEEEcCCC
Q psy2514          11 IKGTVVIVGNGAVGKSSMIQRYCRGTFT-RDYKKTIGVKSSMIQRYCRGTFTRDYKKTIG   69 (71)
Q Consensus        11 ~~~ki~v~G~~~vGKtsl~~~~~~~~f~-~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G   69 (71)
                      +.-.|+++|.++||||||+++++..+.. .++.++............+. ..+..||+.|
T Consensus         4 ~~~~I~iiG~~nvGKSSLin~L~~~~~~~~~~~~~t~~~~~~~~~~~~~-~~~~~~~~~~   62 (179)
T d1egaa1           4 YCGFIAIVGRPNVGKSTLLNKLLGQKISITSRKAQTTRHRIVGIHTEGA-YQAIYVDTPG   62 (179)
T ss_dssp             EEEEEEEECSSSSSHHHHHHHHHTCSEEECCCCSSCCSSCEEEEEEETT-EEEEEESSSS
T ss_pred             cccEEEEECCCCCCHHHHHHHHhCCCceeeccCCCceEEEEEeeeecCC-ceeEeecCCC
Confidence            3456899999999999999999976543 22333333333333333333 4455677655

>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=98.71  E-value=1.4e-08  Score=62.25  Aligned_cols=26  Identities=27%  Similarity=0.215  Sum_probs=22.7

Q ss_pred             eeeeEEEEeCCCCCHHHHHHHHHhCc
Q psy2514          11 IKGTVVIVGNGAVGKSSMIQRYCRGT   36 (71)
Q Consensus        11 ~~~ki~v~G~~~vGKtsl~~~~~~~~   36 (71)
                      ..++|+++|.+|+|||||++.+....
T Consensus        55 ~~l~Iai~G~~n~GKSSLiNaL~G~~   80 (400)
T d1tq4a_          55 SVLNVAVTGETGSGKSSFINTLRGIG   80 (400)
T ss_dssp             CCEEEEEEECTTSSHHHHHHHHHTCC
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhCCC
Confidence            35899999999999999999998643

>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=98.62  E-value=2.5e-08  Score=54.06  Aligned_cols=32  Identities=22%  Similarity=0.221  Sum_probs=25.3

Q ss_pred             ccCceeeeEEEEeCCCCCHHHHHHHHHhCcCC
Q psy2514           7 LRGSIKGTVVIVGNGAVGKSSMIQRYCRGTFT   38 (71)
Q Consensus         7 ~~~~~~~ki~v~G~~~vGKtsl~~~~~~~~f~   38 (71)
                      ...+..++|+++|.++||||||++++......
T Consensus        11 ~p~~~~~~I~lvG~~NvGKSSL~n~L~~~~~~   42 (188)
T d1puia_          11 LPSDTGIEVAFAGRSNAGKSSALNTLTNQKSL   42 (188)
T ss_dssp             SSCSCSEEEEEEECTTSSHHHHHTTTCCC---
T ss_pred             CCCccCCEEEEECCCCCCHHHHHHHHhCCCce
Confidence            34566799999999999999999999876543

>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=98.40  E-value=7.1e-07  Score=49.06  Aligned_cols=25  Identities=28%  Similarity=0.419  Sum_probs=21.7

Q ss_pred             eeeEEEEeCCCCCHHHHHHHHHhCc
Q psy2514          12 KGTVVIVGNGAVGKSSMIQRYCRGT   36 (71)
Q Consensus        12 ~~ki~v~G~~~vGKtsl~~~~~~~~   36 (71)
                      ..+|+++|.+++|||||++++.+.+
T Consensus        23 ~~~I~lvG~~n~GKSTLin~L~g~~   47 (195)
T d1svia_          23 LPEIALAGRSNVGKSSFINSLINRK   47 (195)
T ss_dssp             CCEEEEEEBTTSSHHHHHHHHHTC-
T ss_pred             CCEEEEECCCCCCHHHHHHHhcCCC
Confidence            3589999999999999999998654

>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=98.40  E-value=4.8e-07  Score=49.48  Aligned_cols=26  Identities=15%  Similarity=0.056  Sum_probs=22.9

Q ss_pred             ceeeeEEEEeCCCCCHHHHHHHHHhC
Q psy2514          10 SIKGTVVIVGNGAVGKSSMIQRYCRG   35 (71)
Q Consensus        10 ~~~~ki~v~G~~~vGKtsl~~~~~~~   35 (71)
                      .+.++|.++|.+++|||||+++++..
T Consensus         3 ~k~inIaiiG~~naGKSTL~n~L~~~   28 (179)
T d1wb1a4           3 FKNINLGIFGHIDHGKTTLSKVLTEI   28 (179)
T ss_dssp             CEEEEEEEEECTTSSHHHHHHHHHTT
T ss_pred             CCCEEEEEEeCCCCcHHHHHHHHHHh
Confidence            45689999999999999999999853

>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=98.38  E-value=5.2e-07  Score=53.22  Aligned_cols=23  Identities=26%  Similarity=0.278  Sum_probs=20.3

Q ss_pred             eeEEEEeCCCCCHHHHHHHHHhC
Q psy2514          13 GTVVIVGNGAVGKSSMIQRYCRG   35 (71)
Q Consensus        13 ~ki~v~G~~~vGKtsl~~~~~~~   35 (71)
                      +||.++|.|+||||||++.+...
T Consensus         1 ~~v~lvG~pn~GKStlfn~lt~~   23 (319)
T d1wxqa1           1 MEIGVVGKPNVGKSTFFSAATLV   23 (319)
T ss_dssp             CEEEEEECTTSSHHHHHHHHHC-
T ss_pred             CcEeEECCCCCCHHHHHHHHHCC
Confidence            48999999999999999999854

>d1puja_ c.37.1.8 (A:) Probable GTPase YlqF {Bacillus subtilis [TaxId: 1423]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Probable GTPase YlqF
species: Bacillus subtilis [TaxId: 1423]

Probab=98.32  E-value=6e-07  Score=52.26  Aligned_cols=57  Identities=19%  Similarity=0.207  Sum_probs=33.9

Q ss_pred             ceeeeEEEEeCCCCCHHHHHHHHHhCcCCC-CccCCcceeeEEEEEEeCCEEEEEEEcCCCC
Q psy2514          10 SIKGTVVIVGNGAVGKSSMIQRYCRGTFTR-DYKKTIGVKSSMIQRYCRGTFTRDYKKTIGA   70 (71)
Q Consensus        10 ~~~~ki~v~G~~~vGKtsl~~~~~~~~f~~-~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~   70 (71)
                      ...+++.++|-++||||||++++...+-.. ...|.+-.+.  ..+..+.  .+.++||+|=
T Consensus       110 ~~~~~v~vvG~PNvGKSsliN~L~~~~~~~~~~~pG~Tr~~--~~i~~~~--~~~l~DTPGi  167 (273)
T d1puja_         110 PRAIRALIIGIPNVGKSTLINRLAKKNIAKTGDRPGITTSQ--QWVKVGK--ELELLDTPGI  167 (273)
T ss_dssp             CCCEEEEEEESTTSSHHHHHHHHHTSCCC--------------CCEEETT--TEEEEECCCC
T ss_pred             CCceEEEEEecCccchhhhhhhhhccceEEECCcccccccc--eEEECCC--CeEEecCCCc
Confidence            356899999999999999999998754322 1222222111  1122222  3789999984

>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=98.26  E-value=5.4e-07  Score=52.50  Aligned_cols=25  Identities=28%  Similarity=0.295  Sum_probs=22.3

Q ss_pred             eeeEEEEeCCCCCHHHHHHHHHhCc
Q psy2514          12 KGTVVIVGNGAVGKSSMIQRYCRGT   36 (71)
Q Consensus        12 ~~ki~v~G~~~vGKtsl~~~~~~~~   36 (71)
                      .+||-+||-++||||||++.+....
T Consensus         2 ~~~~GivG~Pn~GKSTlf~~lt~~~   26 (278)
T d1jala1           2 GFKCGIVGLPNVGKSTLFNALTKAG   26 (278)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHHTC
T ss_pred             CceEEEECCCCCCHHHHHHHHHCCC
Confidence            4799999999999999999998654

>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=98.21  E-value=3.2e-06  Score=49.56  Aligned_cols=29  Identities=28%  Similarity=0.302  Sum_probs=24.9

Q ss_pred             cCceeeeEEEEeCCCCCHHHHHHHHHhCc
Q psy2514           8 RGSIKGTVVIVGNGAVGKSSMIQRYCRGT   36 (71)
Q Consensus         8 ~~~~~~ki~v~G~~~vGKtsl~~~~~~~~   36 (71)
                      +....+|+-++|.|+||||||++.++...
T Consensus         6 ~~~~~~kiGivG~Pn~GKSTlfnalT~~~   34 (296)
T d1ni3a1           6 RPGNNLKTGIVGMPNVGKSTFFRAITKSV   34 (296)
T ss_dssp             SSSSCCEEEEEECSSSSHHHHHHHHHHST
T ss_pred             CCCCCcEEEEECCCCCCHHHHHHHHHCCC
Confidence            44566899999999999999999999654

>d2c78a3 c.37.1.8 (A:9-212) Elongation factor Tu (EF-Tu), N-terminal (G) domain {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Elongation factor Tu (EF-Tu), N-terminal (G) domain
species: Thermus thermophilus [TaxId: 274]

Probab=98.17  E-value=1.4e-06  Score=48.80  Aligned_cols=22  Identities=18%  Similarity=0.249  Sum_probs=20.3

Q ss_pred             eeeEEEEeCCCCCHHHHHHHHH
Q psy2514          12 KGTVVIVGNGAVGKSSMIQRYC   33 (71)
Q Consensus        12 ~~ki~v~G~~~vGKtsl~~~~~   33 (71)
                      .++|+++|-.++|||||+.+++
T Consensus         3 ~ini~iiGhvd~GKSTL~~~Ll   24 (204)
T d2c78a3           3 HVNVGTIGHVDHGKTTLTAALT   24 (204)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHH
T ss_pred             CeEEEEEeCCCCcHHHHHHHHH
Confidence            4799999999999999999986

>d1g7sa4 c.37.1.8 (A:1-227) Initiation factor IF2/eIF5b, N-terminal (G) domain {Archaeon Methanobacterium thermoautotrophicum [TaxId: 145262]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Initiation factor IF2/eIF5b, N-terminal (G) domain
species: Archaeon Methanobacterium thermoautotrophicum [TaxId: 145262]

Probab=98.10  E-value=1.9e-06  Score=48.76  Aligned_cols=21  Identities=19%  Similarity=0.412  Sum_probs=19.2

Q ss_pred             EEEEeCCCCCHHHHHHHHHhC
Q psy2514          15 VVIVGNGAVGKSSMIQRYCRG   35 (71)
Q Consensus        15 i~v~G~~~vGKtsl~~~~~~~   35 (71)
                      |+++|.+++|||||+.+++..
T Consensus         8 IaIiGh~d~GKSTL~~~L~~~   28 (227)
T d1g7sa4           8 VSVLGHVDHGKTTLLDHIRGS   28 (227)
T ss_dssp             EEEECSTTSSHHHHHHHHHHH
T ss_pred             EEEEeCCCccHHHHHHHHHhh
Confidence            999999999999999998754

>d1ye8a1 c.37.1.11 (A:1-178) Hypothetical kinase-like protein Aq_1292 {Aquifex aeolicus [TaxId: 63363]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Hypothetical kinase-like protein Aq 1292
species: Aquifex aeolicus [TaxId: 63363]

Probab=98.09  E-value=1.3e-06  Score=46.92  Aligned_cols=22  Identities=23%  Similarity=0.594  Sum_probs=20.0

Q ss_pred             eeEEEEeCCCCCHHHHHHHHHh
Q psy2514          13 GTVVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus        13 ~ki~v~G~~~vGKtsl~~~~~~   34 (71)
                      +|++++|++|+|||+|+..++.
T Consensus         1 ~ki~I~G~~G~GKSTLl~~i~~   22 (178)
T d1ye8a1           1 MKIIITGEPGVGKTTLVKKIVE   22 (178)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHH
T ss_pred             CEEEEECCCCcHHHHHHHHHHh
Confidence            4899999999999999998875

>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=98.04  E-value=1.5e-06  Score=49.72  Aligned_cols=23  Identities=30%  Similarity=0.449  Sum_probs=19.7

Q ss_pred             eeEEEEeCCCCCHHHHHHHHHhC
Q psy2514          13 GTVVIVGNGAVGKSSMIQRYCRG   35 (71)
Q Consensus        13 ~ki~v~G~~~vGKtsl~~~~~~~   35 (71)
                      -..+++|.+|||||||++.+..+
T Consensus        96 kt~~~~G~SGVGKSTLiN~L~~~  118 (225)
T d1u0la2          96 KISTMAGLSGVGKSSLLNAINPG  118 (225)
T ss_dssp             SEEEEECSTTSSHHHHHHHHSTT
T ss_pred             CeEEEECCCCCCHHHHHHhhcch
Confidence            35688999999999999999754

>d1y63a_ c.37.1.1 (A:) Probable kinase LmjF30.1890 {Leishmania major [TaxId: 5664]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Probable kinase LmjF30.1890
species: Leishmania major [TaxId: 5664]

Probab=97.96  E-value=3.8e-06  Score=44.79  Aligned_cols=26  Identities=23%  Similarity=0.300  Sum_probs=22.6

Q ss_pred             CceeeeEEEEeCCCCCHHHHHHHHHh
Q psy2514           9 GSIKGTVVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus         9 ~~~~~ki~v~G~~~vGKtsl~~~~~~   34 (71)
                      .+...+|++.|.+|+||||+...+..
T Consensus         2 ~pk~~~I~i~G~~GsGKTT~~~~La~   27 (174)
T d1y63a_           2 QPKGINILITGTPGTGKTSMAEMIAA   27 (174)
T ss_dssp             CCSSCEEEEECSTTSSHHHHHHHHHH
T ss_pred             CCCCCEEEEEeCCCCCHHHHHHHHHH
Confidence            45678999999999999999988764

>d1lw7a2 c.37.1.1 (A:220-411) Transcriptional regulator NadR, ribosylnicotinamide kinase domain {Haemophilus influenzae [TaxId: 727]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Transcriptional regulator NadR, ribosylnicotinamide kinase domain
species: Haemophilus influenzae [TaxId: 727]

Probab=97.94  E-value=2.8e-06  Score=45.33  Aligned_cols=24  Identities=29%  Similarity=0.526  Sum_probs=21.1

Q ss_pred             eeeeEEEEeCCCCCHHHHHHHHHh
Q psy2514          11 IKGTVVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus        11 ~~~ki~v~G~~~vGKtsl~~~~~~   34 (71)
                      ..-+|++.|.+|+|||||+.++..
T Consensus         6 ~~K~I~i~G~~GsGKTTla~~La~   29 (192)
T d1lw7a2           6 FAKTVAILGGESSGKSVLVNKLAA   29 (192)
T ss_dssp             TCEEEEEECCTTSHHHHHHHHHHH
T ss_pred             cceEEEEECCCCCCHHHHHHHHHH
Confidence            346899999999999999999875

>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=97.90  E-value=2e-05  Score=43.87  Aligned_cols=23  Identities=17%  Similarity=0.267  Sum_probs=20.6

Q ss_pred             eeeEEEEeCCCCCHHHHHHHHHh
Q psy2514          12 KGTVVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus        12 ~~ki~v~G~~~vGKtsl~~~~~~   34 (71)
                      .++|+++|-.+.|||||+.++..
T Consensus         3 ~ini~iiGHvd~GKSTL~~~l~~   25 (196)
T d1d2ea3           3 HVNVGTIGHVDHGKTTLTAAITK   25 (196)
T ss_dssp             EEEEEEESSTTSSHHHHHHHHHH
T ss_pred             CcEEEEEeCCCCcHHHHHHHHHH
Confidence            47899999999999999998863

>d1rkba_ c.37.1.1 (A:) Adenylate kinase {Human (Homo sapiens), isoenzyme 6 [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Human (Homo sapiens), isoenzyme 6 [TaxId: 9606]

Probab=97.89  E-value=4.7e-06  Score=44.26  Aligned_cols=23  Identities=17%  Similarity=0.395  Sum_probs=20.3

Q ss_pred             eeeEEEEeCCCCCHHHHHHHHHh
Q psy2514          12 KGTVVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus        12 ~~ki~v~G~~~vGKtsl~~~~~~   34 (71)
                      ..+|++.|.+|+||||+++.+..
T Consensus         4 ~~~I~i~G~pGsGKTTia~~La~   26 (173)
T d1rkba_           4 LPNILLTGTPGVGKTTLGKELAS   26 (173)
T ss_dssp             CCCEEEECSTTSSHHHHHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHHH
Confidence            46899999999999999998864

>d1ak2a1 c.37.1.1 (A:14-146,A:177-233) Adenylate kinase {Cow (Bos taurus), mitochondrial izozyme-2 [TaxId: 9913]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Cow (Bos taurus), mitochondrial izozyme-2 [TaxId: 9913]

Probab=97.78  E-value=1.1e-05  Score=43.98  Aligned_cols=24  Identities=17%  Similarity=0.303  Sum_probs=21.2

Q ss_pred             eeeeEEEEeCCCCCHHHHHHHHHh
Q psy2514          11 IKGTVVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus        11 ~~~ki~v~G~~~vGKtsl~~~~~~   34 (71)
                      +.++|+++|.+|+|||+.+..++.
T Consensus         2 ~~~riil~G~pGSGKsT~a~~La~   25 (190)
T d1ak2a1           2 KGVRAVLLGPPGAGKGTQAPKLAK   25 (190)
T ss_dssp             CCCEEEEECCTTSSHHHHHHHHHH
T ss_pred             CccEEEEECCCCCCHHHHHHHHHH
Confidence            468999999999999999988764

>d2bv3a2 c.37.1.8 (A:7-282) Elongation factor G (EF-G), N-terminal (G) domain {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Elongation factor G (EF-G), N-terminal (G) domain
species: Thermus thermophilus [TaxId: 274]

Probab=97.76  E-value=8.9e-05  Score=43.34  Aligned_cols=22  Identities=18%  Similarity=0.215  Sum_probs=19.8

Q ss_pred             eeeEEEEeCCCCCHHHHHHHHH
Q psy2514          12 KGTVVIVGNGAVGKSSMIQRYC   33 (71)
Q Consensus        12 ~~ki~v~G~~~vGKtsl~~~~~   33 (71)
                      .-++.++|..++|||||+.+++
T Consensus         6 iRni~i~gh~~~GKTtL~e~ll   27 (276)
T d2bv3a2           6 LRNIGIAAHIDAGKTTTTERIL   27 (276)
T ss_dssp             EEEEEEEECTTSCHHHHHHHHH
T ss_pred             ceEEEEEeCCCCCHHHHHHHHH
Confidence            3479999999999999999986

>d1qf9a_ c.37.1.1 (A:) UMP/CMP kinase {Dictyostelium discoideum [TaxId: 44689]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: UMP/CMP kinase
species: Dictyostelium discoideum [TaxId: 44689]

Probab=97.76  E-value=1.7e-05  Score=43.34  Aligned_cols=25  Identities=24%  Similarity=0.360  Sum_probs=20.7

Q ss_pred             ceeeeEEEEeCCCCCHHHHHHHHHh
Q psy2514          10 SIKGTVVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus        10 ~~~~ki~v~G~~~vGKtsl~~~~~~   34 (71)
                      .+...|+++|.+|+|||+++.+++.
T Consensus         4 ~kp~iI~i~G~pGSGKsT~a~~La~   28 (194)
T d1qf9a_           4 SKPNVVFVLGGPGSGKGTQCANIVR   28 (194)
T ss_dssp             CCCEEEEEEESTTSSHHHHHHHHHH
T ss_pred             CCCcEEEEECCCCCCHHHHHHHHHH
Confidence            3335778999999999999998875

>d2dy1a2 c.37.1.8 (A:8-274) Elongation factor G (EF-G), N-terminal (G) domain {Thermus thermophilus, EF-G-2 [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Elongation factor G (EF-G), N-terminal (G) domain
species: Thermus thermophilus, EF-G-2 [TaxId: 274]

Probab=97.74  E-value=4.1e-05  Score=44.57  Aligned_cols=21  Identities=29%  Similarity=0.534  Sum_probs=19.1

Q ss_pred             eeEEEEeCCCCCHHHHHHHHH
Q psy2514          13 GTVVIVGNGAVGKSSMIQRYC   33 (71)
Q Consensus        13 ~ki~v~G~~~vGKtsl~~~~~   33 (71)
                      -+++++|..++|||||+.+++
T Consensus         3 RNv~iiGh~~~GKTtL~e~ll   23 (267)
T d2dy1a2           3 RTVALVGHAGSGKTTLTEALL   23 (267)
T ss_dssp             EEEEEEESTTSSHHHHHHHHH
T ss_pred             eEEEEEcCCCCcHHHHHHHHH
Confidence            468999999999999999986

>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=97.74  E-value=3.2e-06  Score=48.53  Aligned_cols=22  Identities=36%  Similarity=0.549  Sum_probs=18.7

Q ss_pred             eEEEEeCCCCCHHHHHHHHHhC
Q psy2514          14 TVVIVGNGAVGKSSMIQRYCRG   35 (71)
Q Consensus        14 ki~v~G~~~vGKtsl~~~~~~~   35 (71)
                      ..+++|.+|||||||++.+..+
T Consensus        99 ~~vl~G~SGVGKSSLiN~L~~~  120 (231)
T d1t9ha2          99 TTVFAGQSGVGKSSLLNAISPE  120 (231)
T ss_dssp             EEEEEESHHHHHHHHHHHHCC-
T ss_pred             eEEEECCCCccHHHHHHhhccH
Confidence            4578899999999999998754

>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=97.74  E-value=6.7e-05  Score=43.43  Aligned_cols=39  Identities=21%  Similarity=0.313  Sum_probs=30.9

Q ss_pred             eeeEEEEeCCCCCHHHHHHHHHhCcC-CCCccCCcceeeE
Q psy2514          12 KGTVVIVGNGAVGKSSMIQRYCRGTF-TRDYKKTIGVKSS   50 (71)
Q Consensus        12 ~~ki~v~G~~~vGKtsl~~~~~~~~f-~~~~~~t~~~~~~   50 (71)
                      ..+++|+|+.++|||||++.++...+ +....|++.....
T Consensus        26 ~P~ivvvG~~SsGKSsliNaLlg~~~lP~~~~~~T~~~~~   65 (299)
T d2akab1          26 LPQIAVVGGQSAGKSSVLENFVGRDFLPRGSGIVTRRPLV   65 (299)
T ss_dssp             CCEEEEEEBTTSCHHHHHHHHHTSCCSCCCSSCSCSSCEE
T ss_pred             CCeEEEEcCCCCCHHHHHHHHhCCCcCCCCCCccccCCEE
Confidence            45799999999999999999998886 6566676654333

>d1f60a3 c.37.1.8 (A:2-240) Elongation factor eEF-1alpha, N-terminal (G) domain {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Elongation factor eEF-1alpha, N-terminal (G) domain
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=97.73  E-value=1.5e-05  Score=45.62  Aligned_cols=25  Identities=24%  Similarity=0.283  Sum_probs=22.0

Q ss_pred             CceeeeEEEEeCCCCCHHHHHHHHH
Q psy2514           9 GSIKGTVVIVGNGAVGKSSMIQRYC   33 (71)
Q Consensus         9 ~~~~~ki~v~G~~~vGKtsl~~~~~   33 (71)
                      +...++++++|-...|||||+.+++
T Consensus         3 ~k~~iNi~iiGHvD~GKsTl~~~ll   27 (239)
T d1f60a3           3 EKSHINVVVIGHVDSGKSTTTGHLI   27 (239)
T ss_dssp             CCEEEEEEEEECTTSCHHHHHHHHH
T ss_pred             CCCccEEEEEeCCCCCHHHHHHHHH
Confidence            4456899999999999999999986

>d1kk1a3 c.37.1.8 (A:6-200) Initiation factor eIF2 gamma subunit, N-terminal (G) domain {Archaeon Pyrococcus abyssi [TaxId: 29292]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Initiation factor eIF2 gamma subunit, N-terminal (G) domain
species: Archaeon Pyrococcus abyssi [TaxId: 29292]

Probab=97.73  E-value=0.00036  Score=38.09  Aligned_cols=25  Identities=16%  Similarity=0.270  Sum_probs=21.9

Q ss_pred             ceeeeEEEEeCCCCCHHHHHHHHHh
Q psy2514          10 SIKGTVVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus        10 ~~~~ki~v~G~~~vGKtsl~~~~~~   34 (71)
                      ...++|+++|..++|||||+.++..
T Consensus         3 ~~~inIaiiGhvd~GKSTL~~~L~g   27 (195)
T d1kk1a3           3 QAEVNIGMVGHVDHGKTTLTKALTG   27 (195)
T ss_dssp             SEEEEEEEECSTTSSHHHHHHHHHT
T ss_pred             CCcEEEEEEeccCCcHHHHHHHHHh
Confidence            3467999999999999999999975

>d1kaga_ c.37.1.2 (A:) Shikimate kinase (AroK) {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Shikimate kinase (AroK)
domain: Shikimate kinase (AroK)
species: Escherichia coli [TaxId: 562]

Probab=97.70  E-value=1.5e-05  Score=41.59  Aligned_cols=21  Identities=24%  Similarity=0.464  Sum_probs=18.8

