Psyllid ID: psy10878

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-
Protein Sequence
MSYKAKKPILLPSASEDPSIDNWDKASWENVTPIVSEQGDGEIIEIIDPSLKLVRVPSIRKSFNAPPEKLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQN
Secondary Structure (PSIPRED)
cccccccccccccccccccccccccccccccccEEcccccccccccccccccccccccccccccccccEEEEEEEEccccccHHHHHHHHHcccccccccEEEEEEEEEEEEEEccccEEEEEEEEccccc
Secondary Structure Prediction (SSPRO)
cccccccccccccccccccccccccccccccccccccccccccccccccHHHHHHcHHHcccccHHHcccEEEEEEccccccHHHHHHHHHHccccccccccccEEEEEEEEEEcccEEEEEEEEEEcccc
Coil and Loop (DISEMBL)
msykakkpillpsasedpsidnwdkaswenvtpivseqgdgeiieiidpslklvrvpsirksfnappeklFKVIVigdptvgkTSFVQRYVQNTFkkdykgtvgvDFALKIVKWRDQQKIKLQLWDIAGQN
Flexible Loop (DISEMBL)
msykakkpillpsasedpsidnwDKASWENVTPivseqgdgeiIEIIDPSLKLVRVPSIrksfnappeklfkvivigdptvgKTSFVQRYVQNtfkkdykgtvgVDFALKIVKWRDQQKIKLQLWDIAGQN
Low Complexity Region (SEG)
MSYKAKKPILLPSASEDPSIDNWDKASWENVTPIVSEQgdgeiieiidPSLKLVRVPSIRKSFNAPPEKLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQN
Disordered region (IsUnstruct)
**********************WDKASWENVTPIVSEQGDGEIIEIIDPSLKLVRVPSIRKSFNAPPEKLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIA***
Disordered Region (DISOPRED)
*********************************************************************LFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQ*
Disordered Region (DISEMBL)
MSYKAKKPILLPSASEDPSIDNWDKASWENVTPIVSEQGDGEIIEIIDPSLKLVRVPSIRKSFNAPPEKLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQN
Disordered Region (DISPRO)
*********************************************IIDPSLKLVRVPSIRKSFNAPPEKLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAG**
Transmembrane Helix (TMHMM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhoooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (Phobius)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
Signal Peptide (SignalP HMM Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Signal Peptide (SignalP NN Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Coiled Coils (COILS)
MSYKAKKPILLPSASEDPSIDNWDKASWENVTPIVSEQGDGEIIEIIDPSLKLVRVPSIRKSFNAPPEKLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQN
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	131	2.2.26 [Sep-21-2011]
Q91YQ1	204	Ras-related protein Rab-7	yes	N/A	0.480	0.308	0.650	3e-20
Q63481	204	Ras-related protein Rab-7	yes	N/A	0.480	0.308	0.650	3e-20
Q5R7A4	203	Ras-related protein Rab-7	yes	N/A	0.480	0.310	0.650	7e-20
O14966	203	Ras-related protein Rab-7	yes	N/A	0.480	0.310	0.650	7e-20
Q13637	225	Ras-related protein Rab-3	no	N/A	0.480	0.28	0.571	1e-16
Q06AU5	226	Ras-related protein Rab-3	no	N/A	0.480	0.278	0.571	1e-16
Q9CZE3	223	Ras-related protein Rab-3	no	N/A	0.480	0.282	0.571	1e-16
P57729	211	Ras-related protein Rab-3	no	N/A	0.480	0.298	0.555	2e-16
Q8QZZ8	211	Ras-related protein Rab-3	no	N/A	0.480	0.298	0.555	2e-16
Q54QR3	219	Ras-related protein Rab-3	yes	N/A	0.480	0.287	0.539	7e-16

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

 Score = 97.1 bits (240), Expect = 3e-20,   Method: Compositional matrix adjust.
 Identities = 41/63 (65%), Positives = 52/63 (82%)

Query: 68  EKLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDI 127
           + LFKV+V+GD  VGKTS VQRY Q++F K YK TVGVDFALK+++W D + ++LQLWDI
Sbjct: 5   DHLFKVLVVGDAAVGKTSLVQRYSQDSFSKHYKSTVGVDFALKVLQWSDSEMVRLQLWDI 64

Query: 128 AGQ 130
           AGQ
Sbjct: 65  AGQ 67

Mus musculus (taxid: 10090)

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

 Score = 96.7 bits (239), Expect = 3e-20,   Method: Compositional matrix adjust.
 Identities = 41/63 (65%), Positives = 52/63 (82%)

Query: 68  EKLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDI 127
           + LFKV+V+GD  VGKTS VQRY Q++F K YK TVGVDFALK+++W D + ++LQLWDI
Sbjct: 5   DHLFKVLVVGDAAVGKTSLVQRYSQDSFSKHYKSTVGVDFALKVLQWSDSEMVRLQLWDI 64

Query: 128 AGQ 130
           AGQ
Sbjct: 65  AGQ 67

Rattus norvegicus (taxid: 10116)

>sp|Q5R7A4|RAB7L_PONAB Ras-related protein Rab-7L1 OS=Pongo abelii GN=RAB7L1 PE=2 SV=1

 Score = 95.9 bits (237), Expect = 7e-20,   Method: Compositional matrix adjust.
 Identities = 41/63 (65%), Positives = 52/63 (82%)

Query: 68  EKLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDI 127
           + LFKV+V+GD  VGKTS VQRY Q++F K YK TVGVDFALK+++W D + ++LQLWDI
Sbjct: 5   DHLFKVLVVGDAAVGKTSLVQRYSQDSFSKHYKSTVGVDFALKVLQWSDYEIVRLQLWDI 64

Query: 128 AGQ 130
           AGQ
Sbjct: 65  AGQ 67

Pongo abelii (taxid: 9601)

>sp|O14966|RAB7L_HUMAN Ras-related protein Rab-7L1 OS=Homo sapiens GN=RAB7L1 PE=1 SV=1

 Score = 95.9 bits (237), Expect = 7e-20,   Method: Compositional matrix adjust.
 Identities = 41/63 (65%), Positives = 52/63 (82%)

Query: 68  EKLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDI 127
           + LFKV+V+GD  VGKTS VQRY Q++F K YK TVGVDFALK+++W D + ++LQLWDI
Sbjct: 5   DHLFKVLVVGDAAVGKTSLVQRYSQDSFSKHYKSTVGVDFALKVLQWSDYEIVRLQLWDI 64

Query: 128 AGQ 130
           AGQ
Sbjct: 65  AGQ 67

Homo sapiens (taxid: 9606)

>sp|Q13637|RAB32_HUMAN Ras-related protein Rab-32 OS=Homo sapiens GN=RAB32 PE=1 SV=3

 Score = 85.1 bits (209), Expect = 1e-16,   Method: Compositional matrix adjust.
 Identities = 36/63 (57%), Positives = 48/63 (76%)

Query: 68  EKLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDI 127
           E LFKV+VIG+  VGKTS ++RYV   F + Y+ T+GVDFALK++ W  +  ++LQLWDI
Sbjct: 23  EHLFKVLVIGELGVGKTSIIKRYVHQLFSQHYRATIGVDFALKVLNWDSRTLVRLQLWDI 82

Query: 128 AGQ 130
           AGQ
Sbjct: 83  AGQ 85

Acts as an A-kinase anchoring protein by binding to the type II regulatory subunit of protein kinase A and anchoring it to the mitochondrion. Also involved in synchronization of mitochondrial fission.

Homo sapiens (taxid: 9606)

>sp|Q06AU5|RAB32_PIG Ras-related protein Rab-32 OS=Sus scrofa GN=RAB32 PE=2 SV=1

 Score = 84.7 bits (208), Expect = 1e-16,   Method: Compositional matrix adjust.
 Identities = 36/63 (57%), Positives = 48/63 (76%)

Query: 68  EKLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDI 127
           E LFKV+VIG+  VGKTS ++RYV   F + Y+ T+GVDFALK++ W  +  ++LQLWDI
Sbjct: 25  EHLFKVLVIGELGVGKTSIIKRYVHQLFSQHYRATIGVDFALKVLNWDSRTLVRLQLWDI 84

Query: 128 AGQ 130
           AGQ
Sbjct: 85  AGQ 87

Acts as an A-kinase anchoring protein by binding to the type II regulatory subunit of protein kinase A and anchoring it to the mitochondrion. Also involved in synchronization of mitochondrial fission.

Sus scrofa (taxid: 9823)

>sp|Q9CZE3|RAB32_MOUSE Ras-related protein Rab-32 OS=Mus musculus GN=Rab32 PE=2 SV=3

 Score = 84.7 bits (208), Expect = 1e-16,   Method: Compositional matrix adjust.
 Identities = 36/63 (57%), Positives = 48/63 (76%)

Query: 68  EKLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDI 127
           E LFKV+VIG+  VGKTS ++RYV   F + Y+ T+GVDFALK++ W  +  ++LQLWDI
Sbjct: 21  EHLFKVLVIGELGVGKTSIIKRYVHQLFSQHYRATIGVDFALKVLNWDSRTLVRLQLWDI 80

Query: 128 AGQ 130
           AGQ
Sbjct: 81  AGQ 83

Acts as an A-kinase anchoring protein by binding to the type II regulatory subunit of protein kinase A and anchoring it to the mitochondrion. Also involved in synchronization of mitochondrial fission.

Mus musculus (taxid: 10090)

>sp|P57729|RAB38_HUMAN Ras-related protein Rab-38 OS=Homo sapiens GN=RAB38 PE=1 SV=1

 Score = 84.3 bits (207), Expect = 2e-16,   Method: Compositional matrix adjust.
 Identities = 35/63 (55%), Positives = 47/63 (74%)

Query: 68  EKLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDI 127
           E L+K++VIGD  VGKTS ++RYV   F   Y+ T+GVDFALK++ W  +  ++LQLWDI
Sbjct: 7   EHLYKLLVIGDLGVGKTSIIKRYVHQNFSSHYRATIGVDFALKVLHWDPETVVRLQLWDI 66

Query: 128 AGQ 130
           AGQ
Sbjct: 67  AGQ 69

May be involved in melanosomal transport and docking. Involved in the proper sorting of TYRP1.

Homo sapiens (taxid: 9606)

>sp|Q8QZZ8|RAB38_MOUSE Ras-related protein Rab-38 OS=Mus musculus GN=Rab38 PE=1 SV=1

 Score = 84.0 bits (206), Expect = 2e-16,   Method: Compositional matrix adjust.
 Identities = 35/63 (55%), Positives = 47/63 (74%)

Query: 68  EKLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDI 127
           E L+K++VIGD  VGKTS ++RYV   F   Y+ T+GVDFALK++ W  +  ++LQLWDI
Sbjct: 7   EHLYKLLVIGDLGVGKTSIIKRYVHQNFSSHYRATIGVDFALKVLHWDPETVVRLQLWDI 66

Query: 128 AGQ 130
           AGQ
Sbjct: 67  AGQ 69

May be involved in melanosomal transport and docking. Involved in the proper sorting of TYRP1.

Mus musculus (taxid: 10090)

>sp|Q54QR3|RB32A_DICDI Ras-related protein Rab-32A OS=Dictyostelium discoideum GN=rab32A PE=1 SV=1

 Score = 82.4 bits (202), Expect = 7e-16,   Method: Compositional matrix adjust.
 Identities = 34/63 (53%), Positives = 48/63 (76%)

Query: 68  EKLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDI 127
           E L+K++V+GD   GKTS ++R+V N F   YK T+GVDFALK++ W  + +++LQLWDI
Sbjct: 13  EYLYKILVVGDIGTGKTSIIKRFVHNIFSMHYKSTIGVDFALKVINWDPKTEVRLQLWDI 72

Query: 128 AGQ 130
           AGQ
Sbjct: 73  AGQ 75

Dictyostelium discoideum (taxid: 44689)

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	131
242013254	202	GTP-binding nuclear protein RAN1, putati	0.488	0.316	0.875	4e-26
321478953	175	hypothetical protein DAPPUDRAFT_39774 [D	0.519	0.388	0.735	3e-23
405965375	517	WD repeat-containing protein 82 [Crassos	0.480	0.121	0.761	3e-22
328716362	260	PREDICTED: ras-related protein Rab-7L1-l	0.488	0.246	0.765	2e-21
193631807	201	PREDICTED: ras-related protein Rab-7L1-l	0.488	0.318	0.765	3e-21
148233848	204	MGC80435 protein [Xenopus laevis] gi|491	0.480	0.308	0.666	7e-19
166157852	204	uncharacterized protein LOC100135159 [Xe	0.480	0.308	0.666	8e-19
444706397	204	Ras-related protein Rab-7L1 [Tupaia chin	0.503	0.323	0.621	1e-18
440893578	209	Ras-related protein Rab-7L1, partial [Bo	0.480	0.301	0.650	2e-18
351710940	204	Ras-related protein Rab-7L1 [Heterocepha	0.480	0.308	0.650	2e-18

>gi|242013254|ref|XP_002427327.1| GTP-binding nuclear protein RAN1, putative [Pediculus humanus corporis] gi|212511676|gb|EEB14589.1| GTP-binding nuclear protein RAN1, putative [Pediculus humanus corporis]

 Score =  122 bits (307), Expect = 4e-26,   Method: Compositional matrix adjust.
 Identities = 56/64 (87%), Positives = 61/64 (95%)

Query: 67  PEKLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWD 126
           PEKLFKVI+IGDPTVGKTSFVQRYV+NT+K+DYKGTVGVDFALKI+KW D Q IKLQLWD
Sbjct: 15  PEKLFKVIIIGDPTVGKTSFVQRYVENTYKRDYKGTVGVDFALKILKWSDTQTIKLQLWD 74

Query: 127 IAGQ 130
           IAGQ
Sbjct: 75  IAGQ 78

Source: Pediculus humanus corporis

Species: Pediculus humanus

Genus: Pediculus

Family: Pediculidae

Order: Phthiraptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|321478953|gb|EFX89909.1| hypothetical protein DAPPUDRAFT_39774 [Daphnia pulex]

 Score =  112 bits (281), Expect = 3e-23,   Method: Compositional matrix adjust.
 Identities = 50/68 (73%), Positives = 58/68 (85%)

Query: 63  FNAPPEKLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKL 122
           +N   EKLFKVI+IGDP VGKTSF++RYVQN F+ DYK T+GVDFALKIV+W + Q IKL
Sbjct: 8   YNRATEKLFKVIIIGDPGVGKTSFIRRYVQNAFRGDYKATIGVDFALKIVRWSENQTIKL 67

Query: 123 QLWDIAGQ 130
           QLWDIAGQ
Sbjct: 68  QLWDIAGQ 75

Source: Daphnia pulex

Species: Daphnia pulex

Genus: Daphnia

Family: Daphniidae

Order: Diplostraca

Class: Branchiopoda

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|405965375|gb|EKC30753.1| WD repeat-containing protein 82 [Crassostrea gigas]

 Score =  109 bits (273), Expect = 3e-22,   Method: Composition-based stats.
 Identities = 48/63 (76%), Positives = 56/63 (88%)

Query: 68  EKLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDI 127
           E LFKVI+IGDPTVGKTSFVQRYV + +++DYK T+GVDFALK+VKW + Q IKLQLWDI
Sbjct: 308 EILFKVIIIGDPTVGKTSFVQRYVNDAYRRDYKMTIGVDFALKVVKWSESQTIKLQLWDI 367

Query: 128 AGQ 130
           AGQ
Sbjct: 368 AGQ 370

Source: Crassostrea gigas

Species: Crassostrea gigas

Genus: Crassostrea

Family: Ostreidae

Order: Ostreoida

Class: Bivalvia

Phylum: Mollusca

Superkingdom: Eukaryota

>gi|328716362|ref|XP_003245910.1| PREDICTED: ras-related protein Rab-7L1-like isoform 2 [Acyrthosiphon pisum]

 Score =  107 bits (266), Expect = 2e-21,   Method: Compositional matrix adjust.
 Identities = 49/64 (76%), Positives = 58/64 (90%)

Query: 67  PEKLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWD 126
           PEKLFKVI+IGDPTVGKT+FV+RYVQ +F ++YKGTVGVDFALKI+K  + + IKLQLWD
Sbjct: 61  PEKLFKVIIIGDPTVGKTAFVKRYVQKSFSREYKGTVGVDFALKIIKVSETETIKLQLWD 120

Query: 127 IAGQ 130
           IAGQ
Sbjct: 121 IAGQ 124

Source: Acyrthosiphon pisum

Species: Acyrthosiphon pisum

Genus: Acyrthosiphon

Family: Aphididae

Order: Hemiptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|193631807|ref|XP_001951808.1| PREDICTED: ras-related protein Rab-7L1-like isoform 1 [Acyrthosiphon pisum]

 Score =  106 bits (265), Expect = 3e-21,   Method: Compositional matrix adjust.
 Identities = 49/64 (76%), Positives = 58/64 (90%)

Query: 67  PEKLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWD 126
           PEKLFKVI+IGDPTVGKT+FV+RYVQ +F ++YKGTVGVDFALKI+K  + + IKLQLWD
Sbjct: 2   PEKLFKVIIIGDPTVGKTAFVKRYVQKSFSREYKGTVGVDFALKIIKVSETETIKLQLWD 61

Query: 127 IAGQ 130
           IAGQ
Sbjct: 62  IAGQ 65

Source: Acyrthosiphon pisum

Species: Acyrthosiphon pisum

Genus: Acyrthosiphon

Family: Aphididae

Order: Hemiptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|148233848|ref|NP_001085684.1| MGC80435 protein [Xenopus laevis] gi|49118197|gb|AAH73193.1| MGC80435 protein [Xenopus laevis]

 Score = 98.6 bits (244), Expect = 7e-19,   Method: Compositional matrix adjust.
 Identities = 42/63 (66%), Positives = 53/63 (84%)

Query: 68  EKLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDI 127
           + LFKV+V+GD TVGKTS +QRYV + F KDYK T+GVDFALK+V+W D + ++LQLWDI
Sbjct: 5   DHLFKVLVVGDSTVGKTSLLQRYVHDVFGKDYKMTMGVDFALKVVQWSDAETVRLQLWDI 64

Query: 128 AGQ 130
           AGQ
Sbjct: 65  AGQ 67

Source: Xenopus laevis

Species: Xenopus laevis

Genus: Xenopus

Family: Pipidae

Order: Anura

Class: Amphibia

Phylum: Chordata

Superkingdom: Eukaryota

>gi|166157852|ref|NP_001107338.1| uncharacterized protein LOC100135159 [Xenopus (Silurana) tropicalis] gi|163916398|gb|AAI57147.1| LOC100135159 protein [Xenopus (Silurana) tropicalis]

 Score = 98.6 bits (244), Expect = 8e-19,   Method: Compositional matrix adjust.
 Identities = 42/63 (66%), Positives = 53/63 (84%)

Query: 68  EKLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDI 127
           + LFKV+V+GD TVGKTS +QRYV + F KDYK T+GVDFALK+V+W D + ++LQLWDI
Sbjct: 5   DHLFKVLVVGDSTVGKTSLLQRYVHDVFGKDYKMTMGVDFALKVVQWSDTETVRLQLWDI 64

Query: 128 AGQ 130
           AGQ
Sbjct: 65  AGQ 67

Source: Xenopus (Silurana) tropicalis

Species: Xenopus (Silurana) tropicalis

Genus: Xenopus

Family: Pipidae

Order: Anura

Class: Amphibia

Phylum: Chordata

Superkingdom: Eukaryota

>gi|444706397|gb|ELW47739.1| Ras-related protein Rab-7L1 [Tupaia chinensis]

 Score = 97.8 bits (242), Expect = 1e-18,   Method: Compositional matrix adjust.
 Identities = 41/66 (62%), Positives = 53/66 (80%)

Query: 65  APPEKLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQL 124
           +  + LFKV+V+GD  VGKTS VQRY Q++F K YK TVGVDFALK+++W D + ++LQL
Sbjct: 2   SSRDHLFKVLVVGDAAVGKTSLVQRYSQDSFSKHYKSTVGVDFALKVLQWSDSEMVRLQL 61

Query: 125 WDIAGQ 130
           WDIAGQ
Sbjct: 62  WDIAGQ 67

Source: Tupaia chinensis

Species: Tupaia chinensis

Genus: Tupaia

Family: Tupaiidae

Order: Scandentia

Class: Mammalia

Phylum: Chordata

Superkingdom: Eukaryota

>gi|440893578|gb|ELR46289.1| Ras-related protein Rab-7L1, partial [Bos grunniens mutus]

 Score = 97.4 bits (241), Expect = 2e-18,   Method: Compositional matrix adjust.
 Identities = 41/63 (65%), Positives = 52/63 (82%)

Query: 68  EKLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDI 127
           + LFKV+V+GD  VGKTS VQRY Q++F K YK TVGVDFALK+++W D + ++LQLWDI
Sbjct: 11  DHLFKVLVVGDAAVGKTSLVQRYSQDSFSKHYKSTVGVDFALKVLQWSDSEMVRLQLWDI 70

Query: 128 AGQ 130
           AGQ
Sbjct: 71  AGQ 73

Source: Bos grunniens mutus

Species: Bos grunniens

Genus: Bos

Family: Bovidae

Class: Mammalia

Phylum: Chordata

Superkingdom: Eukaryota

>gi|351710940|gb|EHB13859.1| Ras-related protein Rab-7L1 [Heterocephalus glaber]

 Score = 97.4 bits (241), Expect = 2e-18,   Method: Compositional matrix adjust.
 Identities = 41/63 (65%), Positives = 52/63 (82%)

Query: 68  EKLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDI 127
           + LFKV+V+GD  VGKTS VQRY Q++F K YK TVGVDFALK+++W D + ++LQLWDI
Sbjct: 5   DHLFKVLVVGDAAVGKTSLVQRYSQDSFSKHYKSTVGVDFALKVLQWSDSEMVRLQLWDI 64

Query: 128 AGQ 130
           AGQ
Sbjct: 65  AGQ 67

Source: Heterocephalus glaber

Species: Heterocephalus glaber

Genus: Heterocephalus

Family: Bathyergidae

Order: Rodentia

Class: Mammalia

Phylum: Chordata

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	131
UNIPROTKB|A5PJV4	203	RAB7L1 "RAB7L1 protein" [Bos t	0.480	0.310	0.650	1.9e-19
MGI|MGI:2385107	204	Rab7l1 "RAB7, member RAS oncog	0.480	0.308	0.650	1.9e-19
RGD|620892	204	Rab7l1 "RAB7, member RAS oncog	0.480	0.308	0.650	1.9e-19
UNIPROTKB|F1N9R7	193	RAB7L1 "Uncharacterized protei	0.480	0.326	0.619	2.5e-19
UNIPROTKB|I3LHE8	203	RAB7L1 "Uncharacterized protei	0.480	0.310	0.650	2.5e-19
UNIPROTKB|F1P9G2	225	RAB7L1 "Uncharacterized protei	0.480	0.28	0.634	4e-19
UNIPROTKB|O14966	203	RAB7L1 "Ras-related protein Ra	0.480	0.310	0.650	4e-19
ZFIN|ZDB-GENE-091118-91	217	si:ch73-173m3.3 "si:ch73-173m3	0.480	0.290	0.603	5.3e-17
UNIPROTKB|E1BA60	225	RAB32 "Uncharacterized protein	0.503	0.293	0.565	8.6e-17
ZFIN|ZDB-GENE-090821-4	218	rab32b "RAB32b, member RAS onc	0.480	0.288	0.571	1.4e-16

UNIPROTKB|A5PJV4 RAB7L1 "RAB7L1 protein" [Bos taurus (taxid:9913)]

 Score = 232 (86.7 bits), Expect = 1.9e-19, P = 1.9e-19
 Identities = 41/63 (65%), Positives = 52/63 (82%)

Query:    68 EKLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDI 127
             + LFKV+V+GD  VGKTS VQRY Q++F K YK TVGVDFALK+++W D + ++LQLWDI
Sbjct:     5 DHLFKVLVVGDAAVGKTSLVQRYSQDSFSKHYKSTVGVDFALKVLQWSDSEMVRLQLWDI 64

Query:   128 AGQ 130
             AGQ
Sbjct:    65 AGQ 67

GO:0005525 "GTP binding" evidence=IEA

GO:0015031 "protein transport" evidence=IEA

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

MGI|MGI:2385107 Rab7l1 "RAB7, member RAS oncogene family-like 1" [Mus musculus (taxid:10090)]

 Score = 232 (86.7 bits), Expect = 1.9e-19, P = 1.9e-19
 Identities = 41/63 (65%), Positives = 52/63 (82%)

Query:    68 EKLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDI 127
             + LFKV+V+GD  VGKTS VQRY Q++F K YK TVGVDFALK+++W D + ++LQLWDI
Sbjct:     5 DHLFKVLVVGDAAVGKTSLVQRYSQDSFSKHYKSTVGVDFALKVLQWSDSEMVRLQLWDI 64

Query:   128 AGQ 130
             AGQ
Sbjct:    65 AGQ 67

GO:0000166 "nucleotide binding" evidence=IEA

GO:0003674 "molecular_function" evidence=ND

GO:0005525 "GTP binding" evidence=IEA

GO:0005575 "cellular_component" evidence=ND

GO:0005886 "plasma membrane" evidence=IEA

GO:0006810 "transport" evidence=IEA

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

GO:0008150 "biological_process" evidence=ND

GO:0015031 "protein transport" evidence=IEA

GO:0016020 "membrane" evidence=IEA

RGD|620892 Rab7l1 "RAB7, member RAS oncogene family-like 1" [Rattus norvegicus (taxid:10116)]

 Score = 232 (86.7 bits), Expect = 1.9e-19, P = 1.9e-19
 Identities = 41/63 (65%), Positives = 52/63 (82%)

Query:    68 EKLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDI 127
             + LFKV+V+GD  VGKTS VQRY Q++F K YK TVGVDFALK+++W D + ++LQLWDI
Sbjct:     5 DHLFKVLVVGDAAVGKTSLVQRYSQDSFSKHYKSTVGVDFALKVLQWSDSEMVRLQLWDI 64

Query:   128 AGQ 130
             AGQ
Sbjct:    65 AGQ 67

GO:0003924 "GTPase activity" evidence=TAS

GO:0005525 "GTP binding" evidence=TAS

GO:0005886 "plasma membrane" evidence=IEA

GO:0006184 "GTP catabolic process" evidence=TAS

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

GO:0015031 "protein transport" evidence=IEA

UNIPROTKB|F1N9R7 RAB7L1 "Uncharacterized protein" [Gallus gallus (taxid:9031)]

 Score = 231 (86.4 bits), Expect = 2.5e-19, P = 2.5e-19
 Identities = 39/63 (61%), Positives = 53/63 (84%)

Query:    68 EKLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDI 127
             +++FKV+V+GD TVGKTS VQRY  ++F + YK TVGVDFALK+V+W + + ++LQLWDI
Sbjct:    19 DRMFKVLVVGDATVGKTSLVQRYANDSFNRHYKSTVGVDFALKVVQWSESETVRLQLWDI 78

Query:   128 AGQ 130
             AGQ
Sbjct:    79 AGQ 81

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

GO:0015031 "protein transport" evidence=IEA

GO:0005525 "GTP binding" evidence=IEA

UNIPROTKB|I3LHE8 RAB7L1 "Uncharacterized protein" [Sus scrofa (taxid:9823)]

 Score = 231 (86.4 bits), Expect = 2.5e-19, P = 2.5e-19
 Identities = 41/63 (65%), Positives = 52/63 (82%)

Query:    68 EKLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDI 127
             + LFKV+V+GD  VGKTS VQRY Q++F K YK TVGVDFALK+++W D + ++LQLWDI
Sbjct:     5 DHLFKVLVVGDAAVGKTSLVQRYSQDSFSKHYKSTVGVDFALKVLQWSDSEVVRLQLWDI 64

Query:   128 AGQ 130
             AGQ
Sbjct:    65 AGQ 67

GO:0005525 "GTP binding" evidence=IEA

GO:0015031 "protein transport" evidence=IEA

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

UNIPROTKB|F1P9G2 RAB7L1 "Uncharacterized protein" [Canis lupus familiaris (taxid:9615)]

 Score = 229 (85.7 bits), Expect = 4.0e-19, P = 4.0e-19
 Identities = 40/63 (63%), Positives = 53/63 (84%)

Query:    68 EKLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDI 127
             + LFKV+V+GD  VGKTS VQRY Q++F++ YK TVGVDFALK+++W D + ++LQLWDI
Sbjct:    27 DHLFKVLVVGDAAVGKTSLVQRYSQDSFQQHYKSTVGVDFALKVLQWSDSEMVRLQLWDI 86

Query:   128 AGQ 130
             AGQ
Sbjct:    87 AGQ 89

GO:0005525 "GTP binding" evidence=IEA

GO:0015031 "protein transport" evidence=IEA

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

UNIPROTKB|O14966 RAB7L1 "Ras-related protein Rab-7L1" [Homo sapiens (taxid:9606)]

 Score = 229 (85.7 bits), Expect = 4.0e-19, P = 4.0e-19
 Identities = 41/63 (65%), Positives = 52/63 (82%)

Query:    68 EKLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDI 127
             + LFKV+V+GD  VGKTS VQRY Q++F K YK TVGVDFALK+++W D + ++LQLWDI
Sbjct:     5 DHLFKVLVVGDAAVGKTSLVQRYSQDSFSKHYKSTVGVDFALKVLQWSDYEIVRLQLWDI 64

Query:   128 AGQ 130
             AGQ
Sbjct:    65 AGQ 67

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

GO:0005525 "GTP binding" evidence=IEA

GO:0015031 "protein transport" evidence=IEA

GO:0005886 "plasma membrane" evidence=IEA

GO:0003924 "GTPase activity" evidence=TAS

GO:0006184 "GTP catabolic process" evidence=TAS

ZFIN|ZDB-GENE-091118-91 si:ch73-173m3.3 "si:ch73-173m3.3" [Danio rerio (taxid:7955)]

 Score = 209 (78.6 bits), Expect = 5.3e-17, P = 5.3e-17
 Identities = 38/63 (60%), Positives = 48/63 (76%)

Query:    68 EKLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDI 127
             E LFKV+VIGD  VGKTS ++RYV   F + Y+ T+GVDFALK++ W  Q  ++LQLWDI
Sbjct:     8 EHLFKVLVIGDLGVGKTSIIKRYVHQIFSQHYRATIGVDFALKVLHWDSQTVVRLQLWDI 67

Query:   128 AGQ 130
             AGQ
Sbjct:    68 AGQ 70

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|E1BA60 RAB32 "Uncharacterized protein" [Bos taurus (taxid:9913)]

 Score = 207 (77.9 bits), Expect = 8.6e-17, P = 8.6e-17
 Identities = 39/69 (56%), Positives = 51/69 (73%)

Query:    65 APPEK---LFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIK 121
             APPE    LFKV+VIG+  VGKTS ++RYV   F + Y+ T+GVDFALK++ W  +  ++
Sbjct:    18 APPETSEHLFKVLVIGELGVGKTSIIKRYVHQLFSQHYRATIGVDFALKVLNWDSRTLVR 77

Query:   122 LQLWDIAGQ 130
             LQLWDIAGQ
Sbjct:    78 LQLWDIAGQ 86

GO:0005739 "mitochondrion" evidence=IEA

GO:0005525 "GTP binding" evidence=IEA

GO:0015031 "protein transport" evidence=IEA

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

ZFIN|ZDB-GENE-090821-4 rab32b "RAB32b, member RAS oncogene family" [Danio rerio (taxid:7955)]

 Score = 205 (77.2 bits), Expect = 1.4e-16, P = 1.4e-16
 Identities = 36/63 (57%), Positives = 51/63 (80%)

Query:    68 EKLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDI 127
             E LFKV+VIGD  VGK+SFV+RYV+N F ++ K ++GVDF++K++ W    +++LQLWDI
Sbjct:    21 EHLFKVLVIGDHKVGKSSFVKRYVRNQFYEELKTSIGVDFSMKVIDWDAHTRVRLQLWDI 80

Query:   128 AGQ 130
             AGQ
Sbjct:    81 AGQ 83

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

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Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

ID	Name	Annotated EC number	Identity	Query coverage	Hit coverage	RBH(Q2H)	RBH(H2Q)
Q54QR3	RB32A_DICDI	No assigned EC number	0.5396	0.4809	0.2876	yes	N/A
Q9TVU5	RAB1_THEPA	No assigned EC number	0.5409	0.4580	0.2727	yes	N/A
Q4UB16	RAB1_THEAN	No assigned EC number	0.5409	0.4580	0.2727	yes	N/A
Q5R7A4	RAB7L_PONAB	No assigned EC number	0.6507	0.4809	0.3103	yes	N/A
Q91YQ1	RAB7L_MOUSE	No assigned EC number	0.6507	0.4809	0.3088	yes	N/A
O14966	RAB7L_HUMAN	No assigned EC number	0.6507	0.4809	0.3103	yes	N/A
Q63481	RAB7L_RAT	No assigned EC number	0.6507	0.4809	0.3088	yes	N/A

EC Number Prediction by EFICAz Software

No EC number assignment, probably not an enzyme!