Q ss_pred             eEEEEeCCCCCHHHHHHHHHh
Q psy2514          14 TVVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus        14 ki~v~G~~~vGKtsl~~~~~~   34 (71)
                      .|+++|.+|+||||+.+.+..
T Consensus         4 ~I~l~G~~GsGKSTvak~La~   24 (169)
T d1kaga_           4 NIFLVGPMGAGKSTIGRQLAQ   24 (169)
T ss_dssp             CEEEECCTTSCHHHHHHHHHH
T ss_pred             eEEEECCCCCCHHHHHHHHHH
Confidence            689999999999999988764

>d1np6a_ c.37.1.10 (A:) Molybdopterin-guanine dinucleotide biosynthesis protein MobB {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Molybdopterin-guanine dinucleotide biosynthesis protein MobB
species: Escherichia coli [TaxId: 562]

Probab=97.69  E-value=1.6e-05  Score=42.05  Aligned_cols=21  Identities=10%  Similarity=0.321  Sum_probs=18.7

Q ss_pred             eEEEEeCCCCCHHHHHHHHHh
Q psy2514          14 TVVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus        14 ki~v~G~~~vGKtsl~~~~~~   34 (71)
                      -++++|.+|+|||||+.+++.
T Consensus         4 vi~itG~~GSGKTTL~~~L~~   24 (170)
T d1np6a_           4 LLAFAAWSGTGKTTLLKKLIP   24 (170)
T ss_dssp             EEEEECCTTSCHHHHHHHHHH
T ss_pred             EEEEEcCCCCCHHHHHHHHHH
Confidence            378899999999999999874

>d2ak3a1 c.37.1.1 (A:0-124,A:162-225) Adenylate kinase {Cow (Bos taurus), mitochondrial izozyme-3 [TaxId: 9913]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Cow (Bos taurus), mitochondrial izozyme-3 [TaxId: 9913]

Probab=97.66  E-value=2.4e-05  Score=43.01  Aligned_cols=25  Identities=20%  Similarity=0.267  Sum_probs=22.2

Q ss_pred             ceeeeEEEEeCCCCCHHHHHHHHHh
Q psy2514          10 SIKGTVVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus        10 ~~~~ki~v~G~~~vGKtsl~~~~~~   34 (71)
                      ...++|+++|.+|+|||++..+++.
T Consensus         4 ~r~mrIiliG~PGSGKtT~a~~La~   28 (189)
T d2ak3a1           4 ARLLRAAIMGAPGSGKGTVSSRITK   28 (189)
T ss_dssp             SCCCEEEEECCTTSSHHHHHHHHHH
T ss_pred             CcceeEEEECCCCCCHHHHHHHHHH
Confidence            4568999999999999999998875

>d1zina1 c.37.1.1 (A:1-125,A:161-217) Adenylate kinase {Bacillus stearothermophilus [TaxId: 1422]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Bacillus stearothermophilus [TaxId: 1422]

Probab=97.64  E-value=2.3e-05  Score=42.13  Aligned_cols=22  Identities=18%  Similarity=0.338  Sum_probs=19.1

Q ss_pred             eeEEEEeCCCCCHHHHHHHHHh
Q psy2514          13 GTVVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus        13 ~ki~v~G~~~vGKtsl~~~~~~   34 (71)
                      ++|+++|.+|+||||++..++.
T Consensus         1 m~I~i~G~pGSGKsT~a~~La~   22 (182)
T d1zina1           1 MNLVLMGLPGAGKGTQAEKIVA   22 (182)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHH
Confidence            4799999999999999987754

>d1ly1a_ c.37.1.1 (A:) Polynucleotide kinase, kinase domain {Bacteriophage T4 [TaxId: 10665]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Polynucleotide kinase, kinase domain
species: Bacteriophage T4 [TaxId: 10665]

Probab=97.61  E-value=2.5e-05  Score=40.80  Aligned_cols=20  Identities=20%  Similarity=0.453  Sum_probs=17.8

Q ss_pred             EEEEeCCCCCHHHHHHHHHh
Q psy2514          15 VVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus        15 i~v~G~~~vGKtsl~~~~~~   34 (71)
                      |++.|.+|+|||+++.++..
T Consensus         5 Iii~G~pGsGKTTla~~L~~   24 (152)
T d1ly1a_           5 ILTIGCPGSGKSTWAREFIA   24 (152)
T ss_dssp             EEEECCTTSSHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHH
Confidence            67899999999999998864

>d2bdta1 c.37.1.25 (A:1-176) Hypothetical protein BH3686 {Bacillus halodurans [TaxId: 86665]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Atu3015-like
domain: Hypothetical protein BH3686
species: Bacillus halodurans [TaxId: 86665]

Probab=97.61  E-value=2.4e-05  Score=41.18  Aligned_cols=21  Identities=33%  Similarity=0.520  Sum_probs=18.4

Q ss_pred             eEEEEeCCCCCHHHHHHHHHh
Q psy2514          14 TVVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus        14 ki~v~G~~~vGKtsl~~~~~~   34 (71)
                      -|++.|.+|+||||++.++..
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            378899999999999988874

>d2cdna1 c.37.1.1 (A:1-181) Adenylate kinase {Mycobacterium tuberculosis [TaxId: 1773]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Mycobacterium tuberculosis [TaxId: 1773]

Probab=97.59  E-value=3e-05  Score=41.87  Aligned_cols=22  Identities=18%  Similarity=0.347  Sum_probs=19.5

Q ss_pred             eeEEEEeCCCCCHHHHHHHHHh
Q psy2514          13 GTVVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus        13 ~ki~v~G~~~vGKtsl~~~~~~   34 (71)
                      ++|+++|.+|+||||++.+++.
T Consensus         1 m~I~i~G~pGsGKsT~a~~La~   22 (181)
T d2cdna1           1 MRVLLLGPPGAGKGTQAVKLAE   22 (181)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHH
Confidence            4799999999999999998764

>d2i3ba1 c.37.1.11 (A:1-189) Cancer-related NTPase, C1orf57 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Cancer-related NTPase, C1orf57
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.58  E-value=2.7e-05  Score=41.31  Aligned_cols=21  Identities=29%  Similarity=0.569  Sum_probs=18.5

Q ss_pred             eEEEEeCCCCCHHHHHHHHHh
Q psy2514          14 TVVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus        14 ki~v~G~~~vGKtsl~~~~~~   34 (71)
                      .|++.|++|+|||+|+..++.
T Consensus         3 ~v~ItG~~GtGKTtl~~~i~~   23 (189)
T d2i3ba1           3 HVFLTGPPGVGKTTLIHKASE   23 (189)
T ss_dssp             CEEEESCCSSCHHHHHHHHHH
T ss_pred             EEEEECCCCCcHHHHHHHHHH
Confidence            478999999999999998874

>d1zunb3 c.37.1.8 (B:16-237) Sulfate adenylate transferase subunit cysN/C, EF-Tu domain G-like domain {Pseudomonas syringae pv. tomato [TaxId: 323]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Sulfate adenylate transferase subunit cysN/C, EF-Tu domain G-like domain
species: Pseudomonas syringae pv. tomato [TaxId: 323]

Probab=97.58  E-value=0.00013  Score=41.24  Aligned_cols=25  Identities=28%  Similarity=0.243  Sum_probs=22.1

Q ss_pred             CceeeeEEEEeCCCCCHHHHHHHHH
Q psy2514           9 GSIKGTVVIVGNGAVGKSSMIQRYC   33 (71)
Q Consensus         9 ~~~~~ki~v~G~~~vGKtsl~~~~~   33 (71)
                      ....++++++|-...|||||+.+++
T Consensus         6 ~~~~~~i~viGHVd~GKSTL~~~Ll   30 (222)
T d1zunb3           6 RKEMLRFLTCGNVDDGKSTLIGRLL   30 (222)
T ss_dssp             SCEEEEEEEECCTTSSHHHHHHHHH
T ss_pred             cCCcceEEEEcCCCCCHHHHHHHHH
Confidence            3456889999999999999999986

>d1s3ga1 c.37.1.1 (A:1-125,A:161-217) Adenylate kinase {Bacillus globisporus [TaxId: 1459]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Bacillus globisporus [TaxId: 1459]

Probab=97.58  E-value=3.1e-05  Score=41.92  Aligned_cols=22  Identities=23%  Similarity=0.391  Sum_probs=19.4

Q ss_pred             eeEEEEeCCCCCHHHHHHHHHh
Q psy2514          13 GTVVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus        13 ~ki~v~G~~~vGKtsl~~~~~~   34 (71)
                      ++|+++|.+|+|||+++.+++.
T Consensus         1 M~I~i~G~pGSGKsT~a~~La~   22 (182)
T d1s3ga1           1 MNIVLMGLPGAGKGTQADRIVE   22 (182)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHH
Confidence            4799999999999999987774

>d1akya1 c.37.1.1 (A:3-130,A:169-220) Adenylate kinase {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=97.54  E-value=3.9e-05  Score=41.52  Aligned_cols=23  Identities=17%  Similarity=0.277  Sum_probs=20.4

Q ss_pred             eeeEEEEeCCCCCHHHHHHHHHh
Q psy2514          12 KGTVVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus        12 ~~ki~v~G~~~vGKtsl~~~~~~   34 (71)
                      .++|+++|.+|+|||+++..++.
T Consensus         2 ~mrIvl~G~pGSGKtT~a~~La~   24 (180)
T d1akya1           2 SIRMVLIGPPGAGKGTQAPNLQE   24 (180)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHH
T ss_pred             ceEEEEECCCCCCHHHHHHHHHH
Confidence            46899999999999999988864

>d1e4va1 c.37.1.1 (A:1-121,A:157-214) Adenylate kinase {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Escherichia coli [TaxId: 562]

Probab=97.53  E-value=4.2e-05  Score=41.21  Aligned_cols=22  Identities=18%  Similarity=0.307  Sum_probs=19.2

Q ss_pred             eeEEEEeCCCCCHHHHHHHHHh
Q psy2514          13 GTVVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus        13 ~ki~v~G~~~vGKtsl~~~~~~   34 (71)
                      ++|+++|.+|+|||+.+.++..
T Consensus         1 m~I~i~G~pGSGKsT~~~~La~   22 (179)
T d1e4va1           1 MRIILLGAPVAGKGTQAQFIME   22 (179)
T ss_dssp             CEEEEEESTTSSHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHH
Confidence            4799999999999999987763

>d1jnya3 c.37.1.8 (A:4-227) Elongation factor eEF-1alpha, N-terminal (G) domain {Archaeon Sulfolobus solfataricus [TaxId: 2287]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Elongation factor eEF-1alpha, N-terminal (G) domain
species: Archaeon Sulfolobus solfataricus [TaxId: 2287]

Probab=97.53  E-value=3.6e-05  Score=43.34  Aligned_cols=22  Identities=23%  Similarity=0.480  Sum_probs=20.0

Q ss_pred             eeeEEEEeCCCCCHHHHHHHHH
Q psy2514          12 KGTVVIVGNGAVGKSSMIQRYC   33 (71)
Q Consensus        12 ~~ki~v~G~~~vGKtsl~~~~~   33 (71)
                      .++++++|..+.|||||+.+++
T Consensus         3 ~iNi~viGHVd~GKTTL~~~Ll   24 (224)
T d1jnya3           3 HLNLIVIGHVDHGKSTLVGRLL   24 (224)
T ss_dssp             EEEEEEEESTTSSHHHHHHHHH
T ss_pred             ccEEEEEecCCCCHHHHHHHHH
Confidence            5799999999999999998875

>d1jbka_ c.37.1.20 (A:) ClpB, AAA+ modules {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: ClpB, AAA+ modules
species: Escherichia coli [TaxId: 562]

Probab=97.52  E-value=4.4e-05  Score=42.70  Aligned_cols=24  Identities=25%  Similarity=0.577  Sum_probs=20.6

Q ss_pred             eeeeEEEEeCCCCCHHHHHHHHHh
Q psy2514          11 IKGTVVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus        11 ~~~ki~v~G~~~vGKtsl~~~~~~   34 (71)
                      .+-+++++|++|||||++++.++.
T Consensus        42 ~k~n~lLvG~pGVGKTalv~~LA~   65 (195)
T d1jbka_          42 TKNNPVLIGEPGVGKTAIVEGLAQ   65 (195)
T ss_dssp             SSCEEEEECCTTSCHHHHHHHHHH
T ss_pred             CCCCeEEEecCCcccHHHHHHHHH
Confidence            456889999999999999987764

>d1gkya_ c.37.1.1 (A:) Guanylate kinase {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Guanylate kinase
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=97.52  E-value=3.8e-05  Score=41.98  Aligned_cols=21  Identities=29%  Similarity=0.591  Sum_probs=18.7

Q ss_pred             EEEEeCCCCCHHHHHHHHHhC
Q psy2514          15 VVIVGNGAVGKSSMIQRYCRG   35 (71)
Q Consensus        15 i~v~G~~~vGKtsl~~~~~~~   35 (71)
                      |+++|++|+||++|+.+++..
T Consensus         4 Ivl~GpsG~GK~tl~~~L~~~   24 (186)
T d1gkya_           4 IVISGPSGTGKSTLLKKLFAE   24 (186)
T ss_dssp             EEEECCTTSSHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHh
Confidence            789999999999999988753

>d1zaka1 c.37.1.1 (A:3-127,A:159-222) Adenylate kinase {Maize (Zea mays) [TaxId: 4577]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Maize (Zea mays) [TaxId: 4577]

Probab=97.51  E-value=4.1e-05  Score=41.63  Aligned_cols=22  Identities=27%  Similarity=0.232  Sum_probs=19.3

Q ss_pred             eeEEEEeCCCCCHHHHHHHHHh
Q psy2514          13 GTVVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus        13 ~ki~v~G~~~vGKtsl~~~~~~   34 (71)
                      .+|++.|.+|+|||+++..+..
T Consensus         4 m~I~i~GppGsGKsT~a~~La~   25 (189)
T d1zaka1           4 LKVMISGAPASGKGTQCELIKT   25 (189)
T ss_dssp             CCEEEEESTTSSHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHH
Confidence            5799999999999999987753

>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=97.51  E-value=0.00014  Score=42.23  Aligned_cols=35  Identities=26%  Similarity=0.374  Sum_probs=24.0

Q ss_pred             eeEEEEeCCCCCHHHHHHHHHhCcC-CCCccCCcce
Q psy2514          13 GTVVIVGNGAVGKSSMIQRYCRGTF-TRDYKKTIGV   47 (71)
Q Consensus        13 ~ki~v~G~~~vGKtsl~~~~~~~~f-~~~~~~t~~~   47 (71)
                      .+++|+|+.++|||||++.++...+ +....|++..
T Consensus        25 P~ivVvG~~ssGKSSliNaLlG~~~lP~~~~~~T~~   60 (306)
T d1jwyb_          25 PQIVVVGSQSSGKSSVLENIVGRDFLPRGSGIVTRR   60 (306)
T ss_dssp             CEEEEEECSSSSHHHHHHHHHTSCCCCC--------
T ss_pred             CeEEEEeCCCCCHHHHHHHHhCCCCCCCCCCccccC
Confidence            4799999999999999999998776 4445555543

>d1r6bx2 c.37.1.20 (X:169-436) ClpA, an Hsp100 chaperone, AAA+ modules {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: ClpA, an Hsp100 chaperone, AAA+ modules
species: Escherichia coli [TaxId: 562]

Probab=97.47  E-value=4.8e-05  Score=44.32  Aligned_cols=25  Identities=24%  Similarity=0.433  Sum_probs=20.8

Q ss_pred             eeeeEEEEeCCCCCHHHHHHHHHhC
Q psy2514          11 IKGTVVIVGNGAVGKSSMIQRYCRG   35 (71)
Q Consensus        11 ~~~ki~v~G~~~vGKtsl~~~~~~~   35 (71)
                      .+-+++++|++|||||++++.+...
T Consensus        38 ~k~n~lLVG~~GvGKTalv~~la~r   62 (268)
T d1r6bx2          38 RKNNPLLVGESGVGKTAIAEGLAWR   62 (268)
T ss_dssp             SSCEEEEECCTTSSHHHHHHHHHHH
T ss_pred             ccCCcEEECCCCCcHHHHHHHHHHH
Confidence            3468899999999999998877743

>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=97.46  E-value=0.00012  Score=42.66  Aligned_cols=60  Identities=18%  Similarity=0.066  Sum_probs=39.8

Q ss_pred             eeeeEEEEeCCCCCHHHHHHHHHhCcC--CCC---ccCCcceeeEEEEEEeCCEEEEEEEcCCCC
Q psy2514          11 IKGTVVIVGNGAVGKSSMIQRYCRGTF--TRD---YKKTIGVKSSMIQRYCRGTFTRDYKKTIGA   70 (71)
Q Consensus        11 ~~~ki~v~G~~~vGKtsl~~~~~~~~f--~~~---~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~   70 (71)
                      +..=|.++|+.++|||+|++++.+..+  ...   ...|.|+-.....+..+....+-++||-|.
T Consensus        31 ~v~vvsi~G~~~sGKS~llN~l~~~~~~f~~~~~~~~~T~Giw~~~~~~~~~~~~~~~~lDteG~   95 (277)
T d1f5na2          31 PMVVVAIVGLYRTGKSYLMNKLAGKKKGFSLGSTVQSHTKGIWMWCVPHPKKPGHILVLLDTEGL   95 (277)
T ss_dssp             BEEEEEEEEBTTSSHHHHHHHHTTCSSCSCCCCSSSCCCCSEEEEEEECSSSTTCEEEEEEECCB
T ss_pred             CEEEEEEECCCCCCHHHHHHHHcCCCCCCccCCCCCCCCCceEEEEeeccCCCCceEEEEecccc
Confidence            356778899999999999999987653  221   235667543333333334566778998774

>d2iyva1 c.37.1.2 (A:2-166) Shikimate kinase (AroK) {Mycobacterium tuberculosis [TaxId: 1773]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Shikimate kinase (AroK)
domain: Shikimate kinase (AroK)
species: Mycobacterium tuberculosis [TaxId: 1773]

Probab=97.45  E-value=4.6e-05  Score=40.69  Aligned_cols=21  Identities=33%  Similarity=0.444  Sum_probs=18.0

Q ss_pred             eeEEEEeCCCCCHHHHHHHHH
Q psy2514          13 GTVVIVGNGAVGKSSMIQRYC   33 (71)
Q Consensus        13 ~ki~v~G~~~vGKtsl~~~~~   33 (71)
                      .+|+++|.+||||||+.+.+.
T Consensus         2 p~IvliG~~G~GKSTig~~La   22 (165)
T d2iyva1           2 PKAVLVGLPGSGKSTIGRRLA   22 (165)
T ss_dssp             CSEEEECSTTSSHHHHHHHHH
T ss_pred             CcEEEECCCCCCHHHHHHHHH
Confidence            368999999999999887765

>d1m8pa3 c.37.1.15 (A:391-573) ATP sulfurylase C-terminal domain {Fungus (Penicillium chrysogenum) [TaxId: 5076]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ATP sulfurylase C-terminal domain
domain: ATP sulfurylase C-terminal domain
species: Fungus (Penicillium chrysogenum) [TaxId: 5076]

Probab=97.45  E-value=7.7e-05  Score=39.36  Aligned_cols=24  Identities=17%  Similarity=0.194  Sum_probs=19.8

Q ss_pred             ceeeeEEEEeCCCCCHHHHHHHHH
Q psy2514          10 SIKGTVVIVGNGAVGKSSMIQRYC   33 (71)
Q Consensus        10 ~~~~ki~v~G~~~vGKtsl~~~~~   33 (71)
                      ...+-|.++|.+|+||||+...+.
T Consensus         4 ~~g~~I~l~G~~GsGKTTia~~La   27 (183)
T d1m8pa3           4 TQGFTIFLTGYMNSGKDAIARALQ   27 (183)
T ss_dssp             TCCEEEEEECSTTSSHHHHHHHHH
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHH
Confidence            345778899999999999887665

>d1bifa1 c.37.1.7 (A:37-249) 6-phosphofructo-2-kinase/fructose-2,6-bisphosphatase, kinase domain {Rat (Rattus norvegicus) [TaxId: 10116]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: 6-phosphofructo-2-kinase/fructose-2,6-bisphosphatase, kinase domain
domain: 6-phosphofructo-2-kinase/fructose-2,6-bisphosphatase, kinase domain
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=97.45  E-value=5.3e-05  Score=41.29  Aligned_cols=22  Identities=32%  Similarity=0.469  Sum_probs=18.6

Q ss_pred             eeEEEEeCCCCCHHHHHHHHHh
Q psy2514          13 GTVVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus        13 ~ki~v~G~~~vGKtsl~~~~~~   34 (71)
                      .-|+++|.+|+|||+++++++.
T Consensus         3 ~li~l~GlpgsGKSTla~~L~~   24 (213)
T d1bifa1           3 TLIVMVGLPARGKTYISKKLTR   24 (213)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHH
T ss_pred             EEEEEECCCCCCHHHHHHHHHH
Confidence            3478899999999999988763

>d1yj5a2 c.37.1.1 (A:351-522) 5' polynucleotide kinase-3' phosphatase, C-terminal domain {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: 5' polynucleotide kinase-3' phosphatase, C-terminal domain
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=97.42  E-value=5.4e-05  Score=41.09  Aligned_cols=24  Identities=38%  Similarity=0.338  Sum_probs=20.2

Q ss_pred             eeeeEEEEeCCCCCHHHHHHHHHh
Q psy2514          11 IKGTVVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus        11 ~~~ki~v~G~~~vGKtsl~~~~~~   34 (71)
                      ...-|+++|.+|+|||+++.++..
T Consensus        13 ~p~liil~G~pGsGKST~a~~l~~   36 (172)
T d1yj5a2          13 NPEVVVAVGFPGAGKSTFIQEHLV   36 (172)
T ss_dssp             SCCEEEEECCTTSSHHHHHHHHTG
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHH
Confidence            345788899999999999998864

>d1kgda_ c.37.1.1 (A:) Guanylate kinase-like domain of Cask {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Guanylate kinase-like domain of Cask
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.42  E-value=6e-05  Score=41.13  Aligned_cols=20  Identities=20%  Similarity=0.453  Sum_probs=18.4

Q ss_pred             EEEEeCCCCCHHHHHHHHHh
Q psy2514          15 VVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus        15 i~v~G~~~vGKtsl~~~~~~   34 (71)
                      ++++|++|+||++|+.+++.
T Consensus         6 ivl~Gpsg~GK~tl~~~L~~   25 (178)
T d1kgda_           6 LVLLGAHGVGRRHIKNTLIT   25 (178)
T ss_dssp             EEEECCTTSSHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHH
Confidence            78899999999999998874

>d1lvga_ c.37.1.1 (A:) Guanylate kinase {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Guanylate kinase
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=97.41  E-value=6.1e-05  Score=41.30  Aligned_cols=20  Identities=30%  Similarity=0.655  Sum_probs=18.0

Q ss_pred             EEEEeCCCCCHHHHHHHHHh
Q psy2514          15 VVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus        15 i~v~G~~~vGKtsl~~~~~~   34 (71)
                      |+++|++|+||++++.+++.
T Consensus         3 Ivl~GPsGsGK~tl~~~L~~   22 (190)
T d1lvga_           3 VVLSGPSGAGKSTLLKKLFQ   22 (190)
T ss_dssp             EEEECCTTSSHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHH
Confidence            78999999999999998764

>d1znwa1 c.37.1.1 (A:20-201) Guanylate kinase {Mycobacterium tuberculosis [TaxId: 1773]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Guanylate kinase
species: Mycobacterium tuberculosis [TaxId: 1773]

Probab=97.41  E-value=6.1e-05  Score=40.79  Aligned_cols=20  Identities=40%  Similarity=0.604  Sum_probs=17.7

Q ss_pred             EEEEeCCCCCHHHHHHHHHh
Q psy2514          15 VVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus        15 i~v~G~~~vGKtsl~~~~~~   34 (71)
                      ++++|++|+||++++..+..
T Consensus         5 ivl~GpsG~GK~tl~~~L~~   24 (182)
T d1znwa1           5 VVLSGPSAVGKSTVVRCLRE   24 (182)
T ss_dssp             EEEECSTTSSHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHh
Confidence            67889999999999988864

>d2fnaa2 c.37.1.20 (A:1-283) Archaeal ATPase SSO1545 {Sulfolobus solfataricus [TaxId: 2287]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Archaeal ATPase SSO1545
species: Sulfolobus solfataricus [TaxId: 2287]

Probab=97.40  E-value=6.6e-05  Score=42.05  Aligned_cols=22  Identities=27%  Similarity=0.327  Sum_probs=18.9

Q ss_pred             eeEEEEeCCCCCHHHHHHHHHh
Q psy2514          13 GTVVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus        13 ~ki~v~G~~~vGKtsl~~~~~~   34 (71)
                      --+++.|++|+|||+|+.+++.
T Consensus        30 ~~i~i~G~~G~GKTsLl~~~~~   51 (283)
T d2fnaa2          30 PITLVLGLRRTGKSSIIKIGIN   51 (283)
T ss_dssp             SEEEEEESTTSSHHHHHHHHHH
T ss_pred             CEEEEEcCCCCcHHHHHHHHHH
Confidence            3467889999999999998874

>d1n0ua2 c.37.1.8 (A:3-343) Elongation factor 2 (eEF-2), N-terminal (G) domain {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Elongation factor 2 (eEF-2), N-terminal (G) domain
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=97.37  E-value=0.00022  Score=42.70  Aligned_cols=22  Identities=14%  Similarity=0.261  Sum_probs=19.7

Q ss_pred             eeeEEEEeCCCCCHHHHHHHHH
Q psy2514          12 KGTVVIVGNGAVGKSSMIQRYC   33 (71)
Q Consensus        12 ~~ki~v~G~~~vGKtsl~~~~~   33 (71)
                      .-+|+++|..+.|||||+.+++
T Consensus        17 IRNI~iiGhvd~GKTTL~d~Ll   38 (341)
T d1n0ua2          17 VRNMSVIAHVDHGKSTLTDSLV   38 (341)
T ss_dssp             EEEEEEECCGGGTHHHHHHHHH
T ss_pred             CcEEEEEeCCCCcHHHHHHHHH
Confidence            3469999999999999999986

>d1knqa_ c.37.1.17 (A:) Gluconate kinase {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Gluconate kinase
domain: Gluconate kinase
species: Escherichia coli [TaxId: 562]

Probab=97.36  E-value=7.6e-05  Score=39.44  Aligned_cols=21  Identities=24%  Similarity=0.396  Sum_probs=17.8

Q ss_pred             eEEEEeCCCCCHHHHHHHHHh
Q psy2514          14 TVVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus        14 ki~v~G~~~vGKtsl~~~~~~   34 (71)
                      -+++.|.+|+||||+.+.+..
T Consensus         8 iivl~G~~GsGKsT~a~~La~   28 (171)
T d1knqa_           8 IYVLMGVSGSGKSAVASEVAH   28 (171)
T ss_dssp             EEEEECSTTSCHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            456789999999999998764

>d1s96a_ c.37.1.1 (A:) Guanylate kinase {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Guanylate kinase
species: Escherichia coli [TaxId: 562]

Probab=97.35  E-value=7.8e-05  Score=41.60  Aligned_cols=22  Identities=27%  Similarity=0.404  Sum_probs=18.9

Q ss_pred             eEEEEeCCCCCHHHHHHHHHhC
Q psy2514          14 TVVIVGNGAVGKSSMIQRYCRG   35 (71)
Q Consensus        14 ki~v~G~~~vGKtsl~~~~~~~   35 (71)
                      =++++|++|+||++|+.+++..
T Consensus         4 livi~GPSG~GK~tl~~~L~~~   25 (205)
T d1s96a_           4 LYIVSAPSGAGKSSLIQALLKT   25 (205)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHhh
Confidence            3678899999999999988753

>d1rz3a_ c.37.1.6 (A:) Hypothetical protein rbstp0775 {Bacillus stearothermophilus [TaxId: 1422]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Phosphoribulokinase/pantothenate kinase
domain: Hypothetical protein rbstp0775
species: Bacillus stearothermophilus [TaxId: 1422]

Probab=97.33  E-value=0.00014  Score=39.02  Aligned_cols=27  Identities=15%  Similarity=0.213  Sum_probs=21.7

Q ss_pred             cCceeeeEEEEeCCCCCHHHHHHHHHh
Q psy2514           8 RGSIKGTVVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus         8 ~~~~~~ki~v~G~~~vGKtsl~~~~~~   34 (71)
                      +....+-|.+-|.+|+|||+++.++..
T Consensus        18 ~~~~~~iIgI~G~~GSGKSTla~~L~~   44 (198)
T d1rz3a_          18 KTAGRLVLGIDGLSRSGKTTLANQLSQ   44 (198)
T ss_dssp             CCSSSEEEEEEECTTSSHHHHHHHHHH
T ss_pred             cCCCCEEEEEECCCCCCHHHHHHHHHH
Confidence            344556788999999999999998763

>d1yrba1 c.37.1.10 (A:1-244) ATP(GTP)-binding protein PAB0955 {Pyrococcus abyssi [TaxId: 29292]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: ATP(GTP)-binding protein PAB0955
species: Pyrococcus abyssi [TaxId: 29292]

Probab=97.33  E-value=8.4e-05  Score=41.29  Aligned_cols=20  Identities=35%  Similarity=0.675  Sum_probs=18.3

Q ss_pred             EEEEeCCCCCHHHHHHHHHh
Q psy2514          15 VVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus        15 i~v~G~~~vGKtsl~~~~~~   34 (71)
                      ++++|..|+|||||+.++..
T Consensus         3 i~v~G~~GsGKTTLl~~ll~   22 (244)
T d1yrba1           3 VVFVGTAGSGKTTLTGEFGR   22 (244)
T ss_dssp             EEEECSTTSSHHHHHHHHHH
T ss_pred             EEEEcCCCCcHHHHHHHHHH
Confidence            68899999999999999974

>d1gvnb_ c.37.1.21 (B:) Plasmid maintenance system epsilon/zeta, toxin zeta subunit {Streptococcus pyogenes [TaxId: 1314]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Plasmid maintenance system epsilon/zeta, toxin zeta subunit
domain: Plasmid maintenance system epsilon/zeta, toxin zeta subunit
species: Streptococcus pyogenes [TaxId: 1314]

Probab=97.33  E-value=6.4e-05  Score=42.38  Aligned_cols=22  Identities=18%  Similarity=0.286  Sum_probs=19.2

Q ss_pred             eEEEEeCCCCCHHHHHHHHHhC
Q psy2514          14 TVVIVGNGAVGKSSMIQRYCRG   35 (71)
Q Consensus        14 ki~v~G~~~vGKtsl~~~~~~~   35 (71)
                      -+++.|++|+|||+++..++..
T Consensus        34 ~ilL~GpPGtGKT~la~~la~~   55 (273)
T d1gvnb_          34 AFLLGGQPGSGKTSLRSAIFEE   55 (273)
T ss_dssp             EEEEECCTTSCTHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHH
Confidence            4889999999999999988753

>d1xjca_ c.37.1.10 (A:) Molybdopterin-guanine dinucleotide biosynthesis protein MobB {Bacillus stearothermophilus [TaxId: 1422]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Molybdopterin-guanine dinucleotide biosynthesis protein MobB
species: Bacillus stearothermophilus [TaxId: 1422]

Probab=97.31  E-value=0.0001  Score=39.28  Aligned_cols=20  Identities=20%  Similarity=0.513  Sum_probs=17.3

Q ss_pred             EEEEeCCCCCHHHHHHHHHh
Q psy2514          15 VVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus        15 i~v~G~~~vGKtsl~~~~~~   34 (71)
                      +.++|.+|+|||||+.+++.
T Consensus         4 i~I~G~~gSGKTTli~~l~~   23 (165)
T d1xjca_           4 WQVVGYKHSGKTTLMEKWVA   23 (165)
T ss_dssp             EEEECCTTSSHHHHHHHHHH
T ss_pred             EEEEeCCCCCHHHHHHHHHH
Confidence            35899999999999998863

>d1zp6a1 c.37.1.25 (A:6-181) Hypothetical protein Atu3015 {Agrobacterium tumefaciens [TaxId: 358]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Atu3015-like
domain: Hypothetical protein Atu3015
species: Agrobacterium tumefaciens [TaxId: 358]

Probab=97.31  E-value=0.00011  Score=38.81  Aligned_cols=20  Identities=20%  Similarity=0.471  Sum_probs=17.1

Q ss_pred             EEEEeCCCCCHHHHHHHHHh
Q psy2514          15 VVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus        15 i~v~G~~~vGKtsl~~~~~~   34 (71)
                      |++.|.+|+||||+...+..
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            67889999999999877754

>d1viaa_ c.37.1.2 (A:) Shikimate kinase (AroK) {Campylobacter jejuni [TaxId: 197]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Shikimate kinase (AroK)
domain: Shikimate kinase (AroK)
species: Campylobacter jejuni [TaxId: 197]

Probab=97.28  E-value=0.00011  Score=39.22  Aligned_cols=21  Identities=24%  Similarity=0.480  Sum_probs=18.0

Q ss_pred             eEEEEeCCCCCHHHHHHHHHh
Q psy2514          14 TVVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus        14 ki~v~G~~~vGKtsl~~~~~~   34 (71)
                      +|+++|.+|+|||++...++.
T Consensus         2 ~I~liG~~GsGKsTi~k~La~   22 (161)
T d1viaa_           2 NIVFIGFMGSGKSTLARALAK   22 (161)
T ss_dssp             CEEEECCTTSCHHHHHHHHHH
T ss_pred             cEEEECCCCCCHHHHHHHHHH
Confidence            488999999999998887754

>d1khta_ c.37.1.1 (A:) Adenylate kinase {Archaeon Methanococcus voltae [TaxId: 2188]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Archaeon Methanococcus voltae [TaxId: 2188]

Probab=97.27  E-value=0.00011  Score=38.92  Aligned_cols=19  Identities=32%  Similarity=0.361  Sum_probs=16.6

Q ss_pred             EEEEeCCCCCHHHHHHHHH
Q psy2514          15 VVIVGNGAVGKSSMIQRYC   33 (71)
Q Consensus        15 i~v~G~~~vGKtsl~~~~~   33 (71)
                      |++.|.+|+||||++.++.
T Consensus         4 I~i~G~~GsGKsT~~~~L~   22 (190)
T d1khta_           4 VVVTGVPGVGSTTSSQLAM   22 (190)
T ss_dssp             EEEECCTTSCHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHH
Confidence            6778999999999998775

>d1teva_ c.37.1.1 (A:) UMP/CMP kinase {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: UMP/CMP kinase
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.26  E-value=0.00014  Score=39.40  Aligned_cols=22  Identities=23%  Similarity=0.362  Sum_probs=19.4

Q ss_pred             eeEEEEeCCCCCHHHHHHHHHh
Q psy2514          13 GTVVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus        13 ~ki~v~G~~~vGKtsl~~~~~~   34 (71)
                      ..|+++|.+|+||||.+.+++.
T Consensus         2 ~iI~i~GppGSGKsT~a~~La~   23 (194)
T d1teva_           2 LVVFVLGGPGAGKGTQCARIVE   23 (194)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHH
T ss_pred             cEEEEECCCCCCHHHHHHHHHH
Confidence            5789999999999999988764

>d1in4a2 c.37.1.20 (A:17-254) Holliday junction helicase RuvB {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Holliday junction helicase RuvB
species: Thermotoga maritima [TaxId: 2336]

Probab=97.26  E-value=0.00011  Score=41.11  Aligned_cols=23  Identities=17%  Similarity=0.369  Sum_probs=19.9

Q ss_pred             eeeEEEEeCCCCCHHHHHHHHHh
Q psy2514          12 KGTVVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus        12 ~~ki~v~G~~~vGKtsl~~~~~~   34 (71)
                      ...+++.|++|+|||++++.++.
T Consensus        35 ~~~~L~~GPpGtGKT~lA~~la~   57 (238)
T d1in4a2          35 LDHVLLAGPPGLGKTTLAHIIAS   57 (238)
T ss_dssp             CCCEEEESSTTSSHHHHHHHHHH
T ss_pred             CCeEEEECCCCCcHHHHHHHHHh
Confidence            34689999999999999998774

>d1qhxa_ c.37.1.3 (A:) Chloramphenicol phosphotransferase {Streptomyces venezuelae [TaxId: 54571]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Chloramphenicol phosphotransferase
domain: Chloramphenicol phosphotransferase
species: Streptomyces venezuelae [TaxId: 54571]

Probab=97.25  E-value=0.00013  Score=38.48  Aligned_cols=20  Identities=20%  Similarity=0.503  Sum_probs=16.7

Q ss_pred             EEEEeCCCCCHHHHHHHHHh
Q psy2514          15 VVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus        15 i~v~G~~~vGKtsl~~~~~~   34 (71)
                      |++.|.+|+|||++...+..
T Consensus         6 I~l~G~~GsGKsTva~~L~~   25 (178)
T d1qhxa_           6 IILNGGSSAGKSGIVRCLQS   25 (178)
T ss_dssp             EEEECCTTSSHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHH
Confidence            45559999999999998775

>d2p67a1 c.37.1.10 (A:1-327) LAO/AO transport system kinase ArgK {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: LAO/AO transport system kinase ArgK
species: Escherichia coli [TaxId: 562]

Probab=97.23  E-value=0.00014  Score=43.34  Aligned_cols=26  Identities=15%  Similarity=0.248  Sum_probs=22.5

Q ss_pred             CceeeeEEEEeCCCCCHHHHHHHHHh
Q psy2514           9 GSIKGTVVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus         9 ~~~~~ki~v~G~~~vGKtsl~~~~~~   34 (71)
                      ....+.|.+.|.+|+|||||+.++..
T Consensus        51 ~~~~~~IgitG~pGaGKSTLi~~l~~   76 (327)
T d2p67a1          51 CGNTLRLGVTGTPGAGKSTFLEAFGM   76 (327)
T ss_dssp             CSCSEEEEEEECTTSCHHHHHHHHHH
T ss_pred             cCCceEEEeeCCCCCCHHHHHHHHHH
Confidence            34578999999999999999999873

>d1ukza_ c.37.1.1 (A:) Uridylate kinase {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Uridylate kinase
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=97.21  E-value=0.00021  Score=38.89  Aligned_cols=25  Identities=12%  Similarity=0.376  Sum_probs=20.6

Q ss_pred             ceeeeEEEEeCCCCCHHHHHHHHHh
Q psy2514          10 SIKGTVVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus        10 ~~~~ki~v~G~~~vGKtsl~~~~~~   34 (71)
                      +..--|+++|.+|+|||+++..++.
T Consensus         6 ~~~~iI~i~GppGSGKsT~a~~La~   30 (196)
T d1ukza_           6 DQVSVIFVLGGPGAGKGTQCEKLVK   30 (196)
T ss_dssp             TTCEEEEEECSTTSSHHHHHHHHHH
T ss_pred             CCCcEEEEECCCCCCHHHHHHHHHH
Confidence            3445688899999999999998875

>d1ixsb2 c.37.1.20 (B:4-242) Holliday junction helicase RuvB {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Holliday junction helicase RuvB
species: Thermus thermophilus [TaxId: 274]

Probab=97.19  E-value=0.00017  Score=40.29  Aligned_cols=23  Identities=13%  Similarity=0.351  Sum_probs=19.9

Q ss_pred             eeeEEEEeCCCCCHHHHHHHHHh
Q psy2514          12 KGTVVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus        12 ~~ki~v~G~~~vGKtsl~~~~~~   34 (71)
                      .-.+++.|++|+|||++++.++.
T Consensus        35 ~~~~Ll~GPpG~GKTtla~~la~   57 (239)
T d1ixsb2          35 LEHLLLFGPPGLGKTTLAHVIAH   57 (239)
T ss_dssp             CCCEEEECCTTSCHHHHHHHHHH
T ss_pred             CCeEEEECCCCCCHHHHHHHHHH
Confidence            35688999999999999998774

>d2pmka1 c.37.1.12 (A:467-707) Haemolysin B ATP-binding protein {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Haemolysin B ATP-binding protein
species: Escherichia coli [TaxId: 562]

Probab=97.15  E-value=0.00016  Score=41.42  Aligned_cols=23  Identities=30%  Similarity=0.417  Sum_probs=19.5

Q ss_pred             eeeEEEEeCCCCCHHHHHHHHHh
Q psy2514          12 KGTVVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus        12 ~~ki~v~G~~~vGKtsl~~~~~~   34 (71)
                      .=++.++|++|+|||||+.-+..
T Consensus        29 Ge~vaIvG~sGsGKSTLl~ll~g   51 (241)
T d2pmka1          29 GEVIGIVGRSGSGKSTLTKLIQR   51 (241)
T ss_dssp             TCEEEEECSTTSSHHHHHHHHTT
T ss_pred             CCEEEEECCCCCCHHHHHHHHHh
Confidence            45789999999999999987654

>d1ofha_ c.37.1.20 (A:) HslU {Haemophilus influenzae [TaxId: 727]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: HslU
species: Haemophilus influenzae [TaxId: 727]

Probab=97.13  E-value=0.00017  Score=42.26  Aligned_cols=22  Identities=23%  Similarity=0.622  Sum_probs=19.4

Q ss_pred             eeEEEEeCCCCCHHHHHHHHHh
Q psy2514          13 GTVVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus        13 ~ki~v~G~~~vGKtsl~~~~~~   34 (71)
                      -.++++|++|||||.|+..++.
T Consensus        50 ~~iLl~GPpG~GKT~lAkalA~   71 (309)
T d1ofha_          50 KNILMIGPTGVGKTEIARRLAK   71 (309)
T ss_dssp             CCEEEECCTTSSHHHHHHHHHH
T ss_pred             ceEEEECCCCCCHHHHHHHHhh
Confidence            5688999999999999998775

>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=97.12  E-value=0.0002  Score=38.27  Aligned_cols=21  Identities=19%  Similarity=0.436  Sum_probs=17.7

Q ss_pred             eEEEEeCCCCCHHHHHHHHHh
Q psy2514          14 TVVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus        14 ki~v~G~~~vGKtsl~~~~~~   34 (71)
                      .|+++|.+|+|||++...++.
T Consensus         4 ~Iil~G~~GsGKSTia~~LA~   24 (170)
T d1e6ca_           4 PIFMVGARGCGMTTVGRELAR   24 (170)
T ss_dssp             CEEEESCTTSSHHHHHHHHHH
T ss_pred             CEEEECCCCCCHHHHHHHHHH
Confidence            367889999999999887763

>d3b60a1 c.37.1.12 (A:329-581) Multidrug resistance ABC transporter MsbA, C-terminal domain {Salmonella typhimurium [TaxId: 90371]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Multidrug resistance ABC transporter MsbA, C-terminal domain
species: Salmonella typhimurium [TaxId: 90371]

Probab=97.12  E-value=0.0002  Score=41.27  Aligned_cols=22  Identities=32%  Similarity=0.437  Sum_probs=18.9

Q ss_pred             eeeEEEEeCCCCCHHHHHHHHH
Q psy2514          12 KGTVVIVGNGAVGKSSMIQRYC   33 (71)
Q Consensus        12 ~~ki~v~G~~~vGKtsl~~~~~   33 (71)
                      .=++.++|++|+|||||+.-++
T Consensus        41 Ge~iaivG~sGsGKSTLl~ll~   62 (253)
T d3b60a1          41 GKTVALVGRSGSGKSTIASLIT   62 (253)
T ss_dssp             TCEEEEEECTTSSHHHHHHHHT
T ss_pred             CCEEEEECCCCChHHHHHHHHh
Confidence            3478999999999999998765

>d1fnna2 c.37.1.20 (A:1-276) CDC6, N-domain {Archaeon Pyrobaculum aerophilum [TaxId: 13773]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: CDC6, N-domain
species: Archaeon Pyrobaculum aerophilum [TaxId: 13773]

Probab=97.11  E-value=0.0002  Score=39.98  Aligned_cols=23  Identities=13%  Similarity=0.297  Sum_probs=19.7

Q ss_pred             eeEEEEeCCCCCHHHHHHHHHhC
Q psy2514          13 GTVVIVGNGAVGKSSMIQRYCRG   35 (71)
Q Consensus        13 ~ki~v~G~~~vGKtsl~~~~~~~   35 (71)
                      -.+++.|++|+|||++++.+...
T Consensus        44 ~~lll~GppGtGKT~l~~~l~~~   66 (276)
T d1fnna2          44 PRATLLGRPGTGKTVTLRKLWEL   66 (276)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHH
T ss_pred             CceEEECCCCCCHHHHHHHHHHH
Confidence            46899999999999999887753

>d1qvra2 c.37.1.20 (A:149-535) ClpB, AAA+ modules {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: ClpB, AAA+ modules
species: Thermus thermophilus [TaxId: 274]

Probab=97.10  E-value=0.00015  Score=44.08  Aligned_cols=24  Identities=25%  Similarity=0.553  Sum_probs=18.9

Q ss_pred             ceeeeEEEEeCCCCCHHHHHHHHH
Q psy2514          10 SIKGTVVIVGNGAVGKSSMIQRYC   33 (71)
Q Consensus        10 ~~~~ki~v~G~~~vGKtsl~~~~~   33 (71)
                      +.+-++++||++|||||+++..++
T Consensus        41 ~~k~n~llvG~~GvGKtaiv~~la   64 (387)
T d1qvra2          41 RTKNNPVLIGEPGVGKTAIVEGLA   64 (387)
T ss_dssp             SSCCCCEEEECTTSCHHHHHHHHH
T ss_pred             CCCCCCeEECCCCCCHHHHHHHHH
Confidence            345668999999999999886444

>d1l2ta_ c.37.1.12 (A:) MJ0796 {Archaeon Methanococcus jannaschii [TaxId: 2190]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: MJ0796
species: Archaeon Methanococcus jannaschii [TaxId: 2190]

Probab=97.07  E-value=0.00019  Score=40.94  Aligned_cols=21  Identities=33%  Similarity=0.404  Sum_probs=17.6

Q ss_pred             eEEEEeCCCCCHHHHHHHHHh
Q psy2514          14 TVVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus        14 ki~v~G~~~vGKtsl~~~~~~   34 (71)
                      -+.++|++|+|||||++.+..
T Consensus        33 ~~~iiG~sGsGKSTLl~~i~g   53 (230)
T d1l2ta_          33 FVSIMGPSGSGKSTMLNIIGC   53 (230)
T ss_dssp             EEEEECSTTSSHHHHHHHHTT
T ss_pred             EEEEECCCCCCcchhhHhccC
Confidence            578899999999999886543

>d1jj7a_ c.37.1.12 (A:) Peptide transporter Tap1, C-terminal ABC domain {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Peptide transporter Tap1, C-terminal ABC domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.06  E-value=0.00021  Score=41.07  Aligned_cols=23  Identities=22%  Similarity=0.289  Sum_probs=19.3

Q ss_pred             eeeEEEEeCCCCCHHHHHHHHHh
Q psy2514          12 KGTVVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus        12 ~~ki~v~G~~~vGKtsl~~~~~~   34 (71)
                      .=++.++|++|+|||||+.-+..
T Consensus        40 Ge~vaivG~sGsGKSTLl~li~g   62 (251)
T d1jj7a_          40 GEVTALVGPNGSGKSTVAALLQN   62 (251)
T ss_dssp             TCEEEEECSTTSSHHHHHHHHTT
T ss_pred             CCEEEEECCCCCcHHHHHHHHhc
Confidence            45789999999999999987653

>d1q3ta_ c.37.1.1 (A:) CMP kinase {Streptococcus pneumoniae [TaxId: 1313]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: CMP kinase
species: Streptococcus pneumoniae [TaxId: 1313]

Probab=97.06  E-value=0.00028  Score=38.78  Aligned_cols=23  Identities=22%  Similarity=0.322  Sum_probs=19.6

Q ss_pred             eeeEEEEeCCCCCHHHHHHHHHh
Q psy2514          12 KGTVVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus        12 ~~ki~v~G~~~vGKtsl~~~~~~   34 (71)
                      .+.|++-|++|+||||.+..++.
T Consensus         3 ~i~IaIdGp~GsGKgT~ak~La~   25 (223)
T d1q3ta_           3 TIQIAIDGPASSGKSTVAKIIAK   25 (223)
T ss_dssp             CCEEEEECSSCSSHHHHHHHHHH
T ss_pred             ceEEEEECCCCCCHHHHHHHHHH
Confidence            46788889999999999988764

>d1mv5a_ c.37.1.12 (A:) Multidrug resistance ABC transporter LmrA, C-terminal domain {Lactococcus lactis [TaxId: 1358]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Multidrug resistance ABC transporter LmrA, C-terminal domain
species: Lactococcus lactis [TaxId: 1358]

Probab=97.06  E-value=0.00022  Score=40.78  Aligned_cols=23  Identities=22%  Similarity=0.362  Sum_probs=19.4

Q ss_pred             eeeEEEEeCCCCCHHHHHHHHHh
Q psy2514          12 KGTVVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus        12 ~~ki~v~G~~~vGKtsl~~~~~~   34 (71)
                      .=++.++|++|+|||||+.-+..
T Consensus        28 Ge~vaivG~sGsGKSTLl~ll~g   50 (242)
T d1mv5a_          28 NSIIAFAGPSGGGKSTIFSLLER   50 (242)
T ss_dssp             TEEEEEECCTTSSHHHHHHHHTT
T ss_pred             CCEEEEECCCCCCHHHHHHHHHH
Confidence            45789999999999999987653

>d3adka_ c.37.1.1 (A:) Adenylate kinase {Pig (Sus scrofa) [TaxId: 9823]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Pig (Sus scrofa) [TaxId: 9823]

Probab=97.06  E-value=0.00027  Score=38.43  Aligned_cols=21  Identities=19%  Similarity=0.458  Sum_probs=18.5

Q ss_pred             eEEEEeCCCCCHHHHHHHHHh
Q psy2514          14 TVVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus        14 ki~v~G~~~vGKtsl~~~~~~   34 (71)
                      -|+++|.+|+|||+++.+++.
T Consensus        10 iI~l~G~pGSGKsT~a~~La~   30 (194)
T d3adka_          10 IIFVVGGPGSGKGTQCEKIVQ   30 (194)
T ss_dssp             EEEEEECTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            377899999999999998875

>d2onka1 c.37.1.12 (A:1-240) Molybdate/tungstate import ATP-binding protein WtpC (ModC) {Archaeoglobus fulgidus [TaxId: 2234]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Molybdate/tungstate import ATP-binding protein WtpC (ModC)
species: Archaeoglobus fulgidus [TaxId: 2234]

Probab=97.05  E-value=0.00023  Score=40.83  Aligned_cols=21  Identities=24%  Similarity=0.398  Sum_probs=18.0

Q ss_pred             eEEEEeCCCCCHHHHHHHHHh
Q psy2514          14 TVVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus        14 ki~v~G~~~vGKtsl~~~~~~   34 (71)
                      -++++|++|+|||+|++.+..
T Consensus        26 ~~~liGpnGaGKSTll~~i~G   46 (240)
T d2onka1          26 YCVLLGPTGAGKSVFLELIAG   46 (240)
T ss_dssp             EEEEECCTTSSHHHHHHHHHT
T ss_pred             EEEEECCCCChHHHHHHHHHc
Confidence            356899999999999998765