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Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database

ID	Length	Definition	E-value
Query	131
cd04107	201	cd04107, Rab32_Rab38, Rab GTPase families 18 (Rab1	5e-30
cd00154	159	cd00154, Rab, Ras-related in brain (Rab) family of	6e-26
smart00175	164	smart00175, RAB, Rab subfamily of small GTPases	2e-25
pfam00071	162	pfam00071, Ras, Ras family	3e-20
cd01868	165	cd01868, Rab11_like, Rab GTPase family 11 (Rab11)-	1e-17
cd01861	161	cd01861, Rab6, Rab GTPase family 6 (Rab6)	2e-17
cd04109	213	cd04109, Rab28, Rab GTPase family 28 (Rab28)	2e-17
cd01862	172	cd01862, Rab7, Rab GTPase family 7 (Rab7)	3e-17
cd04106	162	cd04106, Rab23_like, Rab GTPase family 23 (Rab23)-	5e-17
cd04111	211	cd04111, Rab39, Rab GTPase family 39 (Rab39)	6e-17
cd01865	165	cd01865, Rab3, Rab GTPase family 3 contains Rab3A,	3e-16
cd01863	161	cd01863, Rab18, Rab GTPase family 18 (Rab18)	5e-16
cd01869	166	cd01869, Rab1_Ypt1, Rab GTPase family 1 includes t	1e-15
cd01867	167	cd01867, Rab8_Rab10_Rab13_like, Rab GTPase familie	2e-15
cd01864	165	cd01864, Rab19, Rab GTPase family 19 (Rab19)	3e-15
cd04115	170	cd04115, Rab33B_Rab33A, Rab GTPase family 33 inclu	3e-15
cd04122	166	cd04122, Rab14, Rab GTPase family 14 (Rab14)	5e-15
cd04110	199	cd04110, Rab35, Rab GTPase family 35 (Rab35)	7e-15
cd04127	180	cd04127, Rab27A, Rab GTPase family 27a (Rab27a)	1e-14
cd04114	169	cd04114, Rab30, Rab GTPase family 30 (Rab30)	2e-14
COG1100	219	COG1100, COG1100, GTPase SAR1 and related small G	4e-14
cd04113	161	cd04113, Rab4, Rab GTPase family 4 (Rab4)	5e-14
cd01860	163	cd01860, Rab5_related, Rab-related GTPase family i	8e-14
PLN03110	216	PLN03110, PLN03110, Rab GTPase; Provisional	8e-13
cd04108	170	cd04108, Rab36_Rab34, Rab GTPase families 34 (Rab3	1e-12
cd01866	168	cd01866, Rab2, Rab GTPase family 2 (Rab2)	2e-12
cd04117	164	cd04117, Rab15, Rab GTPase family 15 (Rab15)	2e-11
cd04112	191	cd04112, Rab26, Rab GTPase family 26 (Rab26)	2e-11
cd04116	170	cd04116, Rab9, Rab GTPase family 9 (Rab9)	3e-11
cd04128	182	cd04128, Spg1, Septum-promoting GTPase (Spg1)	7e-11
cd04101	167	cd04101, RabL4, Rab GTPase-like family 4 (Rab-like	7e-11
PLN03108	210	PLN03108, PLN03108, Rab family protein; Provisiona	8e-11
cd04120	202	cd04120, Rab12, Rab GTPase family 12 (Rab12)	9e-11
cd00157	171	cd00157, Rho, Ras homology family (Rho) of small g	2e-10
smart00174	174	smart00174, RHO, Rho (Ras homology) subfamily of R	3e-10
cd09914	161	cd09914, RocCOR, Ras of complex proteins (Roc) C-t	4e-10
cd04123	162	cd04123, Rab21, Rab GTPase family 21 (Rab21)	5e-10
PTZ00132	215	PTZ00132, PTZ00132, GTP-binding nuclear protein Ra	7e-10
cd00877	166	cd00877, Ran, Ras-related nuclear proteins (Ran)/T	2e-09
PLN03071	219	PLN03071, PLN03071, GTP-binding nuclear protein Ra	3e-09
cd04126	220	cd04126, Rab20, Rab GTPase family 20 (Rab20)	6e-09
cd04132	197	cd04132, Rho4_like, Ras homology family 4 (Rho4) o	5e-08
PLN03118	211	PLN03118, PLN03118, Rab family protein; Provisiona	6e-08
cd04119	168	cd04119, RJL, Rab GTPase family J-like (RabJ-like)	7e-08
cd00876	160	cd00876, Ras, Rat sarcoma (Ras) family of small gu	1e-07
cd04137	180	cd04137, RheB, Ras Homolog Enriched in Brain (RheB	2e-07
cd04133	173	cd04133, Rop_like, Rho-related protein from plants	4e-07
cd04118	193	cd04118, Rab24, Rab GTPase family 24 (Rab24)	5e-07
smart00176	200	smart00176, RAN, Ran (Ras-related nuclear proteins	8e-07
cd04130	173	cd04130, Wrch_1, Wnt-1 responsive Cdc42 homolog (W	1e-06
cd04131	176	cd04131, Rnd, Rho family GTPase subfamily Rnd incl	2e-06
pfam08477	116	pfam08477, Miro, Miro-like protein	2e-06
TIGR00231	162	TIGR00231, small_GTP, small GTP-binding protein do	2e-06
cd01875	191	cd01875, RhoG, Ras homolog family, member G (RhoG)	2e-06
cd04134	185	cd04134, Rho3, Ras homology family 3 (Rho3) of sma	2e-06
smart00010	166	smart00010, small_GTPase, Small GTPase of the Ras	6e-06
cd01871	174	cd01871, Rac1_like, Ras-related C3 botulinum toxin	7e-06
smart00173	164	smart00173, RAS, Ras subfamily of RAS small GTPase	8e-06
cd04172	182	cd04172, Rnd3_RhoE_Rho8, Rnd3/RhoE/Rho8 GTPases	3e-05
cd04124	161	cd04124, RabL2, Rab GTPase-like family 2 (Rab-like	3e-05
PTZ00099	176	PTZ00099, PTZ00099, rab6; Provisional	5e-05
cd04121	189	cd04121, Rab40, Rab GTPase family 40 (Rab40) conta	1e-04
cd04173	221	cd04173, Rnd2_Rho7, Rnd2/Rho7 GTPases	2e-04
cd04129	190	cd04129, Rho2, Ras homology family 2 (Rho2) of sma	2e-04
cd01874	175	cd01874, Cdc42, cell division cycle 42 (Cdc42) is	5e-04
cd04140	165	cd04140, ARHI_like, A Ras homolog member I (ARHI)	6e-04
cd01892	180	cd01892, Miro2, Mitochondrial Rho family 2 (Miro2)	8e-04
cd00882	161	cd00882, Ras_like_GTPase, Rat sarcoma (Ras)-like s	8e-04
cd01870	175	cd01870, RhoA_like, Ras homology family A (RhoA)-l	0.001
cd04147	197	cd04147, Ras_dva, Ras - dorsal-ventral anterior lo	0.002
cd04102	204	cd04102, RabL3, Rab GTPase-like family 3 (Rab-like	0.002
cd04139	163	cd04139, RalA_RalB, Ral (Ras-like) family containi	0.002
cd04135	174	cd04135, Tc10, Rho GTPase TC10 (Tc10)	0.002
cd04174	232	cd04174, Rnd1_Rho6, Rnd1/Rho6 GTPases	0.003

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

 Score =  106 bits (267), Expect = 5e-30
 Identities = 36/60 (60%), Positives = 46/60 (76%)

Query: 71  FKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQ 130
           FKV+VIGD  VGKTS ++RYV   F + YK T+GVDFALK+++W     ++LQLWDIAGQ
Sbjct: 1   FKVLVIGDLGVGKTSIIKRYVHGVFSQHYKATIGVDFALKVIEWDPNTVVRLQLWDIAGQ 60

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

 Score = 94.8 bits (237), Expect = 6e-26
 Identities = 32/60 (53%), Positives = 45/60 (75%), Gaps = 1/60 (1%)

Query: 71  FKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQ 130
           FK+++IGD  VGKTS + R+V N F ++YK T+GVDF  K ++  D +K+KLQ+WD AGQ
Sbjct: 1   FKIVLIGDSGVGKTSLLLRFVDNKFSENYKSTIGVDFKSKTIEV-DGKKVKLQIWDTAGQ 59

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|197555 smart00175, RAB, Rab subfamily of small GTPases

 Score = 94.1 bits (235), Expect = 2e-25
 Identities = 28/60 (46%), Positives = 41/60 (68%), Gaps = 1/60 (1%)

Query: 71  FKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQ 130
           FK+I+IGD  VGK+S + R+    F + YK T+GVDF  K ++    +++KLQ+WD AGQ
Sbjct: 1   FKIILIGDSGVGKSSLLSRFTDGKFSEQYKSTIGVDFKTKTIEVDG-KRVKLQIWDTAGQ 59

Rab GTPases are implicated in vesicle trafficking. Length = 164

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

 Score = 80.2 bits (199), Expect = 3e-20
 Identities = 27/59 (45%), Positives = 42/59 (71%), Gaps = 1/59 (1%)

Query: 72  KVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQ 130
           K++++GD  VGK+S + R+ QN F ++Y  T+GVDF  K ++  D + +KLQ+WD AGQ
Sbjct: 1   KLVLVGDGGVGKSSLLIRFTQNKFPEEYIPTIGVDFYTKTIE-VDGKTVKLQIWDTAGQ 58

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

 Score = 73.4 bits (181), Expect = 1e-17
 Identities = 28/61 (45%), Positives = 43/61 (70%), Gaps = 1/61 (1%)

Query: 70  LFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAG 129
           LFK+++IGD  VGK++ + R+ +N F  D K T+GV+FA + ++  D + IK Q+WD AG
Sbjct: 3   LFKIVLIGDSGVGKSNLLSRFTRNEFNLDSKSTIGVEFATRTIQI-DGKTIKAQIWDTAG 61

Query: 130 Q 130
           Q
Sbjct: 62  Q 62

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|206654 cd01861, Rab6, Rab GTPase family 6 (Rab6)

 Score = 73.4 bits (181), Expect = 2e-17
 Identities = 26/60 (43%), Positives = 41/60 (68%), Gaps = 1/60 (1%)

Query: 71  FKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQ 130
            K++ +GD +VGKTS + R++ +TF   Y+ T+G+DF  K +   D + ++LQLWD AGQ
Sbjct: 1   HKLVFLGDQSVGKTSIITRFMYDTFDNQYQATIGIDFLSKTMYV-DDKTVRLQLWDTAGQ 59

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|206694 cd04109, Rab28, Rab GTPase family 28 (Rab28)

 Score = 74.1 bits (182), Expect = 2e-17
 Identities = 25/60 (41%), Positives = 37/60 (61%)

Query: 71  FKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQ 130
            K++V+GD   GKTS ++R+ Q  F K YK T+G+DF  + +       + LQ+WDI GQ
Sbjct: 1   IKIVVLGDGASGKTSLIRRFAQEGFGKSYKQTIGLDFFSRRITLPGSLNVTLQVWDIGGQ 60

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|206655 cd01862, Rab7, Rab GTPase family 7 (Rab7)

 Score = 73.1 bits (180), Expect = 3e-17
 Identities = 29/60 (48%), Positives = 37/60 (61%), Gaps = 1/60 (1%)

Query: 71  FKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQ 130
            KVI++GD  VGKTS + +YV   F   YK T+G DF  K V   D+  + LQ+WD AGQ
Sbjct: 1   LKVIILGDSGVGKTSLMNQYVNKKFSNQYKATIGADFLTKEVTVDDRL-VTLQIWDTAGQ 59

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

 Score = 72.1 bits (177), Expect = 5e-17
 Identities = 31/60 (51%), Positives = 42/60 (70%), Gaps = 1/60 (1%)

Query: 72  KVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQ-QKIKLQLWDIAGQ 130
           KVIV+G+  VGK+S +QR+V+  F KDYK T+GVDF  K +  R   + ++L LWD AGQ
Sbjct: 2   KVIVVGNGNVGKSSMIQRFVKGIFTKDYKKTIGVDFLEKQIFLRQSDEDVRLMLWDTAGQ 61

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|133311 cd04111, Rab39, Rab GTPase family 39 (Rab39)

 Score = 72.9 bits (179), Expect = 6e-17
 Identities = 29/60 (48%), Positives = 42/60 (70%)

Query: 71  FKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQ 130
           F++IVIGD TVGK+S ++R+ +  F +    TVGVDF  ++++     +IKLQLWD AGQ
Sbjct: 3   FRLIVIGDSTVGKSSLLKRFTEGRFAEVSDPTVGVDFFSRLIEIEPGVRIKLQLWDTAGQ 62

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. Length = 211

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

 Score = 70.3 bits (172), Expect = 3e-16
 Identities = 30/61 (49%), Positives = 47/61 (77%), Gaps = 1/61 (1%)

Query: 70  LFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAG 129
           +FK+++IG+ +VGKTSF+ RY  ++F   +  TVG+DF +K V +R+ ++IKLQ+WD AG
Sbjct: 1   MFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTV-YRNDKRIKLQIWDTAG 59

Query: 130 Q 130
           Q
Sbjct: 60  Q 60

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|206656 cd01863, Rab18, Rab GTPase family 18 (Rab18)

 Score = 69.6 bits (171), Expect = 5e-16
 Identities = 28/60 (46%), Positives = 41/60 (68%), Gaps = 1/60 (1%)

Query: 71  FKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQ 130
            K+++IGD  VGK+S + R+  +TF +D   T+GVDF +K V   D +K+KL +WD AGQ
Sbjct: 1   LKILLIGDSGVGKSSLLLRFTDDTFDEDLSSTIGVDFKVKTVT-VDGKKVKLAIWDTAGQ 59

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

 Score = 68.5 bits (168), Expect = 1e-15
 Identities = 26/61 (42%), Positives = 43/61 (70%), Gaps = 1/61 (1%)

Query: 70  LFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAG 129
           LFK+++IGD  VGK+  + R+  +T+ + Y  T+GVDF ++ ++  D + +KLQ+WD AG
Sbjct: 2   LFKLLLIGDSGVGKSCLLLRFADDTYTESYISTIGVDFKIRTIEL-DGKTVKLQIWDTAG 60

Query: 130 Q 130
           Q
Sbjct: 61  Q 61

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

 Score = 68.1 bits (167), Expect = 2e-15
 Identities = 26/61 (42%), Positives = 44/61 (72%), Gaps = 1/61 (1%)

Query: 70  LFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAG 129
           LFK+++IGD  VGK+  + R+ +++F   +  T+G+DF ++ ++  D +KIKLQ+WD AG
Sbjct: 3   LFKLLLIGDSGVGKSCLLLRFSEDSFNPSFISTIGIDFKIRTIEL-DGKKIKLQIWDTAG 61

Query: 130 Q 130
           Q
Sbjct: 62  Q 62

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|133267 cd01864, Rab19, Rab GTPase family 19 (Rab19)

 Score = 67.5 bits (165), Expect = 3e-15
 Identities = 30/61 (49%), Positives = 42/61 (68%), Gaps = 1/61 (1%)

Query: 70  LFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAG 129
           LFK+I+IGD  VGKT  VQR+   TF +    T+GVDF +K ++    +++KLQ+WD AG
Sbjct: 3   LFKIILIGDSNVGKTCVVQRFKSGTFSERQGNTIGVDFTMKTLEI-QGKRVKLQIWDTAG 61

Query: 130 Q 130
           Q
Sbjct: 62  Q 62

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

 Score = 67.5 bits (165), Expect = 3e-15
 Identities = 29/62 (46%), Positives = 41/62 (66%), Gaps = 1/62 (1%)

Query: 69  KLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIA 128
           ++FK+IVIGD  VGKT    R+    F +  + T+GVDF  + V+  D ++IK+QLWD A
Sbjct: 1   RIFKIIVIGDSNVGKTCLTYRFCAGRFPERTEATIGVDFRERTVEI-DGERIKVQLWDTA 59

Query: 129 GQ 130
           GQ
Sbjct: 60  GQ 61

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|133322 cd04122, Rab14, Rab GTPase family 14 (Rab14)

 Score = 66.8 bits (163), Expect = 5e-15
 Identities = 27/61 (44%), Positives = 40/61 (65%), Gaps = 1/61 (1%)

Query: 70  LFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAG 129
           +FK I+IGD  VGK+  + ++ +  F  D   T+GV+F  +I++    QKIKLQ+WD AG
Sbjct: 2   IFKYIIIGDMGVGKSCLLHQFTEKKFMADCPHTIGVEFGTRIIEVNG-QKIKLQIWDTAG 60

Query: 130 Q 130
           Q
Sbjct: 61  Q 61

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 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|133310 cd04110, Rab35, Rab GTPase family 35 (Rab35)

 Score = 67.2 bits (164), Expect = 7e-15
 Identities = 29/61 (47%), Positives = 44/61 (72%), Gaps = 1/61 (1%)

Query: 70  LFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAG 129
           LFK+++IGD  VGK+S + R+  NTF   Y  T+GVDF ++ V+  + +++KLQ+WD AG
Sbjct: 6   LFKLLIIGDSGVGKSSLLLRFADNTFSGSYITTIGVDFKIRTVEI-NGERVKLQIWDTAG 64

Query: 130 Q 130
           Q
Sbjct: 65  Q 65

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

 Score = 66.0 bits (161), Expect = 1e-14
 Identities = 29/70 (41%), Positives = 39/70 (55%), Gaps = 9/70 (12%)

Query: 70  LFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQ---------QKI 120
           L K++ +GD  VGKT+F+ RY  N F   +  TVG+DF  K V +  Q          ++
Sbjct: 4   LIKLLALGDSGVGKTTFLYRYTDNKFNPKFITTVGIDFREKRVVYNSQGPDGTSGKAFRV 63

Query: 121 KLQLWDIAGQ 130
            LQLWD AGQ
Sbjct: 64  HLQLWDTAGQ 73

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

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

 Score = 65.7 bits (160), Expect = 2e-14
 Identities = 30/61 (49%), Positives = 42/61 (68%), Gaps = 1/61 (1%)

Query: 70  LFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAG 129
           LFK+++IG+  VGKT  V+R+ Q  F      T+GVDF +K V+ +  +KIKLQ+WD AG
Sbjct: 7   LFKIVLIGNAGVGKTCLVRRFTQGLFPPGQGATIGVDFMIKTVEIKG-EKIKLQIWDTAG 65

Query: 130 Q 130
           Q
Sbjct: 66  Q 66

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

 Score = 65.8 bits (160), Expect = 4e-14
 Identities = 26/63 (41%), Positives = 36/63 (57%), Gaps = 1/63 (1%)

Query: 68  EKLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDI 127
            K FK++V+GD  VGKT+ + R V + F + Y  T+G            ++ IKLQLWD 
Sbjct: 3   MKEFKIVVLGDGGVGKTTLLNRLVGDEFPEGYPPTIGNLD-PAKTIEPYRRNIKLQLWDT 61

Query: 128 AGQ 130
           AGQ
Sbjct: 62  AGQ 64

Length = 219

>gnl|CDD|206696 cd04113, Rab4, Rab GTPase family 4 (Rab4)

 Score = 64.4 bits (157), Expect = 5e-14
 Identities = 23/60 (38%), Positives = 39/60 (65%), Gaps = 1/60 (1%)

Query: 71  FKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQ 130
           FK ++IG    GK+  + ++++N FK+D   T+GV+F  ++V    +  +KLQ+WD AGQ
Sbjct: 1   FKFLIIGSAGTGKSCLLHQFIENKFKQDSNHTIGVEFGSRVVNVGGKS-VKLQIWDTAGQ 59

Rab4 subfamily. 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 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|206653 cd01860, Rab5_related, Rab-related GTPase family includes Rab5 and Rab22; regulates early endosome fusion

 Score = 63.7 bits (156), Expect = 8e-14
 Identities = 24/60 (40%), Positives = 40/60 (66%), Gaps = 1/60 (1%)

Query: 71  FKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQ 130
           FK++++GD +VGK+S V R+V+N F ++ + T+G  F  + V   D   +K ++WD AGQ
Sbjct: 2   FKLVLLGDSSVGKSSIVLRFVKNEFSENQESTIGAAFLTQTVNLDDTT-VKFEIWDTAGQ 60

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|178657 PLN03110, PLN03110, Rab GTPase; Provisional

 Score = 62.3 bits (151), Expect = 8e-13
 Identities = 25/61 (40%), Positives = 43/61 (70%), Gaps = 1/61 (1%)

Query: 70  LFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAG 129
           LFK+++IGD  VGK++ + R+ +N F  + K T+GV+FA + ++  + + +K Q+WD AG
Sbjct: 12  LFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQ-VEGKTVKAQIWDTAG 70

Query: 130 Q 130
           Q
Sbjct: 71  Q 71

Length = 216

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

 Score = 60.7 bits (147), Expect = 1e-12
 Identities = 28/59 (47%), Positives = 39/59 (66%), Gaps = 1/59 (1%)

Query: 72  KVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQ 130
           KVIV+GD +VGKT  + R+ ++ F K+YK T+GVDF ++  +        LQLWD AGQ
Sbjct: 2   KVIVVGDLSVGKTCLINRFCKDVFDKNYKATIGVDFEMERFEVLG-VPFSLQLWDTAGQ 59

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|206658 cd01866, Rab2, Rab GTPase family 2 (Rab2)

 Score = 60.1 bits (146), Expect = 2e-12
 Identities = 25/61 (40%), Positives = 40/61 (65%), Gaps = 1/61 (1%)

Query: 70  LFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAG 129
           LFK I+IGD  VGK+  + ++    F+  +  T+GV+F  +++   D ++IKLQ+WD AG
Sbjct: 4   LFKYIIIGDTGVGKSCLLLQFTDKRFQPVHDLTIGVEFGARMITI-DGKQIKLQIWDTAG 62

Query: 130 Q 130
           Q
Sbjct: 63  Q 63

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 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 = 168

>gnl|CDD|206698 cd04117, Rab15, Rab GTPase family 15 (Rab15)

 Score = 57.7 bits (139), Expect = 2e-11
 Identities = 25/60 (41%), Positives = 40/60 (66%), Gaps = 1/60 (1%)

Query: 71  FKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQ 130
           F++++IGD  VGKT  + R+  N F   +  T+GVDF +K ++  D  K+++Q+WD AGQ
Sbjct: 1   FRLLLIGDSGVGKTCLLCRFTDNEFHSSHISTIGVDFKMKTIE-VDGIKVRIQIWDTAGQ 59

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 the presence of truncated sequences in this CD, the lipid modification site is not available for annotation. Length = 164

>gnl|CDD|206695 cd04112, Rab26, Rab GTPase family 26 (Rab26)

 Score = 58.0 bits (140), Expect = 2e-11
 Identities = 27/61 (44%), Positives = 37/61 (60%), Gaps = 2/61 (3%)

Query: 71  FKVIVIGDPTVGKTSFVQRYVQNTFKK-DYKGTVGVDFALKIVKWRDQQKIKLQLWDIAG 129
           FKV+++GD  VGKT  + R+    F    +  TVG+ F  K+V   D  K+KLQ+WD AG
Sbjct: 1   FKVMLVGDSGVGKTCLLVRFKDGAFLAGSFIATVGIQFTNKVVT-VDGVKVKLQIWDTAG 59

Query: 130 Q 130
           Q
Sbjct: 60  Q 60

Rab26 subfamily. 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. Length = 191

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

 Score = 57.2 bits (138), Expect = 3e-11
 Identities = 28/62 (45%), Positives = 38/62 (61%), Gaps = 1/62 (1%)

Query: 69  KLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIA 128
            L KVI++GD  VGK+S + RYV N F      T+GV+F  K ++  D   + LQ+WD A
Sbjct: 4   SLLKVILLGDGGVGKSSLMNRYVTNKFDTQLFHTIGVEFLNKDLE-VDGHFVTLQIWDTA 62

Query: 129 GQ 130
           GQ
Sbjct: 63  GQ 64

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|206701 cd04128, Spg1, Septum-promoting GTPase (Spg1)

 Score = 56.2 bits (136), Expect = 7e-11
 Identities = 22/59 (37%), Positives = 37/59 (62%), Gaps = 1/59 (1%)

Query: 72  KVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQ 130
           K+ ++GD  +GKTS + +YV+  F ++Y  T+GV+F  K +  R  + I   +WD+ GQ
Sbjct: 2   KIGLLGDAQIGKTSLMVKYVEGEFDEEYIQTLGVNFMEKTISIRGTE-ITFSIWDLGGQ 59

Spg1p. 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 further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Length = 182

>gnl|CDD|206688 cd04101, RabL4, Rab GTPase-like family 4 (Rab-like4)

 Score = 56.0 bits (135), Expect = 7e-11
 Identities = 23/62 (37%), Positives = 36/62 (58%), Gaps = 3/62 (4%)

Query: 72  KVIVIGDPTVGKTSFVQRYVQN--TFKKDYKGTVGVDFALKIVKW-RDQQKIKLQLWDIA 128
           +  V+GDP VGK++ VQ +  +  TF+K+Y  T G D  +K V        ++L ++D A
Sbjct: 2   QCAVVGDPAVGKSALVQMFHSDGATFQKNYTMTTGCDLVVKTVPVPDTSDSVELFIFDSA 61

Query: 129 GQ 130
           GQ
Sbjct: 62  GQ 63

RabL4 (Rab-like4) subfamily. 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. Length = 167

>gnl|CDD|178655 PLN03108, PLN03108, Rab family protein; Provisional

 Score = 56.9 bits (137), Expect = 8e-11
 Identities = 25/61 (40%), Positives = 39/61 (63%), Gaps = 1/61 (1%)

Query: 70  LFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAG 129
           LFK I+IGD  VGK+  + ++    F+  +  T+GV+F  +++   D + IKLQ+WD AG
Sbjct: 6   LFKYIIIGDTGVGKSCLLLQFTDKRFQPVHDLTIGVEFGARMITI-DNKPIKLQIWDTAG 64

Query: 130 Q 130
           Q
Sbjct: 65  Q 65

Length = 210

>gnl|CDD|206699 cd04120, Rab12, Rab GTPase family 12 (Rab12)

 Score = 56.6 bits (136), Expect = 9e-11
 Identities = 31/59 (52%), Positives = 43/59 (72%), Gaps = 1/59 (1%)

Query: 72  KVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQ 130
           +VI+IG   VGKTS ++R+  +TF +  K TVGVDF +K V+ R  +KI+LQ+WD AGQ
Sbjct: 2   QVIIIGSRGVGKTSLMERFTDDTFCEACKSTVGVDFKIKTVELRG-KKIRLQIWDTAGQ 59

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 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 = 202

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

 Score = 55.2 bits (134), Expect = 2e-10
 Identities = 22/60 (36%), Positives = 34/60 (56%), Gaps = 2/60 (3%)

Query: 72  KVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQN 131
           K++V+GD  VGKT  +  Y  N F  +Y  TV  +++  +    D +++ L LWD AGQ 
Sbjct: 2   KIVVVGDGAVGKTCLLISYTTNKFPTEYVPTVFDNYSANVT--VDGKQVNLGLWDTAGQE 59

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

 Score = 54.5 bits (132), Expect = 3e-10
 Identities = 22/58 (37%), Positives = 34/58 (58%), Gaps = 2/58 (3%)

Query: 73  VIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQ 130
           ++V+GD  VGKT  +  Y  N F +DY  TV  +++  +    D + ++L LWD AGQ
Sbjct: 1   LVVVGDGAVGKTCLLIVYTTNAFPEDYVPTVFENYSADVE--VDGKPVELGLWDTAGQ 56

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

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

 Score = 53.9 bits (130), Expect = 4e-10
 Identities = 18/59 (30%), Positives = 33/59 (55%)

Query: 72  KVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQ 130
           K++++G   VGKTS  ++ +   F  D   T G++     +   +++KI+L +WD  GQ
Sbjct: 3   KLMLVGQGGVGKTSLCKQLIGEKFDGDESSTHGINVQDWKIPAPERKKIRLNVWDFGGQ 61

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

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

 Score = 53.8 bits (130), Expect = 5e-10
 Identities = 26/60 (43%), Positives = 37/60 (61%), Gaps = 1/60 (1%)

Query: 71  FKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQ 130
           FKV+++G+  VGKTS V RYV+N F + ++ T    F  K V    ++ I L +WD AGQ
Sbjct: 1   FKVVLLGEGRVGKTSLVLRYVENKFNEKHESTTQASFFQKTVNIGGKR-IDLAIWDTAGQ 59

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

 Score = 53.9 bits (130), Expect = 7e-10
 Identities = 26/67 (38%), Positives = 41/67 (61%), Gaps = 3/67 (4%)

Query: 64  NAPPEKLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQ 123
           +  PE  FK+I++GD  VGKT+FV+R++   F+K Y  T+GV+    +  + +   I   
Sbjct: 5   DEVPE--FKLILVGDGGVGKTTFVKRHLTGEFEKKYIPTLGVEVH-PLKFYTNCGPICFN 61

Query: 124 LWDIAGQ 130
           +WD AGQ
Sbjct: 62  VWDTAGQ 68

Length = 215

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

 Score = 52.3 bits (126), Expect = 2e-09
 Identities = 23/61 (37%), Positives = 40/61 (65%), Gaps = 3/61 (4%)

Query: 71  FKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQ-KIKLQLWDIAG 129
           FK++++GD   GKT+FV+R++   F+K Y  T+GV+  +  + +   + KI+  +WD AG
Sbjct: 1   FKLVLVGDGGTGKTTFVKRHLTGEFEKKYVATLGVE--VHPLDFHTNRGKIRFNVWDTAG 58

Query: 130 Q 130
           Q
Sbjct: 59  Q 59

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

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

 Score = 52.4 bits (126), Expect = 3e-09
 Identities = 25/65 (38%), Positives = 39/65 (60%), Gaps = 11/65 (16%)

Query: 71  FKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGV-----DFALKIVKWRDQQKIKLQLW 125
           FK++++GD   GKT+FV+R++   F+K Y+ T+GV     DF      + +  KI+   W
Sbjct: 14  FKLVIVGDGGTGKTTFVKRHLTGEFEKKYEPTIGVEVHPLDF------FTNCGKIRFYCW 67

Query: 126 DIAGQ 130
           D AGQ
Sbjct: 68  DTAGQ 72

Length = 219

>gnl|CDD|133326 cd04126, Rab20, Rab GTPase family 20 (Rab20)

 Score = 51.4 bits (123), Expect = 6e-09
 Identities = 25/58 (43%), Positives = 34/58 (58%), Gaps = 6/58 (10%)

Query: 72  KVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAG 129
           KV+++GD  VGKTS + RY++  F KD   TVG  F LK  +W       + +WD AG
Sbjct: 2   KVVLLGDMNVGKTSLLHRYMERRF-KDTVSTVGGAFYLK--QWG---PYNISIWDTAG 53

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-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 = 220

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

 Score = 48.9 bits (117), Expect = 5e-08
 Identities = 21/60 (35%), Positives = 36/60 (60%), Gaps = 1/60 (1%)

Query: 71  FKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQ 130
            K++V+GD   GKT  +  Y Q +F ++Y  TV  ++ +  ++  + + I+L LWD AGQ
Sbjct: 4   VKIVVVGDGGCGKTCLLMVYAQGSFPEEYVPTVFENY-VTTLQVPNGKIIELALWDTAGQ 62

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|215587 PLN03118, PLN03118, Rab family protein; Provisional

 Score = 48.9 bits (116), Expect = 6e-08
 Identities = 23/60 (38%), Positives = 40/60 (66%), Gaps = 2/60 (3%)

Query: 71  FKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQ 130
           FK+++IGD  VGK+S +  ++ ++  +D   T+GVDF +K +     +++KL +WD AGQ
Sbjct: 15  FKILLIGDSGVGKSSLLVSFISSSV-EDLAPTIGVDFKIKQLT-VGGKRLKLTIWDTAGQ 72

Length = 211

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

 Score = 48.1 bits (115), Expect = 7e-08
 Identities = 19/58 (32%), Positives = 38/58 (65%), Gaps = 1/58 (1%)

Query: 72  KVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAG 129
           KVI +G+  VGK+  ++RY +  F   Y  T+G+D+ +K V  R+ +++++  +D++G
Sbjct: 2   KVISMGNSGVGKSCIIKRYCEGRFVSKYLPTIGIDYGVKKVSVRN-KEVRVNFFDLSG 58

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

 Score = 47.5 bits (114), Expect = 1e-07
 Identities = 19/59 (32%), Positives = 31/59 (52%), Gaps = 2/59 (3%)

Query: 72  KVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQ 130
           K++V+G   VGK++   R+V   F ++Y  T+  D   K +   D +   L + D AGQ
Sbjct: 1   KLVVLGAGGVGKSALTIRFVSGEFVEEYDPTIE-DSYRKQIVV-DGETYTLDILDTAGQ 57

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

 Score = 46.9 bits (112), Expect = 2e-07
 Identities = 20/59 (33%), Positives = 36/59 (61%), Gaps = 2/59 (3%)

Query: 72  KVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQ 130
           K+ V+G  +VGK+S   ++V+  F + Y  T+   F+ KI+ ++  Q+  L++ D AGQ
Sbjct: 3   KIAVLGSRSVGKSSLTVQFVEGHFVESYYPTIENTFS-KIITYK-GQEYHLEIVDTAGQ 59

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|206705 cd04133, Rop_like, Rho-related protein from plants (Rop)-like

 Score = 46.0 bits (109), Expect = 4e-07
 Identities = 25/59 (42%), Positives = 32/59 (54%), Gaps = 2/59 (3%)

Query: 72  KVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQ 130
           K + +GD  VGKT  +  Y  NTF  DY  TV  +F+  +V   D   + L LWD AGQ
Sbjct: 3   KCVTVGDGAVGKTCMLISYTSNTFPTDYVPTVFDNFSANVVV--DGNTVNLGLWDTAGQ 59

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, Rop1, Rop3, and Rop5 are all involved in pollen-tube growth; Rop2 plays a role in response to low-oxygen environments, cell-morphology, and root-hair development; root-hair development is also regulated by Rop4 and Rop6; Rop6 is also responsible for ABA response, and ABA response is also regulated by Rop10. Plants retain some of the regulatory mechanisms that are shared by other members of the Rho family, but have also developed a number of unique modes for regulating Rops. Unique RhoGEFs have been identified that are exclusively active toward Rop proteins, such as those containing the domain PRONE (plant-specific Rop nucleotide exchanger). 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|133318 cd04118, Rab24, Rab GTPase family 24 (Rab24)

 Score = 46.0 bits (109), Expect = 5e-07
 Identities = 23/59 (38%), Positives = 36/59 (61%), Gaps = 2/59 (3%)

Query: 72  KVIVIGDPTVGKTSFVQRYVQNTF-KKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAG 129
           KV+++G  +VGKTS V+RYV + F    Y+ T+G  F  K +   ++  + L +WD AG
Sbjct: 2   KVVMLGKESVGKTSLVERYVHHRFLVGPYQNTIGAAFVAKRMVVGERV-VTLGIWDTAG 59

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 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 = 193

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

 Score = 45.8 bits (108), Expect = 8e-07
 Identities = 21/55 (38%), Positives = 34/55 (61%), Gaps = 1/55 (1%)

Query: 76  IGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQ 130
           +GD   GKT+FV+R++   F+K Y  T+GV+    +V   ++  I+  +WD AGQ
Sbjct: 1   VGDGGTGKTTFVKRHLTGEFEKKYVATLGVEVH-PLVFHTNRGPIRFNVWDTAGQ 54

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

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

 Score = 44.7 bits (106), Expect = 1e-06
 Identities = 21/59 (35%), Positives = 35/59 (59%), Gaps = 2/59 (3%)

Query: 72  KVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQ 130
           K +++GD  VGKTS +  Y  N +  +Y  T   +F++ ++   D + ++LQL D AGQ
Sbjct: 2   KCVLVGDGAVGKTSLIVSYTTNGYPTEYVPTAFDNFSVVVLV--DGKPVRLQLCDTAGQ 58

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|206703 cd04131, Rnd, Rho family GTPase subfamily Rnd includes Rnd1/Rho6, Rnd2/Rho7, and Rnd3/RhoE/Rho8

 Score = 44.7 bits (106), Expect = 2e-06
 Identities = 19/61 (31%), Positives = 40/61 (65%), Gaps = 6/61 (9%)

Query: 72  KVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDF--ALKIVKWRDQQKIKLQLWDIAG 129
           K++++GD   GKT+ +Q + +++F ++Y  TV  ++  + ++    D+Q+I+L LWD +G
Sbjct: 3   KIVLVGDSQCGKTALLQVFAKDSFPENYVPTVFENYTASFEV----DKQRIELSLWDTSG 58

Query: 130 Q 130
            
Sbjct: 59  S 59

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. Length = 176

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

 Score = 43.6 bits (103), Expect = 2e-06
 Identities = 18/59 (30%), Positives = 26/59 (44%), Gaps = 1/59 (1%)

Query: 72  KVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQ 130
           KV+VIGD   GK+S + + V   F  +     G   A+      D     L +WD  G+
Sbjct: 1   KVVVIGDKGSGKSSLLSQLVGGEFPPEPLEIQGDTLAVDT-LEVDGDTGLLNIWDFGGR 58

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

 Score = 44.3 bits (105), Expect = 2e-06
 Identities = 18/61 (29%), Positives = 33/61 (54%), Gaps = 2/61 (3%)

Query: 71  FKVIVIGDPTVGKTSFVQRYVQNT-FKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAG 129
            K++++GDP VGK++ + R + N     +YK     ++   +++  D +  K  L D AG
Sbjct: 2   IKIVIVGDPNVGKSTLLNRLLGNKISITEYKPGTTRNYVTTVIE-EDGKTYKFNLLDTAG 60

Query: 130 Q 130
           Q
Sbjct: 61  Q 61

Proteins with a small GTP-binding domain recognized by this model include Ras, RhoA, Rab11, translation elongation factor G, translation initiation factor IF-2, tetratcycline resistance protein TetM, CDC42, Era, ADP-ribosylation factors, tdhF, and many others. In some proteins the domain occurs more than once.This model recognizes a large number of small GTP-binding proteins and related domains in larger proteins. Note that the alpha chains of heterotrimeric G proteins are larger proteins in which the NKXD motif is separated from the GxxxxGK[ST] motif (P-loop) by a long insert and are not easily detected by this model [Unknown function, General]. Length = 162

>gnl|CDD|133277 cd01875, RhoG, Ras homolog family, member G (RhoG) of small guanosine triphosphatases (GTPases)

 Score = 44.6 bits (105), Expect = 2e-06
 Identities = 23/59 (38%), Positives = 33/59 (55%), Gaps = 2/59 (3%)

Query: 72  KVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQ 130
           K +V+GD  VGKT  +  Y  N F K+Y  TV  +++ +     D + + L LWD AGQ
Sbjct: 5   KCVVVGDGAVGKTCLLICYTTNAFPKEYIPTVFDNYSAQTAV--DGRTVSLNLWDTAGQ 61

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-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 = 191

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

 Score = 44.5 bits (105), Expect = 2e-06
 Identities = 22/59 (37%), Positives = 34/59 (57%), Gaps = 2/59 (3%)

Query: 72  KVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQ 130
           KV+V+GD   GKTS +  + +  F + Y+ TV  ++   I  + D   ++L LWD AGQ
Sbjct: 2   KVVVLGDGACGKTSLLNVFTRGYFPQVYEPTVFENYIHDI--FVDGLAVELSLWDTAGQ 58

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

 Score = 42.9 bits (102), Expect = 6e-06
 Identities = 19/62 (30%), Positives = 34/62 (54%), Gaps = 2/62 (3%)

Query: 69  KLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIA 128
           + +K++V+G   VGK++   ++VQ  F  +Y  T+  D   K ++  D +   L + D A
Sbjct: 1   REYKLVVLGGGGVGKSALTIQFVQGHFVDEYDPTIE-DSYRKQIEI-DGEVCLLDILDTA 58

Query: 129 GQ 130
           GQ
Sbjct: 59  GQ 60

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|206663 cd01871, Rac1_like, Ras-related C3 botulinum toxin substrate 1 (rho family, small GTP binding protein Rac1)-like consists of Rac1, Rac2 and Rac3

 Score = 42.9 bits (101), Expect = 7e-06
 Identities = 22/59 (37%), Positives = 33/59 (55%), Gaps = 2/59 (3%)

Query: 72  KVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQ 130
           K +V+GD  VGKT  +  Y  N F  +Y  TV  +++  ++   D + + L LWD AGQ
Sbjct: 3   KCVVVGDGAVGKTCLLISYTTNAFPGEYIPTVFDNYSANVMV--DGKPVNLGLWDTAGQ 59

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 nucleotide association and is more efficiently activated by the RacGEF Tiam1. Both Rac1 and Rac3 have been implicated in the regulation of cell migration and invasion in human metastatic breast cancer. 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 = 174

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

 Score = 42.5 bits (101), Expect = 8e-06
 Identities = 19/60 (31%), Positives = 33/60 (55%), Gaps = 2/60 (3%)

Query: 71  FKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQ 130
           +K++V+G   VGK++   +++Q  F  DY  T+  D   K ++  D +   L + D AGQ
Sbjct: 1   YKLVVLGSGGVGKSALTIQFIQGHFVDDYDPTIE-DSYRKQIEI-DGEVCLLDILDTAGQ 58

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|206735 cd04172, Rnd3_RhoE_Rho8, Rnd3/RhoE/Rho8 GTPases

 Score = 41.2 bits (96), Expect = 3e-05
 Identities = 19/58 (32%), Positives = 34/58 (58%), Gaps = 2/58 (3%)

Query: 72  KVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAG 129
           K++V+GD   GKT+ +  + ++ F ++Y  TV  ++        D Q+I+L LWD +G
Sbjct: 7   KIVVVGDSQCGKTALLHVFAKDCFPENYVPTVFENYTASFEI--DTQRIELSLWDTSG 62

Rnd3/RhoE/Rho8 subfamily. 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 junction formation. Rnd3/RhoE is underexpressed in prostate cancer cells both in vitro and in vivo; re-expression of Rnd3/RhoE suppresses cell cycle progression and increases apoptosis, suggesting it may play a role in tumor suppression. 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 = 182

>gnl|CDD|133324 cd04124, RabL2, Rab GTPase-like family 2 (Rab-like2)

 Score = 41.0 bits (96), Expect = 3e-05
 Identities = 19/62 (30%), Positives = 34/62 (54%), Gaps = 7/62 (11%)

Query: 72  KVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWR---DQQKIKLQLWDIA 128
           K+I++GD  VGK+  V+R++ + ++     T    +AL + K     + + I +  WD A
Sbjct: 2   KIILLGDSAVGKSKLVERFLMDGYEPQQLST----YALTLYKHNAKFEGKTILVDFWDTA 57