>d2awna2 c.37.1.12 (A:4-235) Maltose transport protein MalK, N-terminal domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Maltose transport protein MalK, N-terminal domain
species: Escherichia coli [TaxId: 562]

Probab=97.05  E-value=0.00024  Score=40.58  Aligned_cols=21  Identities=33%  Similarity=0.529  Sum_probs=18.1

Q ss_pred             eEEEEeCCCCCHHHHHHHHHh
Q psy2514          14 TVVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus        14 ki~v~G~~~vGKtsl~~~~~~   34 (71)
                      -+.++|++|+|||+|++.+..
T Consensus        28 i~~liGpsGsGKSTLl~~i~G   48 (232)
T d2awna2          28 FVVFVGPSGCGKSTLLRMIAG   48 (232)
T ss_dssp             EEEEECCTTSSHHHHHHHHHT
T ss_pred             EEEEECCCCChHHHHHHHHhc
Confidence            578899999999999987654

>d1nksa_ c.37.1.1 (A:) Adenylate kinase {Archaeon Sulfolobus acidocaldarius [TaxId: 2285]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Archaeon Sulfolobus acidocaldarius [TaxId: 2285]

Probab=97.05  E-value=0.00028  Score=37.48  Aligned_cols=20  Identities=25%  Similarity=0.534  Sum_probs=16.5

Q ss_pred             eE-EEEeCCCCCHHHHHHHHH
Q psy2514          14 TV-VIVGNGAVGKSSMIQRYC   33 (71)
Q Consensus        14 ki-~v~G~~~vGKtsl~~~~~   33 (71)
                      |+ ++.|.+|+||||++..+.
T Consensus         2 kiivi~G~~GsGKTT~~~~La   22 (194)
T d1nksa_           2 KIGIVTGIPGVGKSTVLAKVK   22 (194)
T ss_dssp             EEEEEEECTTSCHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHH
Confidence            45 457999999999998775

>d1d2na_ c.37.1.20 (A:) Hexamerization domain of N-ethylmalemide-sensitive fusion (NSF) protein {Chinese hamster (Cricetulus griseus) [TaxId: 10029]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Hexamerization domain of N-ethylmalemide-sensitive fusion (NSF) protein
species: Chinese hamster (Cricetulus griseus) [TaxId: 10029]

Probab=97.03  E-value=0.00039  Score=39.60  Aligned_cols=23  Identities=17%  Similarity=0.315  Sum_probs=20.3

Q ss_pred             eeeEEEEeCCCCCHHHHHHHHHh
Q psy2514          12 KGTVVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus        12 ~~ki~v~G~~~vGKtsl~~~~~~   34 (71)
                      ...+++.|++|+|||++++.++.
T Consensus        40 ~~~vLL~GppGtGKT~la~alA~   62 (246)
T d1d2na_          40 LVSVLLEGPPHSGKTALAAKIAE   62 (246)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHH
T ss_pred             CeEEEEECcCCCCHHHHHHHHhh
Confidence            46799999999999999998874

>d1r0wa_ c.37.1.12 (A:) Cystic fibrosis transmembrane conductance regulator, CFTR, nucleotide-binding domain {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Cystic fibrosis transmembrane conductance regulator, CFTR, nucleotide-binding domain
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=97.03  E-value=0.00029  Score=41.13  Aligned_cols=23  Identities=22%  Similarity=0.320  Sum_probs=19.4

Q ss_pred             eeeEEEEeCCCCCHHHHHHHHHh
Q psy2514          12 KGTVVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus        12 ~~ki~v~G~~~vGKtsl~~~~~~   34 (71)
                      .=.+.++|++|+|||||+..++.
T Consensus        62 Ge~vaivG~nGsGKSTLl~~i~G   84 (281)
T d1r0wa_          62 GEMLAITGSTGSGKTSLLMLILG   84 (281)
T ss_dssp             TCEEEEEESTTSSHHHHHHHHHT
T ss_pred             CCEEEEECCCCChHHHHHHHHhC
Confidence            34688999999999999987764

>d1sgwa_ c.37.1.12 (A:) Putative ABC transporter PF0895 {Pyrococcus furiosus [TaxId: 2261]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Putative ABC transporter PF0895
species: Pyrococcus furiosus [TaxId: 2261]

Probab=97.01  E-value=0.00024  Score=39.45  Aligned_cols=21  Identities=19%  Similarity=0.458  Sum_probs=18.3

Q ss_pred             eEEEEeCCCCCHHHHHHHHHh
Q psy2514          14 TVVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus        14 ki~v~G~~~vGKtsl~~~~~~   34 (71)
                      .+.++|+.|+|||||+..++.
T Consensus        29 i~~l~G~NGsGKSTLl~~i~g   49 (200)
T d1sgwa_          29 VVNFHGPNGIGKTTLLKTIST   49 (200)
T ss_dssp             CEEEECCTTSSHHHHHHHHTT
T ss_pred             EEEEECCCCChHHHHHHHHhc
Confidence            577899999999999998764

>d1sxja2 c.37.1.20 (A:295-547) Replication factor C1 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Replication factor C1
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=97.01  E-value=0.00027  Score=39.54  Aligned_cols=23  Identities=13%  Similarity=0.307  Sum_probs=20.0

Q ss_pred             eeEEEEeCCCCCHHHHHHHHHhC
Q psy2514          13 GTVVIVGNGAVGKSSMIQRYCRG   35 (71)
Q Consensus        13 ~ki~v~G~~~vGKtsl~~~~~~~   35 (71)
                      -.+++.|++|+|||+++..++..
T Consensus        53 ~~lll~GPpG~GKTt~a~~la~~   75 (253)
T d1sxja2          53 RAAMLYGPPGIGKTTAAHLVAQE   75 (253)
T ss_dssp             SEEEEECSTTSSHHHHHHHHHHH
T ss_pred             ceEEEECCCCCCHHHHHHHHHHH
Confidence            46899999999999999988853

>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=97.00  E-value=0.00037  Score=41.33  Aligned_cols=26  Identities=31%  Similarity=0.227  Sum_probs=22.6

Q ss_pred             CceeeeEEEEeCCCCCHHHHHHHHHh
Q psy2514           9 GSIKGTVVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus         9 ~~~~~ki~v~G~~~vGKtsl~~~~~~   34 (71)
                      ....+.|-+.|.+|+|||||+.++..
T Consensus        48 ~~~~~~igitG~pGaGKSTli~~l~~   73 (323)
T d2qm8a1          48 TGRAIRVGITGVPGVGKSTTIDALGS   73 (323)
T ss_dssp             CCCSEEEEEECCTTSCHHHHHHHHHH
T ss_pred             cCCceEEeeeCCCCCCHHHHHHHHHH
Confidence            34568899999999999999999874

>d1r5ba3 c.37.1.8 (A:215-459) Eukaryotic peptide chain release factor ERF2, G domain {Fission yeast (Schizosaccharomyces pombe) [TaxId: 4896]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Eukaryotic peptide chain release factor ERF2, G domain
species: Fission yeast (Schizosaccharomyces pombe) [TaxId: 4896]

Probab=97.00  E-value=0.00067  Score=38.64  Aligned_cols=24  Identities=21%  Similarity=0.266  Sum_probs=21.0

Q ss_pred             ceeeeEEEEeCCCCCHHHHHHHHH
Q psy2514          10 SIKGTVVIVGNGAVGKSSMIQRYC   33 (71)
Q Consensus        10 ~~~~ki~v~G~~~vGKtsl~~~~~   33 (71)
                      ...++++++|-...|||||+.+++
T Consensus        22 k~~iNi~iiGHVD~GKSTL~~~Ll   45 (245)
T d1r5ba3          22 KEHVNIVFIGHVDAGKSTLGGNIL   45 (245)
T ss_dssp             CEEEEEEEEECGGGTHHHHHHHHH
T ss_pred             CCceEEEEEeeCCCCHHHHHHHHH
Confidence            345789999999999999999985

>d1sxje2 c.37.1.20 (E:4-255) Replication factor C5 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Replication factor C5
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=96.98  E-value=0.00022  Score=39.88  Aligned_cols=24  Identities=13%  Similarity=0.199  Sum_probs=20.4

Q ss_pred             eeeEEEEeCCCCCHHHHHHHHHhC
Q psy2514          12 KGTVVIVGNGAVGKSSMIQRYCRG   35 (71)
Q Consensus        12 ~~ki~v~G~~~vGKtsl~~~~~~~   35 (71)
                      .-.+++.|++|+|||++++.++..
T Consensus        33 ~~~lll~Gp~G~GKTt~~~~la~~   56 (252)
T d1sxje2          33 LPHLLLYGPNGTGKKTRCMALLES   56 (252)
T ss_dssp             CCCEEEECSTTSSHHHHHHTHHHH
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHh
Confidence            346899999999999999988764

>d1v43a3 c.37.1.12 (A:7-245) Hypothetical protein PH0022, N-terminal domain {Pyrococcus horikoshii [TaxId: 53953]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Hypothetical protein PH0022, N-terminal domain
species: Pyrococcus horikoshii [TaxId: 53953]

Probab=96.97  E-value=0.00031  Score=40.24  Aligned_cols=21  Identities=19%  Similarity=0.442  Sum_probs=18.3

Q ss_pred             eEEEEeCCCCCHHHHHHHHHh
Q psy2514          14 TVVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus        14 ki~v~G~~~vGKtsl~~~~~~   34 (71)
                      .+.++|++|+|||+|++.+..
T Consensus        34 ~~~liGpsGaGKSTLl~~i~G   54 (239)
T d1v43a3          34 FLVLLGPSGCGKTTTLRMIAG   54 (239)
T ss_dssp             EEEEECCTTSSHHHHHHHHHT
T ss_pred             EEEEECCCCChHHHHHHHHHc
Confidence            578899999999999997764

>d1vmaa2 c.37.1.10 (A:82-294) GTPase domain of the signal recognition particle receptor FtsY {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: GTPase domain of the signal recognition particle receptor FtsY
species: Thermotoga maritima [TaxId: 2336]

Probab=96.94  E-value=0.0006  Score=38.34  Aligned_cols=27  Identities=15%  Similarity=0.250  Sum_probs=21.1

Q ss_pred             ccCceeeeEEEEeCCCCCHHHHHHHHH
Q psy2514           7 LRGSIKGTVVIVGNGAVGKSSMIQRYC   33 (71)
Q Consensus         7 ~~~~~~~ki~v~G~~~vGKtsl~~~~~   33 (71)
                      ..+....-++++|..|||||+.+-+++
T Consensus         6 ~~~~~p~vi~lvGptGvGKTTTiAKLA   32 (213)
T d1vmaa2           6 VPPEPPFVIMVVGVNGTGKTTSCGKLA   32 (213)
T ss_dssp             CCSSSCEEEEEECCTTSSHHHHHHHHH
T ss_pred             CCCCCCEEEEEECCCCCCHHHHHHHHH
Confidence            344555778899999999999877665

>d3dhwc1 c.37.1.12 (C:1-240) Methionine import ATP-binding protein MetN {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Methionine import ATP-binding protein MetN
species: Escherichia coli [TaxId: 562]

Probab=96.94  E-value=0.00031  Score=40.22  Aligned_cols=21  Identities=24%  Similarity=0.366  Sum_probs=18.0

Q ss_pred             eEEEEeCCCCCHHHHHHHHHh
Q psy2514          14 TVVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus        14 ki~v~G~~~vGKtsl~~~~~~   34 (71)
                      -+.++|++|+|||+|++.+..
T Consensus        33 ~~~iiG~sGsGKSTLl~~i~G   53 (240)
T d3dhwc1          33 IYGVIGASGAGKSTLIRCVNL   53 (240)
T ss_dssp             EEEEEESTTSSHHHHHHHHTT
T ss_pred             EEEEECCCCCCHHHHHHHHcC
Confidence            568899999999999887754

>d1iqpa2 c.37.1.20 (A:2-232) Replication factor C {Archaeon Pyrococcus furiosus [TaxId: 2261]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Replication factor C
species: Archaeon Pyrococcus furiosus [TaxId: 2261]

Probab=96.94  E-value=0.00035  Score=38.79  Aligned_cols=22  Identities=23%  Similarity=0.382  Sum_probs=19.2

Q ss_pred             eeEEEEeCCCCCHHHHHHHHHh
Q psy2514          13 GTVVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus        13 ~ki~v~G~~~vGKtsl~~~~~~   34 (71)
                      -.+++.|++|+|||++++.++.
T Consensus        46 ~~lll~Gp~G~GKTtla~~iak   67 (231)
T d1iqpa2          46 PHLLFAGPPGVGKTTAALALAR   67 (231)
T ss_dssp             CEEEEESCTTSSHHHHHHHHHH
T ss_pred             CeEEEECCCCCcHHHHHHHHHH
Confidence            3589999999999999988875

>d1x6va3 c.37.1.4 (A:34-228) Adenosine-5'phosphosulfate kinase (APS kinase) {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Adenosine-5'phosphosulfate kinase (APS kinase)
domain: Adenosine-5'phosphosulfate kinase (APS kinase)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.93  E-value=0.00015  Score=38.90  Aligned_cols=23  Identities=22%  Similarity=0.234  Sum_probs=19.3

Q ss_pred             eeeEEEEeCCCCCHHHHHHHHHh
Q psy2514          12 KGTVVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus        12 ~~ki~v~G~~~vGKtsl~~~~~~   34 (71)
                      .+-|+++|.+|+||||+...+..
T Consensus        19 g~vI~L~G~pGSGKTTiAk~La~   41 (195)
T d1x6va3          19 GCTVWLTGLSGAGKTTVSMALEE   41 (195)
T ss_dssp             CEEEEEESSCHHHHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHH
Confidence            35678899999999999988763

>d1w5sa2 c.37.1.20 (A:7-293) CDC6-like protein APE0152, N-terminal domain {Aeropyrum pernix [TaxId: 56636]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: CDC6-like protein APE0152, N-terminal domain
species: Aeropyrum pernix [TaxId: 56636]

Probab=96.93  E-value=0.00014  Score=40.83  Aligned_cols=20  Identities=15%  Similarity=0.302  Sum_probs=16.6

Q ss_pred             EEEEeCCCCCHHHHHHHHHh
Q psy2514          15 VVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus        15 i~v~G~~~vGKtsl~~~~~~   34 (71)
                      +++.|++|+|||++++.++.
T Consensus        49 l~l~GppGtGKT~l~~~l~~   68 (287)
T d1w5sa2          49 YGSIGRVGIGKTTLAKFTVK   68 (287)
T ss_dssp             EECTTCCSSSHHHHHHHHHH
T ss_pred             EEeECCCCCCHHHHHHHHHH
Confidence            44569999999999998774

>d1g41a_ c.37.1.20 (A:) HslU {Haemophilus influenzae [TaxId: 727]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: HslU
species: Haemophilus influenzae [TaxId: 727]

Probab=96.90  E-value=0.00034  Score=43.14  Aligned_cols=23  Identities=22%  Similarity=0.586  Sum_probs=20.5

Q ss_pred             eeeEEEEeCCCCCHHHHHHHHHh
Q psy2514          12 KGTVVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus        12 ~~ki~v~G~~~vGKtsl~~~~~~   34 (71)
                      +-+|+++|++|||||-|+++++.
T Consensus        49 ksNILliGPTGvGKTlLAr~LAk   71 (443)
T d1g41a_          49 PKNILMIGPTGVGKTEIARRLAK   71 (443)
T ss_dssp             CCCEEEECCTTSSHHHHHHHHHH
T ss_pred             cccEEEECCCCCCHHHHHHHHHH
Confidence            34899999999999999999875

>d1g2912 c.37.1.12 (1:1-240) Maltose transport protein MalK, N-terminal domain {Archaeon Thermococcus litoralis [TaxId: 2265]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Maltose transport protein MalK, N-terminal domain
species: Archaeon Thermococcus litoralis [TaxId: 2265]

Probab=96.88  E-value=0.0004  Score=39.79  Aligned_cols=22  Identities=14%  Similarity=0.403  Sum_probs=18.5

Q ss_pred             eeEEEEeCCCCCHHHHHHHHHh
Q psy2514          13 GTVVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus        13 ~ki~v~G~~~vGKtsl~~~~~~   34 (71)
                      =.+.++|++|+|||+|++.+..
T Consensus        30 e~~~liG~sGaGKSTll~~i~g   51 (240)
T d1g2912          30 EFMILLGPSGCGKTTTLRMIAG   51 (240)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHT
T ss_pred             CEEEEECCCCChHHHHHHHHhc
Confidence            3578899999999999987764

>d1pzna2 c.37.1.11 (A:96-349) DNA repair protein Rad51, catalytic domain {Archaeon Pyrococcus furiosus [TaxId: 2261]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: DNA repair protein Rad51, catalytic domain
species: Archaeon Pyrococcus furiosus [TaxId: 2261]

Probab=96.85  E-value=0.00047  Score=38.28  Aligned_cols=22  Identities=14%  Similarity=0.184  Sum_probs=19.0

Q ss_pred             eEEEEeCCCCCHHHHHHHHHhC
Q psy2514          14 TVVIVGNGAVGKSSMIQRYCRG   35 (71)
Q Consensus        14 ki~v~G~~~vGKtsl~~~~~~~   35 (71)
                      -+++.|++|+|||+|..+++.+
T Consensus        38 ~~li~G~pGsGKT~~~lq~~~~   59 (254)
T d1pzna2          38 ITEVFGEFGSGKTQLAHTLAVM   59 (254)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHH
T ss_pred             EEEEEcCCCCCHHHHHHHHHHH
Confidence            4678899999999999999853

>d2hyda1 c.37.1.12 (A:324-578) Putative multidrug export ATP-binding/permease protein SAV1866 {Staphylococcus aureus [TaxId: 1280]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Putative multidrug export ATP-binding/permease protein SAV1866
species: Staphylococcus aureus [TaxId: 1280]

Probab=96.84  E-value=0.00029  Score=40.67  Aligned_cols=22  Identities=36%  Similarity=0.388  Sum_probs=18.4

Q ss_pred             eeeEEEEeCCCCCHHHHHHHHH
Q psy2514          12 KGTVVIVGNGAVGKSSMIQRYC   33 (71)
Q Consensus        12 ~~ki~v~G~~~vGKtsl~~~~~   33 (71)
                      .=+++++|.+|+|||||+.-+.
T Consensus        44 Ge~vaivG~sGsGKSTLl~ll~   65 (255)
T d2hyda1          44 GETVAFVGMSGGGKSTLINLIP   65 (255)
T ss_dssp             TCEEEEECSTTSSHHHHHTTTT
T ss_pred             CCEEEEECCCCCcHHHHHHHHH
Confidence            4578999999999999987544

>d1sxjd2 c.37.1.20 (D:26-262) Replication factor C2 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Replication factor C2
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=96.82  E-value=0.0005  Score=38.01  Aligned_cols=22  Identities=23%  Similarity=0.360  Sum_probs=18.9

Q ss_pred             eEEEEeCCCCCHHHHHHHHHhC
Q psy2514          14 TVVIVGNGAVGKSSMIQRYCRG   35 (71)
Q Consensus        14 ki~v~G~~~vGKtsl~~~~~~~   35 (71)
                      .+++.|++|+|||++++.++..
T Consensus        35 ~lll~Gp~G~GKTtl~~~i~~~   56 (237)
T d1sxjd2          35 HMLFYGPPGTGKTSTILALTKE   56 (237)
T ss_dssp             CEEEECSTTSSHHHHHHHHHHH
T ss_pred             eEEEECCCCCChHHHHHHHHHH
Confidence            4889999999999999888753

>d1sxjb2 c.37.1.20 (B:7-230) Replication factor C4 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Replication factor C4
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=96.81  E-value=0.00052  Score=38.00  Aligned_cols=22  Identities=18%  Similarity=0.407  Sum_probs=18.6

Q ss_pred             eeEEEEeCCCCCHHHHHHHHHh
Q psy2514          13 GTVVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus        13 ~ki~v~G~~~vGKtsl~~~~~~   34 (71)
                      -.+++.|++|+|||++++.++.
T Consensus        37 ~~~ll~Gp~G~GKTt~a~~la~   58 (224)
T d1sxjb2          37 PHMIISGMPGIGKTTSVHCLAH   58 (224)
T ss_dssp             CCEEEECSTTSSHHHHHHHHHH
T ss_pred             CeEEEECCCCCCchhhHHHHHH
Confidence            3589999999999999887664

>d1n0wa_ c.37.1.11 (A:) DNA repair protein Rad51, catalytic domain {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: DNA repair protein Rad51, catalytic domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.78  E-value=0.00056  Score=36.54  Aligned_cols=23  Identities=13%  Similarity=0.185  Sum_probs=19.2

Q ss_pred             eEEEEeCCCCCHHHHHHHHHhCc
Q psy2514          14 TVVIVGNGAVGKSSMIQRYCRGT   36 (71)
Q Consensus        14 ki~v~G~~~vGKtsl~~~~~~~~   36 (71)
                      -+.+.|++|+|||+|+.+++.+.
T Consensus        25 v~~i~G~~GsGKT~l~l~la~~~   47 (242)
T d1n0wa_          25 ITEMFGEFRTGKTQICHTLAVTC   47 (242)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHT
T ss_pred             EEEEEeCCCCCHHHHHHHHHHHH
Confidence            46778999999999999988543

>d1ixza_ c.37.1.20 (A:) AAA domain of cell division protein FtsH {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: AAA domain of cell division protein FtsH
species: Thermus thermophilus [TaxId: 274]

Probab=96.76  E-value=0.00059  Score=38.93  Aligned_cols=22  Identities=27%  Similarity=0.450  Sum_probs=19.6

Q ss_pred             eeEEEEeCCCCCHHHHHHHHHh
Q psy2514          13 GTVVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus        13 ~ki~v~G~~~vGKtsl~~~~~~   34 (71)
                      -.+++.|++|+|||++++.++.
T Consensus        43 ~giLl~GppGtGKT~la~aia~   64 (247)
T d1ixza_          43 KGVLLVGPPGVGKTHLARAVAG   64 (247)
T ss_dssp             SEEEEECCTTSSHHHHHHHHHH
T ss_pred             ceEEEecCCCCChhHHHHHHHH
Confidence            3589999999999999998884

>d3d31a2 c.37.1.12 (A:1-229) Sulfate/molybdate ABC transporter, ATP-binding protein {Methanosarcina acetivorans [TaxId: 2214]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Sulfate/molybdate ABC transporter, ATP-binding protein
species: Methanosarcina acetivorans [TaxId: 2214]

Probab=96.76  E-value=0.00031  Score=40.04  Aligned_cols=21  Identities=24%  Similarity=0.390  Sum_probs=18.4

Q ss_pred             eEEEEeCCCCCHHHHHHHHHh
Q psy2514          14 TVVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus        14 ki~v~G~~~vGKtsl~~~~~~   34 (71)
                      -+.++|++|+|||+|++.+..
T Consensus        28 ~~~liGpsGaGKSTll~~l~G   48 (229)
T d3d31a2          28 YFVILGPTGAGKTLFLELIAG   48 (229)
T ss_dssp             EEEEECCCTHHHHHHHHHHHT
T ss_pred             EEEEECCCCCcHHHHHHHHhc
Confidence            478899999999999998765

>d2qn6a3 c.37.1.8 (A:2-206) Initiation factor eIF2 gamma subunit, N-terminal (G) domain {Sulfolobus solfataricus [TaxId: 2287]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Initiation factor eIF2 gamma subunit, N-terminal (G) domain
species: Sulfolobus solfataricus [TaxId: 2287]

Probab=96.72  E-value=0.001  Score=36.57  Aligned_cols=26  Identities=19%  Similarity=0.256  Sum_probs=22.3

Q ss_pred             CceeeeEEEEeCCCCCHHHHHHHHHh
Q psy2514           9 GSIKGTVVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus         9 ~~~~~ki~v~G~~~vGKtsl~~~~~~   34 (71)
                      .++.++++++|....|||||+.+++.
T Consensus         5 ~~p~ini~iiGhVd~GKSTL~~~L~~   30 (205)
T d2qn6a3           5 VQPEVNIGVVGHVDHGKTTLVQAITG   30 (205)
T ss_dssp             CCCCEEEEEECSTTSSHHHHHHHHHS
T ss_pred             CCCCeEEEEEEccCCcHHHHHHHHHh
Confidence            34558999999889999999999974

>d1um8a_ c.37.1.20 (A:) ClpX {Helicobacter pylori [TaxId: 210]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: ClpX
species: Helicobacter pylori [TaxId: 210]

Probab=96.70  E-value=0.0007  Score=40.70  Aligned_cols=24  Identities=25%  Similarity=0.495  Sum_probs=20.8

Q ss_pred             eeeeEEEEeCCCCCHHHHHHHHHh
Q psy2514          11 IKGTVVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus        11 ~~~ki~v~G~~~vGKtsl~~~~~~   34 (71)
                      ..-.++++|++|||||-+..+++.
T Consensus        67 p~~niLfiGPTGvGKTElAk~LA~   90 (364)
T d1um8a_          67 SKSNILLIGPTGSGKTLMAQTLAK   90 (364)
T ss_dssp             CCCCEEEECCTTSSHHHHHHHHHH
T ss_pred             CCcceeeeCCCCccHHHHHHHHHh
Confidence            456799999999999999998764

>d1sxjc2 c.37.1.20 (C:12-238) Replication factor C3 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Replication factor C3
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=96.69  E-value=0.00069  Score=37.39  Aligned_cols=22  Identities=27%  Similarity=0.410  Sum_probs=19.5

Q ss_pred             eEEEEeCCCCCHHHHHHHHHhC
Q psy2514          14 TVVIVGNGAVGKSSMIQRYCRG   35 (71)
Q Consensus        14 ki~v~G~~~vGKtsl~~~~~~~   35 (71)
                      .+++.|++|+|||+++..++..
T Consensus        37 ~lLl~Gp~G~GKttl~~~la~~   58 (227)
T d1sxjc2          37 HLLFYGPPGTGKTSTIVALARE   58 (227)
T ss_dssp             CEEEECSSSSSHHHHHHHHHHH
T ss_pred             eEEEECCCCCChhHHHHHHHHH
Confidence            5889999999999999988754

>d1szpa2 c.37.1.11 (A:145-395) DNA repair protein Rad51, catalytic domain {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: DNA repair protein Rad51, catalytic domain
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=96.68  E-value=0.00066  Score=37.28  Aligned_cols=22  Identities=18%  Similarity=0.220  Sum_probs=18.8

Q ss_pred             eEEEEeCCCCCHHHHHHHHHhC
Q psy2514          14 TVVIVGNGAVGKSSMIQRYCRG   35 (71)
Q Consensus        14 ki~v~G~~~vGKtsl~~~~~~~   35 (71)
                      -+.+.|++|+|||+|+.+++..
T Consensus        36 ~~li~G~pGsGKT~l~lq~~~~   57 (251)
T d1szpa2          36 ITELFGEFRTGKSQLCHTLAVT   57 (251)
T ss_dssp             EEEEEESTTSSHHHHHHHHTTT
T ss_pred             EEEEEcCCCCCHHHHHHHHHHH
Confidence            4677899999999999998753

>d1m7ga_ c.37.1.4 (A:) Adenosine-5'phosphosulfate kinase (APS kinase) {Fungus (Penicillium chrysogenum) [TaxId: 5076]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Adenosine-5'phosphosulfate kinase (APS kinase)
domain: Adenosine-5'phosphosulfate kinase (APS kinase)
species: Fungus (Penicillium chrysogenum) [TaxId: 5076]

Probab=96.64  E-value=0.0009  Score=37.16  Aligned_cols=26  Identities=27%  Similarity=0.258  Sum_probs=21.3

Q ss_pred             cCceeeeEEEEeCCCCCHHHHHHHHH
Q psy2514           8 RGSIKGTVVIVGNGAVGKSSMIQRYC   33 (71)
Q Consensus         8 ~~~~~~ki~v~G~~~vGKtsl~~~~~   33 (71)
                      +....+-|.+.|.+|+|||++...+.
T Consensus        20 ~~~kg~vIwltGlsGsGKTTia~~L~   45 (208)
T d1m7ga_          20 RNQRGLTIWLTGLSASGKSTLAVELE   45 (208)
T ss_dssp             HTSSCEEEEEECSTTSSHHHHHHHHH
T ss_pred             hCCCCeEEEEECCCCCCHHHHHHHHH
Confidence            34455779999999999999988765

>d2vp4a1 c.37.1.1 (A:12-208) Deoxyribonucleoside kinase {Fruit fly (Drosophila melanogaster) [TaxId: 7227]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Deoxyribonucleoside kinase
species: Fruit fly (Drosophila melanogaster) [TaxId: 7227]

Probab=96.62  E-value=0.00072  Score=36.49  Aligned_cols=27  Identities=30%  Similarity=0.464  Sum_probs=21.7

Q ss_pred             cCceeeeEEEEeCCCCCHHHHHHHHHh
Q psy2514           8 RGSIKGTVVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus         8 ~~~~~~ki~v~G~~~vGKtsl~~~~~~   34 (71)
                      +....+-|++-|..|+||||++..+..
T Consensus         5 ~~~kp~~I~ieG~~GsGKTTl~~~L~~   31 (197)
T d2vp4a1           5 EGTQPFTVLIEGNIGSGKTTYLNHFEK   31 (197)
T ss_dssp             TTCCCEEEEEECSTTSCHHHHHHTTGG
T ss_pred             CCCCceEEEEECCCCCCHHHHHHHHHH
Confidence            344457889999999999999997763

>d1l7vc_ c.37.1.12 (C:) ABC transporter involved in vitamin B12 uptake, BtuD {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: ABC transporter involved in vitamin B12 uptake, BtuD
species: Escherichia coli [TaxId: 562]

Probab=96.60  E-value=0.00049  Score=38.99  Aligned_cols=21  Identities=29%  Similarity=0.556  Sum_probs=18.2

Q ss_pred             eEEEEeCCCCCHHHHHHHHHh
Q psy2514          14 TVVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus        14 ki~v~G~~~vGKtsl~~~~~~   34 (71)
                      -+.++|++|+|||+|+..+..
T Consensus        27 i~~iiG~nGaGKSTLl~~l~G   47 (231)
T d1l7vc_          27 ILHLVGPNGAGKSTLLARMAG   47 (231)
T ss_dssp             EEECBCCTTSSHHHHHHHHHT
T ss_pred             EEEEECCCCCcHHHHHHHHhC
Confidence            478899999999999987764

>d1lv7a_ c.37.1.20 (A:) AAA domain of cell division protein FtsH {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: AAA domain of cell division protein FtsH
species: Escherichia coli [TaxId: 562]

Probab=96.59  E-value=0.00088  Score=38.41  Aligned_cols=22  Identities=23%  Similarity=0.371  Sum_probs=19.3

Q ss_pred             eeEEEEeCCCCCHHHHHHHHHh
Q psy2514          13 GTVVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus        13 ~ki~v~G~~~vGKtsl~~~~~~   34 (71)
                      -.+++.|++|+|||++++.++.
T Consensus        46 ~~iLL~GppGtGKT~la~~iA~   67 (256)
T d1lv7a_          46 KGVLMVGPPGTGKTLLAKAIAG   67 (256)
T ss_dssp             CEEEEECCTTSCHHHHHHHHHH
T ss_pred             CeEEeeCCCCCCccHHHHHHHH
Confidence            4589999999999999998874

>d2qy9a2 c.37.1.10 (A:285-495) GTPase domain of the signal recognition particle receptor FtsY {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: GTPase domain of the signal recognition particle receptor FtsY
species: Escherichia coli [TaxId: 562]

Probab=96.59  E-value=0.0012  Score=37.00  Aligned_cols=22  Identities=32%  Similarity=0.567  Sum_probs=18.5

Q ss_pred             eeEEEEeCCCCCHHHHHHHHHh
Q psy2514          13 GTVVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus        13 ~ki~v~G~~~vGKtsl~~~~~~   34 (71)
                      .-++++|..||||||.+-+++.
T Consensus        10 ~vi~lvGptGvGKTTTiAKLA~   31 (211)
T d2qy9a2          10 FVILMVGVNGVGKTTTIGKLAR   31 (211)
T ss_dssp             EEEEEECCTTSCHHHHHHHHHH
T ss_pred             EEEEEECCCCCCHHHHHHHHHH
Confidence            4577899999999998887763

>d2i1qa2 c.37.1.11 (A:65-322) DNA repair protein Rad51, catalytic domain {Archaeon Methanococcus voltae [TaxId: 2188]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: DNA repair protein Rad51, catalytic domain
species: Archaeon Methanococcus voltae [TaxId: 2188]

Probab=96.58  E-value=0.00095  Score=36.56  Aligned_cols=23  Identities=17%  Similarity=0.346  Sum_probs=19.4

Q ss_pred             eEEEEeCCCCCHHHHHHHHHhCc
Q psy2514          14 TVVIVGNGAVGKSSMIQRYCRGT   36 (71)
Q Consensus        14 ki~v~G~~~vGKtsl~~~~~~~~   36 (71)
                      =+++.|++|+|||.|+.+++.+.
T Consensus        36 l~~i~G~~G~GKT~~~l~~a~~~   58 (258)
T d2i1qa2          36 VTEFAGVFGSGKTQIMHQSCVNL   58 (258)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHHT
T ss_pred             EEEEEeCCCCCHHHHHHHHHHHH
Confidence            46778999999999999998543

>d1tf7a2 c.37.1.11 (A:256-497) Circadian clock protein KaiC {Synechococcus sp. strain PCC 7942 (Anacystis nidulans R2) [TaxId: 1140]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Circadian clock protein KaiC
species: Synechococcus sp. strain PCC 7942 (Anacystis nidulans R2) [TaxId: 1140]

Probab=96.58  E-value=0.00098  Score=36.93  Aligned_cols=23  Identities=17%  Similarity=0.515  Sum_probs=19.7

Q ss_pred             eeEEEEeCCCCCHHHHHHHHHhC
Q psy2514          13 GTVVIVGNGAVGKSSMIQRYCRG   35 (71)
Q Consensus        13 ~ki~v~G~~~vGKtsl~~~~~~~   35 (71)
                      --+++.|++|+|||+|+.+++.+
T Consensus        27 sl~li~G~pGsGKT~l~~qia~~   49 (242)
T d1tf7a2          27 SIILATGATGTGKTLLVSRFVEN   49 (242)
T ss_dssp             CEEEEEECTTSSHHHHHHHHHHH
T ss_pred             eEEEEEeCCCCCHHHHHHHHHHH
Confidence            45677899999999999998865

>d1b0ua_ c.37.1.12 (A:) ATP-binding subunit of the histidine permease {Salmonella typhimurium [TaxId: 90371]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: ATP-binding subunit of the histidine permease
species: Salmonella typhimurium [TaxId: 90371]

Probab=96.56  E-value=0.00084  Score=38.68  Aligned_cols=21  Identities=24%  Similarity=0.447  Sum_probs=18.1

Q ss_pred             eEEEEeCCCCCHHHHHHHHHh
Q psy2514          14 TVVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus        14 ki~v~G~~~vGKtsl~~~~~~   34 (71)
                      .+.++|++|+|||+|++.+..
T Consensus        30 i~~iiG~sGsGKSTLl~~i~G   50 (258)
T d1b0ua_          30 VISIIGSSGSGKSTFLRCINF   50 (258)
T ss_dssp             EEEEECCTTSSHHHHHHHHTT
T ss_pred             EEEEECCCCCcHHHHHHHHHc
Confidence            578899999999999987753

>d1uj2a_ c.37.1.6 (A:) Uridine-cytidine kinase 2 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Phosphoribulokinase/pantothenate kinase
domain: Uridine-cytidine kinase 2
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.55  E-value=0.0013  Score=36.06  Aligned_cols=22  Identities=27%  Similarity=0.315  Sum_probs=18.5

Q ss_pred             eeEEEEeCCCCCHHHHHHHHHh
Q psy2514          13 GTVVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus        13 ~ki~v~G~~~vGKtsl~~~~~~   34 (71)
                      +-|.+-|.+|+||||+...+..
T Consensus         3 ~iIgI~G~~gSGKSTla~~L~~   24 (213)
T d1uj2a_           3 FLIGVSGGTASGKSSVCAKIVQ   24 (213)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHH
T ss_pred             EEEEEECCCCCCHHHHHHHHHH
Confidence            5578899999999999987753

>d1r6bx3 c.37.1.20 (X:437-751) ClpA, an Hsp100 chaperone, AAA+ modules {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: ClpA, an Hsp100 chaperone, AAA+ modules
species: Escherichia coli [TaxId: 562]

Probab=96.54  E-value=0.0013  Score=38.55  Aligned_cols=24  Identities=21%  Similarity=0.426  Sum_probs=20.0

Q ss_pred             eeeeEEEEeCCCCCHHHHHHHHHh
Q psy2514          11 IKGTVVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus        11 ~~~ki~v~G~~~vGKtsl~~~~~~   34 (71)
                      +.-.++++|++|||||.|+..++.
T Consensus        51 p~~~~lf~Gp~GvGKT~lak~la~   74 (315)
T d1r6bx3          51 PVGSFLFAGPTGVGKTEVTVQLSK   74 (315)
T ss_dssp             CSEEEEEECSTTSSHHHHHHHHHH
T ss_pred             CceEEEEECCCcchhHHHHHHHHh
Confidence            344688999999999999998764

>d1v5wa_ c.37.1.11 (A:) Meiotic recombination protein DMC1/LIM15 homolog {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Meiotic recombination protein DMC1/LIM15 homolog
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.53  E-value=0.001  Score=36.77  Aligned_cols=22  Identities=18%  Similarity=0.335  Sum_probs=19.1

Q ss_pred             eeEEEEeCCCCCHHHHHHHHHh
Q psy2514          13 GTVVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus        13 ~ki~v~G~~~vGKtsl~~~~~~   34 (71)
                      --+++.|++|+|||+|+.+++.
T Consensus        38 ~~~~i~G~~GsGKT~lalq~~~   59 (258)
T d1v5wa_          38 AITEAFGEFRTGKTQLSHTLCV   59 (258)
T ss_dssp             EEEEEECCTTCTHHHHHHHHHH
T ss_pred             EEEEEECCCCCCHHHHHHHHHH
Confidence            3467889999999999999985

>d1ckea_ c.37.1.1 (A:) CMP kinase {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: CMP kinase
species: Escherichia coli [TaxId: 562]

Probab=96.52  E-value=0.0011  Score=36.01  Aligned_cols=20  Identities=20%  Similarity=0.433  Sum_probs=16.6

Q ss_pred             EEEEeCCCCCHHHHHHHHHh
Q psy2514          15 VVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus        15 i~v~G~~~vGKtsl~~~~~~   34 (71)
                      |++.|++|+||+|....+..
T Consensus         6 I~I~GppGSGKgT~ak~La~   25 (225)
T d1ckea_           6 ITIDGPSGAGKGTLCKAMAE   25 (225)
T ss_dssp             EEEECCTTSSHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHH
Confidence            56669999999999887764

>d1ji0a_ c.37.1.12 (A:) Branched chain aminoacid ABC transporter {Thermotoga maritima, TM1139 [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Branched chain aminoacid ABC transporter
species: Thermotoga maritima, TM1139 [TaxId: 2336]

Probab=96.52  E-value=0.00091  Score=38.12  Aligned_cols=21  Identities=19%  Similarity=0.468  Sum_probs=18.1

Q ss_pred             eEEEEeCCCCCHHHHHHHHHh
Q psy2514          14 TVVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus        14 ki~v~G~~~vGKtsl~~~~~~   34 (71)
                      -+.++|+.|+|||+|++.+..
T Consensus        34 i~~liGpnGaGKSTl~~~i~G   54 (240)
T d1ji0a_          34 IVTLIGANGAGKTTTLSAIAG   54 (240)
T ss_dssp             EEEEECSTTSSHHHHHHHHTT
T ss_pred             EEEEECCCCCcHHHHHHHHhC
Confidence            467899999999999987764

>d1oxxk2 c.37.1.12 (K:1-242) Glucose transport protein GlcV, N-terminal domain {Archaeon Sulfolobus solfataricus [TaxId: 2287]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Glucose transport protein GlcV, N-terminal domain
species: Archaeon Sulfolobus solfataricus [TaxId: 2287]

Probab=96.50  E-value=0.00038  Score=39.93  Aligned_cols=22  Identities=18%  Similarity=0.351  Sum_probs=18.9

Q ss_pred             eeEEEEeCCCCCHHHHHHHHHh
Q psy2514          13 GTVVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus        13 ~ki~v~G~~~vGKtsl~~~~~~   34 (71)
                      =.+.++|++|+|||+|++.+..
T Consensus        32 e~~~iiG~sGsGKSTll~~i~g   53 (242)
T d1oxxk2          32 ERFGILGPSGAGKTTFMRIIAG   53 (242)
T ss_dssp             CEEEEECSCHHHHHHHHHHHHT
T ss_pred             CEEEEECCCCCcHHHHHHHHHc
Confidence            3578899999999999987765

>d1e32a2 c.37.1.20 (A:201-458) Membrane fusion ATPase VCP/p97 {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Membrane fusion ATPase VCP/p97
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=96.50  E-value=0.0014  Score=37.40  Aligned_cols=22  Identities=14%  Similarity=0.314  Sum_probs=19.4

Q ss_pred             eeEEEEeCCCCCHHHHHHHHHh
Q psy2514          13 GTVVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus        13 ~ki~v~G~~~vGKtsl~~~~~~   34 (71)
                      ..+++.|++|+|||++++.++.
T Consensus        39 ~giLL~GppGtGKT~l~~ala~   60 (258)
T d1e32a2          39 RGILLYGPPGTGKTLIARAVAN   60 (258)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHH
T ss_pred             ceeEEecCCCCCchHHHHHHHH
Confidence            4689999999999999998775

>d1kkma_ c.91.1.2 (A:) HPr kinase HprK C-terminal domain {Lactobacillus casei [TaxId: 1582]}

class: Alpha and beta proteins (a/b)
fold: PEP carboxykinase-like
superfamily: PEP carboxykinase-like
family: HPr kinase HprK C-terminal domain
domain: HPr kinase HprK C-terminal domain
species: Lactobacillus casei [TaxId: 1582]

Probab=96.48  E-value=0.0015  Score=35.74  Aligned_cols=24  Identities=29%  Similarity=0.360  Sum_probs=20.5

Q ss_pred             eeEEEEeCCCCCHHHHHHHHHhCc
Q psy2514          13 GTVVIVGNGAVGKSSMIQRYCRGT   36 (71)
Q Consensus        13 ~ki~v~G~~~vGKtsl~~~~~~~~   36 (71)
                      .-+++.|++|+|||+++..+....
T Consensus        15 ~gvl~~G~sG~GKStlal~l~~~g   38 (176)
T d1kkma_          15 LGVLITGDSGVGKSETALELVQRG   38 (176)
T ss_dssp             EEEEEECCTTSCHHHHHHHHHHTT
T ss_pred             EEEEEEeCCCCCHHHHHHHHHHcC
Confidence            458899999999999999888644

>d1j8yf2 c.37.1.10 (F:87-297) GTPase domain of the signal sequence recognition protein Ffh {Archaeon Acidianus ambivalens [TaxId: 2283]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: GTPase domain of the signal sequence recognition protein Ffh
species: Archaeon Acidianus ambivalens [TaxId: 2283]

Probab=96.46  E-value=0.0014  Score=36.81  Aligned_cols=22  Identities=18%  Similarity=0.356  Sum_probs=13.9

Q ss_pred             eeeEEEEeCCCCCHHHHHHHHH
Q psy2514          12 KGTVVIVGNGAVGKSSMIQRYC   33 (71)
Q Consensus        12 ~~ki~v~G~~~vGKtsl~~~~~   33 (71)
                      ..-++++|++||||||.+-+++
T Consensus        12 p~vi~lvGptGvGKTTTiAKLA   33 (211)
T d1j8yf2          12 PYVIMLVGVQGTGKATTAGKLA   33 (211)
T ss_dssp             SEEEEEECSCCC----HHHHHH
T ss_pred             CEEEEEECCCCCCHHHHHHHHH
Confidence            3557778999999999877665

>d1okkd2 c.37.1.10 (D:97-303) GTPase domain of the signal recognition particle receptor FtsY {Thermus aquaticus [TaxId: 271]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: GTPase domain of the signal recognition particle receptor FtsY
species: Thermus aquaticus [TaxId: 271]

Probab=96.46  E-value=0.0012  Score=36.92  Aligned_cols=22  Identities=36%  Similarity=0.619  Sum_probs=17.8

Q ss_pred             eeEEEEeCCCCCHHHHHHHHHh
Q psy2514          13 GTVVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus        13 ~ki~v~G~~~vGKtsl~~~~~~   34 (71)
                      .-++++|.+||||||.+-+++.
T Consensus         7 ~vi~lvGptGvGKTTTiaKLA~   28 (207)
T d1okkd2           7 RVVLVVGVNGVGKTTTIAKLGR   28 (207)
T ss_dssp             SEEEEECSTTSSHHHHHHHHHH
T ss_pred             EEEEEECCCCCCHHHHHHHHHH
Confidence            4567889999999998877653

>d1vpla_ c.37.1.12 (A:) Putative ABC transporter TM0544 {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Putative ABC transporter TM0544
species: Thermotoga maritima [TaxId: 2336]

Probab=96.44  E-value=0.0013  Score=37.41  Aligned_cols=22  Identities=14%  Similarity=0.270  Sum_probs=18.4

Q ss_pred             eEEEEeCCCCCHHHHHHHHHhC
Q psy2514          14 TVVIVGNGAVGKSSMIQRYCRG   35 (71)
Q Consensus        14 ki~v~G~~~vGKtsl~~~~~~~   35 (71)
                      -+.++|+.|+|||+|++.+..-
T Consensus        30 i~glvG~nGaGKSTLl~~l~G~   51 (238)
T d1vpla_          30 IFGLIGPNGAGKTTTLRIISTL   51 (238)
T ss_dssp             EEEEECCTTSSHHHHHHHHTTS
T ss_pred             EEEEECCCCCCHHHHHHHHhcC
Confidence            4678999999999999977653

>d1g6ha_ c.37.1.12 (A:) MJ1267 {Archaeon Methanococcus jannaschii [TaxId: 2190]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: MJ1267
species: Archaeon Methanococcus jannaschii [TaxId: 2190]

Probab=96.37  E-value=0.0012  Score=37.78  Aligned_cols=21  Identities=29%  Similarity=0.498  Sum_probs=18.0

Q ss_pred             eEEEEeCCCCCHHHHHHHHHh
Q psy2514          14 TVVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus        14 ki~v~G~~~vGKtsl~~~~~~   34 (71)
                      -+.++|+.|+|||+|++.+..
T Consensus        32 i~~liG~nGaGKSTLl~~i~G   52 (254)
T d1g6ha_          32 VTLIIGPNGSGKSTLINVITG   52 (254)
T ss_dssp             EEEEECSTTSSHHHHHHHHTT
T ss_pred             EEEEECCCCCcHHHHHHHHHC
Confidence            368899999999999987764

>d1g6oa_ c.37.1.11 (A:) Hexameric traffic ATPase, HP0525 {Helicobacter pylori [TaxId: 210]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Hexameric traffic ATPase, HP0525
species: Helicobacter pylori [TaxId: 210]

Probab=96.37  E-value=0.0013  Score=38.91  Aligned_cols=23  Identities=22%  Similarity=0.377  Sum_probs=19.9

Q ss_pred             eeEEEEeCCCCCHHHHHHHHHhC
Q psy2514          13 GTVVIVGNGAVGKSSMIQRYCRG   35 (71)
Q Consensus        13 ~ki~v~G~~~vGKtsl~~~~~~~   35 (71)
                      .++++.|..|+|||++++.++..
T Consensus       167 ~nili~G~tgSGKTT~l~al~~~  189 (323)
T d1g6oa_         167 KNVIVCGGTGSGKTTYIKSIMEF  189 (323)
T ss_dssp             CCEEEEESTTSSHHHHHHHHGGG
T ss_pred             CCEEEEeeccccchHHHHHHhhh
Confidence            46899999999999999887753

>d1ls1a2 c.37.1.10 (A:89-295) GTPase domain of the signal sequence recognition protein Ffh {Thermus aquaticus [TaxId: 271]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: GTPase domain of the signal sequence recognition protein Ffh
species: Thermus aquaticus [TaxId: 271]

Probab=96.36  E-value=0.0015  Score=36.47  Aligned_cols=19  Identities=21%  Similarity=0.356  Sum_probs=16.3

Q ss_pred             EEEEeCCCCCHHHHHHHHH
Q psy2514          15 VVIVGNGAVGKSSMIQRYC   33 (71)
Q Consensus        15 i~v~G~~~vGKtsl~~~~~   33 (71)
                      ++++|.+|||||+.+-+++
T Consensus        13 i~lvGp~GvGKTTTiaKLA   31 (207)
T d1ls1a2          13 WFLVGLQGSGKTTTAAKLA   31 (207)
T ss_dssp             EEEECCTTTTHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHH
Confidence            5778999999999887765

>d1g8pa_ c.37.1.20 (A:) ATPase subunit of magnesium chelatase, BchI {Rhodobacter capsulatus [TaxId: 1061]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: ATPase subunit of magnesium chelatase, BchI
species: Rhodobacter capsulatus [TaxId: 1061]

Probab=96.34  E-value=0.00058  Score=40.03  Aligned_cols=22  Identities=27%  Similarity=0.590  Sum_probs=19.3

Q ss_pred             eeEEEEeCCCCCHHHHHHHHHh
Q psy2514          13 GTVVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus        13 ~ki~v~G~~~vGKtsl~~~~~~   34 (71)
                      -.+++.|++|+|||++++++..
T Consensus        29 h~vLl~G~pG~GKT~lar~~~~   50 (333)
T d1g8pa_          29 GGVLVFGDRGTGKSTAVRALAA   50 (333)
T ss_dssp             CCEEEECCGGGCTTHHHHHHHH
T ss_pred             CeEEEECCCCccHHHHHHHHHH
Confidence            3689999999999999998863

>d1knxa2 c.91.1.2 (A:133-309) HPr kinase HprK C-terminal domain {Mycoplasma pneumoniae [TaxId: 2104]}

class: Alpha and beta proteins (a/b)
fold: PEP carboxykinase-like
superfamily: PEP carboxykinase-like
family: HPr kinase HprK C-terminal domain
domain: HPr kinase HprK C-terminal domain
species: Mycoplasma pneumoniae [TaxId: 2104]

Probab=96.31  E-value=0.0021  Score=35.14  Aligned_cols=24  Identities=21%  Similarity=0.303  Sum_probs=20.3

Q ss_pred             eeEEEEeCCCCCHHHHHHHHHhCc
Q psy2514          13 GTVVIVGNGAVGKSSMIQRYCRGT   36 (71)
Q Consensus        13 ~ki~v~G~~~vGKtsl~~~~~~~~   36 (71)
                      .-+++.|++|+|||+++..+....
T Consensus        16 ~gvli~G~sG~GKS~lal~l~~~G   39 (177)
T d1knxa2          16 VGVLLTGRSGIGKSECALDLINKN   39 (177)
T ss_dssp             EEEEEEESSSSSHHHHHHHHHTTT
T ss_pred             EEEEEEcCCCCCHHHHHHHHHHcC
Confidence            457899999999999999888643