Query: 129 GQ 130
           GQ
Sbjct: 58  GQ 59

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-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 = 161

>gnl|CDD|185444 PTZ00099, PTZ00099, rab6; Provisional

 Score = 40.5 bits (94), Expect = 5e-05
 Identities = 17/38 (44%), Positives = 27/38 (71%), Gaps = 1/38 (2%)

Query: 93  NTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQ 130
           +TF  +Y+ T+G+DF  K + + D+  ++LQLWD AGQ
Sbjct: 3   DTFDNNYQSTIGIDFLSKTL-YLDEGPVRLQLWDTAGQ 39

Length = 176

>gnl|CDD|133321 cd04121, Rab40, Rab GTPase family 40 (Rab40) contains Rab40a, Rab40b and Rab40c

 Score = 39.5 bits (92), Expect = 1e-04
 Identities = 19/61 (31%), Positives = 33/61 (54%), Gaps = 1/61 (1%)

Query: 70  LFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAG 129
           L K +++GD  VGK   +      + +  Y   +G+D+    +   D +++KLQLWD +G
Sbjct: 6   LLKFLLVGDSDVGKGEILASLQDGSTESPYGYNMGIDYKTTTI-LLDGRRVKLQLWDTSG 64

Query: 130 Q 130
           Q
Sbjct: 65  Q 65

The Rab40 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 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 = 189

>gnl|CDD|206736 cd04173, Rnd2_Rho7, Rnd2/Rho7 GTPases

 Score = 39.2 bits (91), Expect = 2e-04
 Identities = 17/60 (28%), Positives = 36/60 (60%), Gaps = 6/60 (10%)

Query: 72  KVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDF--ALKIVKWRDQQKIKLQLWDIAG 129
           K++V+GD   GKT+ +  + ++ + + Y  TV  ++  + +I    D+ +I+L +WD +G
Sbjct: 3   KIVVVGDTQCGKTALLHVFAKDNYPESYVPTVFENYTASFEI----DKHRIELNMWDTSG 58

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 spermatocytes and early spermatids, with male-germ-cell Rac GTPase-activating protein (MgcRacGAP), where it localizes to the Golgi-derived pro-acrosomal vesicle. 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 = 221

>gnl|CDD|206702 cd04129, Rho2, Ras homology family 2 (Rho2) of small guanosine triphosphatases (GTPases)

 Score = 39.0 bits (91), Expect = 2e-04
 Identities = 21/60 (35%), Positives = 33/60 (55%), Gaps = 4/60 (6%)

Query: 72  KVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWR-DQQKIKLQLWDIAGQ 130
           K++++GD   GKTS +  +    F ++Y  TV   F   +   R D + ++L LWD AGQ
Sbjct: 3   KLVIVGDGACGKTSLLYVFTLGEFPEEYHPTV---FENYVTDCRVDGKPVQLALWDTAGQ 59

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). Length = 190

>gnl|CDD|206664 cd01874, Cdc42, cell division cycle 42 (Cdc42) is a small GTPase of the Rho family

 Score = 37.5 bits (87), Expect = 5e-04
 Identities = 21/59 (35%), Positives = 32/59 (54%), Gaps = 2/59 (3%)

Query: 72  KVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQ 130
           K +V+GD  VGKT  +  Y  N F  +Y  TV  ++A+ ++     +   L L+D AGQ
Sbjct: 3   KCVVVGDGAVGKTCLLISYTTNKFPSEYVPTVFDNYAVTVMI--GGEPYTLGLFDTAGQ 59

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 addition, Cdc42 has been implicated in a number of human diseases through interactions with its regulators and downstream effectors. 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 = 175

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

 Score = 37.5 bits (87), Expect = 6e-04
 Identities = 14/33 (42%), Positives = 23/33 (69%)

Query: 71  FKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTV 103
           ++V+V G   VGK+S V R+V+ TF++ Y  T+
Sbjct: 2   YRVVVFGAGGVGKSSLVLRFVKGTFRESYIPTI 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|206679 cd01892, Miro2, Mitochondrial Rho family 2 (Miro2), C-terminal

 Score = 36.8 bits (86), Expect = 8e-04
 Identities = 13/52 (25%), Positives = 26/52 (50%), Gaps = 1/52 (1%)

Query: 69  KLFKVIVIGDPTVGKTSFVQRYVQNTFK-KDYKGTVGVDFALKIVKWRDQQK 119
            +F   V+G    GK++ +Q ++  +F    Y  T+   +A+  V+   Q+K
Sbjct: 3   NVFLCFVLGAKGSGKSALLQAFLGRSFSQNAYSPTIKPRYAVNTVEVPGQEK 54

Miro2 subfamily. 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. Length = 180

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

 Score = 37.1 bits (86), Expect = 8e-04
 Identities = 17/59 (28%), Positives = 24/59 (40%), Gaps = 6/59 (10%)

Query: 75  VIGDPTVGKTSFVQRYVQNTFKK---DYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQ 130
           V+G   VGK+S +   +     +       T   D     VK  D+ K+KL L D  G 
Sbjct: 2   VVGRGGVGKSSLLNALLGGEVGEVSDVPGTTRDPDV---YVKELDKGKVKLVLVDTPGL 57

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

>gnl|CDD|206662 cd01870, RhoA_like, Ras homology family A (RhoA)-like includes RhoA, RhoB and RhoC

 Score = 36.6 bits (85), Expect = 0.001
 Identities = 19/59 (32%), Positives = 34/59 (57%), Gaps = 2/59 (3%)

Query: 72  KVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQ 130
           K++++GD   GKT  +  + ++ F + Y  TV  ++   I    D ++++L LWD AGQ
Sbjct: 3   KLVIVGDGACGKTCLLIVFSKDQFPEVYVPTVFENYVADIEV--DGKQVELALWDTAGQ 59

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 geranylgeranylated forms; however, RhoB can be present in palmitoylated, farnesylated, and geranylgeranylated forms. RhoA and RhoC are highly relevant for tumor progression and invasiveness; however, RhoB has recently been suggested to be a tumor suppressor. Due to the presence of truncated sequences in this CD, the lipid modification site is not available for annotation. Length = 175

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

 Score = 36.4 bits (84), Expect = 0.002
 Identities = 11/32 (34%), Positives = 23/32 (71%)

Query: 72  KVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTV 103
           +++ +G   VGKT+ +QR++ +TF+  ++ TV
Sbjct: 1   RLVFMGAAGVGKTALIQRFLYDTFEPKHRRTV 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|206689 cd04102, RabL3, Rab GTPase-like family 3 (Rab-like3)

 Score = 36.4 bits (84), Expect = 0.002
 Identities = 18/62 (29%), Positives = 32/62 (51%), Gaps = 4/62 (6%)

Query: 72  KVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRD----QQKIKLQLWDI 127
           KV+V+GD  VGK+S V    +N    +   TVG    ++   + +    ++   ++LWD+
Sbjct: 2   KVLVLGDSGVGKSSLVHLLCKNQVLGNPSWTVGCSVDVRHHTYGEGTPEEKTFYVELWDV 61

Query: 128 AG 129
            G
Sbjct: 62  GG 63

RabL3 (Rab-like3) subfamily. 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. Length = 204

>gnl|CDD|206710 cd04139, RalA_RalB, Ral (Ras-like) family containing highly homologous RalA and RalB

 Score = 35.9 bits (83), Expect = 0.002
 Identities = 19/60 (31%), Positives = 36/60 (60%), Gaps = 2/60 (3%)

Query: 71  FKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQ 130
            KVI++G   VGK++   +++ + F +DY+ T    +  K+V   D ++++L + D AGQ
Sbjct: 1   HKVIMVGSGGVGKSALTLQFMYDEFVEDYEPTKADSYRKKVVL--DGEEVQLNILDTAGQ 58

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 exocyst and for localizing the exocyst to the leading edge of migrating cells. In human cancer cells, RalA is required to support anchorage-independent proliferation and RalB is required to suppress apoptosis. RalA has been shown to localize to the plasma membrane while RalB is localized to the intracellular vesicles. 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|206707 cd04135, Tc10, Rho GTPase TC10 (Tc10)

 Score = 35.8 bits (82), Expect = 0.002
 Identities = 21/60 (35%), Positives = 31/60 (51%), Gaps = 2/60 (3%)

Query: 71  FKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQ 130
            K +V+GD  VGKT  +  Y  + F ++Y  TV   +A+ +     Q    L L+D AGQ
Sbjct: 1   LKCVVVGDGAVGKTCLLMSYANDAFPEEYVPTVFDHYAVSVTVGGKQ--YLLGLYDTAGQ 58

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 interactions with CFTR-associated ligand (CAL). The GTP-bound form of TC10 directs the trafficking of CFTR from the juxtanuclear region to the secretory pathway toward the plasma membrane, away from CAL-mediated DFTR degradation in the lysosome. 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 = 174

>gnl|CDD|206737 cd04174, Rnd1_Rho6, Rnd1/Rho6 GTPases

 Score = 35.4 bits (81), Expect = 0.003
 Identities = 16/58 (27%), Positives = 35/58 (60%), Gaps = 2/58 (3%)

Query: 72  KVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAG 129
           K++++GD   GKT+ +Q   ++ + + Y  TV  ++   +    ++Q+++L LWD +G
Sbjct: 15  KLVLVGDVQCGKTAMLQVLAKDCYPETYVPTVFENYTACLET--EEQRVELSLWDTSG 70

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. Length = 232

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	131
COG1160	444	Predicted GTPases [General function prediction onl	99.88
KOG0084|consensus	205		99.87
KOG0094|consensus	221		99.86
PRK03003	472	GTP-binding protein Der; Reviewed	99.83
TIGR03594	429	GTPase_EngA ribosome-associated GTPase EngA. EngA	99.8
KOG0394|consensus	210		99.79
KOG0078|consensus	207		99.79
KOG0098|consensus	216		99.78
KOG0080|consensus	209		99.78
KOG0092|consensus	200		99.78
PRK09518	712	bifunctional cytidylate kinase/GTPase Der; Reviewe	99.78
KOG0079|consensus	198		99.77
KOG0087|consensus	222		99.76
KOG0095|consensus	213		99.75
PRK00093	435	GTP-binding protein Der; Reviewed	99.74
KOG0086|consensus	214		99.73
cd01859	156	MJ1464 MJ1464. This family represents archaeal GTP	99.72
cd04172	182	Rnd3_RhoE_Rho8 Rnd3/RhoE/Rho8 subfamily. Rnd3/RhoE	99.72
cd04128	182	Spg1 Spg1p. Spg1p (septum-promoting GTPase) was fi	99.7
cd01856	171	YlqF YlqF. Proteins of the YlqF family contain all	99.7
cd04174	232	Rnd1_Rho6 Rnd1/Rho6 subfamily. Rnd1/Rho6 is a memb	99.7
cd01858	157	NGP_1 NGP-1. Autoantigen NGP-1 (Nucleolar G-protei	99.7
cd04131	178	Rnd Rnd subfamily. The Rnd subfamily contains Rnd1	99.7
KOG0091|consensus	213		99.69
cd04120	202	Rab12 Rab12 subfamily. Rab12 was first identified	99.69
cd01875	191	RhoG RhoG subfamily. RhoG is a GTPase with high se	99.69
cd04133	176	Rop_like Rop subfamily. The Rop (Rho-related prote	99.69
cd04108	170	Rab36_Rab34 Rab34/Rab36 subfamily. Rab34, found pr	99.69
TIGR03596	276	GTPase_YlqF ribosome biogenesis GTP-binding protei	99.68
cd04121	189	Rab40 Rab40 subfamily. This subfamily contains Rab	99.68
cd01857	141	HSR1_MMR1 HSR1/MMR1. Human HSR1, is localized to t	99.68
cd01874	175	Cdc42 Cdc42 subfamily. Cdc42 is an essential GTPas	99.67
cd04119	168	RJL RJL (RabJ-Like) subfamily. RJLs are found in m	99.67
KOG0093|consensus	193		99.67
cd01855	190	YqeH YqeH. YqeH is an essential GTP-binding protei	99.67
cd04173	222	Rnd2_Rho7 Rnd2/Rho7 subfamily. Rnd2/Rho7 is a memb	99.67
cd04122	166	Rab14 Rab14 subfamily. Rab14 GTPases are localized	99.67
PRK09563	287	rbgA GTPase YlqF; Reviewed	99.66
cd04107	201	Rab32_Rab38 Rab38/Rab32 subfamily. Rab32 and Rab38	99.66
cd01867	167	Rab8_Rab10_Rab13_like Rab8/Sec4/Ypt2. Rab8/Sec4/Yp	99.66
cd04116	170	Rab9 Rab9 subfamily. Rab9 is found in late endosom	99.66
cd01865	165	Rab3 Rab3 subfamily. The Rab3 subfamily contains R	99.65
cd01849	155	YlqF_related_GTPase YlqF-related GTPases. These pr	99.65
cd04136	163	Rap_like Rap-like subfamily. The Rap subfamily con	99.65
cd01892	169	Miro2 Miro2 subfamily. Miro (mitochondrial Rho) pr	99.65
cd04117	161	Rab15 Rab15 subfamily. Rab15 colocalizes with the	99.64
cd04102	202	RabL3 RabL3 (Rab-like3) subfamily. RabL3s are nove	99.64
KOG0393|consensus	198		99.64
PLN03071	219	GTP-binding nuclear protein Ran; Provisional	99.64
cd04110	199	Rab35 Rab35 subfamily. Rab35 is one of several Rab	99.64
cd04109	215	Rab28 Rab28 subfamily. First identified in maize,	99.64
KOG0097|consensus	215		99.64
cd04127	180	Rab27A Rab27a subfamily. The Rab27a subfamily cons	99.64
cd04138	162	H_N_K_Ras_like H-Ras/N-Ras/K-Ras subfamily. H-Ras,	99.64
cd01869	166	Rab1_Ypt1 Rab1/Ypt1 subfamily. Rab1 is found in ev	99.64
PTZ00369	189	Ras-like protein; Provisional	99.63
PLN03110	216	Rab GTPase; Provisional	99.63
cd04111	211	Rab39 Rab39 subfamily. Found in eukaryotes, Rab39	99.63
cd04175	164	Rap1 Rap1 subgroup. The Rap1 subgroup is part of t	99.63
cd04124	161	RabL2 RabL2 subfamily. RabL2 (Rab-like2) subfamily	99.63
cd01864	165	Rab19 Rab19 subfamily. Rab19 proteins are associat	99.63
cd04141	172	Rit_Rin_Ric Rit/Rin/Ric subfamily. Rit (Ras-like p	99.63
PLN00023	334	GTP-binding protein; Provisional	99.63
cd01868	165	Rab11_like Rab11-like. Rab11a, Rab11b, and Rab25 a	99.63
cd04118	193	Rab24 Rab24 subfamily. Rab24 is distinct from othe	99.63
cd04115	170	Rab33B_Rab33A Rab33B/Rab33A subfamily. Rab33B is u	99.62
cd01871	174	Rac1_like Rac1-like subfamily. The Rac1-like subfa	99.62
cd04106	162	Rab23_lke Rab23-like subfamily. Rab23 is a member	99.62
cd00877	166	Ran Ran (Ras-related nuclear proteins) /TC4 subfam	99.62
PF00071	162	Ras: Ras family; InterPro: IPR001806 Small GTPases	99.62
cd04176	163	Rap2 Rap2 subgroup. The Rap2 subgroup is part of t	99.62
cd04125	188	RabA_like RabA-like subfamily. RabA was first iden	99.62
cd04113	161	Rab4 Rab4 subfamily. Rab4 has been implicated in n	99.61
cd01866	168	Rab2 Rab2 subfamily. Rab2 is localized on cis-Golg	99.61
cd04142	198	RRP22 RRP22 subfamily. RRP22 (Ras-related protein	99.6
PRK12289	352	GTPase RsgA; Reviewed	99.6
cd01861	161	Rab6 Rab6 subfamily. Rab6 is involved in microtubu	99.6
cd01860	163	Rab5_related Rab5-related subfamily. This subfamil	99.59
cd04134	189	Rho3 Rho3 subfamily. Rho3 is a member of the Rho f	99.59
cd04143	247	Rhes_like Rhes_like subfamily. This subfamily incl	99.59
cd04101	164	RabL4 RabL4 (Rab-like4) subfamily. RabL4s are nove	99.59
KOG0081|consensus	219		99.59
cd04132	187	Rho4_like Rho4-like subfamily. Rho4 is a GTPase th	99.59
cd04112	191	Rab26 Rab26 subfamily. First identified in rat pan	99.59
PLN03108	210	Rab family protein; Provisional	99.58
cd04140	165	ARHI_like ARHI subfamily. ARHI (A Ras homolog memb	99.58
cd04145	164	M_R_Ras_like M-Ras/R-Ras-like subfamily. This subf	99.57
smart00173	164	RAS Ras subfamily of RAS small GTPases. Similar in	99.57
cd04144	190	Ras2 Ras2 subfamily. The Ras2 subfamily, found exc	99.57
cd04178	172	Nucleostemin_like Nucleostemin-like. Nucleostemin	99.57
TIGR00157	245	ribosome small subunit-dependent GTPase A. The Aqu	99.57
PLN03118	211	Rab family protein; Provisional	99.57
cd01870	175	RhoA_like RhoA-like subfamily. The RhoA subfamily	99.57
cd01862	172	Rab7 Rab7 subfamily. Rab7 is a small Rab GTPase th	99.56
cd04103	158	Centaurin_gamma Centaurin gamma. The centaurins (a	99.56
KOG0083|consensus	192		99.56
cd04177	168	RSR1 RSR1 subgroup. RSR1/Bud1p is a member of the	99.56
cd04130	173	Wrch_1 Wrch-1 subfamily. Wrch-1 (Wnt-1 responsive	99.56
cd04148	221	RGK RGK subfamily. The RGK (Rem, Rem2, Rad, Gem/Ki	99.55
smart00175	164	RAB Rab subfamily of small GTPases. Rab GTPases ar	99.55
cd01863	161	Rab18 Rab18 subfamily. Mammalian Rab18 is implicat	99.55
PTZ00132	215	GTP-binding nuclear protein Ran; Provisional	99.54
smart00174	174	RHO Rho (Ras homology) subfamily of Ras-like small	99.54
cd04135	174	Tc10 TC10 subfamily. TC10 is a Rho family protein	99.54
COG1161	322	Predicted GTPases [General function prediction onl	99.53
cd01873	195	RhoBTB RhoBTB subfamily. Members of the RhoBTB sub	99.53
PRK12288	347	GTPase RsgA; Reviewed	99.52
KOG0088|consensus	218		99.52
smart00176	200	RAN Ran (Ras-related nuclear proteins) /TC4 subfam	99.52
cd04146	165	RERG_RasL11_like RERG/RasL11-like subfamily. RERG	99.51
PRK13796	365	GTPase YqeH; Provisional	99.51
COG1100	219	GTPase SAR1 and related small G proteins [General	99.51
TIGR03597	360	GTPase_YqeH ribosome biogenesis GTPase YqeH. This	99.5
cd04123	162	Rab21 Rab21 subfamily. The localization and functi	99.5
cd04114	169	Rab30 Rab30 subfamily. Rab30 appears to be associa	99.49
cd00157	171	Rho Rho (Ras homology) family. Members of the Rho	99.49
cd04152	183	Arl4_Arl7 Arl4/Arl7 subfamily. Arl4 (Arf-like 4) i	99.49
cd00154	159	Rab Rab family. Rab GTPases form the largest famil	99.49
cd04139	164	RalA_RalB RalA/RalB subfamily. The Ral (Ras-like)	99.48
PRK00098	298	GTPase RsgA; Reviewed	99.47
TIGR00231	161	small_GTP small GTP-binding protein domain. This m	99.45
cd04126	220	Rab20 Rab20 subfamily. Rab20 is one of several Rab	99.45
cd01854	287	YjeQ_engC YjeQ/EngC. YjeQ (YloQ in Bacillus subtil	99.44
cd04137	180	RheB Rheb (Ras Homolog Enriched in Brain) subfamil	99.43
cd04150	159	Arf1_5_like Arf1-Arf5-like subfamily. This subfami	99.42
cd04162	164	Arl9_Arfrp2_like Arl9/Arfrp2-like subfamily. Arl9	99.42
KOG0395|consensus	196		99.42
cd01893	166	Miro1 Miro1 subfamily. Miro (mitochondrial Rho) pr	99.41
cd04149	168	Arf6 Arf6 subfamily. Arf6 (ADP ribosylation factor	99.41
cd04147	198	Ras_dva Ras-dva subfamily. Ras-dva (Ras - dorsal-v	99.4
smart00177	175	ARF ARF-like small GTPases; ARF, ADP-ribosylation	99.4
cd00876	160	Ras Ras family. The Ras family of the Ras superfam	99.4
PTZ00133	182	ADP-ribosylation factor; Provisional	99.39
PLN00223	181	ADP-ribosylation factor; Provisional	99.39
cd04129	187	Rho2 Rho2 subfamily. Rho2 is a fungal GTPase that	99.38
KOG4252|consensus	246		99.36
cd04154	173	Arl2 Arl2 subfamily. Arl2 (Arf-like 2) GTPases are	99.36
cd04158	169	ARD1 ARD1 subfamily. ARD1 (ADP-ribosylation factor	99.34
cd04157	162	Arl6 Arl6 subfamily. Arl6 (Arf-like 6) forms a sub	99.32
cd04171	164	SelB SelB subfamily. SelB is an elongation factor	99.32
COG1162	301	Predicted GTPases [General function prediction onl	99.31
cd04159	159	Arl10_like Arl10-like subfamily. Arl9/Arl10 was id	99.29
cd04161	167	Arl2l1_Arl13_like Arl2l1/Arl13 subfamily. Arl2l1 (	99.28
cd01897	168	NOG NOG1 is a nucleolar GTP-binding protein presen	99.28
cd04153	174	Arl5_Arl8 Arl5/Arl8 subfamily. Arl5 (Arf-like 5) a	99.28
PF08477	119	Miro: Miro-like protein; InterPro: IPR013684 Mitoc	99.26
cd04151	158	Arl1 Arl1 subfamily. Arl1 (Arf-like 1) localizes t	99.26
cd04156	160	ARLTS1 ARLTS1 subfamily. ARLTS1 (Arf-like tumor su	99.26
cd01850	276	CDC_Septin CDC/Septin. Septins are a conserved fam	99.25
cd04160	167	Arfrp1 Arfrp1 subfamily. Arfrp1 (Arf-related prote	99.23
KOG0096|consensus	216		99.23
cd01891	194	TypA_BipA TypA (tyrosine phosphorylated protein A)	99.23
cd00878	158	Arf_Arl Arf (ADP-ribosylation factor)/Arl (Arf-lik	99.23
smart00178	184	SAR Sar1p-like members of the Ras-family of small	99.21
PRK04213	201	GTP-binding protein; Provisional	99.2
cd01887	168	IF2_eIF5B IF2/eIF5B (initiation factors 2/ eukaryo	99.2
PRK01889	356	GTPase RsgA; Reviewed	99.19
cd01879	158	FeoB Ferrous iron transport protein B (FeoB) subfa	99.19
cd00879	190	Sar1 Sar1 subfamily. Sar1 is an essential componen	99.19
KOG1673|consensus	205		99.19
TIGR03598	179	GTPase_YsxC ribosome biogenesis GTP-binding protei	99.18
PRK00454	196	engB GTP-binding protein YsxC; Reviewed	99.18
TIGR00450	442	mnmE_trmE_thdF tRNA modification GTPase TrmE. TrmE	99.15
KOG0073|consensus	185		99.13
cd01890	179	LepA LepA subfamily. LepA belongs to the GTPase fa	99.13
KOG0070|consensus	181		99.12
PRK15494	339	era GTPase Era; Provisional	99.11
PF02421	156	FeoB_N: Ferrous iron transport protein B; InterPro	99.11
cd04155	173	Arl3 Arl3 subfamily. Arl3 (Arf-like 3) is an Arf f	99.11
cd01878	204	HflX HflX subfamily. A distinct conserved domain w	99.1
TIGR03156	351	GTP_HflX GTP-binding protein HflX. This protein fa	99.09
cd04105	203	SR_beta Signal recognition particle receptor, beta	99.08
KOG1424|consensus	562		99.07
TIGR02528	142	EutP ethanolamine utilization protein, EutP. This	99.07
cd01898	170	Obg Obg subfamily. The Obg nucleotide binding prot	99.06
PRK00093	435	GTP-binding protein Der; Reviewed	99.05
cd04164	157	trmE TrmE (MnmE, ThdF, MSS1) is a 3-domain protein	99.05
cd01889	192	SelB_euk SelB subfamily. SelB is an elongation fac	99.05
PRK03003	472	GTP-binding protein Der; Reviewed	99.05
PRK05291	449	trmE tRNA modification GTPase TrmE; Reviewed	99.03
PF00025	175	Arf: ADP-ribosylation factor family The prints ent	99.03
KOG2484|consensus	435		99.02
cd01895	174	EngA2 EngA2 subfamily. This CD represents the seco	98.98
KOG4423|consensus	229		98.96
KOG0071|consensus	180		98.95
PF01926	116	MMR_HSR1: 50S ribosome-binding GTPase; InterPro: I	98.95
cd00882	157	Ras_like_GTPase Ras-like GTPase superfamily. The R	98.95
TIGR00436	270	era GTP-binding protein Era. Era is an essential G	98.95
cd01876	170	YihA_EngB The YihA (EngB) subfamily. This subfamil	98.94
cd04163	168	Era Era subfamily. Era (E. coli Ras-like protein)	98.94
COG0486	454	ThdF Predicted GTPase [General function prediction	98.94
TIGR03594	429	GTPase_EngA ribosome-associated GTPase EngA. EngA	98.92
cd01896	233	DRG The developmentally regulated GTP-binding prot	98.92
KOG2485|consensus	335		98.9
cd01894	157	EngA1 EngA1 subfamily. This CD represents the firs	98.9
TIGR00487	587	IF-2 translation initiation factor IF-2. This mode	98.89
PRK11058	426	GTPase HflX; Provisional	98.89
cd04104	197	p47_IIGP_like p47 (47-kDa) family. The p47 GTPase	98.88
PRK09518	712	bifunctional cytidylate kinase/GTPase Der; Reviewe	98.87
cd01881	176	Obg_like The Obg-like subfamily consists of five w	98.86
cd01853	249	Toc34_like Toc34-like (Translocon at the Outer-env	98.84
PRK09554	772	feoB ferrous iron transport protein B; Reviewed	98.83
cd00881	189	GTP_translation_factor GTP translation factor fami	98.82
TIGR00991	313	3a0901s02IAP34 GTP-binding protein (Chloroplast En	98.82
TIGR00437	591	feoB ferrous iron transporter FeoB. FeoB (773 amin	98.8
PRK00089	292	era GTPase Era; Reviewed	98.79
PF00735	281	Septin: Septin; InterPro: IPR000038 Septins consti	98.79
KOG2423|consensus	572		98.78
PF03193	161	DUF258: Protein of unknown function, DUF258; Inter	98.77
TIGR00475	581	selB selenocysteine-specific elongation factor Sel	98.77
TIGR01393	595	lepA GTP-binding protein LepA. LepA (GUF1 in Sacca	98.76
cd01899	318	Ygr210 Ygr210 subfamily. Ygr210 is a member of Obg	98.74
KOG0074|consensus	185		98.73
PRK05306	787	infB translation initiation factor IF-2; Validated	98.72
TIGR02729	329	Obg_CgtA Obg family GTPase CgtA. This model descri	98.71
COG1160	444	Predicted GTPases [General function prediction onl	98.69
cd04167	213	Snu114p Snu114p subfamily. Snu114p is one of sever	98.68
cd01852	196	AIG1 AIG1 (avrRpt2-induced gene 1). This represent	98.68
PRK12296	500	obgE GTPase CgtA; Reviewed	98.68
PRK09602	396	translation-associated GTPase; Reviewed	98.67
KOG1423|consensus	379		98.66
CHL00189	742	infB translation initiation factor 2; Provisional	98.66
COG3596	296	Predicted GTPase [General function prediction only	98.66
KOG1191|consensus	531		98.65
cd00880	163	Era_like Era (E. coli Ras-like protein)-like. This	98.63
COG0218	200	Predicted GTPase [General function prediction only	98.63
PRK12299	335	obgE GTPase CgtA; Reviewed	98.63
KOG0075|consensus	186		98.62
COG1159	298	Era GTPase [General function prediction only]	98.6
PTZ00258	390	GTP-binding protein; Provisional	98.59
PRK12297	424	obgE GTPase CgtA; Reviewed	98.58
PRK10218	607	GTP-binding protein; Provisional	98.58
cd04169	267	RF3 RF3 subfamily. Peptide chain release factor 3	98.57
PRK15467	158	ethanolamine utilization protein EutP; Provisional	98.57
TIGR00491	590	aIF-2 translation initiation factor aIF-2/yIF-2. T	98.56
COG1084	346	Predicted GTPase [General function prediction only	98.54
cd04168	237	TetM_like Tet(M)-like subfamily. Tet(M), Tet(O), T	98.53
PRK12317	425	elongation factor 1-alpha; Reviewed	98.51
PRK12298	390	obgE GTPase CgtA; Reviewed	98.5
PF04548	212	AIG1: AIG1 family; InterPro: IPR006703 This entry	98.5
COG5019	373	CDC3 Septin family protein [Cell division and chro	98.49
KOG3883|consensus	198		98.48
KOG2655|consensus	366		98.48
cd04166	208	CysN_ATPS CysN_ATPS subfamily. CysN, together with	98.48
PRK09601	364	GTP-binding protein YchF; Reviewed	98.47
cd01900	274	YchF YchF subfamily. YchF is a member of the Obg f	98.46
PRK04004	586	translation initiation factor IF-2; Validated	98.45
COG0370	653	FeoB Fe2+ transport system protein B [Inorganic io	98.45
TIGR00483	426	EF-1_alpha translation elongation factor EF-1 alph	98.44
PF04670	232	Gtr1_RagA: Gtr1/RagA G protein conserved region; I	98.42
cd04170	268	EF-G_bact Elongation factor G (EF-G) subfamily. Tr	98.37
KOG1547|consensus	336		98.35
PF05049	376	IIGP: Interferon-inducible GTPase (IIGP); InterPro	98.34
PRK05433	600	GTP-binding protein LepA; Provisional	98.34
TIGR00993	763	3a0901s04IAP86 chloroplast protein import componen	98.28
TIGR00490	720	aEF-2 translation elongation factor aEF-2. This mo	98.25
PRK10512	614	selenocysteinyl-tRNA-specific translation factor;	98.25
cd01885	222	EF2 EF2 (for archaea and eukarya). Translocation r	98.22
cd01886	270	EF-G Elongation factor G (EF-G) subfamily. Translo	98.21
TIGR00503	527	prfC peptide chain release factor 3. This translat	98.19
TIGR01394	594	TypA_BipA GTP-binding protein TypA/BipA. This bact	98.18
TIGR00485	394	EF-Tu translation elongation factor TU. This align	98.17
COG1163	365	DRG Predicted GTPase [General function prediction	98.15
PRK13351	687	elongation factor G; Reviewed	98.13
smart00010	124	small_GTPase Small GTPase of the Ras superfamily;	98.13
PRK00741	526	prfC peptide chain release factor 3; Provisional	98.12
PF10662	143	PduV-EutP: Ethanolamine utilisation - propanediol	98.11
KOG0072|consensus	182		98.09
cd01851	224	GBP Guanylate-binding protein (GBP), N-terminal do	98.08
PRK12735	396	elongation factor Tu; Reviewed	98.07
PLN03126	478	Elongation factor Tu; Provisional	98.05
cd01888	203	eIF2_gamma eIF2-gamma (gamma subunit of initiation	98.04
COG2229	187	Predicted GTPase [General function prediction only	98.02
TIGR00484	689	EF-G translation elongation factor EF-G. After pep	98.01
cd01883	219	EF1_alpha Eukaryotic elongation factor 1 (EF1) alp	98.0
cd01884	195	EF_Tu EF-Tu subfamily. This subfamily includes ort	98.0
PF09439	181	SRPRB: Signal recognition particle receptor beta s	97.98
CHL00071	409	tufA elongation factor Tu	97.94
PF00009	188	GTP_EFTU: Elongation factor Tu GTP binding domain;	97.92
PRK04000	411	translation initiation factor IF-2 subunit gamma;	97.92
TIGR03680	406	eif2g_arch translation initiation factor 2 subunit	97.91
PRK12736	394	elongation factor Tu; Reviewed	97.88
TIGR02034	406	CysN sulfate adenylyltransferase, large subunit. H	97.84
KOG3859|consensus	406		97.82
PRK05506	632	bifunctional sulfate adenylyltransferase subunit 1	97.79
PRK12739	691	elongation factor G; Reviewed	97.79
cd04165	224	GTPBP1_like GTPBP1-like. Mammalian GTP binding pro	97.78
KOG1491|consensus	391		97.78
PRK05124	474	cysN sulfate adenylyltransferase subunit 1; Provis	97.77
KOG3886|consensus	295		97.77
KOG0076|consensus	197		97.75
TIGR00436	270	era GTP-binding protein Era. Era is an essential G	97.73
PLN03127	447	Elongation factor Tu; Provisional	97.72
COG1159	298	Era GTPase [General function prediction only]	97.71
TIGR00092	368	GTP-binding protein YchF. This predicted GTP-bindi	97.7
COG1618	179	Predicted nucleotide kinase [Nucleotide transport	97.67
KOG1490|consensus	620		97.63
PRK00049	396	elongation factor Tu; Reviewed	97.63
COG0012	372	Predicted GTPase, probable translation factor [Tra	97.62
PTZ00141	446	elongation factor 1- alpha; Provisional	97.61
TIGR02836	492	spore_IV_A stage IV sporulation protein A. A compa	97.59
KOG1707|consensus	625		97.56
PRK00007	693	elongation factor G; Reviewed	97.54
PF03266	168	NTPase_1: NTPase; InterPro: IPR004948 This entry r	97.52
cd01894	157	EngA1 EngA1 subfamily. This CD represents the firs	97.5
PF00350	168	Dynamin_N: Dynamin family; InterPro: IPR001401 Mem	97.46
KOG1486|consensus	364		97.29
cd04138	162	H_N_K_Ras_like H-Ras/N-Ras/K-Ras subfamily. H-Ras,	97.29
cd01882	225	BMS1 Bms1. Bms1 is an essential, evolutionarily co	97.28
PRK12740	668	elongation factor G; Reviewed	97.28
COG2262	411	HflX GTPases [General function prediction only]	97.27
PLN00043	447	elongation factor 1-alpha; Provisional	97.24
cd04143	247	Rhes_like Rhes_like subfamily. This subfamily incl	97.21
PRK00089	292	era GTPase Era; Reviewed	97.18
cd04145	164	M_R_Ras_like M-Ras/R-Ras-like subfamily. This subf	97.18
PF13207	121	AAA_17: AAA domain; PDB: 3AKC_A 3AKE_A 3AKD_A 2QL6	97.14
cd04139	164	RalA_RalB RalA/RalB subfamily. The Ral (Ras-like)	97.12
cd01879	158	FeoB Ferrous iron transport protein B (FeoB) subfa	97.12
cd01898	170	Obg Obg subfamily. The Obg nucleotide binding prot	97.12
cd04140	165	ARHI_like ARHI subfamily. ARHI (A Ras homolog memb	97.11
cd01897	168	NOG NOG1 is a nucleolar GTP-binding protein presen	97.11
cd04136	163	Rap_like Rap-like subfamily. The Rap subfamily con	97.1
PF00009	188	GTP_EFTU: Elongation factor Tu GTP binding domain;	97.08
cd01878	204	HflX HflX subfamily. A distinct conserved domain w	97.08
PRK04213	201	GTP-binding protein; Provisional	97.08
cd01890	179	LepA LepA subfamily. LepA belongs to the GTPase fa	97.06
cd04151	158	Arl1 Arl1 subfamily. Arl1 (Arf-like 1) localizes t	97.06
KOG0077|consensus	193		97.06
smart00173	164	RAS Ras subfamily of RAS small GTPases. Similar in	97.04
COG0563	178	Adk Adenylate kinase and related kinases [Nucleoti	97.04
PRK07261	171	topology modulation protein; Provisional	97.02
PRK08118	167	topology modulation protein; Reviewed	97.02
PLN00116	843	translation elongation factor EF-2 subunit; Provis	96.98
PF13671	143	AAA_33: AAA domain; PDB: 1LTQ_A 2IA5_K 1RC8_A 1LY1	96.97
PRK12299	335	obgE GTPase CgtA; Reviewed	96.97
cd01892	169	Miro2 Miro2 subfamily. Miro (mitochondrial Rho) pr	96.95
cd01864	165	Rab19 Rab19 subfamily. Rab19 proteins are associat	96.95
PRK12297	424	obgE GTPase CgtA; Reviewed	96.94
PTZ00416	836	elongation factor 2; Provisional	96.93
KOG1489|consensus	366		96.93
PRK09866	741	hypothetical protein; Provisional	96.92
cd01881	176	Obg_like The Obg-like subfamily consists of five w	96.92
PRK15494	339	era GTPase Era; Provisional	96.92
cd04176	163	Rap2 Rap2 subgroup. The Rap2 subgroup is part of t	96.91
cd04164	157	trmE TrmE (MnmE, ThdF, MSS1) is a 3-domain protein	96.9
KOG0090|consensus	238		96.89
cd01863	161	Rab18 Rab18 subfamily. Mammalian Rab18 is implicat	96.89
KOG1707|consensus	625		96.88
PRK12298	390	obgE GTPase CgtA; Reviewed	96.88
TIGR02528	142	EutP ethanolamine utilization protein, EutP. This	96.87
PF13521	163	AAA_28: AAA domain; PDB: 1LW7_A.	96.87
COG4917	148	EutP Ethanolamine utilization protein [Amino acid	96.86
cd01888	203	eIF2_gamma eIF2-gamma (gamma subunit of initiation	96.84
cd00877	166	Ran Ran (Ras-related nuclear proteins) /TC4 subfam	96.84
cd04175	164	Rap1 Rap1 subgroup. The Rap1 subgroup is part of t	96.84
PF02421	156	FeoB_N: Ferrous iron transport protein B; InterPro	96.83
cd04114	169	Rab30 Rab30 subfamily. Rab30 appears to be associa	96.82
smart00174	174	RHO Rho (Ras homology) subfamily of Ras-like small	96.82
COG1116	248	TauB ABC-type nitrate/sulfonate/bicarbonate transp	96.81
cd04157	162	Arl6 Arl6 subfamily. Arl6 (Arf-like 6) forms a sub	96.8
COG5257	415	GCD11 Translation initiation factor 2, gamma subun	96.78
COG0481	603	LepA Membrane GTPase LepA [Cell envelope biogenesi	96.78
cd04141	172	Rit_Rin_Ric Rit/Rin/Ric subfamily. Rit (Ras-like p	96.77
cd04152	183	Arl4_Arl7 Arl4/Arl7 subfamily. Arl4 (Arf-like 4) i	96.76
cd04119	168	RJL RJL (RabJ-Like) subfamily. RJLs are found in m	96.76
cd04150	159	Arf1_5_like Arf1-Arf5-like subfamily. This subfami	96.75
TIGR02729	329	Obg_CgtA Obg family GTPase CgtA. This model descri	96.75
cd01865	165	Rab3 Rab3 subfamily. The Rab3 subfamily contains R	96.75
cd01868	165	Rab11_like Rab11-like. Rab11a, Rab11b, and Rab25 a	96.75
cd04116	170	Rab9 Rab9 subfamily. Rab9 is found in late endosom	96.75
cd04156	160	ARLTS1 ARLTS1 subfamily. ARLTS1 (Arf-like tumor su	96.74
cd04142	198	RRP22 RRP22 subfamily. RRP22 (Ras-related protein	96.74
PF10662	143	PduV-EutP: Ethanolamine utilisation - propanediol	96.73
cd04112	191	Rab26 Rab26 subfamily. First identified in rat pan	96.72
cd04149	168	Arf6 Arf6 subfamily. Arf6 (ADP ribosylation factor	96.72
PRK06217	183	hypothetical protein; Validated	96.7
cd04144	190	Ras2 Ras2 subfamily. The Ras2 subfamily, found exc	96.69
PF07728	139	AAA_5: AAA domain (dynein-related subfamily); Inte	96.69
cd04107	201	Rab32_Rab38 Rab38/Rab32 subfamily. Rab32 and Rab38	96.69
PF00004	132	AAA: ATPase family associated with various cellula	96.68
cd01862	172	Rab7 Rab7 subfamily. Rab7 is a small Rab GTPase th	96.66
smart00382	148	AAA ATPases associated with a variety of cellular	96.66
KOG1489|consensus	366		96.66
PTZ00099	176	rab6; Provisional	96.64
cd02019	69	NK Nucleoside/nucleotide kinase (NK) is a protein	96.64
PRK12296	500	obgE GTPase CgtA; Reviewed	96.64
smart00177	175	ARF ARF-like small GTPases; ARF, ADP-ribosylation	96.61
PRK03839	180	putative kinase; Provisional	96.6
cd04148	221	RGK RGK subfamily. The RGK (Rem, Rem2, Rad, Gem/Ki	96.6
KOG0705|consensus	749		96.59
PF05783	472	DLIC: Dynein light intermediate chain (DLIC); Inte	96.58
PF13191	185	AAA_16: AAA ATPase domain; PDB: 2V1U_A.	96.58
TIGR02322	179	phosphon_PhnN phosphonate metabolism protein/1,5-b	96.57
TIGR03156	351	GTP_HflX GTP-binding protein HflX. This protein fa	96.56
cd01889	192	SelB_euk SelB subfamily. SelB is an elongation fac	96.56
cd04137	180	RheB Rheb (Ras Homolog Enriched in Brain) subfamil	96.54
PF13238	129	AAA_18: AAA domain; PDB: 3IIK_A 3IIJ_A 3IIL_A 1RKB	96.54
cd00881	189	GTP_translation_factor GTP translation factor fami	96.52
PF13401	131	AAA_22: AAA domain; PDB: 2QBY_B 1FNN_B 1W5T_A 1W5S	96.52
PF00005	137	ABC_tran: ABC transporter This structure is on hol	96.52
PRK07560	731	elongation factor EF-2; Reviewed	96.51
cd00071	137	GMPK Guanosine monophosphate kinase (GMPK, EC 2.7.	96.51
cd04101	164	RabL4 RabL4 (Rab-like4) subfamily. RabL4s are nove	96.51
cd04106	162	Rab23_lke Rab23-like subfamily. Rab23 is a member	96.49
COG5256	428	TEF1 Translation elongation factor EF-1alpha (GTPa	96.49
PF05729	166	NACHT: NACHT domain	96.48
cd04109	215	Rab28 Rab28 subfamily. First identified in maize,	96.47
PRK10078	186	ribose 1,5-bisphosphokinase; Provisional	96.47
COG0536	369	Obg Predicted GTPase [General function prediction	96.46
PRK14738	206	gmk guanylate kinase; Provisional	96.46
cd00878	158	Arf_Arl Arf (ADP-ribosylation factor)/Arl (Arf-lik	96.46
cd04154	173	Arl2 Arl2 subfamily. Arl2 (Arf-like 2) GTPases are	96.45
cd04171	164	SelB SelB subfamily. SelB is an elongation factor	96.45
COG1136	226	SalX ABC-type antimicrobial peptide transport syst	96.45
cd04160	167	Arfrp1 Arfrp1 subfamily. Arfrp1 (Arf-related prote	96.44
PRK15467	158	ethanolamine utilization protein EutP; Provisional	96.43
PRK13695	174	putative NTPase; Provisional	96.43
cd00009	151	AAA The AAA+ (ATPases Associated with a wide varie	96.41
cd04124	161	RabL2 RabL2 subfamily. RabL2 (Rab-like2) subfamily	96.41
PRK14532	188	adenylate kinase; Provisional	96.41
cd01861	161	Rab6 Rab6 subfamily. Rab6 is involved in microtubu	96.39
PRK14530	215	adenylate kinase; Provisional	96.38
cd04163	168	Era Era subfamily. Era (E. coli Ras-like protein)	96.37
TIGR03263	180	guanyl_kin guanylate kinase. Members of this famil	96.36
KOG2486|consensus	320		96.36
cd04127	180	Rab27A Rab27a subfamily. The Rab27a subfamily cons	96.36
PRK05291	449	trmE tRNA modification GTPase TrmE; Reviewed	96.36
PTZ00327	460	eukaryotic translation initiation factor 2 gamma s	96.35
COG4525	259	TauB ABC-type taurine transport system, ATPase com	96.35
TIGR00101	199	ureG urease accessory protein UreG. This model rep	96.35
cd04159	159	Arl10_like Arl10-like subfamily. Arl9/Arl10 was id	96.35
cd04123	162	Rab21 Rab21 subfamily. The localization and functi	96.35
COG3839	338	MalK ABC-type sugar transport systems, ATPase comp	96.35
cd04113	161	Rab4 Rab4 subfamily. Rab4 has been implicated in n	96.33
cd04153	174	Arl5_Arl8 Arl5/Arl8 subfamily. Arl5 (Arf-like 5) a	96.33
KOG0410|consensus	410		96.33
cd01870	175	RhoA_like RhoA-like subfamily. The RhoA subfamily	96.32
COG1936	180	Predicted nucleotide kinase (related to CMP and AM	96.31
cd00157	171	Rho Rho (Ras homology) family. Members of the Rho	96.31
cd01860	163	Rab5_related Rab5-related subfamily. This subfamil	96.31
cd04122	166	Rab14 Rab14 subfamily. Rab14 GTPases are localized	96.31
PF13555	62	AAA_29: P-loop containing region of AAA domain	96.31
cd04118	193	Rab24 Rab24 subfamily. Rab24 is distinct from othe	96.3
TIGR00235	207	udk uridine kinase. Model contains a number of lon	96.3
cd01895	174	EngA2 EngA2 subfamily. This CD represents the seco	96.29
cd04120	202	Rab12 Rab12 subfamily. Rab12 was first identified	96.29
cd00876	160	Ras Ras family. The Ras family of the Ras superfam	96.29
TIGR01360	188	aden_kin_iso1 adenylate kinase, isozyme 1 subfamil	96.29
PHA00729	226	NTP-binding motif containing protein	96.28
cd01887	168	IF2_eIF5B IF2/eIF5B (initiation factors 2/ eukaryo	96.27
cd04177	168	RSR1 RSR1 subgroup. RSR1/Bud1p is a member of the	96.27
cd01867	167	Rab8_Rab10_Rab13_like Rab8/Sec4/Ypt2. Rab8/Sec4/Yp	96.27
cd00880	163	Era_like Era (E. coli Ras-like protein)-like. This	96.26
PTZ00369	189	Ras-like protein; Provisional	96.26
COG2262	411	HflX GTPases [General function prediction only]	96.26
cd04158	169	ARD1 ARD1 subfamily. ARD1 (ADP-ribosylation factor	96.25
cd04117	161	Rab15 Rab15 subfamily. Rab15 colocalizes with the	96.23
PRK00625	173	shikimate kinase; Provisional	96.23
PRK05433	600	GTP-binding protein LepA; Provisional	96.23
cd01896	233	DRG The developmentally regulated GTP-binding prot	96.21
cd00820	107	PEPCK_HprK Phosphoenolpyruvate carboxykinase (PEPC	96.21
smart00175	164	RAB Rab subfamily of small GTPases. Rab GTPases ar	96.19
PRK02496	184	adk adenylate kinase; Provisional	96.18
TIGR00231	161	small_GTP small GTP-binding protein domain. This m	96.18
PF03205	140	MobB: Molybdopterin guanine dinucleotide synthesis	96.18
PRK05480	209	uridine/cytidine kinase; Provisional	96.18
cd01869	166	Rab1_Ypt1 Rab1/Ypt1 subfamily. Rab1 is found in ev	96.17
PRK09602	396	translation-associated GTPase; Reviewed	96.17
PRK13949	169	shikimate kinase; Provisional	96.16
PRK00300	205	gmk guanylate kinase; Provisional	96.16
cd04135	174	Tc10 TC10 subfamily. TC10 is a Rho family protein	96.15
PLN03071	219	GTP-binding nuclear protein Ran; Provisional	96.14
PRK14737	186	gmk guanylate kinase; Provisional	96.14
cd02023	198	UMPK Uridine monophosphate kinase (UMPK, EC 2.7.1.	96.13
cd04147	198	Ras_dva Ras-dva subfamily. Ras-dva (Ras - dorsal-v	96.13
cd04132	187	Rho4_like Rho4-like subfamily. Rho4 is a GTPase th	96.13
PTZ00088	229	adenylate kinase 1; Provisional	96.13
PLN00223	181	ADP-ribosylation factor; Provisional	96.12
PF13173	128	AAA_14: AAA domain	96.12
KOG3347|consensus	176		96.12
PRK08233	182	hypothetical protein; Provisional	96.11
smart00176	200	RAN Ran (Ras-related nuclear proteins) /TC4 subfam	96.11
cd01899	318	Ygr210 Ygr210 subfamily. Ygr210 is a member of Obg	96.09
smart00053	240	DYNc Dynamin, GTPase. Large GTPases that mediate v	96.08
cd01874	175	Cdc42 Cdc42 subfamily. Cdc42 is an essential GTPas	96.07
smart00178	184	SAR Sar1p-like members of the Ras-family of small	96.06
PF04665	241	Pox_A32: Poxvirus A32 protein; InterPro: IPR006758	96.06
cd00879	190	Sar1 Sar1 subfamily. Sar1 is an essential componen	96.04
cd01428	194	ADK Adenylate kinase (ADK) catalyzes the reversibl	96.03
TIGR01313	163	therm_gnt_kin carbohydrate kinase, thermoresistant	96.02
PRK14531	183	adenylate kinase; Provisional	96.02
TIGR01359	183	UMP_CMP_kin_fam UMP-CMP kinase family. This subfam	96.0
COG1126	240	GlnQ ABC-type polar amino acid transport system, A	95.99
cd00882	157	Ras_like_GTPase Ras-like GTPase superfamily. The R	95.99
cd03238	176	ABC_UvrA The excision repair protein UvrA; Nucleot	95.97
TIGR00150	133	HI0065_YjeE ATPase, YjeE family. Members of this f	95.97
cd04146	165	RERG_RasL11_like RERG/RasL11-like subfamily. RERG	95.96
cd04155	173	Arl3 Arl3 subfamily. Arl3 (Arf-like 3) is an Arf f	95.96
cd04134	189	Rho3 Rho3 subfamily. Rho3 is a member of the Rho f	95.95
TIGR00073	207	hypB hydrogenase accessory protein HypB. HypB is i	95.95

>COG1160 Predicted GTPases [General function prediction only]

Probab=99.88  E-value=2.3e-23  Score=156.29  Aligned_cols=123  Identities=24%  Similarity=0.307  Sum_probs=96.3

Q ss_pred             CCccCCCcEEeeccCCCccccccccccc-----CCCCccccccCCcccccccccccccccCCCcccCCCCCC-ceeeEEE
Q psy10878          1 MSYKAKKPILLPSASEDPSIDNWDKASW-----ENVTPIVSEQGDGEIIEIIDPSLKLVRVPSIRKSFNAPP-EKLFKVI   74 (131)
Q Consensus         1 ~~~~~~kp~vlv~NK~Dl~~~~~~~~~~-----~~~~~is~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~ki~   74 (131)
                      +||+.+||++||+||+|....+...++|     ++++++||.||.| +.+|+|.++..+  | ......... ...+|++
T Consensus       107 ~Lr~~~kpviLvvNK~D~~~~e~~~~efyslG~g~~~~ISA~Hg~G-i~dLld~v~~~l--~-~~e~~~~~~~~~~ikia  182 (444)
T COG1160         107 ILRRSKKPVILVVNKIDNLKAEELAYEFYSLGFGEPVPISAEHGRG-IGDLLDAVLELL--P-PDEEEEEEEETDPIKIA  182 (444)
T ss_pred             HHHhcCCCEEEEEEcccCchhhhhHHHHHhcCCCCceEeehhhccC-HHHHHHHHHhhc--C-CcccccccccCCceEEE
Confidence            4677889999999999987655555555     9999999999999 999999999988  3 222112112 3679999


Q ss_pred             EEcCCCCCchhhhhhhhhCcC-CCCccCCceeEeEEEEEEecCCeEEEEEEEeCCCC
Q psy10878         75 VIGDPTVGKTSFVQRYVQNTF-KKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQ  130 (131)
Q Consensus        75 vvG~~~vGKSsli~~~~~~~~-~~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gq  130 (131)
                      ++|.||||||||+|++++++. ..+..+.+..+.....+++ +++.  +.+.||||-
T Consensus       183 iiGrPNvGKSsLiN~ilgeeR~Iv~~~aGTTRD~I~~~~e~-~~~~--~~liDTAGi  236 (444)
T COG1160         183 IIGRPNVGKSSLINAILGEERVIVSDIAGTTRDSIDIEFER-DGRK--YVLIDTAGI  236 (444)
T ss_pred             EEeCCCCCchHHHHHhccCceEEecCCCCccccceeeeEEE-CCeE--EEEEECCCC
Confidence            999999999999999996544 4455566666777788887 6664  579999994

>KOG0084|consensus

Probab=99.87  E-value=3.8e-22  Score=135.13  Aligned_cols=65  Identities=48%  Similarity=0.871  Sum_probs=62.5

Q ss_pred             CCceeeEEEEEcCCCCCchhhhhhhhhCcCCCCccCCceeEeEEEEEEecCCeEEEEEEEeCCCCC
Q psy10878         66 PPEKLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQN  131 (131)
Q Consensus        66 ~~~~~~ki~vvG~~~vGKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gqe  131 (131)
                      ...+.+|++++|++|||||+|+.||.++.|.+.|..|+|++|..+++.+ +|+.++|+||||||||
T Consensus         5 ~~dylFKiiliGds~VGKtCL~~Rf~~~~f~e~~~sTIGVDf~~rt~e~-~gk~iKlQIWDTAGQE   69 (205)
T KOG0084|consen    5 EYDYLFKIILIGDSGVGKTCLLLRFKDDTFTESYISTIGVDFKIRTVEL-DGKTIKLQIWDTAGQE   69 (205)
T ss_pred             ccceEEEEEEECCCCcChhhhhhhhccCCcchhhcceeeeEEEEEEeee-cceEEEEEeeeccccH
Confidence            4678899999999999999999999999999999999999999999999 9999999999999997

>KOG0094|consensus

Probab=99.86  E-value=1.1e-21  Score=132.87  Aligned_cols=65  Identities=40%  Similarity=0.849  Sum_probs=61.4

Q ss_pred             CCceeeEEEEEcCCCCCchhhhhhhhhCcCCCCccCCceeEeEEEEEEecCCeEEEEEEEeCCCCC
Q psy10878         66 PPEKLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQN  131 (131)
Q Consensus        66 ~~~~~~ki~vvG~~~vGKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gqe  131 (131)
                      .+.+.+|++++|+.+|||||||+||+.+.|...|.+|+|.+|..+++.+ .++.++|++|||||||
T Consensus        18 ~~~k~~KlVflGdqsVGKTslItRf~yd~fd~~YqATIGiDFlskt~~l-~d~~vrLQlWDTAGQE   82 (221)
T KOG0094|consen   18 APLKKYKLVFLGDQSVGKTSLITRFMYDKFDNTYQATIGIDFLSKTMYL-EDRTVRLQLWDTAGQE   82 (221)
T ss_pred             ccceEEEEEEEccCccchHHHHHHHHHhhhcccccceeeeEEEEEEEEE-cCcEEEEEEEecccHH
Confidence            3556699999999999999999999999999999999999999999998 8899999999999998

>PRK03003 GTP-binding protein Der; Reviewed

Probab=99.83  E-value=9.7e-21  Score=145.98  Aligned_cols=122  Identities=20%  Similarity=0.349  Sum_probs=88.9

Q ss_pred             CccCCCcEEeeccCCCccccccccccc-----CCCCccccccCCcccccccccccccccCCCcccCCCCCCceeeEEEEE
Q psy10878          2 SYKAKKPILLPSASEDPSIDNWDKASW-----ENVTPIVSEQGDGEIIEIIDPSLKLVRVPSIRKSFNAPPEKLFKVIVI   76 (131)
Q Consensus         2 ~~~~~kp~vlv~NK~Dl~~~~~~~~~~-----~~~~~is~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ki~vv   76 (131)
                      +++.++|+++|+||+|+........++     +.++++||.++.| +.++++.+.+.+  +..... .......+|++++
T Consensus       142 l~~~~~piilV~NK~Dl~~~~~~~~~~~~~g~~~~~~iSA~~g~g-i~eL~~~i~~~l--~~~~~~-~~~~~~~~kI~ii  217 (472)
T PRK03003        142 LRRSGKPVILAANKVDDERGEADAAALWSLGLGEPHPVSALHGRG-VGDLLDAVLAAL--PEVPRV-GSASGGPRRVALV  217 (472)
T ss_pred             HHHcCCCEEEEEECccCCccchhhHHHHhcCCCCeEEEEcCCCCC-cHHHHHHHHhhc--cccccc-ccccccceEEEEE
Confidence            345689999999999986432222222     6789999999999 999999888776  221111 1112346899999


Q ss_pred             cCCCCCchhhhhhhhhCcC-CCCccCCceeEeEEEEEEecCCeEEEEEEEeCCCC
Q psy10878         77 GDPTVGKTSFVQRYVQNTF-KKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQ  130 (131)
Q Consensus        77 G~~~vGKSsli~~~~~~~~-~~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gq  130 (131)
                      |.+|||||||+|++++..+ ..+..++++.++....+.+ ++..  +.||||||+
T Consensus       218 G~~nvGKSSLin~l~~~~~~~~s~~~gtT~d~~~~~~~~-~~~~--~~l~DTaG~  269 (472)
T PRK03003        218 GKPNVGKSSLLNKLAGEERSVVDDVAGTTVDPVDSLIEL-GGKT--WRFVDTAGL  269 (472)
T ss_pred             CCCCCCHHHHHHHHhCCCcccccCCCCccCCcceEEEEE-CCEE--EEEEECCCc
Confidence            9999999999999998764 2344566666666667777 6655  579999995

>TIGR03594 GTPase_EngA ribosome-associated GTPase EngA

Probab=99.80  E-value=1.3e-19  Score=137.99  Aligned_cols=122  Identities=24%  Similarity=0.304  Sum_probs=88.1

Q ss_pred             CccCCCcEEeeccCCCccccccccccc-----CCCCccccccCCcccccccccccccccCCCcccCCCCCCceeeEEEEE
Q psy10878          2 SYKAKKPILLPSASEDPSIDNWDKASW-----ENVTPIVSEQGDGEIIEIIDPSLKLVRVPSIRKSFNAPPEKLFKVIVI   76 (131)
Q Consensus         2 ~~~~~kp~vlv~NK~Dl~~~~~~~~~~-----~~~~~is~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ki~vv   76 (131)
                      +++.++|+++|+||+|+........++     ++++++|+.++.| +.++++.+.+.+.  .... ........++++++
T Consensus       103 l~~~~~piilVvNK~D~~~~~~~~~~~~~lg~~~~~~vSa~~g~g-v~~ll~~i~~~l~--~~~~-~~~~~~~~~~v~iv  178 (429)
T TIGR03594       103 LRKSGKPVILVANKIDGKKEDAVAAEFYSLGFGEPIPISAEHGRG-IGDLLDAILELLP--EEEE-EEEEEDGPIKIAII  178 (429)
T ss_pred             HHHhCCCEEEEEECccCCcccccHHHHHhcCCCCeEEEeCCcCCC-hHHHHHHHHHhcC--cccc-cccccCCceEEEEE
Confidence            456789999999999987654333333     6899999999999 9999999888772  2211 11123456899999


Q ss_pred             cCCCCCchhhhhhhhhCcCC-CCccCCceeEeEEEEEEecCCeEEEEEEEeCCCC
Q psy10878         77 GDPTVGKTSFVQRYVQNTFK-KDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQ  130 (131)
Q Consensus        77 G~~~vGKSsli~~~~~~~~~-~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gq  130 (131)
                      |.+|+|||||++++++.... ....+++..+.....+.+ ++.  .+.+|||||+
T Consensus       179 G~~~~GKSsLin~l~~~~~~~~~~~~gtt~~~~~~~~~~-~~~--~~~liDT~G~  230 (429)
T TIGR03594       179 GRPNVGKSTLVNALLGEERVIVSDIAGTTRDSIDIPFER-NGK--KYLLIDTAGI  230 (429)
T ss_pred             CCCCCCHHHHHHHHHCCCeeecCCCCCceECcEeEEEEE-CCc--EEEEEECCCc
Confidence            99999999999999976532 233344444444555555 554  5789999996

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.

>KOG0394|consensus

Probab=99.79  E-value=6.8e-20  Score=123.10  Aligned_cols=64  Identities=47%  Similarity=0.862  Sum_probs=60.7

Q ss_pred             CceeeEEEEEcCCCCCchhhhhhhhhCcCCCCccCCceeEeEEEEEEecCCeEEEEEEEeCCCCC
Q psy10878         67 PEKLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQN  131 (131)
Q Consensus        67 ~~~~~ki~vvG~~~vGKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gqe  131 (131)
                      +...+|++++|++|||||||+|+|.+.+|...|..|+|.+|.++.+.+ +++.+.++||||||||
T Consensus         6 K~~lLKViiLGDsGVGKtSLmn~yv~~kF~~qykaTIgadFltKev~V-d~~~vtlQiWDTAGQE   69 (210)
T KOG0394|consen    6 KRTLLKVIILGDSGVGKTSLMNQYVNKKFSQQYKATIGADFLTKEVQV-DDRSVTLQIWDTAGQE   69 (210)
T ss_pred             cccceEEEEeCCCCccHHHHHHHHHHHHHHHHhccccchhheeeEEEE-cCeEEEEEEEecccHH
Confidence            345689999999999999999999999999999999999999999998 8999999999999997

>KOG0078|consensus

Probab=99.79  E-value=4.9e-19  Score=121.27  Aligned_cols=65  Identities=43%  Similarity=0.855  Sum_probs=62.4

Q ss_pred             CCceeeEEEEEcCCCCCchhhhhhhhhCcCCCCccCCceeEeEEEEEEecCCeEEEEEEEeCCCCC
Q psy10878         66 PPEKLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQN  131 (131)
Q Consensus        66 ~~~~~~ki~vvG~~~vGKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gqe  131 (131)
                      ...+.+|++++|+++||||+++.||..+.|...+..|+|++|..+++.+ +|..+.+++|||+|||
T Consensus         8 ~~d~~~kvlliGDs~vGKt~~l~rf~d~~f~~~~~sTiGIDFk~kti~l-~g~~i~lQiWDtaGQe   72 (207)
T KOG0078|consen    8 DYDYLFKLLLIGDSGVGKTCLLLRFSDDSFNTSFISTIGIDFKIKTIEL-DGKKIKLQIWDTAGQE   72 (207)
T ss_pred             CcceEEEEEEECCCCCchhHhhhhhhhccCcCCccceEEEEEEEEEEEe-CCeEEEEEEEEcccch
Confidence            4678999999999999999999999999999999999999999999998 9999999999999997

>KOG0098|consensus

Probab=99.78  E-value=5.5e-19  Score=119.00  Aligned_cols=64  Identities=42%  Similarity=0.741  Sum_probs=60.7

Q ss_pred             CceeeEEEEEcCCCCCchhhhhhhhhCcCCCCccCCceeEeEEEEEEecCCeEEEEEEEeCCCCC
Q psy10878         67 PEKLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQN  131 (131)
Q Consensus        67 ~~~~~ki~vvG~~~vGKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gqe  131 (131)
                      ..+.+|++++|+.|||||+|+.||.+++|...+..|+|++|..+.+.+ ++++++|+||||+|||
T Consensus         3 ~~~~fKyIiiGd~gVGKSclllrf~~krF~~~hd~TiGvefg~r~~~i-d~k~IKlqiwDtaGqe   66 (216)
T KOG0098|consen    3 YAYLFKYIIIGDTGVGKSCLLLRFTDKRFQPVHDLTIGVEFGARMVTI-DGKQIKLQIWDTAGQE   66 (216)
T ss_pred             ccceEEEEEECCCCccHHHHHHHHhccCccccccceeeeeeceeEEEE-cCceEEEEEEecCCcH
Confidence            346789999999999999999999999999999999999999999998 9999999999999997

>KOG0080|consensus

Probab=99.78  E-value=9e-19  Score=115.61  Aligned_cols=65  Identities=42%  Similarity=0.785  Sum_probs=60.4

Q ss_pred             CCceeeEEEEEcCCCCCchhhhhhhhhCcCCCCccCCceeEeEEEEEEecCCeEEEEEEEeCCCCC
Q psy10878         66 PPEKLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQN  131 (131)
Q Consensus        66 ~~~~~~ki~vvG~~~vGKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gqe  131 (131)
                      .....+|++++|++|||||||+-||..+.|......|+|.+|..+.+.+ +|+.+++.||||||||
T Consensus         7 ~~~~t~KiLlIGeSGVGKSSLllrFv~~~fd~~~~~tIGvDFkvk~m~v-dg~~~KlaiWDTAGqE   71 (209)
T KOG0080|consen    7 GYDTTFKILLIGESGVGKSSLLLRFVSNTFDDLHPTTIGVDFKVKVMQV-DGKRLKLAIWDTAGQE   71 (209)
T ss_pred             CcceeEEEEEEccCCccHHHHHHHHHhcccCccCCceeeeeEEEEEEEE-cCceEEEEEEeccchH
Confidence            3556799999999999999999999999998877778999999999998 9999999999999997

>KOG0092|consensus

Probab=99.78  E-value=8.2e-19  Score=118.58  Aligned_cols=63  Identities=41%  Similarity=0.795  Sum_probs=59.2

Q ss_pred             ceeeEEEEEcCCCCCchhhhhhhhhCcCCCCccCCceeEeEEEEEEecCCeEEEEEEEeCCCCC
Q psy10878         68 EKLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQN  131 (131)
Q Consensus        68 ~~~~ki~vvG~~~vGKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gqe  131 (131)
                      ...+|++++|+.+||||||+.||..+.|.+...||+|..|.++++.+ ++..++++||||||||
T Consensus         3 ~~~~KvvLLG~~~VGKSSlV~Rfvk~~F~e~~e~TIGaaF~tktv~~-~~~~ikfeIWDTAGQE   65 (200)
T KOG0092|consen    3 TREFKVVLLGDSGVGKSSLVLRFVKDQFHENIEPTIGAAFLTKTVTV-DDNTIKFEIWDTAGQE   65 (200)
T ss_pred             cceEEEEEECCCCCCchhhhhhhhhCccccccccccccEEEEEEEEe-CCcEEEEEEEEcCCcc
Confidence            35789999999999999999999999999877899999999999998 7889999999999998

>PRK09518 bifunctional cytidylate kinase/GTPase Der; Reviewed

Probab=99.78  E-value=3.3e-19  Score=143.17  Aligned_cols=123  Identities=24%  Similarity=0.372  Sum_probs=87.5

Q ss_pred             CccCCCcEEeeccCCCccccccccccc-----CCCCccccccCCcccccccccccccccCCCcccCCC-CCCceeeEEEE
Q psy10878          2 SYKAKKPILLPSASEDPSIDNWDKASW-----ENVTPIVSEQGDGEIIEIIDPSLKLVRVPSIRKSFN-APPEKLFKVIV   75 (131)
Q Consensus         2 ~~~~~kp~vlv~NK~Dl~~~~~~~~~~-----~~~~~is~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~ki~v   75 (131)
                      +++.++|+++|+||+|+........++     ..++++||.++.| +.++++.+.+.+  +....... ..+....|+++
T Consensus       379 Lr~~~~pvIlV~NK~D~~~~~~~~~~~~~lg~~~~~~iSA~~g~G-I~eLl~~i~~~l--~~~~~~~~a~~~~~~~kI~i  455 (712)
T PRK09518        379 LRRAGKPVVLAVNKIDDQASEYDAAEFWKLGLGEPYPISAMHGRG-VGDLLDEALDSL--KVAEKTSGFLTPSGLRRVAL  455 (712)
T ss_pred             HHhcCCCEEEEEECcccccchhhHHHHHHcCCCCeEEEECCCCCC-chHHHHHHHHhc--ccccccccccCCCCCcEEEE
Confidence            456789999999999986543333332     6789999999999 999999988776  22111100 01234579999


Q ss_pred             EcCCCCCchhhhhhhhhCcCC-CCccCCceeEeEEEEEEecCCeEEEEEEEeCCCC
Q psy10878         76 IGDPTVGKTSFVQRYVQNTFK-KDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQ  130 (131)
Q Consensus        76 vG~~~vGKSsli~~~~~~~~~-~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gq  130 (131)
                      +|.+|||||||+|++++..+. ....++++.+.....+.+ ++..  +.+|||||+
T Consensus       456 vG~~nvGKSSLin~l~~~~~~~v~~~~gtT~d~~~~~~~~-~~~~--~~liDTaG~  508 (712)
T PRK09518        456 VGRPNVGKSSLLNQLTHEERAVVNDLAGTTRDPVDEIVEI-DGED--WLFIDTAGI  508 (712)
T ss_pred             ECCCCCCHHHHHHHHhCccccccCCCCCCCcCcceeEEEE-CCCE--EEEEECCCc
Confidence            999999999999999977642 233344445555566666 6654  569999995

>KOG0079|consensus

Probab=99.77  E-value=2.4e-19  Score=116.88  Aligned_cols=63  Identities=44%  Similarity=0.904  Sum_probs=59.5

Q ss_pred             ceeeEEEEEcCCCCCchhhhhhhhhCcCCCCccCCceeEeEEEEEEecCCeEEEEEEEeCCCCC
Q psy10878         68 EKLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQN  131 (131)
Q Consensus        68 ~~~~ki~vvG~~~vGKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gqe  131 (131)
                      ...+|.+++|++|||||+|+.+|..+.|..+|..|+|.+|..+++.+ +|..++|+||||||||
T Consensus         6 dhLfkllIigDsgVGKssLl~rF~ddtFs~sYitTiGvDfkirTv~i-~G~~VkLqIwDtAGqE   68 (198)
T KOG0079|consen    6 DHLFKLLIIGDSGVGKSSLLLRFADDTFSGSYITTIGVDFKIRTVDI-NGDRVKLQIWDTAGQE   68 (198)
T ss_pred             HHHHHHHeecCCcccHHHHHHHHhhcccccceEEEeeeeEEEEEeec-CCcEEEEEEeecccHH
Confidence            34578899999999999999999999999999999999999999998 8999999999999997

>KOG0087|consensus

Probab=99.76  E-value=2.6e-18  Score=117.65  Aligned_cols=67  Identities=40%  Similarity=0.782  Sum_probs=63.1

Q ss_pred             CCCCceeeEEEEEcCCCCCchhhhhhhhhCcCCCCccCCceeEeEEEEEEecCCeEEEEEEEeCCCCC
Q psy10878         64 NAPPEKLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQN  131 (131)
Q Consensus        64 ~~~~~~~~ki~vvG~~~vGKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gqe  131 (131)
                      +...++.+|++++|+++||||-|+.||..++|..+..+|+|++|.+..+.+ +++.++.+||||||||
T Consensus         8 ~~~~dylFKiVliGDS~VGKsnLlsRftrnEF~~~SksTIGvef~t~t~~v-d~k~vkaqIWDTAGQE   74 (222)
T KOG0087|consen    8 SEEYDYLFKIVLIGDSAVGKSNLLSRFTRNEFSLESKSTIGVEFATRTVNV-DGKTVKAQIWDTAGQE   74 (222)
T ss_pred             ccccceEEEEEEeCCCccchhHHHHHhcccccCcccccceeEEEEeeceee-cCcEEEEeeecccchh
Confidence            445788999999999999999999999999998888899999999999998 9999999999999997

>KOG0095|consensus

Probab=99.75  E-value=3.6e-18  Score=111.72  Aligned_cols=63  Identities=46%  Similarity=0.829  Sum_probs=59.7

Q ss_pred             ceeeEEEEEcCCCCCchhhhhhhhhCcCCCCccCCceeEeEEEEEEecCCeEEEEEEEeCCCCC
Q psy10878         68 EKLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQN  131 (131)
Q Consensus        68 ~~~~ki~vvG~~~vGKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gqe  131 (131)
                      ...+||+++|..|||||+|+.||..+-|+.....|+|++|..+++++ +|..++|+||||||||
T Consensus         5 kflfkivlvgnagvgktclvrrftqglfppgqgatigvdfmiktvev-~gekiklqiwdtagqe   67 (213)
T KOG0095|consen    5 KFLFKIVLVGNAGVGKTCLVRRFTQGLFPPGQGATIGVDFMIKTVEV-NGEKIKLQIWDTAGQE   67 (213)
T ss_pred             ceeEEEEEEccCCcCcchhhhhhhccCCCCCCCceeeeeEEEEEEEE-CCeEEEEEEeeccchH
Confidence            45789999999999999999999999999888899999999999998 9999999999999997

>PRK00093 GTP-binding protein Der; Reviewed

Probab=99.74  E-value=5.8e-18  Score=129.30  Aligned_cols=121  Identities=25%  Similarity=0.332  Sum_probs=84.7

Q ss_pred             CccCCCcEEeeccCCCccccccccccc-----CCCCccccccCCcccccccccccccccCCCcccCCCCCCceeeEEEEE
Q psy10878          2 SYKAKKPILLPSASEDPSIDNWDKASW-----ENVTPIVSEQGDGEIIEIIDPSLKLVRVPSIRKSFNAPPEKLFKVIVI   76 (131)
Q Consensus         2 ~~~~~kp~vlv~NK~Dl~~~~~~~~~~-----~~~~~is~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ki~vv   76 (131)
                      +++.++|+++|+||+|+.+.+....++     .+++++|+.++.| +.++++.+........  .  .......++++++
T Consensus       105 l~~~~~piilv~NK~D~~~~~~~~~~~~~lg~~~~~~iSa~~g~g-v~~l~~~I~~~~~~~~--~--~~~~~~~~~v~iv  179 (435)
T PRK00093        105 LRKSNKPVILVVNKVDGPDEEADAYEFYSLGLGEPYPISAEHGRG-IGDLLDAILEELPEEE--E--EDEEDEPIKIAII  179 (435)
T ss_pred             HHHcCCcEEEEEECccCccchhhHHHHHhcCCCCCEEEEeeCCCC-HHHHHHHHHhhCCccc--c--ccccccceEEEEE
Confidence            455689999999999986533233332     5789999999999 9999998877442211  1  1113357999999


Q ss_pred             cCCCCCchhhhhhhhhCc-CCCCccCCceeEeEEEEEEecCCeEEEEEEEeCCCC
Q psy10878         77 GDPTVGKTSFVQRYVQNT-FKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQ  130 (131)
Q Consensus        77 G~~~vGKSsli~~~~~~~-~~~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gq  130 (131)
                      |.+|+|||||++++++.. ......+++..+.....+.+ ++.  .+.+|||||.
T Consensus       180 G~~n~GKStlin~ll~~~~~~~~~~~gtt~~~~~~~~~~-~~~--~~~lvDT~G~  231 (435)
T PRK00093        180 GRPNVGKSSLINALLGEERVIVSDIAGTTRDSIDTPFER-DGQ--KYTLIDTAGI  231 (435)
T ss_pred             CCCCCCHHHHHHHHhCCCceeecCCCCceEEEEEEEEEE-CCe--eEEEEECCCC
Confidence            999999999999999654 33344455554554455555 554  4679999995

>KOG0086|consensus

Probab=99.73  E-value=3.9e-18  Score=111.93  Aligned_cols=64  Identities=41%  Similarity=0.789  Sum_probs=60.4

Q ss_pred             CceeeEEEEEcCCCCCchhhhhhhhhCcCCCCccCCceeEeEEEEEEecCCeEEEEEEEeCCCCC
Q psy10878         67 PEKLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQN  131 (131)
Q Consensus        67 ~~~~~ki~vvG~~~vGKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gqe  131 (131)
                      .++.+|++++|.+|.|||+|+++|+.+.|......|+|++|..+.+.+ +++.++|+||||||||
T Consensus         6 YDyLfKfl~iG~aGtGKSCLLh~Fie~kfkDdssHTiGveFgSrIinV-GgK~vKLQIWDTAGQE   69 (214)
T KOG0086|consen    6 YDYLFKFLVIGSAGTGKSCLLHQFIENKFKDDSSHTIGVEFGSRIVNV-GGKTVKLQIWDTAGQE   69 (214)
T ss_pred             hhhhheeEEeccCCCChhHHHHHHHHhhhcccccceeeeeecceeeee-cCcEEEEEEeecccHH
Confidence            456789999999999999999999999999999999999999999988 9999999999999997

>cd01859 MJ1464 MJ1464

Probab=99.72  E-value=4.1e-18  Score=113.60  Aligned_cols=110  Identities=22%  Similarity=0.174  Sum_probs=78.3

Q ss_pred             cCCCcEEeeccCCCccccccccc--cc-----CCCCccccccCCcccccccccccccccCCCcccCCCCCCceeeEEEEE
Q psy10878          4 KAKKPILLPSASEDPSIDNWDKA--SW-----ENVTPIVSEQGDGEIIEIIDPSLKLVRVPSIRKSFNAPPEKLFKVIVI   76 (131)
Q Consensus         4 ~~~kp~vlv~NK~Dl~~~~~~~~--~~-----~~~~~is~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ki~vv   76 (131)
                      ..++|+++|+||+|+.+......  .+     ..++++|+.++.| +.++++.+.+.+  +.        .....+++++
T Consensus        39 ~~~~p~iiv~NK~Dl~~~~~~~~~~~~~~~~~~~~~~iSa~~~~g-i~~L~~~l~~~~--~~--------~~~~~~~~~i  107 (156)
T cd01859          39 ELGKKLLIVLNKADLVPKEVLEKWKSIKESEGIPVVYVSAKERLG-TKILRRTIKELA--KI--------DGKEGKVGVV  107 (156)
T ss_pred             hCCCcEEEEEEhHHhCCHHHHHHHHHHHHhCCCcEEEEEcccccc-HHHHHHHHHHHH--hh--------cCCCcEEEEE
Confidence            35799999999999864321111  11     3568999999999 999998887776  21        2234678999


Q ss_pred             cCCCCCchhhhhhhhhCcCCCCccCCceeEeEEEEEEecCCeEEEEEEEeCCC
Q psy10878         77 GDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAG  129 (131)
Q Consensus        77 G~~~vGKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~G  129 (131)
                      |.+++||||++|++.+.. ...+.++.+.......+.. ++   .+.+|||||
T Consensus       108 g~~~~Gkssl~~~l~~~~-~~~~~~~~~~t~~~~~~~~-~~---~~~~~DtpG  155 (156)
T cd01859         108 GYPNVGKSSIINALKGRH-SASTSPSPGYTKGEQLVKI-TS---KIYLLDTPG  155 (156)
T ss_pred             CCCCCCHHHHHHHHhCCC-ccccCCCCCeeeeeEEEEc-CC---CEEEEECcC
Confidence            999999999999998644 3345567665543333333 32   488999999

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.