>d1tf7a1 c.37.1.11 (A:14-255) Circadian clock protein KaiC {Synechococcus sp. strain PCC 7942 (Anacystis nidulans R2) [TaxId: 1140]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Circadian clock protein KaiC
species: Synechococcus sp. strain PCC 7942 (Anacystis nidulans R2) [TaxId: 1140]

Probab=96.29  E-value=0.0018  Score=35.22  Aligned_cols=21  Identities=14%  Similarity=0.392  Sum_probs=17.5

Q ss_pred             eeEEEEeCCCCCHHHHHHHHH
Q psy2514          13 GTVVIVGNGAVGKSSMIQRYC   33 (71)
Q Consensus        13 ~ki~v~G~~~vGKtsl~~~~~   33 (71)
                      --+++.|++|+|||+|+.+++
T Consensus        27 ~~~~I~G~~G~GKT~la~~~~   47 (242)
T d1tf7a1          27 RSTLVSGTSGTGKTLFSIQFL   47 (242)
T ss_dssp             SEEEEEESTTSSHHHHHHHHH
T ss_pred             eEEEEEeCCCCCHHHHHHHHH
Confidence            446777999999999998775

>d1htwa_ c.37.1.18 (A:) Hypothetical protein HI0065 {Haemophilus influenzae [TaxId: 727]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: YjeE-like
domain: Hypothetical protein HI0065
species: Haemophilus influenzae [TaxId: 727]

Probab=96.27  E-value=0.0043  Score=33.31  Aligned_cols=24  Identities=21%  Similarity=0.339  Sum_probs=20.2

Q ss_pred             eeeEEEEeCCCCCHHHHHHHHHhC
Q psy2514          12 KGTVVIVGNGAVGKSSMIQRYCRG   35 (71)
Q Consensus        12 ~~ki~v~G~~~vGKtsl~~~~~~~   35 (71)
                      ..-+++-|+-|+|||+|++.++..
T Consensus        33 g~ii~L~G~LGaGKTtfvr~~~~~   56 (158)
T d1htwa_          33 AIMVYLNGDLGAGKTTLTRGMLQG   56 (158)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHHH
T ss_pred             CeEEEEecCCCccHHHHHHHHHhh
Confidence            345788899999999999988853

>d1r7ra3 c.37.1.20 (A:471-735) Membrane fusion ATPase VCP/p97 {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Membrane fusion ATPase VCP/p97
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=96.26  E-value=0.0014  Score=37.52  Aligned_cols=23  Identities=17%  Similarity=0.288  Sum_probs=19.8

Q ss_pred             eeeEEEEeCCCCCHHHHHHHHHh
Q psy2514          12 KGTVVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus        12 ~~ki~v~G~~~vGKtsl~~~~~~   34 (71)
                      ...+++.|++|+|||++++.++.
T Consensus        41 ~~giLL~Gp~GtGKT~l~~ala~   63 (265)
T d1r7ra3          41 SKGVLFYGPPGCGKTLLAKAIAN   63 (265)
T ss_dssp             CCEEEEBCCTTSSHHHHHHHHHH
T ss_pred             CCeEEEECCCCCcchhHHHHHHH
Confidence            34689999999999999998874

>d1ko7a2 c.91.1.2 (A:130-298) HPr kinase HprK C-terminal domain {Staphylococcus xylosus [TaxId: 1288]}

class: Alpha and beta proteins (a/b)
fold: PEP carboxykinase-like
superfamily: PEP carboxykinase-like
family: HPr kinase HprK C-terminal domain
domain: HPr kinase HprK C-terminal domain
species: Staphylococcus xylosus [TaxId: 1288]

Probab=96.25  E-value=0.0026  Score=34.50  Aligned_cols=24  Identities=25%  Similarity=0.372  Sum_probs=20.3

Q ss_pred             eeEEEEeCCCCCHHHHHHHHHhCc
Q psy2514          13 GTVVIVGNGAVGKSSMIQRYCRGT   36 (71)
Q Consensus        13 ~ki~v~G~~~vGKtsl~~~~~~~~   36 (71)
                      .-+++.|++|+|||++...+...-
T Consensus        16 ~gvli~G~sg~GKS~la~~l~~~g   39 (169)
T d1ko7a2          16 VGVLITGDSGIGKSETALELIKRG   39 (169)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHTT
T ss_pred             EEEEEEeCCCCCHHHHHHHHHHcC
Confidence            568999999999999998877543

>d1gsia_ c.37.1.1 (A:) Thymidylate kinase {Mycobacterium tuberculosis [TaxId: 1773]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Thymidylate kinase
species: Mycobacterium tuberculosis [TaxId: 1773]

Probab=96.24  E-value=0.0022  Score=34.70  Aligned_cols=20  Identities=20%  Similarity=0.511  Sum_probs=17.4

Q ss_pred             eEEEEeCCCCCHHHHHHHHH
Q psy2514          14 TVVIVGNGAVGKSSMIQRYC   33 (71)
Q Consensus        14 ki~v~G~~~vGKtsl~~~~~   33 (71)
                      -|++-|..|+||||++..+.
T Consensus         2 lI~ieG~dGsGKST~~~~L~   21 (208)
T d1gsia_           2 LIAIEGVDGAGKRTLVEKLS   21 (208)
T ss_dssp             EEEEECSTTSSHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHH
Confidence            47888999999999988765

>d2a5yb3 c.37.1.20 (B:109-385) CED-4, NB-ARC domain {Caenorhabditis elegans [TaxId: 6239]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: CED-4, NB-ARC domain
species: Caenorhabditis elegans [TaxId: 6239]

Probab=96.23  E-value=0.0019  Score=37.08  Aligned_cols=23  Identities=17%  Similarity=0.187  Sum_probs=19.2

Q ss_pred             eeeEEEEeCCCCCHHHHHHHHHh
Q psy2514          12 KGTVVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus        12 ~~ki~v~G~~~vGKtsl~~~~~~   34 (71)
                      ..-+.+.|.+|+|||+|+..+.+
T Consensus        44 ~~~v~I~GmgGiGKTtLA~~v~~   66 (277)
T d2a5yb3          44 SFFLFLHGRAGSGKSVIASQALS   66 (277)
T ss_dssp             SEEEEEECSTTSSHHHHHHHHHH
T ss_pred             ceEEEEECCCCCCHHHHHHHHHH
Confidence            34578999999999999988754

>d1uf9a_ c.37.1.1 (A:) Dephospho-CoA kinase {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Dephospho-CoA kinase
species: Thermus thermophilus [TaxId: 274]

Probab=96.19  E-value=0.0042  Score=33.31  Aligned_cols=22  Identities=27%  Similarity=0.208  Sum_probs=18.6

Q ss_pred             eeEEEEeCCCCCHHHHHHHHHh
Q psy2514          13 GTVVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus        13 ~ki~v~G~~~vGKtsl~~~~~~   34 (71)
                      +-|.+.|.+|+|||+++..+..
T Consensus         4 ~IIgitG~~gSGKstva~~l~~   25 (191)
T d1uf9a_           4 IIIGITGNIGSGKSTVAALLRS   25 (191)
T ss_dssp             EEEEEEECTTSCHHHHHHHHHH
T ss_pred             EEEEEECCCCCCHHHHHHHHHH
Confidence            5677889999999999887754

>d1l8qa2 c.37.1.20 (A:77-289) Chromosomal replication initiation factor DnaA {Aquifex aeolicus [TaxId: 63363]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Chromosomal replication initiation factor DnaA
species: Aquifex aeolicus [TaxId: 63363]

Probab=96.04  E-value=0.0027  Score=35.24  Aligned_cols=21  Identities=24%  Similarity=0.396  Sum_probs=18.3

Q ss_pred             EEEEeCCCCCHHHHHHHHHhC
Q psy2514          15 VVIVGNGAVGKSSMIQRYCRG   35 (71)
Q Consensus        15 i~v~G~~~vGKtsl~~~~~~~   35 (71)
                      +++.|++|+|||.|++.++..
T Consensus        39 l~l~G~~G~GKTHLl~A~~~~   59 (213)
T d1l8qa2          39 IFIYGSVGTGKTHLLQAAGNE   59 (213)
T ss_dssp             EEEECSSSSSHHHHHHHHHHH
T ss_pred             EEEECCCCCcHHHHHHHHHHH
Confidence            788999999999999877653

>d1svma_ c.37.1.20 (A:) Papillomavirus large T antigen helicase domain {Simian virus 40 [TaxId: 10633]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Papillomavirus large T antigen helicase domain
species: Simian virus 40 [TaxId: 10633]

Probab=95.93  E-value=0.0038  Score=37.39  Aligned_cols=25  Identities=16%  Similarity=0.069  Sum_probs=20.5

Q ss_pred             CceeeeEEEEeCCCCCHHHHHHHHH
Q psy2514           9 GSIKGTVVIVGNGAVGKSSMIQRYC   33 (71)
Q Consensus         9 ~~~~~ki~v~G~~~vGKtsl~~~~~   33 (71)
                      .+..--+++.|++|+|||+++..++
T Consensus       151 ~~~~~~~~~~g~~~~gk~~~~~~~~  175 (362)
T d1svma_         151 IPKKRYWLFKGPIDSGKTTLAAALL  175 (362)
T ss_dssp             CTTCCEEEEECSTTSSHHHHHHHHH
T ss_pred             CCCcCeEEEECCCCCCHHHHHHHHH
Confidence            3445578999999999999998766

>d1sq5a_ c.37.1.6 (A:) Pantothenate kinase PanK {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Phosphoribulokinase/pantothenate kinase
domain: Pantothenate kinase PanK
species: Escherichia coli [TaxId: 562]

Probab=95.92  E-value=0.0049  Score=36.27  Aligned_cols=23  Identities=35%  Similarity=0.352  Sum_probs=19.5

Q ss_pred             eeeeEEEEeCCCCCHHHHHHHHH
Q psy2514          11 IKGTVVIVGNGAVGKSSMIQRYC   33 (71)
Q Consensus        11 ~~~ki~v~G~~~vGKtsl~~~~~   33 (71)
                      ..+-|.+.|.+|+|||++++.+.
T Consensus        79 ~P~iIGIaG~sgSGKSTla~~L~  101 (308)
T d1sq5a_          79 IPYIISIAGSVAVGKSTTARVLQ  101 (308)
T ss_dssp             CCEEEEEEECTTSSHHHHHHHHH
T ss_pred             CCEEEEEeCCCCCCCcHHHHHHH
Confidence            34788899999999999988765

>d1w44a_ c.37.1.11 (A:) NTPase P4 {Bacteriophage phi-12 [TaxId: 161736]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: NTPase P4
species: Bacteriophage phi-12 [TaxId: 161736]

Probab=95.86  E-value=0.0034  Score=37.24  Aligned_cols=20  Identities=25%  Similarity=0.649  Sum_probs=16.9

Q ss_pred             EEEEeCCCCCHHHHHHHHHh
Q psy2514          15 VVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus        15 i~v~G~~~vGKtsl~~~~~~   34 (71)
                      +++.|++|+|||.+.+.+..
T Consensus       126 ~l~~G~pG~GKT~la~ala~  145 (321)
T d1w44a_         126 VIVTGKGNSGKTPLVHALGE  145 (321)
T ss_dssp             EEEECSSSSCHHHHHHHHHH
T ss_pred             EEEECCCCccHHHHHHHHHH
Confidence            45579999999999998774

>d1nija1 c.37.1.10 (A:2-223) Hypothetical protein YjiA, N-terminal domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Hypothetical protein YjiA, N-terminal domain
species: Escherichia coli [TaxId: 562]

Probab=95.75  E-value=0.0034  Score=35.04  Aligned_cols=21  Identities=14%  Similarity=0.352  Sum_probs=18.6

Q ss_pred             EEEEeCCCCCHHHHHHHHHhC
Q psy2514          15 VVIVGNGAVGKSSMIQRYCRG   35 (71)
Q Consensus        15 i~v~G~~~vGKtsl~~~~~~~   35 (71)
                      .++.|-.|+|||||+++++..
T Consensus         6 ~iitGFLGaGKTTll~~lL~~   26 (222)
T d1nija1           6 TLLTGFLGAGKTTLLRHILNE   26 (222)
T ss_dssp             EEEEESSSSSCHHHHHHHHHS
T ss_pred             EEEeeCCCCCHHHHHHHHHhc
Confidence            577799999999999999875

>d1nlfa_ c.37.1.11 (A:) Hexameric replicative helicase repA {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Hexameric replicative helicase repA
species: Escherichia coli [TaxId: 562]

Probab=95.75  E-value=0.0044  Score=34.82  Aligned_cols=20  Identities=25%  Similarity=0.370  Sum_probs=17.0

Q ss_pred             EEEEeCCCCCHHHHHHHHHh
Q psy2514          15 VVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus        15 i~v~G~~~vGKtsl~~~~~~   34 (71)
                      .++.|++|+|||+|+.+++.
T Consensus        32 ~~i~G~~G~GKS~l~l~la~   51 (274)
T d1nlfa_          32 GALVSPGGAGKSMLALQLAA   51 (274)
T ss_dssp             EEEEESTTSSHHHHHHHHHH
T ss_pred             EEEEeCCCCCHHHHHHHHHH
Confidence            56789999999999988763

>d1njfa_ c.37.1.20 (A:) delta prime subunit of DNA polymerase III, N-domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: delta prime subunit of DNA polymerase III, N-domain
species: Escherichia coli [TaxId: 562]

Probab=95.72  E-value=0.0045  Score=34.54  Aligned_cols=21  Identities=24%  Similarity=0.461  Sum_probs=17.9

Q ss_pred             eEEEEeCCCCCHHHHHHHHHh
Q psy2514          14 TVVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus        14 ki~v~G~~~vGKtsl~~~~~~   34 (71)
                      .+++.|++|+|||+++..++.
T Consensus        36 ~~Ll~Gp~G~GKtt~a~~~~~   56 (239)
T d1njfa_          36 AYLFSGTRGVGKTSIARLLAK   56 (239)
T ss_dssp             EEEEECSTTSSHHHHHHHHHH
T ss_pred             eEEEECCCCCcHHHHHHHHHH
Confidence            478889999999999887764

>d4tmka_ c.37.1.1 (A:) Thymidylate kinase {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Thymidylate kinase
species: Escherichia coli [TaxId: 562]

Probab=95.71  E-value=0.0052  Score=33.46  Aligned_cols=20  Identities=25%  Similarity=0.330  Sum_probs=16.9

Q ss_pred             EEEEeCCCCCHHHHHHHHHh
Q psy2514          15 VVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus        15 i~v~G~~~vGKtsl~~~~~~   34 (71)
                      |++-|..|+||||++..+..
T Consensus         5 IviEG~dGsGKsT~~~~L~~   24 (210)
T d4tmka_           5 IVIEGLEGAGKTTARNVVVE   24 (210)
T ss_dssp             EEEEECTTSCHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHH
Confidence            67779999999999887653

>d1cr2a_ c.37.1.11 (A:) Gene 4 protein (g4p, DNA primase), helicase domain {Bacteriophage T7 [TaxId: 10760]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Gene 4 protein (g4p, DNA primase), helicase domain
species: Bacteriophage T7 [TaxId: 10760]

Probab=95.68  E-value=0.0045  Score=34.91  Aligned_cols=20  Identities=15%  Similarity=0.483  Sum_probs=17.1

Q ss_pred             EEEEeCCCCCHHHHHHHHHh
Q psy2514          15 VVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus        15 i~v~G~~~vGKtsl~~~~~~   34 (71)
                      +++.|.+|+|||+|+.+++.
T Consensus        38 ~vi~G~~G~GKT~~~~~la~   57 (277)
T d1cr2a_          38 IMVTSGSGMGKSTFVRQQAL   57 (277)
T ss_dssp             EEEECSTTSSHHHHHHHHHH
T ss_pred             EEEEeCCCCCHHHHHHHHHH
Confidence            56789999999999888774

>d1a5ta2 c.37.1.20 (A:1-207) delta prime subunit of DNA polymerase III, N-domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: delta prime subunit of DNA polymerase III, N-domain
species: Escherichia coli [TaxId: 562]

Probab=95.65  E-value=0.0052  Score=33.79  Aligned_cols=25  Identities=16%  Similarity=0.231  Sum_probs=20.4

Q ss_pred             ceeeeEEEEeCCCCCHHHHHHHHHh
Q psy2514          10 SIKGTVVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus        10 ~~~~ki~v~G~~~vGKtsl~~~~~~   34 (71)
                      ...-.+++.|++|+|||+++..++.
T Consensus        22 ~l~h~lLl~Gp~G~GKtt~a~~~a~   46 (207)
T d1a5ta2          22 RGHHALLIQALPGMGDDALIYALSR   46 (207)
T ss_dssp             CCCSEEEEECCTTSCHHHHHHHHHH
T ss_pred             CcCeEEEEECCCCCcHHHHHHHHHH
Confidence            3334589999999999999998775

>d1vhta_ c.37.1.1 (A:) Dephospho-CoA kinase {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Dephospho-CoA kinase
species: Escherichia coli [TaxId: 562]

Probab=95.64  E-value=0.0073  Score=33.06  Aligned_cols=25  Identities=20%  Similarity=0.254  Sum_probs=19.9

Q ss_pred             eeEEEEeCCCCCHHHHHHHHHhCcC
Q psy2514          13 GTVVIVGNGAVGKSSMIQRYCRGTF   37 (71)
Q Consensus        13 ~ki~v~G~~~vGKtsl~~~~~~~~f   37 (71)
                      +-|.+.|..|+|||+++..+....+
T Consensus         4 ~iIgitG~igSGKStv~~~l~~~G~   28 (208)
T d1vhta_           4 YIVALTGGIGSGKSTVANAFADLGI   28 (208)
T ss_dssp             EEEEEECCTTSCHHHHHHHHHHTTC
T ss_pred             EEEEEECCCcCCHHHHHHHHHHCCC
Confidence            5577899999999999987764433

>d1p5zb_ c.37.1.1 (B:) Deoxycytidine kinase {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Deoxycytidine kinase
species: Human (Homo sapiens) [TaxId: 9606]

Probab=95.42  E-value=0.0033  Score=34.57  Aligned_cols=22  Identities=32%  Similarity=0.407  Sum_probs=18.7

Q ss_pred             eeEEEEeCCCCCHHHHHHHHHh
Q psy2514          13 GTVVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus        13 ~ki~v~G~~~vGKtsl~~~~~~   34 (71)
                      -.|++-|..|+||||++..+..
T Consensus         3 k~I~ieG~dGsGKST~~~~L~~   24 (241)
T d1p5zb_           3 KKISIEGNIAAGKSTFVNILKQ   24 (241)
T ss_dssp             EEEEEECSTTSSHHHHHTTTGG
T ss_pred             CEEEEECCCCCCHHHHHHHHHH
Confidence            4578889999999999997764

>d1cp2a_ c.37.1.10 (A:) Nitrogenase iron protein {Clostridium pasteurianum [TaxId: 1501]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Nitrogenase iron protein
species: Clostridium pasteurianum [TaxId: 1501]

Probab=95.36  E-value=0.0084  Score=33.70  Aligned_cols=20  Identities=40%  Similarity=0.647  Sum_probs=17.1

Q ss_pred             eEEEEeCCCCCHHHHHHHHH
Q psy2514          14 TVVIVGNGAVGKSSMIQRYC   33 (71)
Q Consensus        14 ki~v~G~~~vGKtsl~~~~~   33 (71)
                      +|++.|..||||||+...+.
T Consensus         3 ~Iai~gKGGvGKTT~a~nLA   22 (269)
T d1cp2a_           3 QVAIYGKGGIGKSTTTQNLT   22 (269)
T ss_dssp             EEEEEECTTSSHHHHHHHHH
T ss_pred             EEEEECCCcCCHHHHHHHHH
Confidence            57788999999999988765

>d1nn5a_ c.37.1.1 (A:) Thymidylate kinase {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Thymidylate kinase
species: Human (Homo sapiens) [TaxId: 9606]

Probab=95.35  E-value=0.0082  Score=33.05  Aligned_cols=19  Identities=26%  Similarity=0.462  Sum_probs=15.7

Q ss_pred             EEEEeCCCCCHHHHHHHHH
Q psy2514          15 VVIVGNGAVGKSSMIQRYC   33 (71)
Q Consensus        15 i~v~G~~~vGKtsl~~~~~   33 (71)
                      |++-|..|+||||++..+.
T Consensus         6 I~ieG~dGsGKsT~~~~L~   24 (209)
T d1nn5a_           6 IVLEGVDRAGKSTQSRKLV   24 (209)
T ss_dssp             EEEEESTTSSHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHH
Confidence            6667999999999777654

>d1e69a_ c.37.1.12 (A:) Smc head domain {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Smc head domain
species: Thermotoga maritima [TaxId: 2336]

Probab=95.31  E-value=0.0033  Score=35.83  Aligned_cols=17  Identities=41%  Similarity=0.630  Sum_probs=14.8

Q ss_pred             EEEeCCCCCHHHHHHHH
Q psy2514          16 VIVGNGAVGKSSMIQRY   32 (71)
Q Consensus        16 ~v~G~~~vGKtsl~~~~   32 (71)
                      +++|+.|+|||+++..+
T Consensus        28 vlvG~NgsGKS~iL~Ai   44 (308)
T d1e69a_          28 AIVGPNGSGKSNIIDAI   44 (308)
T ss_dssp             EEECCTTTCSTHHHHHH
T ss_pred             EEECCCCCcHHHHHHHH
Confidence            67799999999998755

>d1xpua3 c.37.1.11 (A:129-417) Transcription termination factor Rho, ATPase domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Transcription termination factor Rho, ATPase domain
species: Escherichia coli [TaxId: 562]

Probab=95.30  E-value=0.0091  Score=34.89  Aligned_cols=24  Identities=21%  Similarity=0.300  Sum_probs=20.6

Q ss_pred             eeeEEEEeCCCCCHHHHHHHHHhC
Q psy2514          12 KGTVVIVGNGAVGKSSMIQRYCRG   35 (71)
Q Consensus        12 ~~ki~v~G~~~vGKtsl~~~~~~~   35 (71)
                      .-|+.++|++|+|||+|+...+.+
T Consensus        43 GQr~~I~g~~g~GKT~l~~~i~~~   66 (289)
T d1xpua3          43 GQRGLIVAPPKAGKTMLLQNIAQS   66 (289)
T ss_dssp             TCEEEEEECSSSSHHHHHHHHHHH
T ss_pred             CCeeeEeCCCCCCHHHHHHHHHHH
Confidence            458899999999999999887753

>d1jjva_ c.37.1.1 (A:) Dephospho-CoA kinase {Haemophilus influenzae [TaxId: 727]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Dephospho-CoA kinase
species: Haemophilus influenzae [TaxId: 727]

Probab=95.29  E-value=0.012  Score=31.98  Aligned_cols=22  Identities=18%  Similarity=0.268  Sum_probs=18.5

Q ss_pred             eeEEEEeCCCCCHHHHHHHHHh
Q psy2514          13 GTVVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus        13 ~ki~v~G~~~vGKtsl~~~~~~   34 (71)
                      +-|.+.|..|+|||+++..+..
T Consensus         3 ~iIgITG~igSGKStv~~~l~~   24 (205)
T d1jjva_           3 YIVGLTGGIGSGKTTIANLFTD   24 (205)
T ss_dssp             EEEEEECSTTSCHHHHHHHHHT
T ss_pred             EEEEEECCCCCCHHHHHHHHHH
Confidence            5678999999999999887653

>d1qhla_ c.37.1.12 (A:) Cell division protein MukB {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Cell division protein MukB
species: Escherichia coli [TaxId: 562]

Probab=95.21  E-value=0.00077  Score=35.67  Aligned_cols=18  Identities=22%  Similarity=0.547  Sum_probs=15.3

Q ss_pred             EEEeCCCCCHHHHHHHHH
Q psy2514          16 VIVGNGAVGKSSMIQRYC   33 (71)
Q Consensus        16 ~v~G~~~vGKtsl~~~~~   33 (71)
                      +++|+.|+|||+++..+.
T Consensus        28 vi~G~NGsGKStil~Ai~   45 (222)
T d1qhla_          28 TLSGGNGAGKSTTMAAFV   45 (222)
T ss_dssp             HHHSCCSHHHHHHHHHHH
T ss_pred             EEECCCCCCHHHHHHHHH
Confidence            456999999999999765

>d1a7ja_ c.37.1.6 (A:) Phosphoribulokinase {Rhodobacter sphaeroides [TaxId: 1063]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Phosphoribulokinase/pantothenate kinase
domain: Phosphoribulokinase
species: Rhodobacter sphaeroides [TaxId: 1063]

Probab=95.18  E-value=0.0024  Score=37.37  Aligned_cols=20  Identities=15%  Similarity=0.433  Sum_probs=14.3

Q ss_pred             eEEEEeCCCCCHHHHHHHHH
Q psy2514          14 TVVIVGNGAVGKSSMIQRYC   33 (71)
Q Consensus        14 ki~v~G~~~vGKtsl~~~~~   33 (71)
                      =|.+.|.+|+|||++...+.
T Consensus         6 IIgIaG~SGSGKTTva~~l~   25 (288)
T d1a7ja_           6 IISVTGSSGAGTSTVKHTFD   25 (288)
T ss_dssp             EEEEESCC---CCTHHHHHH
T ss_pred             EEEEECCCCCcHHHHHHHHH
Confidence            37899999999999998764