>cd04172 Rnd3_RhoE_Rho8 Rnd3/RhoE/Rho8 subfamily

Probab=99.72  E-value=3.1e-17  Score=112.30  Aligned_cols=63  Identities=30%  Similarity=0.602  Sum_probs=56.6

Q ss_pred             CceeeEEEEEcCCCCCchhhhhhhhhCcCCCCccCCceeEeEEEEEEecCCeEEEEEEEeCCCCC
Q psy10878         67 PEKLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQN  131 (131)
Q Consensus        67 ~~~~~ki~vvG~~~vGKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gqe  131 (131)
                      +...+|++++|+++||||||+++|+.+.|...|.||++..+ .+.+.+ ++..+.++||||+|||
T Consensus         2 ~~~~~KivvvGd~~vGKTsli~~~~~~~f~~~~~pT~~~~~-~~~~~~-~~~~~~l~iwDtaG~e   64 (182)
T cd04172           2 QNVKCKIVVVGDSQCGKTALLHVFAKDCFPENYVPTVFENY-TASFEI-DTQRIELSLWDTSGSP   64 (182)
T ss_pred             CcceEEEEEECCCCCCHHHHHHHHHhCCCCCccCCceeeee-EEEEEE-CCEEEEEEEEECCCch
Confidence            34578999999999999999999999999999999999877 466777 8899999999999996

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

>cd04128 Spg1 Spg1p

Probab=99.70  E-value=6.5e-17  Score=110.58  Aligned_cols=60  Identities=37%  Similarity=0.769  Sum_probs=55.8

Q ss_pred             eEEEEEcCCCCCchhhhhhhhhCcCCCCccCCceeEeEEEEEEecCCeEEEEEEEeCCCCC
Q psy10878         71 FKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQN  131 (131)
Q Consensus        71 ~ki~vvG~~~vGKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gqe  131 (131)
                      +|++++|+++||||||++||+++.|...|.||++.++..+.+.+ ++..+.++||||+||+
T Consensus         1 ~Ki~vlG~~~vGKTsLi~~~~~~~f~~~~~~T~g~~~~~~~i~~-~~~~~~l~iwDt~G~~   60 (182)
T cd04128           1 LKIGLLGDAQIGKTSLMVKYVEGEFDEDYIQTLGVNFMEKTISI-RGTEITFSIWDLGGQR   60 (182)
T ss_pred             CEEEEECCCCCCHHHHHHHHHhCCCCCCCCCccceEEEEEEEEE-CCEEEEEEEEeCCCch
Confidence            48999999999999999999999999889999999998788887 8889999999999986

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

>cd01856 YlqF YlqF

Probab=99.70  E-value=1.3e-17  Score=113.02  Aligned_cols=118  Identities=20%  Similarity=0.333  Sum_probs=79.6

Q ss_pred             CCCcEEeeccCCCccccccccc--cc-----CCCCccccccCCcccccccccccccccCCCc-ccCCCCCCceeeEEEEE
Q psy10878          5 AKKPILLPSASEDPSIDNWDKA--SW-----ENVTPIVSEQGDGEIIEIIDPSLKLVRVPSI-RKSFNAPPEKLFKVIVI   76 (131)
Q Consensus         5 ~~kp~vlv~NK~Dl~~~~~~~~--~~-----~~~~~is~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~ki~vv   76 (131)
                      .++|+++|+||+|+.+......  ++     ..++++|+.++.| +.++++.+...+  +.. +..........++++++
T Consensus        45 ~~k~~ilVlNK~Dl~~~~~~~~~~~~~~~~~~~vi~iSa~~~~g-i~~L~~~l~~~l--~~~~~~~~~~~~~~~~~~~~~  121 (171)
T cd01856          45 GNKPRIIVLNKADLADPKKTKKWLKYFESKGEKVLFVNAKSGKG-VKKLLKAAKKLL--KDIEKLKAKGLLPRGIRAMVV  121 (171)
T ss_pred             cCCCEEEEEehhhcCChHHHHHHHHHHHhcCCeEEEEECCCccc-HHHHHHHHHHHH--HHHhhhhhcccCCCCeEEEEE
Confidence            3689999999999964422111  11     3578999999999 999888777654  210 11111223455799999


Q ss_pred             cCCCCCchhhhhhhhhCcCCCCccCCceeEeEEEEEEecCCeEEEEEEEeCCCC
Q psy10878         77 GDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQ  130 (131)
Q Consensus        77 G~~~vGKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gq  130 (131)
                      |.+|||||||+|++.+..+. ...+..+..+....+.+ +   ..+.+|||||-
T Consensus       122 G~~~vGKstlin~l~~~~~~-~~~~~~~~T~~~~~~~~-~---~~~~~iDtpG~  170 (171)
T cd01856         122 GIPNVGKSTLINRLRGKKVA-KVGNKPGVTKGIQWIKI-S---PGIYLLDTPGI  170 (171)
T ss_pred             CCCCCCHHHHHHHHhCCCce-eecCCCCEEeeeEEEEe-c---CCEEEEECCCC
Confidence            99999999999999987664 22344444454455554 3   34789999993

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.

>cd04174 Rnd1_Rho6 Rnd1/Rho6 subfamily

Probab=99.70  E-value=1e-16  Score=113.53  Aligned_cols=63  Identities=25%  Similarity=0.497  Sum_probs=56.7

Q ss_pred             CceeeEEEEEcCCCCCchhhhhhhhhCcCCCCccCCceeEeEEEEEEecCCeEEEEEEEeCCCCC
Q psy10878         67 PEKLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQN  131 (131)
Q Consensus        67 ~~~~~ki~vvG~~~vGKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gqe  131 (131)
                      ....+||+++|+++||||||+++|+.+.|...|.||++.+|. ..+.+ ++..+.++||||+|||
T Consensus        10 ~~~~~KIvvvGd~~VGKTsLi~r~~~~~F~~~y~pTi~~~~~-~~i~~-~~~~v~l~iwDTaG~e   72 (232)
T cd04174          10 LVMRCKLVLVGDVQCGKTAMLQVLAKDCYPETYVPTVFENYT-AGLET-EEQRVELSLWDTSGSP   72 (232)
T ss_pred             ceeeEEEEEECCCCCcHHHHHHHHhcCCCCCCcCCceeeeeE-EEEEE-CCEEEEEEEEeCCCch
Confidence            346789999999999999999999999999999999998874 56777 8899999999999986

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.

>cd01858 NGP_1 NGP-1

Probab=99.70  E-value=2.1e-17  Score=110.42  Aligned_cols=110  Identities=17%  Similarity=0.125  Sum_probs=72.6

Q ss_pred             CCcEEeeccCCCcccccccc---ccc-----CCCCccccccCCcccccccccccccccCCCcccCCCCCCceeeEEEEEc
Q psy10878          6 KKPILLPSASEDPSIDNWDK---ASW-----ENVTPIVSEQGDGEIIEIIDPSLKLVRVPSIRKSFNAPPEKLFKVIVIG   77 (131)
Q Consensus         6 ~kp~vlv~NK~Dl~~~~~~~---~~~-----~~~~~is~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ki~vvG   77 (131)
                      ++|+++|+||+|+.+.+...   ..+     ...+++|+..+.| ..++++.+.++++...        ....+.++++|
T Consensus        39 ~~p~ilVlNKiDl~~~~~~~~~~~~~~~~~~~~~~~iSa~~~~~-~~~L~~~l~~~~~~~~--------~~~~~~v~~~G  109 (157)
T cd01858          39 HKHLIFVLNKCDLVPTWVTARWVKILSKEYPTIAFHASINNPFG-KGSLIQLLRQFSKLHS--------DKKQISVGFIG  109 (157)
T ss_pred             CCCEEEEEEchhcCCHHHHHHHHHHHhcCCcEEEEEeecccccc-HHHHHHHHHHHHhhhc--------cccceEEEEEe
Confidence            58999999999996543211   111     1246789999999 9999888877653210        12346899999


Q ss_pred             CCCCCchhhhhhhhhCcCCCCccCCceeEeEEEEEEecCCeEEEEEEEeCCC
Q psy10878         78 DPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAG  129 (131)
Q Consensus        78 ~~~vGKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~G  129 (131)
                      .+|||||||+|++.+..... ..++.|.......+.. ++   .+.+.||||
T Consensus       110 ~~nvGKStliN~l~~~~~~~-~~~~~g~T~~~~~~~~-~~---~~~liDtPG  156 (157)
T cd01858         110 YPNVGKSSIINTLRSKKVCK-VAPIPGETKVWQYITL-MK---RIYLIDCPG  156 (157)
T ss_pred             CCCCChHHHHHHHhcCCcee-eCCCCCeeEeEEEEEc-CC---CEEEEECcC
Confidence            99999999999998754421 2233333332333333 22   267999999

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.

>cd04131 Rnd Rnd subfamily

Probab=99.70  E-value=8.2e-17  Score=109.74  Aligned_cols=59  Identities=32%  Similarity=0.643  Sum_probs=54.0

Q ss_pred             eEEEEEcCCCCCchhhhhhhhhCcCCCCccCCceeEeEEEEEEecCCeEEEEEEEeCCCCC
Q psy10878         71 FKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQN  131 (131)
Q Consensus        71 ~ki~vvG~~~vGKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gqe  131 (131)
                      +|++++|+++||||||+++|.++.|...|.||++.++ .+.+.+ ++..+.++||||+|||
T Consensus         2 ~Kiv~vG~~~vGKTsli~~~~~~~f~~~~~~t~~~~~-~~~~~~-~~~~~~l~iwDt~G~~   60 (178)
T cd04131           2 CKIVVVGDVQCGKTALLQVFAKDCYPETYVPTVFENY-TASFEI-DEQRIELSLWDTSGSP   60 (178)
T ss_pred             eEEEEECCCCCCHHHHHHHHHhCcCCCCcCCceEEEE-EEEEEE-CCEEEEEEEEECCCch
Confidence            6999999999999999999999999999999998877 467777 8899999999999986

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.

>KOG0091|consensus

Probab=99.69  E-value=6.9e-18  Score=111.73  Aligned_cols=66  Identities=44%  Similarity=0.717  Sum_probs=61.2

Q ss_pred             CCceeeEEEEEcCCCCCchhhhhhhhhCcCCCCccCCceeEeEEEEEEecCCeEEEEEEEeCCCCC
Q psy10878         66 PPEKLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQN  131 (131)
Q Consensus        66 ~~~~~~ki~vvG~~~vGKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gqe  131 (131)
                      ...++++++++|++-||||||+.+|..++|.+-.+||+|++|..+.+++..|..++|++|||||||
T Consensus         4 if~yqfrlivigdstvgkssll~~ft~gkfaelsdptvgvdffarlie~~pg~riklqlwdtagqe   69 (213)
T KOG0091|consen    4 IFHYQFRLIVIGDSTVGKSSLLRYFTEGKFAELSDPTVGVDFFARLIELRPGYRIKLQLWDTAGQE   69 (213)
T ss_pred             ceEEEEEEEEEcCCcccHHHHHHHHhcCcccccCCCccchHHHHHHHhcCCCcEEEEEEeeccchH
Confidence            356789999999999999999999999999998899999999988887778999999999999997

>cd04120 Rab12 Rab12 subfamily

Probab=99.69  E-value=9.8e-17  Score=111.50  Aligned_cols=59  Identities=49%  Similarity=0.853  Sum_probs=55.4

Q ss_pred             EEEEEcCCCCCchhhhhhhhhCcCCCCccCCceeEeEEEEEEecCCeEEEEEEEeCCCCC
Q psy10878         72 KVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQN  131 (131)
Q Consensus        72 ki~vvG~~~vGKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gqe  131 (131)
                      .++++|++|||||||++||..+.|...|.+|++.+|..+.+.+ ++..+.++||||+|||
T Consensus         2 ~vvvlG~~gVGKTSli~r~~~~~f~~~~~~Ti~~~~~~~~i~~-~~~~v~l~iwDtaGqe   60 (202)
T cd04120           2 QVIIIGSRGVGKTSLMRRFTDDTFCEACKSGVGVDFKIKTVEL-RGKKIRLQIWDTAGQE   60 (202)
T ss_pred             EEEEECcCCCCHHHHHHHHHhCCCCCcCCCcceeEEEEEEEEE-CCEEEEEEEEeCCCch
Confidence            5899999999999999999999999899999999998888888 8889999999999996

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

>cd01875 RhoG RhoG subfamily

Probab=99.69  E-value=1.2e-16  Score=109.95  Aligned_cols=60  Identities=38%  Similarity=0.622  Sum_probs=54.0

Q ss_pred             eeEEEEEcCCCCCchhhhhhhhhCcCCCCccCCceeEeEEEEEEecCCeEEEEEEEeCCCCC
Q psy10878         70 LFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQN  131 (131)
Q Consensus        70 ~~ki~vvG~~~vGKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gqe  131 (131)
                      .+|++++|+++||||||++||..+.|...|.||++..+ .+.+.+ ++..+.++||||+|||
T Consensus         3 ~~ki~~vG~~~vGKTsli~~~~~~~f~~~~~~t~~~~~-~~~~~~-~~~~~~l~i~Dt~G~e   62 (191)
T cd01875           3 SIKCVVVGDGAVGKTCLLICYTTNAFPKEYIPTVFDNY-SAQTAV-DGRTVSLNLWDTAGQE   62 (191)
T ss_pred             cEEEEEECCCCCCHHHHHHHHHhCCCCcCCCCceEeee-EEEEEE-CCEEEEEEEEECCCch
Confidence            47999999999999999999999999989999999776 455666 8889999999999996

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=99.69  E-value=1.2e-16  Score=108.82  Aligned_cols=59  Identities=41%  Similarity=0.633  Sum_probs=53.9

Q ss_pred             eEEEEEcCCCCCchhhhhhhhhCcCCCCccCCceeEeEEEEEEecCCeEEEEEEEeCCCCC
Q psy10878         71 FKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQN  131 (131)
Q Consensus        71 ~ki~vvG~~~vGKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gqe  131 (131)
                      +|++++|+++||||||+.+|..+.|..+|.||++..+ .+.+.+ ++..++++||||+|||
T Consensus         2 ~kivv~G~~~vGKTsli~~~~~~~f~~~~~~Ti~~~~-~~~~~~-~~~~v~l~i~Dt~G~~   60 (176)
T cd04133           2 IKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNF-SANVSV-DGNTVNLGLWDTAGQE   60 (176)
T ss_pred             eEEEEECCCCCcHHHHHHHHhcCCCCCCCCCcceeee-EEEEEE-CCEEEEEEEEECCCCc
Confidence            6899999999999999999999999989999999877 456777 8889999999999986

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,

>cd04108 Rab36_Rab34 Rab34/Rab36 subfamily

Probab=99.69  E-value=1.1e-16  Score=108.18  Aligned_cols=59  Identities=47%  Similarity=0.853  Sum_probs=55.3

Q ss_pred             EEEEEcCCCCCchhhhhhhhhCcCCCCccCCceeEeEEEEEEecCCeEEEEEEEeCCCCC
Q psy10878         72 KVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQN  131 (131)
Q Consensus        72 ki~vvG~~~vGKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gqe  131 (131)
                      ||+++|++|||||||+++|+++.|...|.||++.++..+.+.+ +|..+.++||||+|||
T Consensus         2 ki~ivG~~~vGKTsli~~~~~~~f~~~~~~t~~~~~~~~~~~~-~~~~~~l~i~Dt~G~~   60 (170)
T cd04108           2 KVIVVGDLSVGKTCLINRFCKDVFDKNYKATIGVDFEMERFEI-LGVPFSLQLWDTAGQE   60 (170)
T ss_pred             EEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeeEEEEEEEEE-CCEEEEEEEEeCCChH
Confidence            7999999999999999999999999999999999998888887 8888999999999985

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

>TIGR03596 GTPase_YlqF ribosome biogenesis GTP-binding protein YlqF

Probab=99.68  E-value=3.7e-17  Score=118.47  Aligned_cols=119  Identities=22%  Similarity=0.346  Sum_probs=78.0

Q ss_pred             CCcEEeeccCCCccccccccc---cc----CCCCccccccCCcccccccccccccccCCCcccCCCCCCceeeEEEEEcC
Q psy10878          6 KKPILLPSASEDPSIDNWDKA---SW----ENVTPIVSEQGDGEIIEIIDPSLKLVRVPSIRKSFNAPPEKLFKVIVIGD   78 (131)
Q Consensus         6 ~kp~vlv~NK~Dl~~~~~~~~---~~----~~~~~is~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ki~vvG~   78 (131)
                      ++|+++|+||+|+.+......   .+    ..++++|+.++.| +.++++.+.+.+................++++++|.
T Consensus        48 ~kp~IiVlNK~DL~~~~~~~~~~~~~~~~~~~vi~iSa~~~~g-i~~L~~~i~~~~~~~~~~~~~~~~~~~~~~~~~vG~  126 (276)
T TIGR03596        48 NKPRLIVLNKADLADPAVTKQWLKYFEEKGIKALAINAKKGKG-VKKIIKAAKKLLKEKNEKLKAKGLKNRPIRAMIVGI  126 (276)
T ss_pred             CCCEEEEEEccccCCHHHHHHHHHHHHHcCCeEEEEECCCccc-HHHHHHHHHHHHHHhhhhhhhccCCCCCeEEEEECC
Confidence            689999999999965431111   11    2568999999999 999888776665211111111111235689999999


Q ss_pred             CCCCchhhhhhhhhCcCCCCccCCceeEeEEEEEEecCCeEEEEEEEeCCCC
Q psy10878         79 PTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQ  130 (131)
Q Consensus        79 ~~vGKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gq  130 (131)
                      ||||||||+|++.+..... ..+..|.+.....+.+ +.   .+.++||||.
T Consensus       127 ~nvGKSslin~l~~~~~~~-~~~~~g~T~~~~~~~~-~~---~~~l~DtPG~  173 (276)
T TIGR03596       127 PNVGKSTLINRLAGKKVAK-VGNRPGVTKGQQWIKL-SD---GLELLDTPGI  173 (276)
T ss_pred             CCCCHHHHHHHHhCCCccc-cCCCCCeecceEEEEe-CC---CEEEEECCCc
Confidence            9999999999998765422 1233343444445554 33   3689999995

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.

>cd04121 Rab40 Rab40 subfamily

Probab=99.68  E-value=2.3e-16  Score=108.55  Aligned_cols=63  Identities=30%  Similarity=0.636  Sum_probs=57.6

Q ss_pred             ceeeEEEEEcCCCCCchhhhhhhhhCcCCCCccCCceeEeEEEEEEecCCeEEEEEEEeCCCCC
Q psy10878         68 EKLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQN  131 (131)
Q Consensus        68 ~~~~ki~vvG~~~vGKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gqe  131 (131)
                      .+.+||+++|+++||||||+.+|.++.|...+.++++.++....+.+ ++..+.+++|||+||+
T Consensus         4 ~~~~KivviG~~~vGKTsll~~~~~~~~~~~~~~t~~~~~~~~~i~~-~~~~~~l~iwDt~G~~   66 (189)
T cd04121           4 DYLLKFLLVGDSDVGKGEILASLQDGSTESPYGYNMGIDYKTTTILL-DGRRVKLQLWDTSGQG   66 (189)
T ss_pred             CceeEEEEECCCCCCHHHHHHHHHcCCCCCCCCCcceeEEEEEEEEE-CCEEEEEEEEeCCCcH
Confidence            35689999999999999999999999998888899999998888887 8889999999999986

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

>cd01857 HSR1_MMR1 HSR1/MMR1

Probab=99.68  E-value=6.7e-17  Score=106.32  Aligned_cols=91  Identities=19%  Similarity=0.224  Sum_probs=60.8

Q ss_pred             CCCcEEeeccCCCcccccccc---ccc----CCCCccccccCCcccccccccccccccCCCcccCCCCCCceeeEEEEEc
Q psy10878          5 AKKPILLPSASEDPSIDNWDK---ASW----ENVTPIVSEQGDGEIIEIIDPSLKLVRVPSIRKSFNAPPEKLFKVIVIG   77 (131)
Q Consensus         5 ~~kp~vlv~NK~Dl~~~~~~~---~~~----~~~~~is~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ki~vvG   77 (131)
                      .++|+++|+||+|+.+.+...   ..+    .+++++|+.++.+                              +++++|
T Consensus        41 ~~k~~iivlNK~DL~~~~~~~~~~~~~~~~~~~ii~iSa~~~~~------------------------------~~~~~G   90 (141)
T cd01857          41 PRKKNILLLNKADLLTEEQRKAWAEYFKKEGIVVVFFSALKENA------------------------------TIGLVG   90 (141)
T ss_pred             CCCcEEEEEechhcCCHHHHHHHHHHHHhcCCeEEEEEecCCCc------------------------------EEEEEC
Confidence            389999999999996543211   111    3345666654322                              699999


Q ss_pred             CCCCCchhhhhhhhhCcCCCCccCCceeEeEEEEEEecCCeEEEEEEEeCCCC
Q psy10878         78 DPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQ  130 (131)
Q Consensus        78 ~~~vGKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gq  130 (131)
                      .+|||||||+|++.+..+. ......+.+.....+.+ ++   .+.||||||-
T Consensus        91 ~~~vGKstlin~l~~~~~~-~~~~~~~~~~~~~~~~~-~~---~~~i~DtpG~  138 (141)
T cd01857          91 YPNVGKSSLINALVGKKKV-SVSATPGKTKHFQTIFL-TP---TITLCDCPGL  138 (141)
T ss_pred             CCCCCHHHHHHHHhCCCce-eeCCCCCcccceEEEEe-CC---CEEEEECCCc
Confidence            9999999999999977654 22233343344455555 44   3789999994

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.

>cd01874 Cdc42 Cdc42 subfamily

Probab=99.67  E-value=2.3e-16  Score=107.14  Aligned_cols=59  Identities=37%  Similarity=0.562  Sum_probs=53.3

Q ss_pred             eEEEEEcCCCCCchhhhhhhhhCcCCCCccCCceeEeEEEEEEecCCeEEEEEEEeCCCCC
Q psy10878         71 FKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQN  131 (131)
Q Consensus        71 ~ki~vvG~~~vGKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gqe  131 (131)
                      +|++++|++|||||||+++|..+.|...|.||++..+. ..+.+ ++..+.++||||+|||
T Consensus         2 ~ki~vvG~~~vGKTsl~~~~~~~~f~~~~~pt~~~~~~-~~~~~-~~~~~~l~i~Dt~G~~   60 (175)
T cd01874           2 IKCVVVGDGAVGKTCLLISYTTNKFPSEYVPTVFDNYA-VTVMI-GGEPYTLGLFDTAGQE   60 (175)
T ss_pred             eEEEEECCCCCCHHHHHHHHHcCCCCCCCCCceeeeeE-EEEEE-CCEEEEEEEEECCCcc
Confidence            69999999999999999999999998899999998774 45666 7888999999999986

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

>cd04119 RJL RJL (RabJ-Like) subfamily

Probab=99.67  E-value=2e-16  Score=105.37  Aligned_cols=60  Identities=30%  Similarity=0.711  Sum_probs=55.7

Q ss_pred             eEEEEEcCCCCCchhhhhhhhhCcCCCCccCCceeEeEEEEEEecCCeEEEEEEEeCCCCC
Q psy10878         71 FKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQN  131 (131)
Q Consensus        71 ~ki~vvG~~~vGKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gqe  131 (131)
                      +||+++|+++||||||+++++++.+...+.||++.++..+.+.+ ++..+.+++|||+|++
T Consensus         1 ~ki~~vG~~~vGKTsli~~l~~~~~~~~~~~t~~~~~~~~~~~~-~~~~~~l~i~Dt~G~~   60 (168)
T cd04119           1 IKVISMGNSGVGKSCIIKRYCEGRFVSKYLPTIGIDYGVKKVSV-RNKEVRVNFFDLSGHP   60 (168)
T ss_pred             CEEEEECCCCCCHHHHHHHHHhCCCCCCCCCccceeEEEEEEEE-CCeEEEEEEEECCccH
Confidence            58999999999999999999999999899999999998888887 7889999999999974

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.

>KOG0093|consensus

Probab=99.67  E-value=2.3e-16  Score=102.95  Aligned_cols=64  Identities=45%  Similarity=0.877  Sum_probs=59.5

Q ss_pred             CceeeEEEEEcCCCCCchhhhhhhhhCcCCCCccCCceeEeEEEEEEecCCeEEEEEEEeCCCCC
Q psy10878         67 PEKLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQN  131 (131)
Q Consensus        67 ~~~~~ki~vvG~~~vGKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gqe  131 (131)
                      ..+.+|++++|++.||||||+.||++..|...+..|+|++|..+++.. ..+.++++||||+|||
T Consensus        18 FDymfKlliiGnssvGKTSfl~ry~ddSFt~afvsTvGidFKvKTvyr-~~kRiklQiwDTagqE   81 (193)
T KOG0093|consen   18 FDYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVYR-SDKRIKLQIWDTAGQE   81 (193)
T ss_pred             ccceeeEEEEccCCccchhhhHHhhccccccceeeeeeeeEEEeEeee-cccEEEEEEEecccch
Confidence            456789999999999999999999999999999999999999999876 6788999999999998

>cd01855 YqeH YqeH

Probab=99.67  E-value=7.4e-17  Score=110.82  Aligned_cols=105  Identities=22%  Similarity=0.324  Sum_probs=73.0

Q ss_pred             CCCcEEeeccCCCcccccccc---c--------c-c----CCCCccccccCCcccccccccccccccCCCcccCCCCCCc
Q psy10878          5 AKKPILLPSASEDPSIDNWDK---A--------S-W----ENVTPIVSEQGDGEIIEIIDPSLKLVRVPSIRKSFNAPPE   68 (131)
Q Consensus         5 ~~kp~vlv~NK~Dl~~~~~~~---~--------~-~----~~~~~is~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   68 (131)
                      .++|+++|+||+|+.......   .        . .    ..++++|+.++.| +.++++.+.+.+  +           
T Consensus        60 ~~~~~ilV~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~vSA~~~~g-i~eL~~~l~~~l--~-----------  125 (190)
T cd01855          60 GNNPVILVGNKIDLLPKDKNLVRIKNWLRAKAAAGLGLKPKDVILISAKKGWG-VEELINAIKKLA--K-----------  125 (190)
T ss_pred             CCCcEEEEEEchhcCCCCCCHHHHHHHHHHHHHhhcCCCcccEEEEECCCCCC-HHHHHHHHHHHh--h-----------
Confidence            478999999999986432111   0        0 1    3578999999999 999998887776  2           


Q ss_pred             eeeEEEEEcCCCCCchhhhhhhhhCcC---------CCCccCCceeEeEEEEEEecCCeEEEEEEEeCCC
Q psy10878         69 KLFKVIVIGDPTVGKTSFVQRYVQNTF---------KKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAG  129 (131)
Q Consensus        69 ~~~ki~vvG~~~vGKSsli~~~~~~~~---------~~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~G  129 (131)
                      ....++++|.+|||||||+|.+.+...         ..+..|  |.......+.+ +.   .+.|+||||
T Consensus       126 ~~~~~~~~G~~nvGKStliN~l~~~~~~~~~~~~~~~~~~~~--gtT~~~~~~~~-~~---~~~~~DtPG  189 (190)
T cd01855         126 KGGDVYVVGATNVGKSTLINALLKKDNGKKKLKDLLTTSPIP--GTTLDLIKIPL-GN---GKKLYDTPG  189 (190)
T ss_pred             cCCcEEEEcCCCCCHHHHHHHHHHhcccccccccccccCCCC--CeeeeeEEEec-CC---CCEEEeCcC
Confidence            124699999999999999999986432         222223  32333334443 32   368999999

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.

>cd04173 Rnd2_Rho7 Rnd2/Rho7 subfamily

Probab=99.67  E-value=1.9e-16  Score=111.45  Aligned_cols=59  Identities=29%  Similarity=0.659  Sum_probs=54.1

Q ss_pred             eEEEEEcCCCCCchhhhhhhhhCcCCCCccCCceeEeEEEEEEecCCeEEEEEEEeCCCCC
Q psy10878         71 FKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQN  131 (131)
Q Consensus        71 ~ki~vvG~~~vGKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gqe  131 (131)
                      +||+++|+++||||||+++|..+.|...|.||++.+|. ..+.+ ++..+.|+||||+|||
T Consensus         2 ~KIvvvGd~~vGKTsLi~~~~~~~f~~~y~pTi~~~~~-~~~~~-~~~~v~L~iwDt~G~e   60 (222)
T cd04173           2 CKIVVVGDAECGKTALLQVFAKDAYPGSYVPTVFENYT-ASFEI-DKRRIELNMWDTSGSS   60 (222)
T ss_pred             eEEEEECCCCCCHHHHHHHHHcCCCCCccCCccccceE-EEEEE-CCEEEEEEEEeCCCcH
Confidence            69999999999999999999999999999999998874 56777 8899999999999985

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

>cd04122 Rab14 Rab14 subfamily

Probab=99.67  E-value=3.1e-16  Score=105.13  Aligned_cols=61  Identities=44%  Similarity=0.846  Sum_probs=55.7

Q ss_pred             eeEEEEEcCCCCCchhhhhhhhhCcCCCCccCCceeEeEEEEEEecCCeEEEEEEEeCCCCC
Q psy10878         70 LFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQN  131 (131)
Q Consensus        70 ~~ki~vvG~~~vGKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gqe  131 (131)
                      .+||+++|++|||||||+++|..+.|...+.+|++.++....+.+ ++..+.+++|||+||+
T Consensus         2 ~~ki~iiG~~~vGKTsli~~~~~~~~~~~~~~t~~~~~~~~~~~~-~~~~~~l~i~Dt~G~~   62 (166)
T cd04122           2 IFKYIIIGDMGVGKSCLLHQFTEKKFMADCPHTIGVEFGTRIIEV-NGQKIKLQIWDTAGQE   62 (166)
T ss_pred             ceEEEEECCCCCCHHHHHHHHhcCCCCCCCCcccceeEEEEEEEE-CCEEEEEEEEECCCcH
Confidence            479999999999999999999999998888899999988777877 8888999999999985

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

>PRK09563 rbgA GTPase YlqF; Reviewed

Probab=99.66  E-value=6.9e-17  Score=117.65  Aligned_cols=119  Identities=24%  Similarity=0.376  Sum_probs=78.1

Q ss_pred             CCcEEeeccCCCcccccccc---ccc----CCCCccccccCCcccccccccccccccCCCcccCCCCCCceeeEEEEEcC
Q psy10878          6 KKPILLPSASEDPSIDNWDK---ASW----ENVTPIVSEQGDGEIIEIIDPSLKLVRVPSIRKSFNAPPEKLFKVIVIGD   78 (131)
Q Consensus         6 ~kp~vlv~NK~Dl~~~~~~~---~~~----~~~~~is~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ki~vvG~   78 (131)
                      ++|+++|+||+|+.+.....   ..+    ..++++|+.++.| +.++++.+...+.....+..........++++++|.
T Consensus        51 ~kp~iiVlNK~DL~~~~~~~~~~~~~~~~~~~vi~vSa~~~~g-i~~L~~~l~~~l~~~~~~~~~~~~~~~~~~~~~~G~  129 (287)
T PRK09563         51 NKPRLLILNKSDLADPEVTKKWIEYFEEQGIKALAINAKKGQG-VKKILKAAKKLLKEKNERRKAKGMRPRAIRAMIIGI  129 (287)
T ss_pred             CCCEEEEEEchhcCCHHHHHHHHHHHHHcCCeEEEEECCCccc-HHHHHHHHHHHHHHHHhhhhhcccCcCceEEEEECC
Confidence            79999999999996542111   111    2468899999999 998888776665211111111112345689999999


Q ss_pred             CCCCchhhhhhhhhCcCCCCccCCceeEeEEEEEEecCCeEEEEEEEeCCCC
Q psy10878         79 PTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQ  130 (131)
Q Consensus        79 ~~vGKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gq  130 (131)
                      ||||||||+|++.+..... ..+..|.+.....+.+ ++   .+.++||||-
T Consensus       130 pnvGKSsliN~l~~~~~~~-~~~~~g~T~~~~~~~~-~~---~~~l~DtPGi  176 (287)
T PRK09563        130 PNVGKSTLINRLAGKKIAK-TGNRPGVTKAQQWIKL-GK---GLELLDTPGI  176 (287)
T ss_pred             CCCCHHHHHHHHhcCCccc-cCCCCCeEEEEEEEEe-CC---cEEEEECCCc
Confidence            9999999999999765422 2233344444445544 33   3689999994

>cd04107 Rab32_Rab38 Rab38/Rab32 subfamily

Probab=99.66  E-value=3.5e-16  Score=108.24  Aligned_cols=60  Identities=60%  Similarity=1.120  Sum_probs=55.1

Q ss_pred             eEEEEEcCCCCCchhhhhhhhhCcCCCCccCCceeEeEEEEEEecC-CeEEEEEEEeCCCCC
Q psy10878         71 FKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRD-QQKIKLQLWDIAGQN  131 (131)
Q Consensus        71 ~ki~vvG~~~vGKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~-~~~~~l~i~Dt~Gqe  131 (131)
                      +||+++|++|||||||+++|+++.|...+.||++.++..+.+.+ + +..+.++||||+|||
T Consensus         1 ~KivivG~~~vGKTsli~~l~~~~~~~~~~~t~~~d~~~~~v~~-~~~~~~~l~l~Dt~G~~   61 (201)
T cd04107           1 LKVLVIGDLGVGKTSIIKRYVHGIFSQHYKATIGVDFALKVIEW-DPNTVVRLQLWDIAGQE   61 (201)
T ss_pred             CEEEEECCCCCCHHHHHHHHHcCCCCCCCCCceeEEEEEEEEEE-CCCCEEEEEEEECCCch
Confidence            58999999999999999999999998889999999988888877 5 788999999999985

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.

>cd01867 Rab8_Rab10_Rab13_like Rab8/Sec4/Ypt2

Probab=99.66  E-value=3.5e-16  Score=105.03  Aligned_cols=62  Identities=42%  Similarity=0.895  Sum_probs=56.7

Q ss_pred             eeeEEEEEcCCCCCchhhhhhhhhCcCCCCccCCceeEeEEEEEEecCCeEEEEEEEeCCCCC
Q psy10878         69 KLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQN  131 (131)
Q Consensus        69 ~~~ki~vvG~~~vGKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gqe  131 (131)
                      +.+||+++|++|||||||+++|.++.|...|.||++.++....+.+ ++..+.+++|||+||+
T Consensus         2 ~~~ki~vvG~~~~GKSsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~-~~~~~~l~l~D~~g~~   63 (167)
T cd01867           2 YLFKLLLIGDSGVGKSCLLLRFSEDSFNPSFISTIGIDFKIRTIEL-DGKKIKLQIWDTAGQE   63 (167)
T ss_pred             cceEEEEECCCCCCHHHHHHHHhhCcCCcccccCccceEEEEEEEE-CCEEEEEEEEeCCchH
Confidence            4689999999999999999999999999999999999888788887 7888999999999985

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

>cd04116 Rab9 Rab9 subfamily

Probab=99.66  E-value=5.2e-16  Score=104.26  Aligned_cols=63  Identities=44%  Similarity=0.746  Sum_probs=57.2

Q ss_pred             ceeeEEEEEcCCCCCchhhhhhhhhCcCCCCccCCceeEeEEEEEEecCCeEEEEEEEeCCCCC
Q psy10878         68 EKLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQN  131 (131)
Q Consensus        68 ~~~~ki~vvG~~~vGKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gqe  131 (131)
                      +..+|++++|+++||||||+++|.++.|...+.++++.++..+.+.+ ++..+.++||||+|||
T Consensus         3 ~~~~ki~vvG~~~~GKTsli~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~l~i~D~~G~~   65 (170)
T cd04116           3 SSLLKVILLGDGGVGKSSLMNRYVTNKFDTQLFHTIGVEFLNKDLEV-DGHFVTLQIWDTAGQE   65 (170)
T ss_pred             ceEEEEEEECCCCCCHHHHHHHHHcCCCCcCcCCceeeEEEEEEEEE-CCeEEEEEEEeCCChH
Confidence            45689999999999999999999999998888899998887788887 8889999999999985

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

>cd01865 Rab3 Rab3 subfamily

Probab=99.65  E-value=5.9e-16  Score=103.75  Aligned_cols=60  Identities=47%  Similarity=0.935  Sum_probs=54.6

Q ss_pred             eEEEEEcCCCCCchhhhhhhhhCcCCCCccCCceeEeEEEEEEecCCeEEEEEEEeCCCCC
Q psy10878         71 FKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQN  131 (131)
Q Consensus        71 ~ki~vvG~~~vGKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gqe  131 (131)
                      +|++++|++|||||||++++.+++|...|.||++.++....+.. ++..+.+++|||+|++
T Consensus         2 ~ki~i~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~-~~~~~~~~l~Dt~g~~   61 (165)
T cd01865           2 FKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFR-NDKRVKLQIWDTAGQE   61 (165)
T ss_pred             eEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeeEEEEEEEEE-CCEEEEEEEEECCChH
Confidence            69999999999999999999999998889999998887777776 7788999999999975

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

>cd01849 YlqF_related_GTPase YlqF-related GTPases

Probab=99.65  E-value=8e-17  Score=107.45  Aligned_cols=120  Identities=23%  Similarity=0.169  Sum_probs=74.9

Q ss_pred             ccCCCcEEeeccCCCcccccccc---ccc-----CCCCccccccCCcccccccccccccccCCCcccCCCCCCceeeEEE
Q psy10878          3 YKAKKPILLPSASEDPSIDNWDK---ASW-----ENVTPIVSEQGDGEIIEIIDPSLKLVRVPSIRKSFNAPPEKLFKVI   74 (131)
Q Consensus         3 ~~~~kp~vlv~NK~Dl~~~~~~~---~~~-----~~~~~is~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ki~   74 (131)
                      +..++|+++|+||+|+...+...   ..+     ..++++|+.++.| +.++++.+.+.+..................++
T Consensus        26 ~~~~~p~IiVlNK~Dl~~~~~~~~~~~~~~~~~~~~ii~vSa~~~~g-i~~L~~~i~~~~~~~~~~~~~~~~~~~~~~~~  104 (155)
T cd01849          26 KEKGKKLILVLNKADLVPKEVLRKWLAYLRHSYPTIPFKISATNGQG-IEKKESAFTKQTNSNLKSYAKDGKLKKSITVG  104 (155)
T ss_pred             hcCCCCEEEEEechhcCCHHHHHHHHHHHHhhCCceEEEEeccCCcC-hhhHHHHHHHHhHHHHHHHHhccccccCcEEE
Confidence            45689999999999996543111   111     4578999999999 99888877554310000000001123456799


Q ss_pred             EEcCCCCCchhhhhhhhhCcC-CCCccCCceeEeEEEEEEecCCeEEEEEEEeCCC
Q psy10878         75 VIGDPTVGKTSFVQRYVQNTF-KKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAG  129 (131)
Q Consensus        75 vvG~~~vGKSsli~~~~~~~~-~~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~G  129 (131)
                      ++|.+|+|||||+|.+.+... .....+.+..+.  ..+.+ +   ..+.+.||||
T Consensus       105 ~~G~~~~GKstlin~l~~~~~~~~~~~~~~t~~~--~~~~~-~---~~~~liDtPG  154 (155)
T cd01849         105 VIGYPNVGKSSVINALLNKLKLKVGNVPGTTTSQ--QEVKL-D---NKIKLLDTPG  154 (155)
T ss_pred             EEccCCCCHHHHHHHHHccccccccCCCCcccce--EEEEe-c---CCEEEEECCC
Confidence            999999999999999986542 222223333222  22333 2   2378999999

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.

>cd04136 Rap_like Rap-like subfamily

Probab=99.65  E-value=4.8e-16  Score=103.39  Aligned_cols=59  Identities=32%  Similarity=0.585  Sum_probs=52.1

Q ss_pred             eEEEEEcCCCCCchhhhhhhhhCcCCCCccCCceeEeEEEEEEecCCeEEEEEEEeCCCCC
Q psy10878         71 FKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQN  131 (131)
Q Consensus        71 ~ki~vvG~~~vGKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gqe  131 (131)
                      +|++++|++|||||||+++|+.+.|...+.||++..+ .+.+.+ ++..+.++||||+|||
T Consensus         2 ~ki~i~G~~~vGKTsl~~~~~~~~~~~~~~~t~~~~~-~~~~~~-~~~~~~l~i~Dt~G~~   60 (163)
T cd04136           2 YKVVVLGSGGVGKSALTVQFVQGIFVEKYDPTIEDSY-RKQIEV-DGQQCMLEILDTAGTE   60 (163)
T ss_pred             eEEEEECCCCCCHHHHHHHHHhCCCCcccCCchhhhE-EEEEEE-CCEEEEEEEEECCCcc
Confidence            6999999999999999999999999888889987444 566777 8888999999999986

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=99.65  E-value=7.9e-16  Score=103.87  Aligned_cols=63  Identities=21%  Similarity=0.419  Sum_probs=56.9

Q ss_pred             ceeeEEEEEcCCCCCchhhhhhhhhCcCC-CCccCCceeEeEEEEEEecCCeEEEEEEEeCCCCC
Q psy10878         68 EKLFKVIVIGDPTVGKTSFVQRYVQNTFK-KDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQN  131 (131)
Q Consensus        68 ~~~~ki~vvG~~~vGKSsli~~~~~~~~~-~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gqe  131 (131)
                      ...+||+++|++|||||||+++|+++.|. ..|.||++.++....+.+ ++..+.+.+|||+|++
T Consensus         2 ~~~~kv~~vG~~~vGKTsli~~~~~~~f~~~~~~~T~~~~~~~~~~~~-~~~~~~l~~~d~~g~~   65 (169)
T cd01892           2 RNVFLCFVLGAKGSGKSALLRAFLGRSFSLNAYSPTIKPRYAVNTVEV-YGQEKYLILREVGEDE   65 (169)
T ss_pred             CeEEEEEEECCCCCcHHHHHHHHhCCCCCcccCCCccCcceEEEEEEE-CCeEEEEEEEecCCcc
Confidence            35789999999999999999999999998 889999999887777877 7888899999999985

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.

>cd04117 Rab15 Rab15 subfamily

Probab=99.64  E-value=7.4e-16  Score=103.08  Aligned_cols=60  Identities=42%  Similarity=0.836  Sum_probs=55.0

Q ss_pred             eEEEEEcCCCCCchhhhhhhhhCcCCCCccCCceeEeEEEEEEecCCeEEEEEEEeCCCCC
Q psy10878         71 FKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQN  131 (131)
Q Consensus        71 ~ki~vvG~~~vGKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gqe  131 (131)
                      +||+++|++|||||||+++|.+++|...+.||++.++..+.+.+ ++..+.+++|||+||+
T Consensus         1 ~ki~vvG~~~~GKTsli~~~~~~~~~~~~~~t~~~~~~~~~~~~-~~~~~~l~i~D~~g~~   60 (161)
T cd04117           1 FRLLLIGDSGVGKTCLLCRFTDNEFHSSHISTIGVDFKMKTIEV-DGIKVRIQIWDTAGQE   60 (161)
T ss_pred             CEEEEECcCCCCHHHHHHHHhcCCCCCCCCCceeeEEEEEEEEE-CCEEEEEEEEeCCCcH
Confidence            48999999999999999999999998888999999888788887 7888999999999985

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

>cd04102 RabL3 RabL3 (Rab-like3) subfamily

Probab=99.64  E-value=6.3e-16  Score=107.44  Aligned_cols=61  Identities=30%  Similarity=0.566  Sum_probs=54.2

Q ss_pred             eEEEEEcCCCCCchhhhhhhhhCcCCCCccCCceeEeEEEEEEec----CCeEEEEEEEeCCCCC
Q psy10878         71 FKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWR----DQQKIKLQLWDIAGQN  131 (131)
Q Consensus        71 ~ki~vvG~~~vGKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~----~~~~~~l~i~Dt~Gqe  131 (131)
                      +||+++|+++||||||+++|+++.|...+.||++.++..+.+.+.    +++.+.++||||+|||
T Consensus         1 vKIvlvGd~gVGKTSLi~~~~~~~f~~~~~~Tig~~~~~k~~~~~~~~~~~~~~~l~IwDtaG~e   65 (202)
T cd04102           1 VRVLVVGDSGVGKSSLVHLICKNQVLGRPSWTVGCSVDVKHHTYKEGTPEEKTFFVELWDVGGSE   65 (202)
T ss_pred             CEEEEECCCCCCHHHHHHHHHcCCCCCCCCcceeeeEEEEEEEEcCCCCCCcEEEEEEEecCCch
Confidence            589999999999999999999999998999999988877777662    2578999999999986

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.

>KOG0393|consensus

Probab=99.64  E-value=2.6e-16  Score=107.97  Aligned_cols=62  Identities=37%  Similarity=0.626  Sum_probs=55.7

Q ss_pred             eeeEEEEEcCCCCCchhhhhhhhhCcCCCCccCCceeEeEEEEEEecCCeEEEEEEEeCCCCC
Q psy10878         69 KLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQN  131 (131)
Q Consensus        69 ~~~ki~vvG~~~vGKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gqe  131 (131)
                      ..+|+++||+.+||||+|+..|..+.|.+.|.||+.++| ...+.+.+|+.+.|.+|||||||
T Consensus         3 ~~~K~VvVGDga~GKT~ll~~~t~~~fp~~yvPTVFdny-s~~v~V~dg~~v~L~LwDTAGqe   64 (198)
T KOG0393|consen    3 RRIKCVVVGDGAVGKTCLLISYTTNAFPEEYVPTVFDNY-SANVTVDDGKPVELGLWDTAGQE   64 (198)
T ss_pred             eeeEEEEECCCCcCceEEEEEeccCcCcccccCeEEccc-eEEEEecCCCEEEEeeeecCCCc
Confidence            468999999999999999999999999999999999777 56666624999999999999997

>PLN03071 GTP-binding nuclear protein Ran; Provisional

Probab=99.64  E-value=8.3e-16  Score=107.97  Aligned_cols=63  Identities=37%  Similarity=0.610  Sum_probs=57.3

Q ss_pred             ceeeEEEEEcCCCCCchhhhhhhhhCcCCCCccCCceeEeEEEEEEecCCeEEEEEEEeCCCCC
Q psy10878         68 EKLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQN  131 (131)
Q Consensus        68 ~~~~ki~vvG~~~vGKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gqe  131 (131)
                      ...+|++++|++|||||||+++|+.+.|...+.||++.++....+.. ++..+.++||||+|||
T Consensus        11 ~~~~Ki~vvG~~gvGKTsli~~~~~~~f~~~~~~tig~~~~~~~~~~-~~~~~~l~i~Dt~G~~   73 (219)
T PLN03071         11 YPSFKLVIVGDGGTGKTTFVKRHLTGEFEKKYEPTIGVEVHPLDFFT-NCGKIRFYCWDTAGQE   73 (219)
T ss_pred             CCceEEEEECcCCCCHHHHHHHHhhCCCCCccCCccceeEEEEEEEE-CCeEEEEEEEECCCch
Confidence            56789999999999999999999999999899999999888777776 6778999999999986

>cd04110 Rab35 Rab35 subfamily

Probab=99.64  E-value=9.7e-16  Score=105.98  Aligned_cols=62  Identities=47%  Similarity=0.920  Sum_probs=56.6

Q ss_pred             eeeEEEEEcCCCCCchhhhhhhhhCcCCCCccCCceeEeEEEEEEecCCeEEEEEEEeCCCCC
Q psy10878         69 KLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQN  131 (131)
Q Consensus        69 ~~~ki~vvG~~~vGKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gqe  131 (131)
                      ..+||+++|++|||||||+++|.++.|...+.||++.++....+.+ ++..+.+.||||+||+
T Consensus         5 ~~~kivvvG~~~vGKTsli~~l~~~~~~~~~~~t~~~~~~~~~~~~-~~~~~~l~l~D~~G~~   66 (199)
T cd04110           5 HLFKLLIIGDSGVGKSSLLLRFADNTFSGSYITTIGVDFKIRTVEI-NGERVKLQIWDTAGQE   66 (199)
T ss_pred             ceeEEEEECCCCCCHHHHHHHHhcCCCCCCcCccccceeEEEEEEE-CCEEEEEEEEeCCCch
Confidence            4689999999999999999999999998889999998888788877 7888999999999985

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

>cd04109 Rab28 Rab28 subfamily

Probab=99.64  E-value=7.8e-16  Score=107.67  Aligned_cols=61  Identities=46%  Similarity=0.843  Sum_probs=54.9

Q ss_pred             eEEEEEcCCCCCchhhhhhhhhCcCCCCccCCceeEeEEEEEEecCCeEEEEEEEeCCCCC
Q psy10878         71 FKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQN  131 (131)
Q Consensus        71 ~ki~vvG~~~vGKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gqe  131 (131)
                      +|++++|++|||||||+++|.++.|...|.||++.++..+.+.+.++..+.++||||+||+
T Consensus         1 ~Ki~ivG~~~vGKSsLi~~l~~~~~~~~~~~T~~~d~~~~~i~~~~~~~~~~~i~Dt~G~~   61 (215)
T cd04109           1 FKIVVLGDGAVGKTSLCRRFAKEGFGKSYKQTIGLDFFSKRVTLPGNLNVTLQVWDIGGQS   61 (215)
T ss_pred             CEEEEECcCCCCHHHHHHHHhcCCCCCCCCCceeEEEEEEEEEeCCCCEEEEEEEECCCcH
Confidence            5899999999999999999999999999999999999888888744467999999999985

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

>KOG0097|consensus

Probab=99.64  E-value=3.3e-16  Score=101.78  Aligned_cols=64  Identities=42%  Similarity=0.771  Sum_probs=60.2

Q ss_pred             CceeeEEEEEcCCCCCchhhhhhhhhCcCCCCccCCceeEeEEEEEEecCCeEEEEEEEeCCCCC
Q psy10878         67 PEKLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQN  131 (131)
Q Consensus        67 ~~~~~ki~vvG~~~vGKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gqe  131 (131)
                      ..+.+|.+++|+-|||||+|+++|....|......|+|++|..+.+++ .|..++++||||+|||
T Consensus         8 ysyifkyiiigdmgvgkscllhqftekkfmadcphtigvefgtriiev-sgqkiklqiwdtagqe   71 (215)
T KOG0097|consen    8 YSYIFKYIIIGDMGVGKSCLLHQFTEKKFMADCPHTIGVEFGTRIIEV-SGQKIKLQIWDTAGQE   71 (215)
T ss_pred             hhheEEEEEEccccccHHHHHHHHHHHHHhhcCCcccceecceeEEEe-cCcEEEEEEeecccHH
Confidence            557899999999999999999999999999888899999999999998 8999999999999997

>cd04127 Rab27A Rab27a subfamily

Probab=99.64  E-value=9.8e-16  Score=103.79  Aligned_cols=63  Identities=48%  Similarity=0.810  Sum_probs=55.2

Q ss_pred             eeeEEEEEcCCCCCchhhhhhhhhCcCCCCccCCceeEeEEEEEEecC---------CeEEEEEEEeCCCCC
Q psy10878         69 KLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRD---------QQKIKLQLWDIAGQN  131 (131)
Q Consensus        69 ~~~ki~vvG~~~vGKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~---------~~~~~l~i~Dt~Gqe  131 (131)
                      +.+|++++|++|||||||+++|.++.|...+.+|++.++....+.+..         +..+.++||||+|||
T Consensus         3 ~~~ki~ivG~~~vGKTsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~Dt~G~~   74 (180)
T cd04127           3 YLIKFLALGDSGVGKTSFLYQYTDNKFNPKFITTVGIDFREKRVVYNSSGPGGTLGRGQRIHLQLWDTAGQE   74 (180)
T ss_pred             ceEEEEEECCCCCCHHHHHHHHhcCCCCccCCCccceEEEEEEEEEcCccccccccCCCEEEEEEEeCCChH
Confidence            568999999999999999999999999999999999988777776522         457899999999985

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

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

Probab=99.64  E-value=1e-15  Score=101.40  Aligned_cols=59  Identities=32%  Similarity=0.553  Sum_probs=52.2

Q ss_pred             eEEEEEcCCCCCchhhhhhhhhCcCCCCccCCceeEeEEEEEEecCCeEEEEEEEeCCCCC
Q psy10878         71 FKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQN  131 (131)
Q Consensus        71 ~ki~vvG~~~vGKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gqe  131 (131)
                      +||+++|++|||||||+++|+++.|...+.||.+..+ .+.+.+ ++..+.+++|||+|+|
T Consensus         2 ~ki~iiG~~~vGKTsl~~~~~~~~~~~~~~~t~~~~~-~~~~~~-~~~~~~~~i~Dt~G~~   60 (162)
T cd04138           2 YKLVVVGAGGVGKSALTIQLIQNHFVDEYDPTIEDSY-RKQVVI-DGETCLLDILDTAGQE   60 (162)
T ss_pred             eEEEEECCCCCCHHHHHHHHHhCCCcCCcCCcchheE-EEEEEE-CCEEEEEEEEECCCCc
Confidence            6899999999999999999999999888889988666 566666 7888899999999986

H-Ras, N-Ras, and K-Ras4A/4B are the prototypical members of the Ras family. These isoforms generate distinct signal outputs despite interacting with a common set of activators and effectors, and are strongly associated with oncogenic progression in tumor initiation. Mutated versions of Ras that are insensitive to GAP stimulation (and are therefore constitutively active) are found in a significant fraction of human cancers. Many Ras guanine nucleotide exchange factors (GEFs) have been identified. They are sequestered in the cytosol until activation by growth factors triggers recruitment to the plasma membrane or Golgi, where the GEF colocalizes with Ras. Active (GTP-bound) Ras interacts with several effector proteins that stimulate a variety of diverse cytoplasmic signaling activities. Some are known to positively mediate the oncogenic properties of Ras, including Raf, phosphatidylinositol 3-kinase (PI3K), RalGEFs, and Tiam1.

>cd01869 Rab1_Ypt1 Rab1/Ypt1 subfamily

Probab=99.64  E-value=1.2e-15  Score=102.06  Aligned_cols=61  Identities=44%  Similarity=0.923  Sum_probs=55.7

Q ss_pred             eeEEEEEcCCCCCchhhhhhhhhCcCCCCccCCceeEeEEEEEEecCCeEEEEEEEeCCCCC
Q psy10878         70 LFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQN  131 (131)
Q Consensus        70 ~~ki~vvG~~~vGKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gqe  131 (131)
                      .+|++++|++|||||||++++.++.|...+.+|.+.++..+.+.+ ++..+.+++|||+|++
T Consensus         2 ~~ki~i~G~~~vGKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~-~~~~~~~~i~D~~G~~   62 (166)
T cd01869           2 LFKLLLIGDSGVGKSCLLLRFADDTYTESYISTIGVDFKIRTIEL-DGKTIKLQIWDTAGQE   62 (166)
T ss_pred             eEEEEEECCCCCCHHHHHHHHhcCCCCCCCCCccceeEEEEEEEE-CCEEEEEEEEECCCcH
Confidence            479999999999999999999999998888899998888888887 7888999999999985

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

>PTZ00369 Ras-like protein; Provisional

Probab=99.63  E-value=1.2e-15  Score=104.67  Aligned_cols=61  Identities=30%  Similarity=0.544  Sum_probs=54.4

Q ss_pred             eeeEEEEEcCCCCCchhhhhhhhhCcCCCCccCCceeEeEEEEEEecCCeEEEEEEEeCCCCC
Q psy10878         69 KLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQN  131 (131)
Q Consensus        69 ~~~ki~vvG~~~vGKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gqe  131 (131)
                      ..+|++++|++|||||||+++|..+.|...+.||++..+ .+.+.+ ++..+.++||||+|++
T Consensus         4 ~~~Ki~iiG~~~~GKTsLi~~~~~~~~~~~~~~t~~~~~-~~~~~~-~~~~~~l~i~Dt~G~~   64 (189)
T PTZ00369          4 TEYKLVVVGGGGVGKSALTIQFIQNHFIDEYDPTIEDSY-RKQCVI-DEETCLLDILDTAGQE   64 (189)
T ss_pred             cceEEEEECCCCCCHHHHHHHHhcCCCCcCcCCchhhEE-EEEEEE-CCEEEEEEEEeCCCCc
Confidence            468999999999999999999999999888999998777 566777 7888999999999986

>PLN03110 Rab GTPase; Provisional

Probab=99.63  E-value=1.9e-15  Score=105.93  Aligned_cols=64  Identities=39%  Similarity=0.773  Sum_probs=58.5

Q ss_pred             CceeeEEEEEcCCCCCchhhhhhhhhCcCCCCccCCceeEeEEEEEEecCCeEEEEEEEeCCCCC
Q psy10878         67 PEKLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQN  131 (131)
Q Consensus        67 ~~~~~ki~vvG~~~vGKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gqe  131 (131)
                      ..+.+|++++|++|||||||+++|.++.+...+.+|++.++..+.+.+ ++..+.++||||+||+
T Consensus         9 ~~~~~Ki~ivG~~~vGKStLi~~l~~~~~~~~~~~t~g~~~~~~~v~~-~~~~~~l~l~Dt~G~~   72 (216)
T PLN03110          9 YDYLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQV-EGKTVKAQIWDTAGQE   72 (216)
T ss_pred             cCceeEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeEEEEEEEEEE-CCEEEEEEEEECCCcH
Confidence            456789999999999999999999999998888899999998888888 8888999999999985

>cd04111 Rab39 Rab39 subfamily

Probab=99.63  E-value=1.1e-15  Score=106.83  Aligned_cols=62  Identities=47%  Similarity=0.813  Sum_probs=55.7

Q ss_pred             eeEEEEEcCCCCCchhhhhhhhhCcCCCCccCCceeEeEEEEEEecCCeEEEEEEEeCCCCC
Q psy10878         70 LFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQN  131 (131)
Q Consensus        70 ~~ki~vvG~~~vGKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gqe  131 (131)
                      .+||+++|++|||||||+++|.++.+...+.||++.++..+.+.+.++..+.+++|||+||+
T Consensus         2 ~~KIvvvG~~~vGKTsLi~~l~~~~~~~~~~~ti~~d~~~~~i~~~~~~~~~l~i~Dt~G~~   63 (211)
T cd04111           2 QFRLIVIGDSTVGKSSLLKRFTEGRFAEVSDPTVGVDFFSRLIEIEPGVRIKLQLWDTAGQE   63 (211)
T ss_pred             ceEEEEECCCCCCHHHHHHHHHcCCCCCCCCceeceEEEEEEEEECCCCEEEEEEEeCCcch
Confidence            58999999999999999999999999888889999998888887645778999999999985

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

>cd04175 Rap1 Rap1 subgroup

Probab=99.63  E-value=1.1e-15  Score=102.03  Aligned_cols=60  Identities=32%  Similarity=0.552  Sum_probs=52.9

Q ss_pred             eeEEEEEcCCCCCchhhhhhhhhCcCCCCccCCceeEeEEEEEEecCCeEEEEEEEeCCCCC
Q psy10878         70 LFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQN  131 (131)
Q Consensus        70 ~~ki~vvG~~~vGKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gqe  131 (131)
                      ++||+++|++|||||||+++|+.+.+...+.||++..+ .+.+.+ ++..+.++||||+||+
T Consensus         1 ~~ki~~~G~~~~GKTsli~~~~~~~~~~~~~~t~~~~~-~~~~~~-~~~~~~l~i~Dt~G~~   60 (164)
T cd04175           1 EYKLVVLGSGGVGKSALTVQFVQGIFVEKYDPTIEDSY-RKQVEV-DGQQCMLEILDTAGTE   60 (164)
T ss_pred             CcEEEEECCCCCCHHHHHHHHHhCCCCcccCCcchheE-EEEEEE-CCEEEEEEEEECCCcc
Confidence            36999999999999999999999999888889998766 466777 7888999999999985

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

>cd04124 RabL2 RabL2 subfamily

Probab=99.63  E-value=1.6e-15  Score=101.45  Aligned_cols=60  Identities=28%  Similarity=0.617  Sum_probs=53.1

Q ss_pred             eEEEEEcCCCCCchhhhhhhhhCcCCCCccCCceeEeEEEEEEecCCeEEEEEEEeCCCCC
Q psy10878         71 FKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQN  131 (131)
Q Consensus        71 ~ki~vvG~~~vGKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gqe  131 (131)
                      +||+++|++|||||||+++|+.+.|...+.++.+.++....+.+ ++..+.+++|||+|||
T Consensus         1 ~ki~vvG~~~vGKTsli~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~i~Dt~G~~   60 (161)
T cd04124           1 VKIILLGDSAVGKSKLVERFLMDGYEPQQLSTYALTLYKHNAKF-EGKTILVDFWDTAGQE   60 (161)
T ss_pred             CEEEEECCCCCCHHHHHHHHHhCCCCCCcCCceeeEEEEEEEEE-CCEEEEEEEEeCCCch
Confidence            48999999999999999999999998888888887776666776 7888999999999986

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

>cd01864 Rab19 Rab19 subfamily

Probab=99.63  E-value=1.4e-15  Score=101.77  Aligned_cols=62  Identities=48%  Similarity=0.870  Sum_probs=55.9

Q ss_pred             eeeEEEEEcCCCCCchhhhhhhhhCcCCCCccCCceeEeEEEEEEecCCeEEEEEEEeCCCCC
Q psy10878         69 KLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQN  131 (131)
Q Consensus        69 ~~~ki~vvG~~~vGKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gqe  131 (131)
                      +.+|++++|++|+|||||++++..+.+...+.+|.+.++..+.+.+ ++..+.++||||+||+
T Consensus         2 ~~~kv~vvG~~~~GKTsli~~l~~~~~~~~~~~t~~~~~~~~~~~~-~~~~~~l~i~D~~G~~   63 (165)
T cd01864           2 FLFKIILIGDSNVGKTCVVQRFKSGTFSERQGNTIGVDFTMKTLEI-EGKRVKLQIWDTAGQE   63 (165)
T ss_pred             ceeEEEEECCCCCCHHHHHHHHhhCCCcccCCCccceEEEEEEEEE-CCEEEEEEEEECCChH
Confidence            4689999999999999999999999998888899998888888887 7888899999999985

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.

>cd04141 Rit_Rin_Ric Rit/Rin/Ric subfamily

Probab=99.63  E-value=1.3e-15  Score=103.20  Aligned_cols=60  Identities=22%  Similarity=0.442  Sum_probs=53.1

Q ss_pred             eeEEEEEcCCCCCchhhhhhhhhCcCCCCccCCceeEeEEEEEEecCCeEEEEEEEeCCCCC
Q psy10878         70 LFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQN  131 (131)
Q Consensus        70 ~~ki~vvG~~~vGKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gqe  131 (131)
                      .+||+++|++|||||||+++|..+.|...+.||++..+ .+.+.+ ++..+.++||||+||+
T Consensus         2 ~~ki~vvG~~~vGKTsL~~~~~~~~f~~~~~~t~~~~~-~~~~~~-~~~~~~l~i~Dt~G~~   61 (172)
T cd04141           2 EYKIVMLGAGGVGKSAVTMQFISHSFPDYHDPTIEDAY-KQQARI-DNEPALLDILDTAGQA   61 (172)
T ss_pred             ceEEEEECCCCCcHHHHHHHHHhCCCCCCcCCcccceE-EEEEEE-CCEEEEEEEEeCCCch
Confidence            47999999999999999999999999888999998766 455666 8888999999999985

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

>PLN00023 GTP-binding protein; Provisional

Probab=99.63  E-value=1.8e-15  Score=111.13  Aligned_cols=68  Identities=28%  Similarity=0.573  Sum_probs=58.7

Q ss_pred             CCCCceeeEEEEEcCCCCCchhhhhhhhhCcCCCCccCCceeEeEEEEEEecC------------CeEEEEEEEeCCCCC
Q psy10878         64 NAPPEKLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRD------------QQKIKLQLWDIAGQN  131 (131)
Q Consensus        64 ~~~~~~~~ki~vvG~~~vGKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~------------~~~~~l~i~Dt~Gqe  131 (131)
                      ...+...+||+++|+.+||||||+++|+++.|...+.+|+|.++..+.+.+.+            ++.+.++||||+|||
T Consensus        15 ~~~~~~~iKIVLLGdsGVGKTSLI~rf~~g~F~~~~~pTIG~d~~ik~I~~~~~~~~~~~ik~d~~k~v~LqIWDTAGqE   94 (334)
T PLN00023         15 GGPPCGQVRVLVVGDSGVGKSSLVHLIVKGSSIARPPQTIGCTVGVKHITYGSPGSSSNSIKGDSERDFFVELWDVSGHE   94 (334)
T ss_pred             cCCCccceEEEEECCCCCcHHHHHHHHhcCCcccccCCceeeeEEEEEEEECCcccccccccccCCceEEEEEEECCCCh
Confidence            34466789999999999999999999999999988999999998878777621            357899999999996

>cd01868 Rab11_like Rab11-like

Probab=99.63  E-value=1.7e-15  Score=101.25  Aligned_cols=62  Identities=45%  Similarity=0.856  Sum_probs=56.1

Q ss_pred             eeeEEEEEcCCCCCchhhhhhhhhCcCCCCccCCceeEeEEEEEEecCCeEEEEEEEeCCCCC
Q psy10878         69 KLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQN  131 (131)
Q Consensus        69 ~~~ki~vvG~~~vGKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gqe  131 (131)
                      +.+|++++|+++||||||++++.++.+...+.||.+.++....+.. ++..+.+++|||+||+
T Consensus         2 ~~~ki~vvG~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~-~~~~~~~~l~D~~g~~   63 (165)
T cd01868           2 YLFKIVLIGDSGVGKSNLLSRFTRNEFNLDSKSTIGVEFATRSIQI-DGKTIKAQIWDTAGQE   63 (165)
T ss_pred             CceEEEEECCCCCCHHHHHHHHhcCCCCCCCCCccceEEEEEEEEE-CCEEEEEEEEeCCChH
Confidence            3579999999999999999999999998888899999888888887 7888999999999985

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

>cd04118 Rab24 Rab24 subfamily

Probab=99.63  E-value=1.6e-15  Score=103.95  Aligned_cols=60  Identities=38%  Similarity=0.737  Sum_probs=54.2

Q ss_pred             eEEEEEcCCCCCchhhhhhhhhCcCCC-CccCCceeEeEEEEEEecCCeEEEEEEEeCCCCC
Q psy10878         71 FKVIVIGDPTVGKTSFVQRYVQNTFKK-DYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQN  131 (131)
Q Consensus        71 ~ki~vvG~~~vGKSsli~~~~~~~~~~-~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gqe  131 (131)
                      +||+++|++|||||||+++|+++.|.. .|.+|++.++..+.+.+ ++..+.+++|||+|++
T Consensus         1 ~ki~vvG~~~vGKSsLi~~~~~~~~~~~~~~~t~~~~~~~~~~~~-~~~~~~l~i~D~~G~~   61 (193)
T cd04118           1 VKVVMLGKESVGKTSLVERYVHHRFLVGPYQNTIGAAFVAKRMVV-GERVVTLGIWDTAGSE   61 (193)
T ss_pred             CEEEEECCCCCCHHHHHHHHHhCCcCCcCcccceeeEEEEEEEEE-CCEEEEEEEEECCCch
Confidence            489999999999999999999999874 68899998887778887 8889999999999985

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

>cd04115 Rab33B_Rab33A Rab33B/Rab33A subfamily

Probab=99.62  E-value=1.7e-15  Score=102.01  Aligned_cols=61  Identities=48%  Similarity=0.853  Sum_probs=56.0

Q ss_pred             eeEEEEEcCCCCCchhhhhhhhhCcCCCCccCCceeEeEEEEEEecCCeEEEEEEEeCCCCC
Q psy10878         70 LFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQN  131 (131)
Q Consensus        70 ~~ki~vvG~~~vGKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gqe  131 (131)
                      .+||+++|++|||||||+++|+.+.+...+.++++.++..+.+.+ ++..+.++||||+||+
T Consensus         2 ~~ki~vvG~~~vGKTsli~~~~~~~~~~~~~~t~~~~~~~~~~~~-~~~~~~~~i~Dt~G~~   62 (170)
T cd04115           2 IFKIIVIGDSNVGKTCLTYRFCAGRFPERTEATIGVDFRERTVEI-DGERIKVQLWDTAGQE   62 (170)
T ss_pred             ceEEEEECCCCCCHHHHHHHHHhCCCCCccccceeEEEEEEEEEE-CCeEEEEEEEeCCChH
Confidence            479999999999999999999999998888999999988888888 8888999999999985

Rab33B is ubiquitously expressed in mouse tissues and cells, where it is localized to the medial Golgi cisternae. It colocalizes with alpha-mannose II. Together with the other cisternal Rabs, Rab6A and Rab6A', it is believed to regulate the Golgi response to stress and is likely a molecular target in stress-activated signaling pathways. Rab33A (previously known as S10) is expressed primarily in the brain and immune system cells. In humans, it is located on the X chromosome at Xq26 and its expression is down-regulated in tuberculosis patients. Experimental evidence suggests that Rab33A is a novel CD8+ T cell factor that likely plays a role in tuberculosis disease processes. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine

>cd01871 Rac1_like Rac1-like subfamily

Probab=99.62  E-value=1.7e-15  Score=102.76  Aligned_cols=59  Identities=39%  Similarity=0.630  Sum_probs=52.4

Q ss_pred             eEEEEEcCCCCCchhhhhhhhhCcCCCCccCCceeEeEEEEEEecCCeEEEEEEEeCCCCC
Q psy10878         71 FKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQN  131 (131)
Q Consensus        71 ~ki~vvG~~~vGKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gqe  131 (131)
                      +|++++|++|||||||+.+|+.+.|..+|.||++..+ ...+.+ ++..+.++||||+||+
T Consensus         2 ~ki~iiG~~~vGKSsli~~~~~~~f~~~~~~t~~~~~-~~~~~~-~~~~~~l~i~Dt~G~~   60 (174)
T cd01871           2 IKCVVVGDGAVGKTCLLISYTTNAFPGEYIPTVFDNY-SANVMV-DGKPVNLGLWDTAGQE   60 (174)
T ss_pred             eEEEEECCCCCCHHHHHHHHhcCCCCCcCCCcceeee-EEEEEE-CCEEEEEEEEECCCch
Confidence            6899999999999999999999999989999987555 456666 8888999999999985

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

>cd04106 Rab23_lke Rab23-like subfamily

Probab=99.62  E-value=1.5e-15  Score=101.03  Aligned_cols=60  Identities=50%  Similarity=0.887  Sum_probs=53.9

Q ss_pred             eEEEEEcCCCCCchhhhhhhhhCcCCCCccCCceeEeEEEEEEecC--CeEEEEEEEeCCCCC
Q psy10878         71 FKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRD--QQKIKLQLWDIAGQN  131 (131)
Q Consensus        71 ~ki~vvG~~~vGKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~--~~~~~l~i~Dt~Gqe  131 (131)
                      +||+++|++++|||||++++.++.|...+.||++.++....+.+ +  +..+.++||||+|||
T Consensus         1 ~kv~~vG~~~~GKTsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~-~~~~~~~~~~i~D~~G~~   62 (162)
T cd04106           1 IKVIVVGNGNVGKSSMIQRFVKGIFTKDYKKTIGVDFLEKQIFL-RQSDEDVRLMLWDTAGQE   62 (162)
T ss_pred             CEEEEECCCCCCHHHHHHHHhcCCCCCCCCCcEEEEEEEEEEEE-cCCCCEEEEEEeeCCchH
Confidence            48999999999999999999999998888999999987777776 5  678999999999985

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

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

Probab=99.62  E-value=2e-15  Score=101.52  Aligned_cols=60  Identities=38%  Similarity=0.726  Sum_probs=54.3

Q ss_pred             eEEEEEcCCCCCchhhhhhhhhCcCCCCccCCceeEeEEEEEEecCCeEEEEEEEeCCCCC
Q psy10878         71 FKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQN  131 (131)
Q Consensus        71 ~ki~vvG~~~vGKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gqe  131 (131)
                      +|++++|++|||||||+++++.+.+...+.||++.++....+.. ++..+.+++|||+|||
T Consensus         1 ~ki~vvG~~~vGKTsli~~~~~~~~~~~~~~t~~~~~~~~~~~~-~~~~~~l~i~Dt~G~~   60 (166)
T cd00877           1 FKLVLVGDGGTGKTTFVKRHLTGEFEKKYVATLGVEVHPLDFHT-NRGKIRFNVWDTAGQE   60 (166)
T ss_pred             CEEEEECCCCCCHHHHHHHHHhCCCCCCCCCceeeEEEEEEEEE-CCEEEEEEEEECCCCh
Confidence            58999999999999999999999988889999998887777776 7788999999999986

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

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

Probab=99.62  E-value=1.7e-15  Score=100.83  Aligned_cols=59  Identities=39%  Similarity=0.760  Sum_probs=55.8

Q ss_pred             EEEEEcCCCCCchhhhhhhhhCcCCCCccCCceeEeEEEEEEecCCeEEEEEEEeCCCCC
Q psy10878         72 KVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQN  131 (131)
Q Consensus        72 ki~vvG~~~vGKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gqe  131 (131)
                      ||+++|+++||||||+++|.++.|...+.+|++.++..+.+.+ ++..+.++|||++|++
T Consensus         1 Ki~vvG~~~vGKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~-~~~~~~l~i~D~~g~~   59 (162)
T PF00071_consen    1 KIVVVGDSGVGKTSLINRLINGEFPENYIPTIGIDSYSKEVSI-DGKPVNLEIWDTSGQE   59 (162)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHSSTTSSSETTSSEEEEEEEEEE-TTEEEEEEEEEETTSG
T ss_pred             CEEEECCCCCCHHHHHHHHHhhccccccccccccccccccccc-cccccccccccccccc
Confidence            7999999999999999999999999999999999998899988 8999999999999985

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 ....