>d1qvra3 c.37.1.20 (A:536-850) ClpB, AAA+ modules {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: ClpB, AAA+ modules
species: Thermus thermophilus [TaxId: 274]

Probab=95.12  E-value=0.0099  Score=34.81  Aligned_cols=22  Identities=23%  Similarity=0.546  Sum_probs=18.4

Q ss_pred             eeEEEEeCCCCCHHHHHHHHHh
Q psy2514          13 GTVVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus        13 ~ki~v~G~~~vGKtsl~~~~~~   34 (71)
                      .-++++|++|+|||.++..+..
T Consensus        54 ~~~lf~Gp~G~GKt~lak~la~   75 (315)
T d1qvra3          54 GSFLFLGPTGVGKTELAKTLAA   75 (315)
T ss_dssp             EEEEEBSCSSSSHHHHHHHHHH
T ss_pred             eEEEEECCCcchHHHHHHHHHH
Confidence            3578889999999999887764

>d1w1wa_ c.37.1.12 (A:) Smc head domain {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Smc head domain
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=95.01  E-value=0.0084  Score=35.20  Aligned_cols=18  Identities=33%  Similarity=0.577  Sum_probs=15.5

Q ss_pred             EEEeCCCCCHHHHHHHHH
Q psy2514          16 VIVGNGAVGKSSMIQRYC   33 (71)
Q Consensus        16 ~v~G~~~vGKtsl~~~~~   33 (71)
                      +++|+.|+|||+++..+.
T Consensus        29 ~i~G~NGsGKS~ileAi~   46 (427)
T d1w1wa_          29 SIIGPNGSGKSNMMDAIS   46 (427)
T ss_dssp             EEECSTTSSHHHHHHHHH
T ss_pred             EEECCCCCCHHHHHHHHH
Confidence            577999999999998764

>d2ocpa1 c.37.1.1 (A:37-277) Deoxyguanosine kinase {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Deoxyguanosine kinase
species: Human (Homo sapiens) [TaxId: 9606]

Probab=95.01  E-value=0.012  Score=32.37  Aligned_cols=21  Identities=38%  Similarity=0.542  Sum_probs=17.7

Q ss_pred             eEEEEeCCCCCHHHHHHHHHh
Q psy2514          14 TVVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus        14 ki~v~G~~~vGKtsl~~~~~~   34 (71)
                      -|++=|..|+||||++..+..
T Consensus         4 ~IviEG~~GsGKST~~~~L~~   24 (241)
T d2ocpa1           4 RLSIEGNIAVGKSTFVKLLTK   24 (241)
T ss_dssp             EEEEEECTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCCcHHHHHHHHHH
Confidence            467789999999999988764

>d1odfa_ c.37.1.6 (A:) Hypothetical protein Ygr205W {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Phosphoribulokinase/pantothenate kinase
domain: Hypothetical protein Ygr205W
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=94.95  E-value=0.016  Score=33.69  Aligned_cols=23  Identities=17%  Similarity=0.065  Sum_probs=18.4

Q ss_pred             eeeeEEEEeCCCCCHHHHHHHHH
Q psy2514          11 IKGTVVIVGNGAVGKSSMIQRYC   33 (71)
Q Consensus        11 ~~~ki~v~G~~~vGKtsl~~~~~   33 (71)
                      ..+=|.+-|.+|+|||++...+.
T Consensus        26 ~P~iIGi~G~qGSGKSTl~~~l~   48 (286)
T d1odfa_          26 CPLFIFFSGPQGSGKSFTSIQIY   48 (286)
T ss_dssp             SCEEEEEECCTTSSHHHHHHHHH
T ss_pred             CCEEEEeECCCCCCHHHHHHHHH
Confidence            34677889999999999887553

>d1e9ra_ c.37.1.11 (A:) Bacterial conjugative coupling protein TrwB {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Bacterial conjugative coupling protein TrwB
species: Escherichia coli [TaxId: 562]

Probab=94.80  E-value=0.013  Score=34.90  Aligned_cols=24  Identities=17%  Similarity=0.333  Sum_probs=19.4

Q ss_pred             eeEEEEeCCCCCHHHHHHHHHhCc
Q psy2514          13 GTVVIVGNGAVGKSSMIQRYCRGT   36 (71)
Q Consensus        13 ~ki~v~G~~~vGKtsl~~~~~~~~   36 (71)
                      -.++++|.+|+|||+++..++...
T Consensus        51 ~H~~I~G~tGsGKT~~l~~li~~~   74 (433)
T d1e9ra_          51 RHLLVNGATGTGKSVLLRELAYTG   74 (433)
T ss_dssp             GCEEEEECTTSSHHHHHHHHHHHH
T ss_pred             ceEEEEeCCCCcHHHHHHHHHHHH
Confidence            458999999999999887766443

>d2afhe1 c.37.1.10 (E:1-289) Nitrogenase iron protein {Azotobacter vinelandii [TaxId: 354]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Nitrogenase iron protein
species: Azotobacter vinelandii [TaxId: 354]

Probab=94.77  E-value=0.016  Score=32.96  Aligned_cols=20  Identities=35%  Similarity=0.599  Sum_probs=16.5

Q ss_pred             eEEEEeCCCCCHHHHHHHHH
Q psy2514          14 TVVIVGNGAVGKSSMIQRYC   33 (71)
Q Consensus        14 ki~v~G~~~vGKtsl~~~~~   33 (71)
                      +|++-|..|||||++...+.
T Consensus         4 ~IaisgKGGVGKTT~a~NLA   23 (289)
T d2afhe1           4 QCAIYGKGGIGKSTTTQNLV   23 (289)
T ss_dssp             EEEEEECTTSSHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHH
Confidence            56778999999999877654

>d1pjra1 c.37.1.19 (A:1-318) DEXX box DNA helicase {Bacillus stearothermophilus, PcrA [TaxId: 1422]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Tandem AAA-ATPase domain
domain: DEXX box DNA helicase
species: Bacillus stearothermophilus, PcrA [TaxId: 1422]

Probab=94.51  E-value=0.015  Score=33.22  Aligned_cols=17  Identities=18%  Similarity=0.505  Sum_probs=14.1

Q ss_pred             eEEEEeCCCCCHHHHHH
Q psy2514          14 TVVIVGNGAVGKSSMIQ   30 (71)
Q Consensus        14 ki~v~G~~~vGKtsl~~   30 (71)
                      -++|.|.+|+|||+.+.
T Consensus        26 ~~lV~g~aGSGKTt~l~   42 (318)
T d1pjra1          26 PLLIMAGAGSGKTRVLT   42 (318)
T ss_dssp             CEEEEECTTSCHHHHHH
T ss_pred             CEEEEecCCccHHHHHH
Confidence            37888999999997654

>d1tmka_ c.37.1.1 (A:) Thymidylate kinase {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Thymidylate kinase
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=94.50  E-value=0.019  Score=31.55  Aligned_cols=20  Identities=20%  Similarity=0.290  Sum_probs=17.2

Q ss_pred             eEEEEeCCCCCHHHHHHHHH
Q psy2514          14 TVVIVGNGAVGKSSMIQRYC   33 (71)
Q Consensus        14 ki~v~G~~~vGKtsl~~~~~   33 (71)
                      =|++-|..|+||||++..+.
T Consensus         5 ~I~iEG~DGsGKST~~~~L~   24 (214)
T d1tmka_           5 LILIEGLDRTGKTTQCNILY   24 (214)
T ss_dssp             EEEEEESTTSSHHHHHHHHH
T ss_pred             EEEEECCCCCcHHHHHHHHH
Confidence            37888999999999888765

>d1ihua1 c.37.1.10 (A:1-296) Arsenite-translocating ATPase ArsA {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Arsenite-translocating ATPase ArsA
species: Escherichia coli [TaxId: 562]

Probab=94.40  E-value=0.025  Score=31.76  Aligned_cols=20  Identities=30%  Similarity=0.479  Sum_probs=15.3

Q ss_pred             eEEEEeCCCCCHHHHHHHHH
Q psy2514          14 TVVIVGNGAVGKSSMIQRYC   33 (71)
Q Consensus        14 ki~v~G~~~vGKtsl~~~~~   33 (71)
                      -+++.|..|||||++...+.
T Consensus        10 ~i~~sGKGGVGKTTvaa~lA   29 (296)
T d1ihua1          10 YLFFTGKGGVGKTSISCATA   29 (296)
T ss_dssp             EEEEECSTTSSHHHHHHHHH
T ss_pred             EEEEECCCcChHHHHHHHHH
Confidence            34678999999999766544

>d2jdid3 c.37.1.11 (D:82-357) Central domain of beta subunit of F1 ATP synthase {Rat (Rattus norvegicus) [TaxId: 10116]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Central domain of beta subunit of F1 ATP synthase
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=94.38  E-value=0.017  Score=33.51  Aligned_cols=24  Identities=25%  Similarity=0.498  Sum_probs=20.6

Q ss_pred             eeeEEEEeCCCCCHHHHHHHHHhC
Q psy2514          12 KGTVVIVGNGAVGKSSMIQRYCRG   35 (71)
Q Consensus        12 ~~ki~v~G~~~vGKtsl~~~~~~~   35 (71)
                      .-|+.+.|++++|||+|+...+.+
T Consensus        68 GQr~~If~~~g~GKt~l~~~i~~~   91 (276)
T d2jdid3          68 GGKIGLFGGAGVGKTVLIMELINN   91 (276)
T ss_dssp             TCEEEEEECTTSSHHHHHHHHHHH
T ss_pred             CCEEEeeCCCCCCHHHHHHHHHHH
Confidence            357899999999999999988754

>d1p6xa_ c.37.1.1 (A:) Thymidine kinase {Equine herpesvirus type 4 [TaxId: 10331]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Thymidine kinase
species: Equine herpesvirus type 4 [TaxId: 10331]

Probab=94.33  E-value=0.02  Score=33.87  Aligned_cols=24  Identities=17%  Similarity=0.109  Sum_probs=20.7

Q ss_pred             eeeeEEEEeCCCCCHHHHHHHHHh
Q psy2514          11 IKGTVVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus        11 ~~~ki~v~G~~~vGKtsl~~~~~~   34 (71)
                      ..++|++=|.-|+||||++..+..
T Consensus         5 ~~~rI~iEG~iGsGKSTl~~~L~~   28 (333)
T d1p6xa_           5 TIVRIYLDGVYGIGKSTTGRVMAS   28 (333)
T ss_dssp             EEEEEEEECSTTSSHHHHHHHHHS
T ss_pred             ceEEEEEECCccCCHHHHHHHHHH
Confidence            357899999999999999987764

>d1tuea_ c.37.1.20 (A:) Replication protein E1 helicase domain {Human papillomavirus type 18 [TaxId: 333761]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Replication protein E1 helicase domain
species: Human papillomavirus type 18 [TaxId: 333761]

Probab=94.32  E-value=0.0093  Score=33.30  Aligned_cols=27  Identities=22%  Similarity=0.240  Sum_probs=21.6

Q ss_pred             ccCceeeeEEEEeCCCCCHHHHHHHHH
Q psy2514           7 LRGSIKGTVVIVGNGAVGKSSMIQRYC   33 (71)
Q Consensus         7 ~~~~~~~ki~v~G~~~vGKtsl~~~~~   33 (71)
                      ...+++--+++.|++++|||.++..++
T Consensus        48 ~~~PKkn~i~~~GP~~TGKS~f~~sl~   74 (205)
T d1tuea_          48 KGTPKKNCLVFCGPANTGKSYFGMSFI   74 (205)
T ss_dssp             HTCTTCSEEEEESCGGGCHHHHHHHHH
T ss_pred             cCCCCceEEEEECCCCccHHHHHHHHH
Confidence            345566778899999999999887655

>d1uaaa1 c.37.1.19 (A:2-307) DEXX box DNA helicase {Escherichia coli, RepD [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Tandem AAA-ATPase domain
domain: DEXX box DNA helicase
species: Escherichia coli, RepD [TaxId: 562]

Probab=94.31  E-value=0.0099  Score=33.58  Aligned_cols=16  Identities=19%  Similarity=0.507  Sum_probs=13.4

Q ss_pred             EEEEeCCCCCHHHHHH
Q psy2514          15 VVIVGNGAVGKSSMIQ   30 (71)
Q Consensus        15 i~v~G~~~vGKtsl~~   30 (71)
                      ++|+|.+|+|||+.+.
T Consensus        17 ~lI~g~aGTGKTt~l~   32 (306)
T d1uaaa1          17 CLVLAGAGSGKTRVIT   32 (306)
T ss_dssp             EEECCCTTSCHHHHHH
T ss_pred             EEEEeeCCccHHHHHH
Confidence            6788999999997653

>d1byia_ c.37.1.10 (A:) Dethiobiotin synthetase {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Dethiobiotin synthetase
species: Escherichia coli [TaxId: 562]

Probab=94.31  E-value=0.025  Score=30.27  Aligned_cols=21  Identities=19%  Similarity=0.235  Sum_probs=17.1

Q ss_pred             eeEEEEeCC-CCCHHHHHHHHH
Q psy2514          13 GTVVIVGNG-AVGKSSMIQRYC   33 (71)
Q Consensus        13 ~ki~v~G~~-~vGKtsl~~~~~   33 (71)
                      -|++|.|-. |||||++...++
T Consensus         2 ~~~~i~gt~~GVGKTtvs~~La   23 (224)
T d1byia_           2 KRYFVTGTDTEVGKTVASCALL   23 (224)
T ss_dssp             EEEEEEESSTTSCHHHHHHHHH
T ss_pred             ceEEEEECCCCccHHHHHHHHH
Confidence            478899985 999999877665

>d1ihua2 c.37.1.10 (A:308-586) Arsenite-translocating ATPase ArsA {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Arsenite-translocating ATPase ArsA
species: Escherichia coli [TaxId: 562]

Probab=94.16  E-value=0.021  Score=32.01  Aligned_cols=22  Identities=27%  Similarity=0.620  Sum_probs=15.6

Q ss_pred             eeeEEE-EeCCCCCHHHHHHHHH
Q psy2514          12 KGTVVI-VGNGAVGKSSMIQRYC   33 (71)
Q Consensus        12 ~~ki~v-~G~~~vGKtsl~~~~~   33 (71)
                      ..+|++ .|..|||||++...+.
T Consensus        19 ~~~iii~sGKGGVGKTT~a~nLA   41 (279)
T d1ihua2          19 EHGLIMLMGKGGVGKTTMAAAIA   41 (279)
T ss_dssp             SCEEEEEECSTTSSHHHHHHHHH
T ss_pred             CCEEEEEECCCCCCHHHHHHHHH
Confidence            344444 4999999999766554

>d1e2ka_ c.37.1.1 (A:) Thymidine kinase {Herpes simplex virus type 1, different strains [TaxId: 10298]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Thymidine kinase
species: Herpes simplex virus type 1, different strains [TaxId: 10298]

Probab=94.03  E-value=0.02  Score=33.86  Aligned_cols=24  Identities=25%  Similarity=0.196  Sum_probs=20.3

Q ss_pred             eeeeEEEEeCCCCCHHHHHHHHHh
Q psy2514          11 IKGTVVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus        11 ~~~ki~v~G~~~vGKtsl~~~~~~   34 (71)
                      ...+|.+=|.-|+||||+++.+..
T Consensus         3 ~~lrI~IEG~iGsGKTTl~~~La~   26 (329)
T d1e2ka_           3 TLLRVYIDGPHGMGKTTTTQLLVA   26 (329)
T ss_dssp             EEEEEEECSCTTSSHHHHHHHHTC
T ss_pred             CceEEEEECCcCCCHHHHHHHHHH
Confidence            357799999999999999987753

>d1osna_ c.37.1.1 (A:) Thymidine kinase {Varicella-zoster virus [TaxId: 10335]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Thymidine kinase
species: Varicella-zoster virus [TaxId: 10335]

Probab=94.03  E-value=0.02  Score=33.84  Aligned_cols=25  Identities=12%  Similarity=0.178  Sum_probs=21.5

Q ss_pred             eeeeEEEEeCCCCCHHHHHHHHHhC
Q psy2514          11 IKGTVVIVGNGAVGKSSMIQRYCRG   35 (71)
Q Consensus        11 ~~~ki~v~G~~~vGKtsl~~~~~~~   35 (71)
                      ..++|++=|.-|+||||+++.+...
T Consensus         4 ~~lrI~IEG~iGsGKSTl~~~L~~~   28 (331)
T d1osna_           4 GVLRIYLDGAYGIGKTTAAEEFLHH   28 (331)
T ss_dssp             EEEEEEEEESSSSCTTHHHHHHHHT
T ss_pred             cceEEEEECCCCCCHHHHHHHHHHH
Confidence            4578999999999999999988653

>d1p9ra_ c.37.1.11 (A:) Extracellular secretion NTPase EpsE {Vibrio cholerae [TaxId: 666]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Extracellular secretion NTPase EpsE
species: Vibrio cholerae [TaxId: 666]

Probab=93.45  E-value=0.033  Score=33.49  Aligned_cols=23  Identities=22%  Similarity=0.388  Sum_probs=19.6

Q ss_pred             eeEEEEeCCCCCHHHHHHHHHhC
Q psy2514          13 GTVVIVGNGAVGKSSMIQRYCRG   35 (71)
Q Consensus        13 ~ki~v~G~~~vGKtsl~~~~~~~   35 (71)
                      =-+++.|+.|+|||+.+..++..
T Consensus       159 GliLvtGpTGSGKSTTl~~~l~~  181 (401)
T d1p9ra_         159 GIILVTGPTGSGKSTTLYAGLQE  181 (401)
T ss_dssp             EEEEEECSTTSCHHHHHHHHHHH
T ss_pred             ceEEEEcCCCCCccHHHHHHhhh
Confidence            34888999999999999988763

>d1u94a1 c.37.1.11 (A:6-268) RecA protein, ATPase-domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: RecA protein, ATPase-domain
species: Escherichia coli [TaxId: 562]

Probab=93.38  E-value=0.035  Score=31.71  Aligned_cols=21  Identities=24%  Similarity=0.333  Sum_probs=17.4

Q ss_pred             eEEEEeCCCCCHHHHHHHHHh
Q psy2514          14 TVVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus        14 ki~v~G~~~vGKtsl~~~~~~   34 (71)
                      =..+.|++++|||+|+.+++.
T Consensus        56 itei~G~~gsGKTtl~l~~~~   76 (263)
T d1u94a1          56 IVEIYGPESSGKTTLTLQVIA   76 (263)
T ss_dssp             EEEEECSTTSSHHHHHHHHHH
T ss_pred             EEEEecCCCcHHHHHHHHHHH
Confidence            356779999999999988763

>d1c9ka_ c.37.1.11 (A:) Adenosylcobinamide kinase/adenosylcobinamide phosphate guanylyltransferase CobU {Salmonella typhimurium [TaxId: 90371]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Adenosylcobinamide kinase/adenosylcobinamide phosphate guanylyltransferase CobU
species: Salmonella typhimurium [TaxId: 90371]

Probab=93.17  E-value=0.035  Score=30.17  Aligned_cols=21  Identities=19%  Similarity=0.362  Sum_probs=18.3

Q ss_pred             EEEEeCCCCCHHHHHHHHHhC
Q psy2514          15 VVIVGNGAVGKSSMIQRYCRG   35 (71)
Q Consensus        15 i~v~G~~~vGKtsl~~~~~~~   35 (71)
                      ++|+|...+|||.+..++...
T Consensus         2 iLVtGGarSGKS~~AE~l~~~   22 (180)
T d1c9ka_           2 ILVTGGARSGKSRHAEALIGD   22 (180)
T ss_dssp             EEEEECTTSSHHHHHHHHHCS
T ss_pred             EEEECCCCccHHHHHHHHHhc
Confidence            578999999999999998743

>d1ny5a2 c.37.1.20 (A:138-384) Transcriptional activator sigm54 (NtrC1), C-terminal domain {Aquifex aeolicus [TaxId: 63363]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Transcriptional activator sigm54 (NtrC1), C-terminal domain
species: Aquifex aeolicus [TaxId: 63363]

Probab=92.66  E-value=0.049  Score=30.64  Aligned_cols=21  Identities=29%  Similarity=0.417  Sum_probs=17.3

Q ss_pred             eeEEEEeCCCCCHHHHHHHHH
Q psy2514          13 GTVVIVGNGAVGKSSMIQRYC   33 (71)
Q Consensus        13 ~ki~v~G~~~vGKtsl~~~~~   33 (71)
                      .-+++.|++|+||+.+++.+.
T Consensus        24 ~pvlI~Ge~GtGK~~~A~~ih   44 (247)
T d1ny5a2          24 CPVLITGESGVGKEVVARLIH   44 (247)
T ss_dssp             SCEEEECSTTSSHHHHHHHHH
T ss_pred             CCEEEECCCCcCHHHHHHHHH
Confidence            457899999999998877654

>d1w36d1 c.37.1.19 (D:2-360) Exodeoxyribonuclease V alpha chain (RecD) {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Tandem AAA-ATPase domain
domain: Exodeoxyribonuclease V alpha chain (RecD)
species: Escherichia coli [TaxId: 562]

Probab=92.61  E-value=0.052  Score=32.25  Aligned_cols=18  Identities=28%  Similarity=0.529  Sum_probs=14.7

Q ss_pred             eEEEEeCCCCCHHHHHHH
Q psy2514          14 TVVIVGNGAVGKSSMIQR   31 (71)
Q Consensus        14 ki~v~G~~~vGKtsl~~~   31 (71)
                      -.++.|.+|+|||+.+..
T Consensus       165 ~~vI~G~pGTGKTt~i~~  182 (359)
T d1w36d1         165 ISVISGGPGTGKTTTVAK  182 (359)
T ss_dssp             EEEEECCTTSTHHHHHHH
T ss_pred             eEEEEcCCCCCceehHHH
Confidence            467789999999988754

>d1deka_ c.37.1.1 (A:) Deoxynucleoside monophosphate kinase {Bacteriophage T4 [TaxId: 10665]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Deoxynucleoside monophosphate kinase
species: Bacteriophage T4 [TaxId: 10665]

Probab=92.44  E-value=0.064  Score=29.38  Aligned_cols=21  Identities=14%  Similarity=0.188  Sum_probs=17.8

Q ss_pred             eEEEEeCCCCCHHHHHHHHHh
Q psy2514          14 TVVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus        14 ki~v~G~~~vGKtsl~~~~~~   34 (71)
                      -|.+.|..|+|||+.+..+..
T Consensus         3 iIgiTG~igSGKsTva~~l~e   23 (241)
T d1deka_           3 LIFLSGVKRSGKDTTADFIMS   23 (241)
T ss_dssp             EEEEECCTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            477889999999999887754

>d2jdia3 c.37.1.11 (A:95-379) Central domain of alpha subunit of F1 ATP synthase {Cow (Bos taurus) [TaxId: 9913]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Central domain of alpha subunit of F1 ATP synthase
species: Cow (Bos taurus) [TaxId: 9913]

Probab=91.69  E-value=0.063  Score=31.11  Aligned_cols=23  Identities=22%  Similarity=0.290  Sum_probs=19.4

Q ss_pred             eeeEEEEeCCCCCHHHHHHHHHh
Q psy2514          12 KGTVVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus        12 ~~ki~v~G~~~vGKtsl~~~~~~   34 (71)
                      .-|+.+.|.+++|||+++...+.
T Consensus        68 GQr~~If~~~g~GKt~ll~~~~~   90 (285)
T d2jdia3          68 GQRELIIGDRQTGKTSIAIDTII   90 (285)
T ss_dssp             TCBCEEEESTTSSHHHHHHHHHH
T ss_pred             CCEEEeecCCCCChHHHHHHHHH
Confidence            45788999999999999887764

>d1u0ja_ c.37.1.20 (A:) Rep 40 protein helicase domain {Adeno-associated virus 2, AAV2 [TaxId: 10804]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Rep 40 protein helicase domain
species: Adeno-associated virus 2, AAV2 [TaxId: 10804]

Probab=91.30  E-value=0.12  Score=29.42  Aligned_cols=26  Identities=15%  Similarity=0.313  Sum_probs=20.8

Q ss_pred             CceeeeEEEEeCCCCCHHHHHHHHHh
Q psy2514           9 GSIKGTVVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus         9 ~~~~~ki~v~G~~~vGKtsl~~~~~~   34 (71)
                      .+.+.-+++.|+++.|||.|+..+..
T Consensus       101 ~~k~n~~~l~G~~~tGKS~f~~~i~~  126 (267)
T d1u0ja_         101 FGKRNTIWLFGPATTGKTNIAEAIAH  126 (267)
T ss_dssp             STTCCEEEEECSTTSSHHHHHHHHHH
T ss_pred             CCccEEEEEEcCCCCCHHHHHHHHHH
Confidence            35566778889999999999987663

>d1g8fa3 c.37.1.15 (A:390-511) ATP sulfurylase C-terminal domain {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ATP sulfurylase C-terminal domain
domain: ATP sulfurylase C-terminal domain
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=91.12  E-value=0.11  Score=26.62  Aligned_cols=25  Identities=8%  Similarity=-0.008  Sum_probs=21.0

Q ss_pred             CceeeeEEEEeCCCCCHHHHHHHHH
Q psy2514           9 GSIKGTVVIVGNGAVGKSSMIQRYC   33 (71)
Q Consensus         9 ~~~~~ki~v~G~~~vGKtsl~~~~~   33 (71)
                      ....+-|++-|.+++||+++...+.
T Consensus         3 ~kqgf~i~~tg~~~~gk~~ia~al~   27 (122)
T d1g8fa3           3 PKQGFSIVLGNSLTVSREQLSIALL   27 (122)
T ss_dssp             GGCCEEEEECTTCCSCHHHHHHHHH
T ss_pred             CccceEEEEeCCCCCCHHHHHHHHH
Confidence            4456899999999999999887664