>cd04176 Rap2 Rap2 subgroup

Probab=99.62  E-value=1.8e-15  Score=100.90  Aligned_cols=60  Identities=33%  Similarity=0.569  Sum_probs=52.4

Q ss_pred             eeEEEEEcCCCCCchhhhhhhhhCcCCCCccCCceeEeEEEEEEecCCeEEEEEEEeCCCCC
Q psy10878         70 LFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQN  131 (131)
Q Consensus        70 ~~ki~vvG~~~vGKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gqe  131 (131)
                      .+||+++|++|||||||+++|+.+.+...+.||++ ++....+.+ ++..+.++||||+|+|
T Consensus         1 ~~ki~i~G~~~vGKTsl~~~~~~~~~~~~~~~t~~-~~~~~~~~~-~~~~~~l~i~Dt~G~~   60 (163)
T cd04176           1 EYKVVVLGSGGVGKSALTVQFVSGTFIEKYDPTIE-DFYRKEIEV-DSSPSVLEILDTAGTE   60 (163)
T ss_pred             CeEEEEECCCCCCHHHHHHHHHcCCCCCCCCCchh-heEEEEEEE-CCEEEEEEEEECCCcc
Confidence            36999999999999999999999999888888876 444567777 8888999999999985

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

>cd04125 RabA_like RabA-like subfamily

Probab=99.62  E-value=2.2e-15  Score=103.05  Aligned_cols=60  Identities=47%  Similarity=0.870  Sum_probs=54.8

Q ss_pred             eEEEEEcCCCCCchhhhhhhhhCcCCCCccCCceeEeEEEEEEecCCeEEEEEEEeCCCCC
Q psy10878         71 FKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQN  131 (131)
Q Consensus        71 ~ki~vvG~~~vGKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gqe  131 (131)
                      +||+++|+++||||||+++|.++.|...|.+|++.++..+.+.+ ++..+.+++|||+|++
T Consensus         1 ~ki~v~G~~~vGKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~-~~~~~~~~i~Dt~g~~   60 (188)
T cd04125           1 FKVVIIGDYGVGKSSLLKRFTEDEFSESTKSTIGVDFKIKTVYI-ENKIIKLQIWDTNGQE   60 (188)
T ss_pred             CEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeeEEEEEEEEE-CCEEEEEEEEECCCcH
Confidence            48999999999999999999999998888999999888788877 7888999999999985

RabA was first identified in D. discoideum, where its expression levels were compared to other Rabs in growing and developing cells. The RabA mRNA levels were below the level of detection by Northern blot analysis, suggesting a very low level of expression. The function of RabA remains unknown. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of most Rab proteins.

>cd04113 Rab4 Rab4 subfamily

Probab=99.61  E-value=3e-15  Score=99.64  Aligned_cols=60  Identities=45%  Similarity=0.896  Sum_probs=54.5

Q ss_pred             eEEEEEcCCCCCchhhhhhhhhCcCCCCccCCceeEeEEEEEEecCCeEEEEEEEeCCCCC
Q psy10878         71 FKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQN  131 (131)
Q Consensus        71 ~ki~vvG~~~vGKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gqe  131 (131)
                      +|++++|+++||||||++++.++.+...+.++.+.++....+.+ ++..+.+++|||+||+
T Consensus         1 ~ki~v~G~~~vGKTsli~~l~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~l~l~D~~G~~   60 (161)
T cd04113           1 FKFIIIGSSGTGKSCLLHRFVENKFKEDSQHTIGVEFGSKIIRV-GGKRVKLQIWDTAGQE   60 (161)
T ss_pred             CEEEEECCCCCCHHHHHHHHHhCCCCCCCCCceeeeEEEEEEEE-CCEEEEEEEEECcchH
Confidence            58999999999999999999999998888899998888787877 7888999999999984

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

>cd01866 Rab2 Rab2 subfamily

Probab=99.61  E-value=3.9e-15  Score=100.10  Aligned_cols=62  Identities=40%  Similarity=0.763  Sum_probs=55.8

Q ss_pred             eeeEEEEEcCCCCCchhhhhhhhhCcCCCCccCCceeEeEEEEEEecCCeEEEEEEEeCCCCC
Q psy10878         69 KLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQN  131 (131)
Q Consensus        69 ~~~ki~vvG~~~vGKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gqe  131 (131)
                      ..+||+++|.+|||||||++++.++++...+.++.+.++....+.+ ++..+.+.||||+|++
T Consensus         3 ~~~ki~vvG~~~vGKSsLl~~l~~~~~~~~~~~t~~~~~~~~~~~~-~~~~~~~~i~Dt~G~~   64 (168)
T cd01866           3 YLFKYIIIGDTGVGKSCLLLQFTDKRFQPVHDLTIGVEFGARMITI-DGKQIKLQIWDTAGQE   64 (168)
T ss_pred             cceEEEEECCCCCCHHHHHHHHHcCCCCCCCCCccceeEEEEEEEE-CCEEEEEEEEECCCcH
Confidence            4589999999999999999999999998888899998888788877 7888899999999975

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

>cd04142 RRP22 RRP22 subfamily

Probab=99.60  E-value=2.4e-15  Score=104.17  Aligned_cols=59  Identities=25%  Similarity=0.443  Sum_probs=52.8

Q ss_pred             eEEEEEcCCCCCchhhhhhhhhCcCCCCccCCceeEeEEEEEEecCCeEEEEEEEeCCCC
Q psy10878         71 FKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQ  130 (131)
Q Consensus        71 ~ki~vvG~~~vGKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gq  130 (131)
                      +||+++|++|||||||+++|+++.|...+.||++.++....+.+ +|..+.++||||+|+
T Consensus         1 ~kI~ivG~~~vGKTsLi~~~~~~~f~~~~~pt~~~~~~~~~i~~-~~~~~~l~i~Dt~G~   59 (198)
T cd04142           1 VRVAVLGAPGVGKTAIVRQFLAQEFPEEYIPTEHRRLYRPAVVL-SGRVYDLHILDVPNM   59 (198)
T ss_pred             CEEEEECCCCCcHHHHHHHHHcCCCCcccCCccccccceeEEEE-CCEEEEEEEEeCCCc
Confidence            58999999999999999999999998889999987776667777 888899999999985

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.

>PRK12289 GTPase RsgA; Reviewed

Probab=99.60  E-value=1.1e-15  Score=114.00  Aligned_cols=71  Identities=21%  Similarity=0.297  Sum_probs=54.7

Q ss_pred             CCCcEEeeccCCCcccccccc---c---cc-CCCCccccccCCcccccccccccccccCCCcccCCCCCCceeeEEEEEc
Q psy10878          5 AKKPILLPSASEDPSIDNWDK---A---SW-ENVTPIVSEQGDGEIIEIIDPSLKLVRVPSIRKSFNAPPEKLFKVIVIG   77 (131)
Q Consensus         5 ~~kp~vlv~NK~Dl~~~~~~~---~---~~-~~~~~is~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ki~vvG   77 (131)
                      .++|+++|+||+||.......   .   .+ ..++++|+.++.| +.++++.+...                  .++|+|
T Consensus       119 ~~ip~ILVlNK~DLv~~~~~~~~~~~~~~~g~~v~~iSA~tg~G-I~eL~~~L~~k------------------i~v~iG  179 (352)
T PRK12289        119 TGLEIVLCLNKADLVSPTEQQQWQDRLQQWGYQPLFISVETGIG-LEALLEQLRNK------------------ITVVAG  179 (352)
T ss_pred             CCCCEEEEEEchhcCChHHHHHHHHHHHhcCCeEEEEEcCCCCC-HHHHhhhhccc------------------eEEEEe
Confidence            589999999999997543211   1   12 4588999999999 88877655432                  279999


Q ss_pred             CCCCCchhhhhhhhhCc
Q psy10878         78 DPTVGKTSFVQRYVQNT   94 (131)
Q Consensus        78 ~~~vGKSsli~~~~~~~   94 (131)
                      .+|||||||+|+++...
T Consensus       180 ~SgVGKSSLIN~L~~~~  196 (352)
T PRK12289        180 PSGVGKSSLINRLIPDV  196 (352)
T ss_pred             CCCCCHHHHHHHHcCcc
Confidence            99999999999999643

>cd01861 Rab6 Rab6 subfamily

Probab=99.60  E-value=4.3e-15  Score=98.69  Aligned_cols=60  Identities=42%  Similarity=0.870  Sum_probs=54.6

Q ss_pred             eEEEEEcCCCCCchhhhhhhhhCcCCCCccCCceeEeEEEEEEecCCeEEEEEEEeCCCCC
Q psy10878         71 FKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQN  131 (131)
Q Consensus        71 ~ki~vvG~~~vGKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gqe  131 (131)
                      +|++++|+++||||||++++.+.++...+.++.+.++....+.+ ++..+.+++|||+|++
T Consensus         1 ~ki~liG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~l~~~D~~G~~   60 (161)
T cd01861           1 HKLVFLGDQSVGKTSIITRFMYDTFDNQYQATIGIDFLSKTMYL-EDKTVRLQLWDTAGQE   60 (161)
T ss_pred             CEEEEECCCCCCHHHHHHHHHcCCCCccCCCceeeeEEEEEEEE-CCEEEEEEEEECCCcH
Confidence            48999999999999999999999998888899999998888887 7778899999999975

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

>cd01860 Rab5_related Rab5-related subfamily

Probab=99.59  E-value=5.1e-15  Score=98.51  Aligned_cols=61  Identities=39%  Similarity=0.825  Sum_probs=55.2

Q ss_pred             eeEEEEEcCCCCCchhhhhhhhhCcCCCCccCCceeEeEEEEEEecCCeEEEEEEEeCCCCC
Q psy10878         70 LFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQN  131 (131)
Q Consensus        70 ~~ki~vvG~~~vGKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gqe  131 (131)
                      ++|++++|++++|||||+++++++.+...+.++.+.++....+.+ ++..+.+.+|||+|++
T Consensus         1 ~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~v~~-~~~~~~~~i~D~~G~~   61 (163)
T cd01860           1 QFKLVLLGDSSVGKSSLVLRFVKNEFSENQESTIGAAFLTQTVNL-DDTTVKFEIWDTAGQE   61 (163)
T ss_pred             CeEEEEECCCCCCHHHHHHHHHcCCCCCCCCCccceeEEEEEEEE-CCEEEEEEEEeCCchH
Confidence            379999999999999999999999988778899998888888888 8888999999999985

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

>cd04134 Rho3 Rho3 subfamily

Probab=99.59  E-value=5.1e-15  Score=101.57  Aligned_cols=58  Identities=38%  Similarity=0.621  Sum_probs=51.8

Q ss_pred             EEEEEcCCCCCchhhhhhhhhCcCCCCccCCceeEeEEEEEEecCCeEEEEEEEeCCCCC
Q psy10878         72 KVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQN  131 (131)
Q Consensus        72 ki~vvG~~~vGKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gqe  131 (131)
                      |++++|++|||||||+++|.++.|...+.||++..+. ..+.+ ++..+.++||||+|||
T Consensus         2 kivivG~~~vGKTsli~~~~~~~~~~~~~~t~~~~~~-~~i~~-~~~~~~l~i~Dt~G~~   59 (189)
T cd04134           2 KVVVLGDGACGKTSLLNVFTRGYFPQVYEPTVFENYV-HDIFV-DGLHIELSLWDTAGQE   59 (189)
T ss_pred             EEEEECCCCCCHHHHHHHHhcCCCCCccCCcceeeeE-EEEEE-CCEEEEEEEEECCCCh
Confidence            7999999999999999999999999889999988774 55566 7888999999999986

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.

>cd04143 Rhes_like Rhes_like subfamily

Probab=99.59  E-value=3.5e-15  Score=106.61  Aligned_cols=59  Identities=29%  Similarity=0.629  Sum_probs=52.7

Q ss_pred             eEEEEEcCCCCCchhhhhhhhhCcCCCCccCCceeEeEEEEEEecCCeEEEEEEEeCCCCC
Q psy10878         71 FKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQN  131 (131)
Q Consensus        71 ~ki~vvG~~~vGKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gqe  131 (131)
                      +||+++|++|||||||+++|+++.|...|.||++ ++..+.+.+ ++..+.++||||+|++
T Consensus         1 ~KVvvlG~~gvGKTSLi~r~~~~~f~~~y~pTi~-d~~~k~~~i-~~~~~~l~I~Dt~G~~   59 (247)
T cd04143           1 YRMVVLGASKVGKTAIVSRFLGGRFEEQYTPTIE-DFHRKLYSI-RGEVYQLDILDTSGNH   59 (247)
T ss_pred             CEEEEECcCCCCHHHHHHHHHcCCCCCCCCCChh-HhEEEEEEE-CCEEEEEEEEECCCCh
Confidence            4899999999999999999999999888889987 555677777 8888999999999985

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

>cd04101 RabL4 RabL4 (Rab-like4) subfamily

Probab=99.59  E-value=5.3e-15  Score=98.61  Aligned_cols=61  Identities=43%  Similarity=0.719  Sum_probs=53.0

Q ss_pred             eEEEEEcCCCCCchhhhhhhhhC--cCCCCccCCceeEeEEEEEEecCCeEEEEEEEeCCCCC
Q psy10878         71 FKVIVIGDPTVGKTSFVQRYVQN--TFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQN  131 (131)
Q Consensus        71 ~ki~vvG~~~vGKSsli~~~~~~--~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gqe  131 (131)
                      +||+++|+++||||||++++..+  .|..++.+|++.++..+.+.+.++..+.+.+|||+|++
T Consensus         1 ~ki~vvG~~~~GKtsl~~~l~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~G~~   63 (164)
T cd04101           1 LRCAVVGDPAVGKTAFVQMFHSNGAVFPKNYLMTTGCDFVVKEVPVDTDNTVELFIFDSAGQE   63 (164)
T ss_pred             CEEEEECCCCCCHHHHHHHHhcCCCCcCccCCCceEEEEEEEEEEeCCCCEEEEEEEECCCHH
Confidence            48999999999999999999854  68888999999998777777644678999999999975

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.

>KOG0081|consensus

Probab=99.59  E-value=1.3e-16  Score=105.37  Aligned_cols=65  Identities=45%  Similarity=0.775  Sum_probs=57.9

Q ss_pred             CceeeEEEEEcCCCCCchhhhhhhhhCcCCCCccCCceeEeEEEEEEec--------CCeEEEEEEEeCCCCC
Q psy10878         67 PEKLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWR--------DQQKIKLQLWDIAGQN  131 (131)
Q Consensus        67 ~~~~~ki~vvG~~~vGKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~--------~~~~~~l~i~Dt~Gqe  131 (131)
                      ..+.+|++.+|++||||||++++|..++|..+...|+|++|..+.+.+.        .+..+.|++|||||||
T Consensus         6 ydylikfLaLGDSGVGKTs~Ly~YTD~~F~~qFIsTVGIDFreKrvvY~s~gp~g~gr~~rihLQlWDTAGQE   78 (219)
T KOG0081|consen    6 YDYLIKFLALGDSGVGKTSFLYQYTDGKFNTQFISTVGIDFREKRVVYNSSGPGGGGRGQRIHLQLWDTAGQE   78 (219)
T ss_pred             HHHHHHHHhhccCCCCceEEEEEecCCcccceeEEEeecccccceEEEeccCCCCCCcceEEEEeeeccccHH
Confidence            4567899999999999999999999999999999999999999888763        2356899999999997

>cd04132 Rho4_like Rho4-like subfamily

Probab=99.59  E-value=5.1e-15  Score=100.96  Aligned_cols=60  Identities=35%  Similarity=0.589  Sum_probs=51.7

Q ss_pred             eEEEEEcCCCCCchhhhhhhhhCcCCCCccCCceeEeEEEEEEecCCeEEEEEEEeCCCCC
Q psy10878         71 FKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQN  131 (131)
Q Consensus        71 ~ki~vvG~~~vGKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gqe  131 (131)
                      +||+++|++|||||||+++|.++.|...+.||++.++. ..+...++..+.++||||+|||
T Consensus         1 ~ki~vvG~~~vGKTsli~~l~~~~~~~~~~~t~~~~~~-~~i~~~~~~~~~l~i~Dt~G~~   60 (187)
T cd04132           1 KKIVVVGDGGCGKTCLLIVYSQGKFPEEYVPTVFENYV-TNIQGPNGKIIELALWDTAGQE   60 (187)
T ss_pred             CeEEEECCCCCCHHHHHHHHHhCcCCCCCCCeeeeeeE-EEEEecCCcEEEEEEEECCCch
Confidence            48999999999999999999999999899999988874 3455524778999999999985

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.

>cd04112 Rab26 Rab26 subfamily

Probab=99.59  E-value=5.1e-15  Score=101.66  Aligned_cols=60  Identities=47%  Similarity=0.844  Sum_probs=53.0

Q ss_pred             eEEEEEcCCCCCchhhhhhhhhCcCC-CCccCCceeEeEEEEEEecCCeEEEEEEEeCCCCC
Q psy10878         71 FKVIVIGDPTVGKTSFVQRYVQNTFK-KDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQN  131 (131)
Q Consensus        71 ~ki~vvG~~~vGKSsli~~~~~~~~~-~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gqe  131 (131)
                      +||+++|++|||||||+++|.++.+. ..+.+|++.++..+.+.+ ++..+.++||||+||+
T Consensus         1 ~Ki~vvG~~~vGKTSli~~~~~~~~~~~~~~~t~~~~~~~~~~~~-~~~~~~~~i~Dt~G~~   61 (191)
T cd04112           1 FKVMLLGDSGVGKTCLLVRFKDGAFLNGNFIATVGIDFRNKVVTV-DGVKVKLQIWDTAGQE   61 (191)
T ss_pred             CEEEEECCCCCCHHHHHHHHhcCCCCccCcCCcccceeEEEEEEE-CCEEEEEEEEeCCCcH
Confidence            58999999999999999999998885 367889998887777777 8888999999999985

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.

>PLN03108 Rab family protein; Provisional

Probab=99.58  E-value=8.2e-15  Score=102.23  Aligned_cols=62  Identities=40%  Similarity=0.761  Sum_probs=56.4

Q ss_pred             eeeEEEEEcCCCCCchhhhhhhhhCcCCCCccCCceeEeEEEEEEecCCeEEEEEEEeCCCCC
Q psy10878         69 KLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQN  131 (131)
Q Consensus        69 ~~~ki~vvG~~~vGKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gqe  131 (131)
                      +.+||+++|+++||||||+++|..++|...+.+|++.++....+.+ ++..+.+++|||+|++
T Consensus         5 ~~~kivivG~~gvGKStLi~~l~~~~~~~~~~~ti~~~~~~~~i~~-~~~~i~l~l~Dt~G~~   66 (210)
T PLN03108          5 YLFKYIIIGDTGVGKSCLLLQFTDKRFQPVHDLTIGVEFGARMITI-DNKPIKLQIWDTAGQE   66 (210)
T ss_pred             cceEEEEECCCCCCHHHHHHHHHhCCCCCCCCCCccceEEEEEEEE-CCEEEEEEEEeCCCcH
Confidence            4689999999999999999999999998888899999988778887 8888999999999985

>cd04140 ARHI_like ARHI subfamily

Probab=99.58  E-value=9e-15  Score=97.97  Aligned_cols=59  Identities=31%  Similarity=0.599  Sum_probs=51.4

Q ss_pred             eEEEEEcCCCCCchhhhhhhhhCcCCCCccCCceeEeEEEEEEecCCeEEEEEEEeCCCCC
Q psy10878         71 FKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQN  131 (131)
Q Consensus        71 ~ki~vvG~~~vGKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gqe  131 (131)
                      +||+++|++|||||||+++|+++.|...+.||.+..+ .+.+.. ++..+.+++|||+||+
T Consensus         2 ~kv~~vG~~~vGKTsli~~~~~~~f~~~~~~t~~~~~-~~~~~~-~~~~~~l~i~Dt~G~~   60 (165)
T cd04140           2 YRVVVFGAGGVGKSSLVLRFVKGTFRESYIPTIEDTY-RQVISC-SKNICTLQITDTTGSH   60 (165)
T ss_pred             eEEEEECCCCCCHHHHHHHHHhCCCCCCcCCcchheE-EEEEEE-CCEEEEEEEEECCCCC
Confidence            6899999999999999999999999888889888666 455555 6778999999999986

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

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

Probab=99.57  E-value=1.1e-14  Score=96.94  Aligned_cols=60  Identities=32%  Similarity=0.540  Sum_probs=52.2

Q ss_pred             eeEEEEEcCCCCCchhhhhhhhhCcCCCCccCCceeEeEEEEEEecCCeEEEEEEEeCCCCC
Q psy10878         70 LFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQN  131 (131)
Q Consensus        70 ~~ki~vvG~~~vGKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gqe  131 (131)
                      .+|++++|++|+|||||+++|+++.+...+.+|++..+ .+...+ ++..+.+++|||||++
T Consensus         2 ~~ki~i~G~~~~GKtsl~~~~~~~~~~~~~~~t~~~~~-~~~~~~-~~~~~~~~i~Dt~G~~   61 (164)
T cd04145           2 TYKLVVVGGGGVGKSALTIQFIQSYFVTDYDPTIEDSY-TKQCEI-DGQWAILDILDTAGQE   61 (164)
T ss_pred             ceEEEEECCCCCcHHHHHHHHHhCCCCcccCCCccceE-EEEEEE-CCEEEEEEEEECCCCc
Confidence            47999999999999999999999988888888888655 455666 8888999999999985

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

>smart00173 RAS Ras subfamily of RAS small GTPases

Probab=99.57  E-value=7.6e-15  Score=97.87  Aligned_cols=59  Identities=32%  Similarity=0.583  Sum_probs=51.1

Q ss_pred             eEEEEEcCCCCCchhhhhhhhhCcCCCCccCCceeEeEEEEEEecCCeEEEEEEEeCCCCC
Q psy10878         71 FKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQN  131 (131)
Q Consensus        71 ~ki~vvG~~~vGKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gqe  131 (131)
                      +||+++|++|||||||++++.++.+...+.+|++..+ .+.+.+ ++..+.+++|||+||+
T Consensus         1 ~ki~v~G~~~~GKTsli~~~~~~~~~~~~~~t~~~~~-~~~~~~-~~~~~~l~i~Dt~g~~   59 (164)
T smart00173        1 YKLVVLGSGGVGKSALTIQFVQGHFVDDYDPTIEDSY-RKQIEI-DGEVCLLDILDTAGQE   59 (164)
T ss_pred             CEEEEECCCCCCHHHHHHHHHhCcCCcccCCchhhhE-EEEEEE-CCEEEEEEEEECCCcc
Confidence            4899999999999999999999999888888887555 455666 7788999999999986

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

>cd04144 Ras2 Ras2 subfamily

Probab=99.57  E-value=5.3e-15  Score=101.50  Aligned_cols=58  Identities=36%  Similarity=0.512  Sum_probs=50.6

Q ss_pred             EEEEEcCCCCCchhhhhhhhhCcCCCCccCCceeEeEEEEEEecCCeEEEEEEEeCCCCC
Q psy10878         72 KVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQN  131 (131)
Q Consensus        72 ki~vvG~~~vGKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gqe  131 (131)
                      |++++|++|||||||+++|+.+.|...+.||++..+ .+.+.+ ++..+.++||||+|++
T Consensus         1 ki~ivG~~~vGKTsli~~l~~~~f~~~~~~t~~~~~-~~~~~~-~~~~~~l~i~Dt~G~~   58 (190)
T cd04144           1 KLVVLGDGGVGKTALTIQLCLNHFVETYDPTIEDSY-RKQVVV-DGQPCMLEVLDTAGQE   58 (190)
T ss_pred             CEEEECCCCCCHHHHHHHHHhCCCCccCCCchHhhE-EEEEEE-CCEEEEEEEEECCCch
Confidence            589999999999999999999999888889988666 345566 7888999999999985

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.

>cd04178 Nucleostemin_like Nucleostemin-like

Probab=99.57  E-value=3.8e-15  Score=101.16  Aligned_cols=56  Identities=30%  Similarity=0.450  Sum_probs=39.1

Q ss_pred             ceeeEEEEEcCCCCCchhhhhhhhhCcC-CCCccCCceeEeEEEEEEecCCeEEEEEEEeCCC
Q psy10878         68 EKLFKVIVIGDPTVGKTSFVQRYVQNTF-KKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAG  129 (131)
Q Consensus        68 ~~~~ki~vvG~~~vGKSsli~~~~~~~~-~~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~G  129 (131)
                      ...++++++|.||||||||+|++.+... ...  +..|.......+.+ +.   .+.++||||
T Consensus       115 ~~~~~~~~vG~pnvGKSslin~l~~~~~~~~~--~~pg~T~~~~~~~~-~~---~~~l~DtPG  171 (172)
T cd04178         115 KTSITVGVVGFPNVGKSSLINSLKRSRACNVG--ATPGVTKSMQEVHL-DK---KVKLLDSPG  171 (172)
T ss_pred             ccCcEEEEEcCCCCCHHHHHHHHhCcccceec--CCCCeEcceEEEEe-CC---CEEEEECcC
Confidence            3457899999999999999999996544 323  33343343444444 33   378999999

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

>TIGR00157 ribosome small subunit-dependent GTPase A

Probab=99.57  E-value=2e-15  Score=107.73  Aligned_cols=72  Identities=18%  Similarity=0.171  Sum_probs=54.7

Q ss_pred             cCCCcEEeeccCCCcccccccc----ccc----CCCCccccccCCcccccccccccccccCCCcccCCCCCCceeeEEEE
Q psy10878          4 KAKKPILLPSASEDPSIDNWDK----ASW----ENVTPIVSEQGDGEIIEIIDPSLKLVRVPSIRKSFNAPPEKLFKVIV   75 (131)
Q Consensus         4 ~~~kp~vlv~NK~Dl~~~~~~~----~~~----~~~~~is~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ki~v   75 (131)
                      ..+.|+++|+||+||.+.....    ..|    ..++.+|++++.| +.++++.+.+.                  .+++
T Consensus        65 ~~~i~~vIV~NK~DL~~~~~~~~~~~~~~~~~g~~v~~~SAktg~g-i~eLf~~l~~~------------------~~~~  125 (245)
T TIGR00157        65 AQNIEPIIVLNKIDLLDDEDMEKEQLDIYRNIGYQVLMTSSKNQDG-LKELIEALQNR------------------ISVF  125 (245)
T ss_pred             HCCCCEEEEEECcccCCCHHHHHHHHHHHHHCCCeEEEEecCCchh-HHHHHhhhcCC------------------EEEE
Confidence            3578999999999996432111    122    4578899999999 88876654432                  4899


Q ss_pred             EcCCCCCchhhhhhhhhCc
Q psy10878         76 IGDPTVGKTSFVQRYVQNT   94 (131)
Q Consensus        76 vG~~~vGKSsli~~~~~~~   94 (131)
                      +|.+|||||||+|++++..
T Consensus       126 ~G~sgvGKStLiN~L~~~~  144 (245)
T TIGR00157       126 AGQSGVGKSSLINALDPSV  144 (245)
T ss_pred             ECCCCCCHHHHHHHHhhhh
Confidence            9999999999999999653

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

>PLN03118 Rab family protein; Provisional

Probab=99.57  E-value=2.2e-14  Score=99.95  Aligned_cols=63  Identities=37%  Similarity=0.735  Sum_probs=55.2

Q ss_pred             CceeeEEEEEcCCCCCchhhhhhhhhCcCCCCccCCceeEeEEEEEEecCCeEEEEEEEeCCCCC
Q psy10878         67 PEKLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQN  131 (131)
Q Consensus        67 ~~~~~ki~vvG~~~vGKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gqe  131 (131)
                      ....+||+++|++|||||||+++|+++.+. .+.|+.+.++....+.+ ++..+.+.||||+||+
T Consensus        11 ~~~~~kv~ivG~~~vGKTsli~~l~~~~~~-~~~~t~~~~~~~~~~~~-~~~~~~l~l~Dt~G~~   73 (211)
T PLN03118         11 YDLSFKILLIGDSGVGKSSLLVSFISSSVE-DLAPTIGVDFKIKQLTV-GGKRLKLTIWDTAGQE   73 (211)
T ss_pred             cCcceEEEEECcCCCCHHHHHHHHHhCCCC-CcCCCceeEEEEEEEEE-CCEEEEEEEEECCCch
Confidence            446789999999999999999999988774 67899998887777877 7778999999999985

>cd01870 RhoA_like RhoA-like subfamily

Probab=99.57  E-value=1.1e-14  Score=98.14  Aligned_cols=59  Identities=31%  Similarity=0.588  Sum_probs=52.0

Q ss_pred             eEEEEEcCCCCCchhhhhhhhhCcCCCCccCCceeEeEEEEEEecCCeEEEEEEEeCCCCC
Q psy10878         71 FKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQN  131 (131)
Q Consensus        71 ~ki~vvG~~~vGKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gqe  131 (131)
                      .|++++|+++||||||+++|.++.|...|.||++..+. ..+.+ ++..+.+.+|||+|||
T Consensus         2 ~ki~iiG~~~~GKTsl~~~~~~~~~~~~~~~t~~~~~~-~~~~~-~~~~~~l~i~Dt~G~~   60 (175)
T cd01870           2 KKLVIVGDGACGKTCLLIVFSKDQFPEVYVPTVFENYV-ADIEV-DGKQVELALWDTAGQE   60 (175)
T ss_pred             cEEEEECCCCCCHHHHHHHHhcCCCCCCCCCccccceE-EEEEE-CCEEEEEEEEeCCCch
Confidence            48999999999999999999999998889999887663 45666 7888999999999985

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

>cd01862 Rab7 Rab7 subfamily

Probab=99.56  E-value=1.3e-14  Score=97.30  Aligned_cols=60  Identities=48%  Similarity=0.874  Sum_probs=54.1

Q ss_pred             eEEEEEcCCCCCchhhhhhhhhCcCCCCccCCceeEeEEEEEEecCCeEEEEEEEeCCCCC
Q psy10878         71 FKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQN  131 (131)
Q Consensus        71 ~ki~vvG~~~vGKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gqe  131 (131)
                      +||+++|.+|||||||++++.+..+...+.++++.++..+.+.+ ++..+.+++|||+|++
T Consensus         1 ~ki~viG~~~~GKSsl~~~l~~~~~~~~~~~t~~~~~~~~~~~~-~~~~~~~~~~D~~g~~   60 (172)
T cd01862           1 LKVIILGDSGVGKTSLMNQYVNKKFSNQYKATIGADFLTKEVTV-DDKLVTLQIWDTAGQE   60 (172)
T ss_pred             CEEEEECCCCCCHHHHHHHHhcCCCCcCcCCccceEEEEEEEEE-CCEEEEEEEEeCCChH
Confidence            48999999999999999999999888888899998888788877 7788999999999974

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-

>cd04103 Centaurin_gamma Centaurin gamma

Probab=99.56  E-value=1.5e-14  Score=96.75  Aligned_cols=58  Identities=28%  Similarity=0.386  Sum_probs=49.4

Q ss_pred             eEEEEEcCCCCCchhhhhhhhhCcCCCCccCCceeEeEEEEEEecCCeEEEEEEEeCCCCC
Q psy10878         71 FKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQN  131 (131)
Q Consensus        71 ~ki~vvG~~~vGKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gqe  131 (131)
                      +|++++|++|||||||+.+|+.+.|...+.|+ +..+ .+.+.+ +|..+.+++|||+||+
T Consensus         1 ~ki~vvG~~gvGKTsli~~~~~~~f~~~~~~~-~~~~-~~~i~~-~~~~~~l~i~D~~g~~   58 (158)
T cd04103           1 LKLGIVGNLQSGKSALVHRYLTGSYVQLESPE-GGRF-KKEVLV-DGQSHLLLIRDEGGAP   58 (158)
T ss_pred             CEEEEECCCCCcHHHHHHHHHhCCCCCCCCCC-ccce-EEEEEE-CCEEEEEEEEECCCCC
Confidence            48999999999999999999999998776555 4455 466777 8888999999999985

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.

>KOG0083|consensus

Probab=99.56  E-value=1.2e-15  Score=98.26  Aligned_cols=57  Identities=40%  Similarity=0.826  Sum_probs=51.9

Q ss_pred             EEEcCCCCCchhhhhhhhhCcCC-CCccCCceeEeEEEEEEecCCeEEEEEEEeCCCCC
Q psy10878         74 IVIGDPTVGKTSFVQRYVQNTFK-KDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQN  131 (131)
Q Consensus        74 ~vvG~~~vGKSsli~~~~~~~~~-~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gqe  131 (131)
                      +++|++++|||+|+-||-.+.|. ....+|+|++|..+.+.. +++.+++++|||+|||
T Consensus         1 mllgds~~gktcllir~kdgafl~~~fistvgid~rnkli~~-~~~kvklqiwdtagqe   58 (192)
T KOG0083|consen    1 MLLGDSCTGKTCLLIRFKDGAFLAGNFISTVGIDFRNKLIDM-DDKKVKLQIWDTAGQE   58 (192)
T ss_pred             CccccCccCceEEEEEeccCceecCceeeeeeeccccceecc-CCcEEEEEEeeccchH
Confidence            47899999999999999988884 467799999999999988 9999999999999997

>cd04177 RSR1 RSR1 subgroup

Probab=99.56  E-value=1.6e-14  Score=96.99  Aligned_cols=59  Identities=32%  Similarity=0.609  Sum_probs=52.3

Q ss_pred             eEEEEEcCCCCCchhhhhhhhhCcCCCCccCCceeEeEEEEEEecCCeEEEEEEEeCCCCC
Q psy10878         71 FKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQN  131 (131)
Q Consensus        71 ~ki~vvG~~~vGKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gqe  131 (131)
                      +|++++|.+|+|||||+++|.++.+...+.||++..+ .+.+.+ ++..+.+++|||+|++
T Consensus         2 ~ki~liG~~~~GKTsli~~~~~~~~~~~~~~t~~~~~-~~~~~~-~~~~~~~~i~Dt~G~~   60 (168)
T cd04177           2 YKIVVLGAGGVGKSALTVQFVQNVFIESYDPTIEDSY-RKQVEI-DGRQCDLEILDTAGTE   60 (168)
T ss_pred             eEEEEECCCCCCHHHHHHHHHhCCCCcccCCcchheE-EEEEEE-CCEEEEEEEEeCCCcc
Confidence            6899999999999999999999999888889988665 566777 7888999999999985

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

>cd04130 Wrch_1 Wrch-1 subfamily

Probab=99.56  E-value=1.9e-14  Score=97.18  Aligned_cols=59  Identities=36%  Similarity=0.522  Sum_probs=51.0

Q ss_pred             eEEEEEcCCCCCchhhhhhhhhCcCCCCccCCceeEeEEEEEEecCCeEEEEEEEeCCCCC
Q psy10878         71 FKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQN  131 (131)
Q Consensus        71 ~ki~vvG~~~vGKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gqe  131 (131)
                      +|++++|++|+|||||+++|.++.|...|.||... +....+.+ ++..+.+++|||+||+
T Consensus         1 ~k~~i~G~~~~GKtsl~~~~~~~~~~~~~~~t~~~-~~~~~~~~-~~~~~~~~i~Dt~G~~   59 (173)
T cd04130           1 LKCVLVGDGAVGKTSLIVSYTTNGYPTEYVPTAFD-NFSVVVLV-DGKPVRLQLCDTAGQD   59 (173)
T ss_pred             CEEEEECCCCCCHHHHHHHHHhCCCCCCCCCceee-eeeEEEEE-CCEEEEEEEEECCCCh
Confidence            58999999999999999999999999889888754 44556776 7888999999999985

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,

>cd04148 RGK RGK subfamily

Probab=99.55  E-value=1.6e-14  Score=101.63  Aligned_cols=60  Identities=23%  Similarity=0.436  Sum_probs=52.6

Q ss_pred             eEEEEEcCCCCCchhhhhhhhhCcCC-CCccCCceeEeEEEEEEecCCeEEEEEEEeCCCCC
Q psy10878         71 FKVIVIGDPTVGKTSFVQRYVQNTFK-KDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQN  131 (131)
Q Consensus        71 ~ki~vvG~~~vGKSsli~~~~~~~~~-~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gqe  131 (131)
                      +||+++|++|||||||+++|..+.+. ..+.++.+.++..+.+.+ ++..+.+++|||+||+
T Consensus         1 ~KI~lvG~~gvGKTsLi~~~~~~~~~~~~~~~t~~~~~~~~~i~~-~~~~~~l~i~Dt~G~~   61 (221)
T cd04148           1 YRVVMLGSPGVGKSSLASQFTSGEYDDHAYDASGDDDTYERTVSV-DGEESTLVVIDHWEQE   61 (221)
T ss_pred             CEEEEECCCCCcHHHHHHHHhcCCcCccCcCCCccccceEEEEEE-CCEEEEEEEEeCCCcc
Confidence            58999999999999999999988886 677788776777788887 7888999999999986

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

>smart00175 RAB Rab subfamily of small GTPases

Probab=99.55  E-value=2.3e-14  Score=95.27  Aligned_cols=60  Identities=48%  Similarity=0.949  Sum_probs=54.2

Q ss_pred             eEEEEEcCCCCCchhhhhhhhhCcCCCCccCCceeEeEEEEEEecCCeEEEEEEEeCCCCC
Q psy10878         71 FKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQN  131 (131)
Q Consensus        71 ~ki~vvG~~~vGKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gqe  131 (131)
                      +|++++|.+++|||||++++.+..+...+.++++.++....+.+ ++..+.+++|||+|++
T Consensus         1 ~kv~v~G~~~~GKTtli~~l~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~l~D~~G~~   60 (164)
T smart00175        1 FKIILIGDSGVGKSSLLSRFTDGKFSEQYKSTIGVDFKTKTIEV-DGKRVKLQIWDTAGQE   60 (164)
T ss_pred             CEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeeEEEEEEEEE-CCEEEEEEEEECCChH
Confidence            58999999999999999999998888888899998888888887 7888899999999974

Rab GTPases are implicated in vesicle trafficking.