>d1fx0a3 c.37.1.11 (A:97-372) Central domain of alpha subunit of F1 ATP synthase {Spinach (Spinacia oleracea), chloroplast [TaxId: 3562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Central domain of alpha subunit of F1 ATP synthase
species: Spinach (Spinacia oleracea), chloroplast [TaxId: 3562]

Probab=91.03  E-value=0.092  Score=30.24  Aligned_cols=25  Identities=16%  Similarity=0.274  Sum_probs=20.1

Q ss_pred             eeeEEEEeCCCCCHHHHHHHHHhCc
Q psy2514          12 KGTVVIVGNGAVGKSSMIQRYCRGT   36 (71)
Q Consensus        12 ~~ki~v~G~~~vGKtsl~~~~~~~~   36 (71)
                      .-|+.++|.+++|||+|+.......
T Consensus        67 GQr~~Ifg~~g~GKt~l~~~~~~~~   91 (276)
T d1fx0a3          67 GQRELIIGDRQTGKTAVATDTILNQ   91 (276)
T ss_dssp             TCBCBEEESSSSSHHHHHHHHHHTC
T ss_pred             CceEeeccCCCCChHHHHHHHHhhh
Confidence            3578889999999999998766443

>d1xp8a1 c.37.1.11 (A:15-282) RecA protein, ATPase-domain {Deinococcus radiodurans [TaxId: 1299]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: RecA protein, ATPase-domain
species: Deinococcus radiodurans [TaxId: 1299]

Probab=89.92  E-value=0.16  Score=29.02  Aligned_cols=20  Identities=20%  Similarity=0.252  Sum_probs=16.6

Q ss_pred             eEEEEeCCCCCHHHHHHHHH
Q psy2514          14 TVVIVGNGAVGKSSMIQRYC   33 (71)
Q Consensus        14 ki~v~G~~~vGKtsl~~~~~   33 (71)
                      -..+-|++++|||+|+.+++
T Consensus        59 itei~G~~~sGKT~l~l~~~   78 (268)
T d1xp8a1          59 ITEIYGPESGGKTTLALAIV   78 (268)
T ss_dssp             EEEEEESTTSSHHHHHHHHH
T ss_pred             EEEEecCCccchHHHHHHHH
Confidence            34567999999999998776

>d1mo6a1 c.37.1.11 (A:1-269) RecA protein, ATPase-domain {Mycobacterium tuberculosis [TaxId: 1773]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: RecA protein, ATPase-domain
species: Mycobacterium tuberculosis [TaxId: 1773]

Probab=89.86  E-value=0.14  Score=29.24  Aligned_cols=20  Identities=20%  Similarity=0.326  Sum_probs=16.3

Q ss_pred             eEEEEeCCCCCHHHHHHHHH
Q psy2514          14 TVVIVGNGAVGKSSMIQRYC   33 (71)
Q Consensus        14 ki~v~G~~~vGKtsl~~~~~   33 (71)
                      -..+.|++++|||+|+.+.+
T Consensus        62 i~e~~G~~~~GKT~l~l~~~   81 (269)
T d1mo6a1          62 VIEIYGPESSGKTTVALHAV   81 (269)
T ss_dssp             EEEEECSSSSSHHHHHHHHH
T ss_pred             eEEEecCCCcHHHHHHHHHH
Confidence            35567999999999987665

>d1hyqa_ c.37.1.10 (A:) Cell division regulator MinD {Archaeon Archaeoglobus fulgidus [TaxId: 2234]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Cell division regulator MinD
species: Archaeon Archaeoglobus fulgidus [TaxId: 2234]

Probab=88.93  E-value=0.19  Score=26.97  Aligned_cols=15  Identities=27%  Similarity=0.607  Sum_probs=12.4

Q ss_pred             eCCCCCHHHHHHHHH
Q psy2514          19 GNGAVGKSSMIQRYC   33 (71)
Q Consensus        19 G~~~vGKtsl~~~~~   33 (71)
                      +..|||||++...++
T Consensus         9 ~KGGvGKTtia~nlA   23 (232)
T d1hyqa_           9 GKGGTGKTTITANLG   23 (232)
T ss_dssp             SSSCSCHHHHHHHHH
T ss_pred             CCCCChHHHHHHHHH
Confidence            678999999888655

>d1g3qa_ c.37.1.10 (A:) Cell division regulator MinD {Archaeon Pyrococcus furiosus [TaxId: 2261]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Cell division regulator MinD
species: Archaeon Pyrococcus furiosus [TaxId: 2261]

Probab=88.73  E-value=0.2  Score=26.85  Aligned_cols=19  Identities=32%  Similarity=0.667  Sum_probs=14.5

Q ss_pred             EEEE-eCCCCCHHHHHHHHH
Q psy2514          15 VVIV-GNGAVGKSSMIQRYC   33 (71)
Q Consensus        15 i~v~-G~~~vGKtsl~~~~~   33 (71)
                      |.+. +..|||||++...+.
T Consensus         5 Iav~~~kGGvGKTtia~nLA   24 (237)
T d1g3qa_           5 ISIVSGKGGTGKTTVTANLS   24 (237)
T ss_dssp             EEEECSSTTSSHHHHHHHHH
T ss_pred             EEEECCCCCCcHHHHHHHHH
Confidence            4455 567999999988765

>d1wb9a2 c.37.1.12 (A:567-800) DNA repair protein MutS, the C-terminal domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: DNA repair protein MutS, the C-terminal domain
species: Escherichia coli [TaxId: 562]

Probab=88.54  E-value=0.22  Score=27.72  Aligned_cols=20  Identities=25%  Similarity=0.438  Sum_probs=17.2

Q ss_pred             EEEEeCCCCCHHHHHHHHHh
Q psy2514          15 VVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus        15 i~v~G~~~vGKtsl~~~~~~   34 (71)
                      +++-|+...|||++++...-
T Consensus        44 ~iiTGpN~~GKSt~lk~i~l   63 (234)
T d1wb9a2          44 LIITGPNMGGKSTYMRQTAL   63 (234)
T ss_dssp             EEEECCTTSSHHHHHHHHHH
T ss_pred             EEEeccCchhhHHHHHHHHH
Confidence            67889999999999998653

>d1j3ba1 c.91.1.1 (A:212-529) Phosphoenolpyruvate (PEP) carboxykinase (ATP-oxaloacetate carboxy-lyase) {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: PEP carboxykinase-like
superfamily: PEP carboxykinase-like
family: PEP carboxykinase C-terminal domain
domain: Phosphoenolpyruvate (PEP) carboxykinase (ATP-oxaloacetate carboxy-lyase)
species: Thermus thermophilus [TaxId: 274]

Probab=88.28  E-value=0.14  Score=30.20  Aligned_cols=16  Identities=25%  Similarity=0.478  Sum_probs=13.3

Q ss_pred             EEEEeCCCCCHHHHHH
Q psy2514          15 VVIVGNGAVGKSSMIQ   30 (71)
Q Consensus        15 i~v~G~~~vGKtsl~~   30 (71)
                      .++.|.+|.|||+|..
T Consensus        17 alffGLSGTGKTTLs~   32 (318)
T d1j3ba1          17 AVFFGLSGTGKTTLST   32 (318)
T ss_dssp             EEEEECTTSCHHHHTC
T ss_pred             EEEEccCCCCcccccc
Confidence            4677999999999754

>d2olra1 c.91.1.1 (A:228-540) Phosphoenolpyruvate (PEP) carboxykinase (ATP-oxaloacetate carboxy-lyase) {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: PEP carboxykinase-like
superfamily: PEP carboxykinase-like
family: PEP carboxykinase C-terminal domain
domain: Phosphoenolpyruvate (PEP) carboxykinase (ATP-oxaloacetate carboxy-lyase)
species: Escherichia coli [TaxId: 562]

Probab=88.06  E-value=0.13  Score=30.21  Aligned_cols=15  Identities=27%  Similarity=0.508  Sum_probs=12.7

Q ss_pred             EEEeCCCCCHHHHHH
Q psy2514          16 VIVGNGAVGKSSMIQ   30 (71)
Q Consensus        16 ~v~G~~~vGKtsl~~   30 (71)
                      ++.|.+|.|||+|..
T Consensus        18 lfFGLSGTGKTTLs~   32 (313)
T d2olra1          18 VFFGLSGTGKTTLST   32 (313)
T ss_dssp             EEECSTTSSHHHHHC
T ss_pred             EEEccCCCCccccee
Confidence            577999999999763

>d2eyqa3 c.37.1.19 (A:546-778) Transcription-repair coupling factor, TRCF {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Tandem AAA-ATPase domain
domain: Transcription-repair coupling factor, TRCF
species: Escherichia coli [TaxId: 562]

Probab=87.65  E-value=0.21  Score=27.94  Aligned_cols=26  Identities=15%  Similarity=0.194  Sum_probs=19.7

Q ss_pred             ceeeeEEEEeCCCCCHHHHHHHHHhC
Q psy2514          10 SIKGTVVIVGNGAVGKSSMIQRYCRG   35 (71)
Q Consensus        10 ~~~~ki~v~G~~~vGKtsl~~~~~~~   35 (71)
                      +.....++.|+.|+|||-...+.+..
T Consensus        74 ~~~~~~LL~GdvGsGKT~V~~~a~~~   99 (233)
T d2eyqa3          74 PLAMDRLVCGDVGFGKTEVAMRAAFL   99 (233)
T ss_dssp             SSCCEEEEECCCCTTTHHHHHHHHHH
T ss_pred             cCccCeEEEcCCCCCcHHHHHHHHHH
Confidence            34467788899999999877766543

>d2gnoa2 c.37.1.20 (A:11-208) gamma subunit of DNA polymerase III, N-domain {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: gamma subunit of DNA polymerase III, N-domain
species: Thermotoga maritima [TaxId: 2336]

Probab=87.47  E-value=0.22  Score=26.90  Aligned_cols=26  Identities=12%  Similarity=-0.027  Sum_probs=21.5

Q ss_pred             CceeeeEEEEeCCCCCHHHHHHHHHh
Q psy2514           9 GSIKGTVVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus         9 ~~~~~ki~v~G~~~vGKtsl~~~~~~   34 (71)
                      ......+++-|++|+||++++..+..
T Consensus        12 ~~~~~~~l~~G~~g~gk~~~a~~l~~   37 (198)
T d2gnoa2          12 KSEGISILINGEDLSYPREVSLELPE   37 (198)
T ss_dssp             TCSSEEEEEECSSSSHHHHHHHHHHH
T ss_pred             cCCCceEEEECCCCCCHHHHHHHHHH
Confidence            33567899999999999999887664

>d1lkxa_ c.37.1.9 (A:) Myosin S1, motor domain {Dictyostelium discoideum, class-I myosin MyoE [TaxId: 44689]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Motor proteins
domain: Myosin S1, motor domain
species: Dictyostelium discoideum, class-I myosin MyoE [TaxId: 44689]

Probab=87.43  E-value=0.25  Score=31.67  Aligned_cols=19  Identities=26%  Similarity=0.522  Sum_probs=15.3

Q ss_pred             eeEEEEeCCCCCHHHHHHH
Q psy2514          13 GTVVIVGNGAVGKSSMIQR   31 (71)
Q Consensus        13 ~ki~v~G~~~vGKtsl~~~   31 (71)
                      --|++.|++|+|||.-...
T Consensus        87 QsIiisGeSGsGKTe~~k~  105 (684)
T d1lkxa_          87 QCVIISGESGAGKTEASKK  105 (684)
T ss_dssp             EEEEEECSTTSSHHHHHHH
T ss_pred             eEEEEEcCCCCCHHHHHHH
Confidence            3589999999999965553

>d1ewqa2 c.37.1.12 (A:542-765) DNA repair protein MutS, the C-terminal domain {Thermus aquaticus [TaxId: 271]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: DNA repair protein MutS, the C-terminal domain
species: Thermus aquaticus [TaxId: 271]

Probab=87.32  E-value=0.28  Score=27.17  Aligned_cols=20  Identities=30%  Similarity=0.534  Sum_probs=17.4

Q ss_pred             EEEEeCCCCCHHHHHHHHHh
Q psy2514          15 VVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus        15 i~v~G~~~vGKtsl~~~~~~   34 (71)
                      +++-|+...|||++++...-
T Consensus        38 ~iiTGpN~~GKSt~lk~i~l   57 (224)
T d1ewqa2          38 VLITGPNMAGKSTFLRQTAL   57 (224)
T ss_dssp             EEEESCSSSSHHHHHHHHHH
T ss_pred             EEEECCCccccchhhhhhHH
Confidence            68899999999999997653

>d1a1va1 c.37.1.14 (A:190-325) HCV helicase domain {Human hepatitis C virus (HCV), different isolates [TaxId: 11103]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RNA helicase
domain: HCV helicase domain
species: Human hepatitis C virus (HCV), different isolates [TaxId: 11103]

Probab=87.03  E-value=0.17  Score=25.23  Aligned_cols=21  Identities=14%  Similarity=0.129  Sum_probs=15.9

Q ss_pred             eEEEEeCCCCCHHHHHHHHHh
Q psy2514          14 TVVIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus        14 ki~v~G~~~vGKtsl~~~~~~   34 (71)
                      ..++.++.|+|||.++..+..
T Consensus        10 ~~ll~apTGsGKT~~~~~~~~   30 (136)
T d1a1va1          10 VAHLHAPTGSGKSTKVPAAYA   30 (136)
T ss_dssp             EEEEECCTTSCTTTHHHHHHH
T ss_pred             EEEEEeCCCCCHHHHHHHHHH
Confidence            346678899999988766553

>d1d0xa2 c.37.1.9 (A:2-33,A:80-759) Myosin S1, motor domain {Dictyostelium discoideum [TaxId: 44689]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Motor proteins
domain: Myosin S1, motor domain
species: Dictyostelium discoideum [TaxId: 44689]

Probab=86.97  E-value=0.27  Score=31.68  Aligned_cols=20  Identities=20%  Similarity=0.506  Sum_probs=15.8

Q ss_pred             eeeEEEEeCCCCCHHHHHHH
Q psy2514          12 KGTVVIVGNGAVGKSSMIQR   31 (71)
Q Consensus        12 ~~ki~v~G~~~vGKtsl~~~   31 (71)
                      .--|++.|++|+|||.-...
T Consensus       125 nQsIiisGeSGaGKTe~~k~  144 (712)
T d1d0xa2         125 NQSLLITGESGAGKTENTKK  144 (712)
T ss_dssp             CEEEEEECSTTSSHHHHHHH
T ss_pred             CceEEEeCCCCCCHHHHHHH
Confidence            45789999999999965443

>d2mysa2 c.37.1.9 (A:4-33,A:80-843) Myosin S1, motor domain {Chicken (Gallus gallus), pectoral muscle [TaxId: 9031]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Motor proteins
domain: Myosin S1, motor domain
species: Chicken (Gallus gallus), pectoral muscle [TaxId: 9031]

Probab=86.59  E-value=0.31  Score=31.73  Aligned_cols=18  Identities=22%  Similarity=0.499  Sum_probs=14.4

Q ss_pred             eeEEEEeCCCCCHHHHHH
Q psy2514          13 GTVVIVGNGAVGKSSMIQ   30 (71)
Q Consensus        13 ~ki~v~G~~~vGKtsl~~   30 (71)
                      --|++.|++|+|||.-..
T Consensus       124 QsIiisGeSGaGKTe~~K  141 (794)
T d2mysa2         124 QSILITGESGAGKTVNTK  141 (794)
T ss_dssp             EEEEEEECTTSCHHHHHH
T ss_pred             cEEEEEcCCCCCHHHHHH
Confidence            468999999999995443

>d1ii2a1 c.91.1.1 (A:201-523) Phosphoenolpyruvate (PEP) carboxykinase (ATP-oxaloacetate carboxy-lyase) {Trypanosoma cruzi [TaxId: 5693]}

class: Alpha and beta proteins (a/b)
fold: PEP carboxykinase-like
superfamily: PEP carboxykinase-like
family: PEP carboxykinase C-terminal domain
domain: Phosphoenolpyruvate (PEP) carboxykinase (ATP-oxaloacetate carboxy-lyase)
species: Trypanosoma cruzi [TaxId: 5693]

Probab=86.44  E-value=0.21  Score=29.47  Aligned_cols=16  Identities=25%  Similarity=0.472  Sum_probs=13.3

Q ss_pred             EEEEeCCCCCHHHHHH
Q psy2514          15 VVIVGNGAVGKSSMIQ   30 (71)
Q Consensus        15 i~v~G~~~vGKtsl~~   30 (71)
                      .++.|.+|.|||+|..
T Consensus        17 alfFGLSGTGKTTLs~   32 (323)
T d1ii2a1          17 TVFFGLSGTGKTTLSA   32 (323)
T ss_dssp             EEEECCTTSSHHHHHC
T ss_pred             EEEEccCCCCccccee
Confidence            3577999999999863

>d1br2a2 c.37.1.9 (A:80-789) Myosin S1, motor domain {Chicken (Gallus gallus), pectoral muscle [TaxId: 9031]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Motor proteins
domain: Myosin S1, motor domain
species: Chicken (Gallus gallus), pectoral muscle [TaxId: 9031]

Probab=86.19  E-value=0.32  Score=31.28  Aligned_cols=19  Identities=16%  Similarity=0.452  Sum_probs=15.2

Q ss_pred             eeEEEEeCCCCCHHHHHHH
Q psy2514          13 GTVVIVGNGAVGKSSMIQR   31 (71)
Q Consensus        13 ~ki~v~G~~~vGKtsl~~~   31 (71)
                      --|++.|++|+|||.-...
T Consensus        92 Q~IiisGeSGaGKTe~~k~  110 (710)
T d1br2a2          92 QSILCTGESGAGKTENTKK  110 (710)
T ss_dssp             EEEEEECSTTSSHHHHHHH
T ss_pred             cEEEEEeCCCCCHHHHHHH
Confidence            4589999999999965443

>d1kk8a2 c.37.1.9 (A:1-28,A:77-837) Myosin S1, motor domain {Bay scallop (Aequipecten irradians) [TaxId: 31199]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Motor proteins
domain: Myosin S1, motor domain
species: Bay scallop (Aequipecten irradians) [TaxId: 31199]

Probab=85.65  E-value=0.35  Score=31.51  Aligned_cols=19  Identities=21%  Similarity=0.454  Sum_probs=15.1

Q ss_pred             eeeEEEEeCCCCCHHHHHH
Q psy2514          12 KGTVVIVGNGAVGKSSMIQ   30 (71)
Q Consensus        12 ~~ki~v~G~~~vGKtsl~~   30 (71)
                      .--|++.|++|+|||.-..
T Consensus       121 nQ~IiisGESGaGKTe~~K  139 (789)
T d1kk8a2         121 NQSCLITGESGAGKTENTK  139 (789)
T ss_dssp             EEEEEEECSTTSSHHHHHH
T ss_pred             CcEEEEEeCCCCCHHHHHH
Confidence            4578889999999995433

>d1gm5a3 c.37.1.19 (A:286-549) RecG helicase domain {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Tandem AAA-ATPase domain
domain: RecG helicase domain
species: Thermotoga maritima [TaxId: 2336]

Probab=85.58  E-value=0.25  Score=28.13  Aligned_cols=24  Identities=17%  Similarity=0.126  Sum_probs=17.6

Q ss_pred             ceeeeEEEEeCCCCCHHHHHHHHH
Q psy2514          10 SIKGTVVIVGNGAVGKSSMIQRYC   33 (71)
Q Consensus        10 ~~~~ki~v~G~~~vGKtsl~~~~~   33 (71)
                      +.....++-||.|+|||-.....+
T Consensus       102 ~~~m~rLL~GdvGSGKT~Va~~a~  125 (264)
T d1gm5a3         102 EKPMNRLLQGDVGSGKTVVAQLAI  125 (264)
T ss_dssp             SSCCCCEEECCSSSSHHHHHHHHH
T ss_pred             cCcceeeeeccccccccHHHHHHH
Confidence            334566788999999997666544

>d1wp9a1 c.37.1.19 (A:1-200) putative ATP-dependent RNA helicase PF2015 {Pyrococcus furiosus [TaxId: 2261]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Tandem AAA-ATPase domain
domain: putative ATP-dependent RNA helicase PF2015
species: Pyrococcus furiosus [TaxId: 2261]

Probab=84.34  E-value=0.5  Score=24.74  Aligned_cols=17  Identities=24%  Similarity=0.305  Sum_probs=13.4

Q ss_pred             eEEEEeCCCCCHHHHHH
Q psy2514          14 TVVIVGNGAVGKSSMIQ   30 (71)
Q Consensus        14 ki~v~G~~~vGKtsl~~   30 (71)
                      +++++++.|.|||....
T Consensus        25 n~lv~~pTGsGKT~i~~   41 (200)
T d1wp9a1          25 NCLIVLPTGLGKTLIAM   41 (200)
T ss_dssp             CEEEECCTTSCHHHHHH
T ss_pred             CeEEEeCCCCcHHHHHH
Confidence            47788999999996433

>d1p3da1 c.5.1.1 (A:11-106) UDP-N-acetylmuramate-alanine ligase MurC {Haemophilus influenzae [TaxId: 727]}

class: Alpha and beta proteins (a/b)
fold: MurCD N-terminal domain
superfamily: MurCD N-terminal domain
family: MurCD N-terminal domain
domain: UDP-N-acetylmuramate-alanine ligase MurC
species: Haemophilus influenzae [TaxId: 727]

Probab=83.88  E-value=0.69  Score=22.12  Aligned_cols=26  Identities=15%  Similarity=0.229  Sum_probs=21.1

Q ss_pred             ceeeeEEEEeCCCCCHHHHHHHHHhC
Q psy2514          10 SIKGTVVIVGNGAVGKSSMIQRYCRG   35 (71)
Q Consensus        10 ~~~~ki~v~G~~~vGKtsl~~~~~~~   35 (71)
                      ....++-++|-.|+|.++|+.-+...
T Consensus         6 ~~~~~ihfiGigG~GMs~LA~~L~~~   31 (96)
T d1p3da1           6 RRVQQIHFIGIGGAGMSGIAEILLNE   31 (96)
T ss_dssp             TTCCEEEEETTTSTTHHHHHHHHHHH
T ss_pred             hhCCEEEEEEECHHHHHHHHHHHHhC
Confidence            34568999999999999998877643

>d1w7ja2 c.37.1.9 (A:63-792) Myosin S1, motor domain {Chicken (Gallus gallus), Va isoform [TaxId: 9031]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Motor proteins
domain: Myosin S1, motor domain
species: Chicken (Gallus gallus), Va isoform [TaxId: 9031]

Probab=83.84  E-value=0.47  Score=30.52  Aligned_cols=19  Identities=16%  Similarity=0.441  Sum_probs=15.1

Q ss_pred             eeEEEEeCCCCCHHHHHHH
Q psy2514          13 GTVVIVGNGAVGKSSMIQR   31 (71)
Q Consensus        13 ~ki~v~G~~~vGKtsl~~~   31 (71)
                      -.|++.|++|+|||.-...
T Consensus        95 Q~IiisGeSGsGKTe~~k~  113 (730)
T d1w7ja2          95 QSIIVSGESGAGKTVSAKY  113 (730)
T ss_dssp             EEEEEECSTTSSHHHHHHH
T ss_pred             eEEEEEeCCCCCHHHHHHH
Confidence            4688999999999964443

>d1w36b1 c.37.1.19 (B:1-485) Exodeoxyribonuclease V beta chain (RecB), 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: Tandem AAA-ATPase domain
domain: Exodeoxyribonuclease V beta chain (RecB), N-terminal domain
species: Escherichia coli [TaxId: 562]

Probab=80.38  E-value=0.75  Score=26.91  Aligned_cols=25  Identities=24%  Similarity=0.360  Sum_probs=17.6

Q ss_pred             CceeeeEEEEeCCCCCHHHHH-HHHH
Q psy2514           9 GSIKGTVVIVGNGAVGKSSMI-QRYC   33 (71)
Q Consensus         9 ~~~~~ki~v~G~~~vGKtsl~-~~~~   33 (71)
                      -+..-..+|.+..|+|||+.+ .|++
T Consensus        13 ~p~~g~~lv~A~AGsGKT~~l~~r~~   38 (485)
T d1w36b1          13 LPLQGERLIEASAGTGKTFTIAALYL   38 (485)
T ss_dssp             CCCSSCEEEECCTTSCHHHHHHHHHH
T ss_pred             CCCCCCeEEEEcCchHHHHHHHHHHH
Confidence            344556788899999999655 4443

>d1xbta1 c.37.1.24 (A:18-150) Thymidine kinase, TK1, 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: Type II thymidine kinase
domain: Thymidine kinase, TK1, N-terminal domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=80.29  E-value=0.9  Score=22.97  Aligned_cols=19  Identities=42%  Similarity=0.510  Sum_probs=14.9

Q ss_pred             EEEeCCCCCHHHHHHHHHh
Q psy2514          16 VIVGNGAVGKSSMIQRYCR   34 (71)
Q Consensus        16 ~v~G~~~vGKtsl~~~~~~   34 (71)
                      +++|+-.+|||+-+-+...
T Consensus         6 li~GpMfsGKTt~Li~~~~   24 (133)
T d1xbta1           6 VILGPMFSGKSTELMRRVR   24 (133)
T ss_dssp             EEECCTTSCHHHHHHHHHH
T ss_pred             EEEecccCHHHHHHHHHHH
Confidence            4569999999987776553