>cd01863 Rab18 Rab18 subfamily

Probab=99.55  E-value=2.3e-14  Score=95.30  Aligned_cols=60  Identities=45%  Similarity=0.869  Sum_probs=53.7

Q ss_pred             eEEEEEcCCCCCchhhhhhhhhCcCCCCccCCceeEeEEEEEEecCCeEEEEEEEeCCCCC
Q psy10878         71 FKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQN  131 (131)
Q Consensus        71 ~ki~vvG~~~vGKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gqe  131 (131)
                      +|++++|.+|+|||||++++.+..+...+.|+.+.++....+.+ ++..+.+++|||+|++
T Consensus         1 ~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~l~D~~g~~   60 (161)
T cd01863           1 LKILLIGDSGVGKSSLLLRFTDDTFDPDLAATIGVDFKVKTLTV-DGKKVKLAIWDTAGQE   60 (161)
T ss_pred             CEEEEECCCCCCHHHHHHHHHcCCCCcccCCcccceEEEEEEEE-CCEEEEEEEEECCCch
Confidence            58999999999999999999998887778899998887777777 7788999999999985

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

>PTZ00132 GTP-binding nuclear protein Ran; Provisional

Probab=99.54  E-value=3e-14  Score=99.53  Aligned_cols=64  Identities=38%  Similarity=0.586  Sum_probs=57.2

Q ss_pred             CceeeEEEEEcCCCCCchhhhhhhhhCcCCCCccCCceeEeEEEEEEecCCeEEEEEEEeCCCCC
Q psy10878         67 PEKLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQN  131 (131)
Q Consensus        67 ~~~~~ki~vvG~~~vGKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gqe  131 (131)
                      ....+|++++|++|||||||+++++.+.+...|.||++.++....+.. ++..+.+++|||+||+
T Consensus         6 ~~~~~kv~liG~~g~GKTtLi~~~~~~~~~~~~~~t~~~~~~~~~~~~-~~~~i~i~~~Dt~g~~   69 (215)
T PTZ00132          6 EVPEFKLILVGDGGVGKTTFVKRHLTGEFEKKYIPTLGVEVHPLKFYT-NCGPICFNVWDTAGQE   69 (215)
T ss_pred             CCCCceEEEECCCCCCHHHHHHHHHhCCCCCCCCCccceEEEEEEEEE-CCeEEEEEEEECCCch
Confidence            445689999999999999999999999998899999999988777776 7788999999999985

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

Probab=99.54  E-value=2.1e-14  Score=96.70  Aligned_cols=57  Identities=40%  Similarity=0.683  Sum_probs=50.2

Q ss_pred             EEEEcCCCCCchhhhhhhhhCcCCCCccCCceeEeEEEEEEecCCeEEEEEEEeCCCCC
Q psy10878         73 VIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQN  131 (131)
Q Consensus        73 i~vvG~~~vGKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gqe  131 (131)
                      |+++|++|||||||+++|.++.|...+.|+++..+ ...+.+ ++..+.+++|||+||+
T Consensus         1 i~i~G~~~vGKTsli~~~~~~~~~~~~~~~~~~~~-~~~~~~-~~~~~~~~i~Dt~G~~   57 (174)
T smart00174        1 LVVVGDGAVGKTCLLISYTTNAFPEDYVPTVFENY-SADVEV-DGKPVELGLWDTAGQE   57 (174)
T ss_pred             CEEECCCCCCHHHHHHHHHhCCCCCCCCCcEEeee-eEEEEE-CCEEEEEEEEECCCCc
Confidence            58999999999999999999999888889988766 456666 7888999999999986

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

>cd04135 Tc10 TC10 subfamily

Probab=99.54  E-value=2.8e-14  Score=96.06  Aligned_cols=59  Identities=34%  Similarity=0.545  Sum_probs=51.0

Q ss_pred             eEEEEEcCCCCCchhhhhhhhhCcCCCCccCCceeEeEEEEEEecCCeEEEEEEEeCCCCC
Q psy10878         71 FKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQN  131 (131)
Q Consensus        71 ~ki~vvG~~~vGKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gqe  131 (131)
                      +||+++|.+|+|||||+++|..+.|...+.||++..+ ...+.+ ++..+.+++|||+|++
T Consensus         1 ~ki~i~G~~~~GKTsl~~~~~~~~~~~~~~~t~~~~~-~~~~~~-~~~~~~~~i~Dt~G~~   59 (174)
T cd04135           1 LKCVVVGDGAVGKTCLLMSYANDAFPEEYVPTVFDHY-AVSVTV-GGKQYLLGLYDTAGQE   59 (174)
T ss_pred             CEEEEECCCCCCHHHHHHHHHhCCCCCCCCCceeeee-EEEEEE-CCEEEEEEEEeCCCcc
Confidence            5899999999999999999999999888888887555 446666 7888999999999985

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

>COG1161 Predicted GTPases [General function prediction only]

Probab=99.53  E-value=6.5e-15  Score=108.80  Aligned_cols=118  Identities=22%  Similarity=0.294  Sum_probs=76.9

Q ss_pred             CCCcEEeeccCCCccccccccccc------C---CCCccccccCCcccccccccccccccCCCcccCCCCCCceeeEEEE
Q psy10878          5 AKKPILLPSASEDPSIDNWDKASW------E---NVTPIVSEQGDGEIIEIIDPSLKLVRVPSIRKSFNAPPEKLFKVIV   75 (131)
Q Consensus         5 ~~kp~vlv~NK~Dl~~~~~~~~~~------~---~~~~is~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ki~v   75 (131)
                      .++|.++|+||+|+.+... ..+|      .   .++.+++..+.+ ...+...+....................+++++
T Consensus        60 ~~k~~i~vlNK~DL~~~~~-~~~W~~~~~~~~~~~~~~v~~~~~~~-~~~i~~~~~~~~~~~i~~~~~~~~~~~~~~v~v  137 (322)
T COG1161          60 KEKPKLLVLNKADLAPKEV-TKKWKKYFKKEEGIKPIFVSAKSRQG-GKKIRKALEKLSEEKIKRLKKKGLLKRKIRVGV  137 (322)
T ss_pred             ccCCcEEEEehhhcCCHHH-HHHHHHHHHhcCCCccEEEEeecccC-ccchHHHHHHHHHHHHHHHhhcCCCccceEEEE
Confidence            3678899999999987653 3333      2   367888888888 776664332221000000000122344578999


Q ss_pred             EcCCCCCchhhhhhhhhCcCCCCccCCceeEeEEEEEEecCCeEEEEEEEeCCC
Q psy10878         76 IGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAG  129 (131)
Q Consensus        76 vG~~~vGKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~G  129 (131)
                      +|.||||||||||++++.... ...+..|.+-..+.+.+.++    +.|+||||
T Consensus       138 vG~PNVGKSslIN~L~~k~~~-~~s~~PG~Tk~~q~i~~~~~----i~LlDtPG  186 (322)
T COG1161         138 VGYPNVGKSTLINRLLGKKVA-KTSNRPGTTKGIQWIKLDDG----IYLLDTPG  186 (322)
T ss_pred             EcCCCCcHHHHHHHHhcccce-eeCCCCceecceEEEEcCCC----eEEecCCC
Confidence            999999999999999976552 33444566666667766333    78999999

>cd01873 RhoBTB RhoBTB subfamily

Probab=99.53  E-value=2.7e-14  Score=98.70  Aligned_cols=61  Identities=30%  Similarity=0.379  Sum_probs=46.1

Q ss_pred             eeEEEEEcCCCCCchhhhh-hhhhC-----cCCCCccCCcee-EeEEEE--------EEecCCeEEEEEEEeCCCCC
Q psy10878         70 LFKVIVIGDPTVGKTSFVQ-RYVQN-----TFKKDYKGTVGV-DFALKI--------VKWRDQQKIKLQLWDIAGQN  131 (131)
Q Consensus        70 ~~ki~vvG~~~vGKSsli~-~~~~~-----~~~~~~~~t~~~-~~~~~~--------~~~~~~~~~~l~i~Dt~Gqe  131 (131)
                      .+||+++|+++||||||+. ++.++     .|...|.||++. +.....        +.+ +|..+.++||||||||
T Consensus         2 ~~Kiv~vG~~~vGKTsLi~~~~~~~~~~~~~f~~~~~pTi~~~~~~~~~~~~~~~~~~~~-~~~~v~l~iwDTaG~~   77 (195)
T cd01873           2 TIKCVVVGDNAVGKTRLICARACNKTLTQYQLLATHVPTVWAIDQYRVCQEVLERSRDVV-DGVSVSLRLWDTFGDH   77 (195)
T ss_pred             ceEEEEECCCCcCHHHHHHHHHhCCCcccccCccccCCceecccceeEEeeeccccceee-CCEEEEEEEEeCCCCh
Confidence            4799999999999999996 55543     355678899962 322222        144 8889999999999985

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.

>PRK12288 GTPase RsgA; Reviewed

Probab=99.52  E-value=6.6e-15  Score=109.67  Aligned_cols=72  Identities=19%  Similarity=0.200  Sum_probs=55.1

Q ss_pred             cCCCcEEeeccCCCcccccc--cc----ccc----CCCCccccccCCcccccccccccccccCCCcccCCCCCCceeeEE
Q psy10878          4 KAKKPILLPSASEDPSIDNW--DK----ASW----ENVTPIVSEQGDGEIIEIIDPSLKLVRVPSIRKSFNAPPEKLFKV   73 (131)
Q Consensus         4 ~~~kp~vlv~NK~Dl~~~~~--~~----~~~----~~~~~is~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ki   73 (131)
                      ..++|+++|+||+|+.+...  ..    ..+    ..++++|+.++.| +.++++.+....                  +
T Consensus       148 ~~~i~~VIVlNK~DL~~~~~~~~~~~~~~~y~~~g~~v~~vSA~tg~G-ideL~~~L~~ki------------------~  208 (347)
T PRK12288        148 TLGIEPLIVLNKIDLLDDEGRAFVNEQLDIYRNIGYRVLMVSSHTGEG-LEELEAALTGRI------------------S  208 (347)
T ss_pred             hcCCCEEEEEECccCCCcHHHHHHHHHHHHHHhCCCeEEEEeCCCCcC-HHHHHHHHhhCC------------------E
Confidence            35789999999999965331  11    111    4678999999999 988876654332                  7


Q ss_pred             EEEcCCCCCchhhhhhhhhCc
Q psy10878         74 IVIGDPTVGKTSFVQRYVQNT   94 (131)
Q Consensus        74 ~vvG~~~vGKSsli~~~~~~~   94 (131)
                      +++|.+|||||||+|++++..
T Consensus       209 ~~vG~sgVGKSTLiN~Ll~~~  229 (347)
T PRK12288        209 IFVGQSGVGKSSLINALLPEA  229 (347)
T ss_pred             EEECCCCCCHHHHHHHhcccc
Confidence            899999999999999999653

>KOG0088|consensus

Probab=99.52  E-value=4.5e-15  Score=98.05  Aligned_cols=66  Identities=36%  Similarity=0.597  Sum_probs=60.3

Q ss_pred             CCCceeeEEEEEcCCCCCchhhhhhhhhCcCCCCccCCceeEeEEEEEEecCCeEEEEEEEeCCCCC
Q psy10878         65 APPEKLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQN  131 (131)
Q Consensus        65 ~~~~~~~ki~vvG~~~vGKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gqe  131 (131)
                      ..+...||++++|+..||||||+-||+.++|.....+|+...|..+.+.+ ++....|.||||||||
T Consensus         8 ~g~s~~FK~VLLGEGCVGKtSLVLRy~EnkFn~kHlsTlQASF~~kk~n~-ed~ra~L~IWDTAGQE   73 (218)
T KOG0088|consen    8 DGKSFKFKIVLLGEGCVGKTSLVLRYVENKFNCKHLSTLQASFQNKKVNV-EDCRADLHIWDTAGQE   73 (218)
T ss_pred             cCCceeeEEEEEcCCccchhHHHHHHHHhhcchhhHHHHHHHHhhccccc-ccceeeeeeeeccchH
Confidence            34678899999999999999999999999999888889888898999887 7789999999999997

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

Probab=99.52  E-value=3.1e-14  Score=98.85  Aligned_cols=55  Identities=36%  Similarity=0.709  Sum_probs=50.8

Q ss_pred             EcCCCCCchhhhhhhhhCcCCCCccCCceeEeEEEEEEecCCeEEEEEEEeCCCCC
Q psy10878         76 IGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQN  131 (131)
Q Consensus        76 vG~~~vGKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gqe  131 (131)
                      +|+++||||||+++|+.+.|...|.||++.++..+.+.+ ++..+.++||||+|||
T Consensus         1 vG~~~vGKTsLi~r~~~~~f~~~~~~Tig~~~~~~~~~~-~~~~~~l~iwDt~G~e   55 (200)
T smart00176        1 VGDGGTGKTTFVKRHLTGEFEKKYVATLGVEVHPLVFHT-NRGPIRFNVWDTAGQE   55 (200)
T ss_pred             CCCCCCCHHHHHHHHhcCCCCCCCCCceeEEEEEEEEEE-CCEEEEEEEEECCCch
Confidence            699999999999999999998889999999998888887 8889999999999986

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

>cd04146 RERG_RasL11_like RERG/RasL11-like subfamily

Probab=99.51  E-value=2.9e-14  Score=95.40  Aligned_cols=58  Identities=29%  Similarity=0.568  Sum_probs=50.1

Q ss_pred             EEEEEcCCCCCchhhhhhhhhCcCCCCccCCceeEeEEEEEEecCCeEEEEEEEeCCCCC
Q psy10878         72 KVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQN  131 (131)
Q Consensus        72 ki~vvG~~~vGKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gqe  131 (131)
                      ||+++|++|||||||+++++.+.|...|.++.+..+ ...+.+ ++..+.+++|||+|++
T Consensus         1 ki~vvG~~~~GKtsli~~~~~~~~~~~~~~t~~~~~-~~~~~~-~~~~~~~~i~D~~g~~   58 (165)
T cd04146           1 KIAVLGASGVGKSALVVRFLTKRFIGEYDPNLESLY-SRQVTI-DGEQVSLEILDTAGQQ   58 (165)
T ss_pred             CEEEECCCCCcHHHHHHHHHhCccccccCCChHHhc-eEEEEE-CCEEEEEEEEECCCCc
Confidence            589999999999999999999989888888886555 455666 8888999999999985

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

>PRK13796 GTPase YqeH; Provisional

Probab=99.51  E-value=1.8e-14  Score=108.18  Aligned_cols=105  Identities=22%  Similarity=0.317  Sum_probs=70.6

Q ss_pred             CCCcEEeeccCCCcccccc---ccccc------------CCCCccccccCCcccccccccccccccCCCcccCCCCCCce
Q psy10878          5 AKKPILLPSASEDPSIDNW---DKASW------------ENVTPIVSEQGDGEIIEIIDPSLKLVRVPSIRKSFNAPPEK   69 (131)
Q Consensus         5 ~~kp~vlv~NK~Dl~~~~~---~~~~~------------~~~~~is~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   69 (131)
                      .++|+++|+||+|+.....   ...+|            .+++++||..+.| +.++++.+.+..  .            
T Consensus        95 ~~kpviLViNK~DLl~~~~~~~~i~~~l~~~~k~~g~~~~~v~~vSAk~g~g-I~eL~~~I~~~~--~------------  159 (365)
T PRK13796         95 GNNPVLLVGNKADLLPKSVKKNKVKNWLRQEAKELGLRPVDVVLISAQKGHG-IDELLEAIEKYR--E------------  159 (365)
T ss_pred             CCCCEEEEEEchhhCCCccCHHHHHHHHHHHHHhcCCCcCcEEEEECCCCCC-HHHHHHHHHHhc--C------------
Confidence            3789999999999964321   11112            2678999999999 999988876653  1            


Q ss_pred             eeEEEEEcCCCCCchhhhhhhhhCcC------CCCccCCceeEeEEEEEEecCCeEEEEEEEeCCCC
Q psy10878         70 LFKVIVIGDPTVGKTSFVQRYVQNTF------KKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQ  130 (131)
Q Consensus        70 ~~ki~vvG~~~vGKSsli~~~~~~~~------~~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gq  130 (131)
                      ..+++++|.+|||||||+|+++....      ..+..|.+.  .....+.+.++    ..++||||-
T Consensus       160 ~~~v~vvG~~NvGKSTLiN~L~~~~~~~~~~~~~s~~pGTT--~~~~~~~l~~~----~~l~DTPGi  220 (365)
T PRK13796        160 GRDVYVVGVTNVGKSTLINRIIKEITGEKDVITTSRFPGTT--LDKIEIPLDDG----SFLYDTPGI  220 (365)
T ss_pred             CCeEEEEcCCCCcHHHHHHHHHhhccCccceEEecCCCCcc--ceeEEEEcCCC----cEEEECCCc
Confidence            13699999999999999999985321      112223332  22334444233    369999994

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

Probab=99.51  E-value=4.4e-14  Score=98.45  Aligned_cols=61  Identities=43%  Similarity=0.683  Sum_probs=54.1

Q ss_pred             eeEEEEEcCCCCCchhhhhhhhhCcCCCCccCCceeEeEEEEEEecCCeEEEEEEEeCCCCC
Q psy10878         70 LFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQN  131 (131)
Q Consensus        70 ~~ki~vvG~~~vGKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gqe  131 (131)
                      .+|++++|++|||||||+++|..+.+...+.+|++..+....... .+..+++.+|||+||+
T Consensus         5 ~~kivv~G~~g~GKTtl~~~l~~~~~~~~~~~t~~~~~~~~~~~~-~~~~~~~~~~Dt~gq~   65 (219)
T COG1100           5 EFKIVVLGDGGVGKTTLLNRLVGDEFPEGYPPTIGNLDPAKTIEP-YRRNIKLQLWDTAGQE   65 (219)
T ss_pred             eEEEEEEcCCCccHHHHHHHHhcCcCcccCCCceeeeeEEEEEEe-CCCEEEEEeecCCCHH
Confidence            389999999999999999999999999999999998887776655 5557899999999985

>TIGR03597 GTPase_YqeH ribosome biogenesis GTPase YqeH

Probab=99.50  E-value=4e-14  Score=106.07  Aligned_cols=104  Identities=23%  Similarity=0.348  Sum_probs=70.1

Q ss_pred             CCcEEeeccCCCcccccc---ccccc------------CCCCccccccCCcccccccccccccccCCCcccCCCCCCcee
Q psy10878          6 KKPILLPSASEDPSIDNW---DKASW------------ENVTPIVSEQGDGEIIEIIDPSLKLVRVPSIRKSFNAPPEKL   70 (131)
Q Consensus         6 ~kp~vlv~NK~Dl~~~~~---~~~~~------------~~~~~is~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   70 (131)
                      ++|+++|+||+|+.....   ....|            .+++++||+.+.| +.++++.+.++..              .
T Consensus        90 ~~piilV~NK~DLl~k~~~~~~~~~~l~~~~k~~g~~~~~i~~vSAk~g~g-v~eL~~~l~~~~~--------------~  154 (360)
T TIGR03597        90 GNPVLLVGNKIDLLPKSVNLSKIKEWMKKRAKELGLKPVDIILVSAKKGNG-IDELLDKIKKARN--------------K  154 (360)
T ss_pred             CCCEEEEEEchhhCCCCCCHHHHHHHHHHHHHHcCCCcCcEEEecCCCCCC-HHHHHHHHHHHhC--------------C
Confidence            789999999999864321   11111            2578899999999 9998887755420              1


Q ss_pred             eEEEEEcCCCCCchhhhhhhhhCcC------CCCccCCceeEeEEEEEEecCCeEEEEEEEeCCCC
Q psy10878         71 FKVIVIGDPTVGKTSFVQRYVQNTF------KKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQ  130 (131)
Q Consensus        71 ~ki~vvG~~~vGKSsli~~~~~~~~------~~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gq  130 (131)
                      .+++++|.+|||||||+|+++....      ..+..|.++.+  ...+.+ ++.   +.++||||-
T Consensus       155 ~~v~~vG~~nvGKStliN~l~~~~~~~~~~~~~s~~pgtT~~--~~~~~~-~~~---~~l~DtPG~  214 (360)
T TIGR03597       155 KDVYVVGVTNVGKSSLINKLLKQNNGDKDVITTSPFPGTTLD--LIEIPL-DDG---HSLYDTPGI  214 (360)
T ss_pred             CeEEEECCCCCCHHHHHHHHHhhccCCcceeeecCCCCeEee--EEEEEe-CCC---CEEEECCCC
Confidence            4799999999999999999986422      22222333322  233333 222   469999994

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.

>cd04123 Rab21 Rab21 subfamily

Probab=99.50  E-value=1e-13  Score=91.80  Aligned_cols=60  Identities=43%  Similarity=0.758  Sum_probs=52.2

Q ss_pred             eEEEEEcCCCCCchhhhhhhhhCcCCCCccCCceeEeEEEEEEecCCeEEEEEEEeCCCCC
Q psy10878         71 FKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQN  131 (131)
Q Consensus        71 ~ki~vvG~~~vGKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gqe  131 (131)
                      +|++++|.+|+|||||++++.++.+...+.++.+..+....+.+ .+..+.+.+|||+||+
T Consensus         1 ~ki~i~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~D~~g~~   60 (162)
T cd04123           1 FKVVLLGEGRVGKTSLVLRYVENKFNEKHESTTQASFFQKTVNI-GGKRIDLAIWDTAGQE   60 (162)
T ss_pred             CEEEEECCCCCCHHHHHHHHHhCCCCCCcCCccceeEEEEEEEE-CCEEEEEEEEECCchH
Confidence            58999999999999999999999887777778877777777776 6778899999999984

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

>cd04114 Rab30 Rab30 subfamily

Probab=99.49  E-value=1.6e-13  Score=91.89  Aligned_cols=62  Identities=48%  Similarity=0.836  Sum_probs=55.3

Q ss_pred             eeeEEEEEcCCCCCchhhhhhhhhCcCCCCccCCceeEeEEEEEEecCCeEEEEEEEeCCCCC
Q psy10878         69 KLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQN  131 (131)
Q Consensus        69 ~~~ki~vvG~~~vGKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gqe  131 (131)
                      ..+|++++|.+|||||||++++..+.+...+.+|++.++....+.+ ++..+.+.+|||+|++
T Consensus         6 ~~~~v~v~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~-~~~~~~~~~~D~~g~~   67 (169)
T cd04114           6 FLFKIVLIGNAGVGKTCLVRRFTQGLFPPGQGATIGVDFMIKTVEI-KGEKIKLQIWDTAGQE   67 (169)
T ss_pred             ceeEEEEECCCCCCHHHHHHHHHhCCCCCCCCCceeeEEEEEEEEE-CCEEEEEEEEECCCcH
Confidence            4689999999999999999999988887778889988888888888 8888999999999974

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.

>cd00157 Rho Rho (Ras homology) family

Probab=99.49  E-value=1.4e-13  Score=92.20  Aligned_cols=59  Identities=37%  Similarity=0.667  Sum_probs=50.5

Q ss_pred             eEEEEEcCCCCCchhhhhhhhhCcCCCCccCCceeEeEEEEEEecCCeEEEEEEEeCCCCC
Q psy10878         71 FKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQN  131 (131)
Q Consensus        71 ~ki~vvG~~~vGKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gqe  131 (131)
                      +|++++|++|||||||+++|.++.+...+.|+....+ ...+.. ++..+.+++|||+||+
T Consensus         1 iki~i~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~-~~~~~~-~~~~~~l~~~D~~g~~   59 (171)
T cd00157           1 IKIVVVGDGAVGKTCLLISYTTGKFPTEYVPTVFDNY-SATVTV-DGKQVNLGLWDTAGQE   59 (171)
T ss_pred             CEEEEECCCCCCHHHHHHHHHhCCCCCCCCCceeeee-EEEEEE-CCEEEEEEEEeCCCcc
Confidence            5899999999999999999999998777888877555 455566 7888999999999986

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

>cd04152 Arl4_Arl7 Arl4/Arl7 subfamily

Probab=99.49  E-value=7.4e-14  Score=95.34  Aligned_cols=61  Identities=25%  Similarity=0.446  Sum_probs=49.5

Q ss_pred             eeEEEEEcCCCCCchhhhhhhhhCcCCCCccCCceeEeEEEEEEecCCeEEEEEEEeCCCCC
Q psy10878         70 LFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQN  131 (131)
Q Consensus        70 ~~ki~vvG~~~vGKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gqe  131 (131)
                      .+||+++|.+|||||||++++..+.+.. +.||.+.++....+.+.++..+.+++|||+|||
T Consensus         3 ~~kv~~vG~~~~GKTsli~~~~~~~~~~-~~~t~~~~~~~~~~~~~~~~~~~l~l~Dt~G~~   63 (183)
T cd04152           3 SLHIVMLGLDSAGKTTVLYRLKFNEFVN-TVPTKGFNTEKIKVSLGNSKGITFHFWDVGGQE   63 (183)
T ss_pred             ceEEEEECCCCCCHHHHHHHHhcCCcCC-cCCccccceeEEEeeccCCCceEEEEEECCCcH
Confidence            5799999999999999999999888874 468888666555554434567899999999985

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.

>cd00154 Rab Rab family

Probab=99.49  E-value=1.4e-13  Score=90.33  Aligned_cols=60  Identities=50%  Similarity=0.953  Sum_probs=53.7

Q ss_pred             eEEEEEcCCCCCchhhhhhhhhCcCCCCccCCceeEeEEEEEEecCCeEEEEEEEeCCCCC
Q psy10878         71 FKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQN  131 (131)
Q Consensus        71 ~ki~vvG~~~vGKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gqe  131 (131)
                      +|++++|.+++|||||++++.+..+...+.+|.+.++....+.. ++..+.+.+||++|++
T Consensus         1 ~~i~~~G~~~~GKStl~~~l~~~~~~~~~~~t~~~~~~~~~~~~-~~~~~~~~l~D~~g~~   60 (159)
T cd00154           1 FKIVLIGDSGVGKTSLLLRFVDGKFDENYKSTIGVDFKSKTIEI-DGKTVKLQIWDTAGQE   60 (159)
T ss_pred             CeEEEECCCCCCHHHHHHHHHhCcCCCccCCceeeeeEEEEEEE-CCEEEEEEEEecCChH
Confidence            48999999999999999999999988888899999888888877 7778899999999974

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

>cd04139 RalA_RalB RalA/RalB subfamily

Probab=99.48  E-value=1.4e-13  Score=91.42  Aligned_cols=59  Identities=34%  Similarity=0.606  Sum_probs=51.0

Q ss_pred             eEEEEEcCCCCCchhhhhhhhhCcCCCCccCCceeEeEEEEEEecCCeEEEEEEEeCCCCC
Q psy10878         71 FKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQN  131 (131)
Q Consensus        71 ~ki~vvG~~~vGKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gqe  131 (131)
                      +||+++|.+|||||||+++++.+.+...+.++++..+ .+...+ ++..+.+.+|||+||+
T Consensus         1 ~ki~~~G~~~~GKTsl~~~l~~~~~~~~~~~~~~~~~-~~~~~~-~~~~~~~~i~D~~g~~   59 (164)
T cd04139           1 YKVIVVGAGGVGKSALTLQFMYDEFVEDYEPTKADSY-RKKVVL-DGEDVQLNILDTAGQE   59 (164)
T ss_pred             CEEEEECCCCCCHHHHHHHHHhCCCccccCCcchhhE-EEEEEE-CCEEEEEEEEECCChh
Confidence            4899999999999999999999999888888887665 455566 7888999999999984

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

>PRK00098 GTPase RsgA; Reviewed

Probab=99.47  E-value=1.6e-14  Score=105.77  Aligned_cols=72  Identities=15%  Similarity=0.170  Sum_probs=53.9

Q ss_pred             cCCCcEEeeccCCCcccccccc----c---cc-CCCCccccccCCcccccccccccccccCCCcccCCCCCCceeeEEEE
Q psy10878          4 KAKKPILLPSASEDPSIDNWDK----A---SW-ENVTPIVSEQGDGEIIEIIDPSLKLVRVPSIRKSFNAPPEKLFKVIV   75 (131)
Q Consensus         4 ~~~kp~vlv~NK~Dl~~~~~~~----~---~~-~~~~~is~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ki~v   75 (131)
                      ..++|+++|+||+|+.+.....    .   .+ ..++++|+.++.| +.++++.+...                  .+++
T Consensus       109 ~~~ip~iIVlNK~DL~~~~~~~~~~~~~~~~~g~~v~~vSA~~g~g-i~~L~~~l~gk------------------~~~~  169 (298)
T PRK00098        109 ANGIKPIIVLNKIDLLDDLEEARELLALYRAIGYDVLELSAKEGEG-LDELKPLLAGK------------------VTVL  169 (298)
T ss_pred             HCCCCEEEEEEhHHcCCCHHHHHHHHHHHHHCCCeEEEEeCCCCcc-HHHHHhhccCc------------------eEEE
Confidence            4679999999999996332111    1   11 4578999999999 88776654322                  4899


Q ss_pred             EcCCCCCchhhhhhhhhCc
Q psy10878         76 IGDPTVGKTSFVQRYVQNT   94 (131)
Q Consensus        76 vG~~~vGKSsli~~~~~~~   94 (131)
                      +|.+|||||||+|.+++..
T Consensus       170 ~G~sgvGKStlin~l~~~~  188 (298)
T PRK00098        170 AGQSGVGKSTLLNALAPDL  188 (298)
T ss_pred             ECCCCCCHHHHHHHHhCCc
Confidence            9999999999999998643

>TIGR00231 small_GTP small GTP-binding protein domain

Probab=99.45  E-value=4.6e-13  Score=87.42  Aligned_cols=60  Identities=32%  Similarity=0.660  Sum_probs=52.8

Q ss_pred             eEEEEEcCCCCCchhhhhhhhhCcCCCCccCCceeEeEEEEEEecCCeEEEEEEEeCCCCC
Q psy10878         71 FKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQN  131 (131)
Q Consensus        71 ~ki~vvG~~~vGKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gqe  131 (131)
                      +||+++|.+|+|||||++++....+...+.++++.++....+.+ ++..+.+.+|||+|++
T Consensus         2 ~ki~~~G~~~~GKstl~~~l~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~D~~G~~   61 (161)
T TIGR00231         2 IKIVIVGDPNVGKSTLLNRLLGNKFITEYKPGTTRNYVTTVIEE-DGKTYKFNLLDTAGQE   61 (161)
T ss_pred             eEEEEECCCCCCHHHHHHHHhCCCCcCcCCCCceeeeeEEEEEE-CCEEEEEEEEECCCcc
Confidence            68999999999999999999988888888889998887766777 7777889999999974

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.

>cd04126 Rab20 Rab20 subfamily

Probab=99.45  E-value=2.5e-13  Score=95.55  Aligned_cols=55  Identities=42%  Similarity=0.742  Sum_probs=46.2

Q ss_pred             eEEEEEcCCCCCchhhhhhhhhCcCCCCccCCceeEeEEEEEEecCCeEEEEEEEeCCCCC
Q psy10878         71 FKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQN  131 (131)
Q Consensus        71 ~ki~vvG~~~vGKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gqe  131 (131)
                      +||+++|+++||||||+++|+.++|.. +.||++.++....+     ..+.+.||||+|||
T Consensus         1 ~KIvivG~~~vGKTSLi~r~~~~~f~~-~~~Tig~~~~~~~~-----~~~~l~iwDt~G~e   55 (220)
T cd04126           1 LKVVLLGDMNVGKTSLLHRYMERRFKD-TVSTVGGAFYLKQW-----GPYNISIWDTAGRE   55 (220)
T ss_pred             CEEEEECCCCCcHHHHHHHHhcCCCCC-CCCccceEEEEEEe-----eEEEEEEEeCCCcc
Confidence            489999999999999999999999974 67899877654332     45789999999986

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

>cd01854 YjeQ_engC YjeQ/EngC

Probab=99.44  E-value=2e-14  Score=104.75  Aligned_cols=73  Identities=15%  Similarity=0.205  Sum_probs=54.3

Q ss_pred             cCCCcEEeeccCCCcccccccc------ccc-CCCCccccccCCcccccccccccccccCCCcccCCCCCCceeeEEEEE
Q psy10878          4 KAKKPILLPSASEDPSIDNWDK------ASW-ENVTPIVSEQGDGEIIEIIDPSLKLVRVPSIRKSFNAPPEKLFKVIVI   76 (131)
Q Consensus         4 ~~~kp~vlv~NK~Dl~~~~~~~------~~~-~~~~~is~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ki~vv   76 (131)
                      ..++|+++|+||+|+.+.....      ..+ ..++++|+.++.| +.++.+.+..                  -.++++
T Consensus       107 ~~~ip~iIVlNK~DL~~~~~~~~~~~~~~~~g~~v~~vSA~~g~g-i~~L~~~L~~------------------k~~~~~  167 (287)
T cd01854         107 AAGIEPVIVLTKADLLDDEEEELELVEALALGYPVLAVSAKTGEG-LDELREYLKG------------------KTSVLV  167 (287)
T ss_pred             HcCCCEEEEEEHHHCCChHHHHHHHHHHHhCCCeEEEEECCCCcc-HHHHHhhhcc------------------ceEEEE
Confidence            4689999999999996542111      111 4678999999999 8776554332                  259999


Q ss_pred             cCCCCCchhhhhhhhhCcC
Q psy10878         77 GDPTVGKTSFVQRYVQNTF   95 (131)
Q Consensus        77 G~~~vGKSsli~~~~~~~~   95 (131)
                      |.+|||||||+|.+++...
T Consensus       168 G~sg~GKSTlin~l~~~~~  186 (287)
T cd01854         168 GQSGVGKSTLINALLPDLD  186 (287)
T ss_pred             CCCCCCHHHHHHHHhchhh
Confidence            9999999999999986543

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.

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

Probab=99.43  E-value=3.7e-13  Score=91.16  Aligned_cols=59  Identities=34%  Similarity=0.608  Sum_probs=50.6

Q ss_pred             eEEEEEcCCCCCchhhhhhhhhCcCCCCccCCceeEeEEEEEEecCCeEEEEEEEeCCCCC
Q psy10878         71 FKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQN  131 (131)
Q Consensus        71 ~ki~vvG~~~vGKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gqe  131 (131)
                      .||+++|.+|||||||++++.++.+...+.||++..+ ...+.+ ++..+.+++|||+|++
T Consensus         2 ~kv~l~G~~g~GKTtl~~~~~~~~~~~~~~~t~~~~~-~~~~~~-~~~~~~~~l~D~~g~~   60 (180)
T cd04137           2 RKIAVLGSRSVGKSSLTVQFVEGHFVESYYPTIENTF-SKIIRY-KGQDYHLEIVDTAGQD   60 (180)
T ss_pred             eEEEEECCCCCCHHHHHHHHHhCCCccccCcchhhhE-EEEEEE-CCEEEEEEEEECCChH
Confidence            5899999999999999999999888877888887665 455666 7778889999999984

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

>cd04150 Arf1_5_like Arf1-Arf5-like subfamily

Probab=99.42  E-value=3.1e-13  Score=90.31  Aligned_cols=55  Identities=22%  Similarity=0.570  Sum_probs=45.3

Q ss_pred             eEEEEEcCCCCCchhhhhhhhhCcCCCCccCCceeEeEEEEEEecCCeEEEEEEEeCCCCC
Q psy10878         71 FKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQN  131 (131)
Q Consensus        71 ~ki~vvG~~~vGKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gqe  131 (131)
                      +||+++|.++||||||++++..+.+. .+.||++.++  ..+.+   ..+.+++|||+||+
T Consensus         1 ~kv~~~G~~~~GKTsli~~l~~~~~~-~~~pt~g~~~--~~~~~---~~~~~~l~D~~G~~   55 (159)
T cd04150           1 MRILMVGLDAAGKTTILYKLKLGEIV-TTIPTIGFNV--ETVEY---KNISFTVWDVGGQD   55 (159)
T ss_pred             CEEEEECCCCCCHHHHHHHHhcCCCc-ccCCCCCcce--EEEEE---CCEEEEEEECCCCH
Confidence            48999999999999999999888887 5789988665  23433   35789999999985

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

>cd04162 Arl9_Arfrp2_like Arl9/Arfrp2-like subfamily

Probab=99.42  E-value=2.5e-13  Score=91.22  Aligned_cols=54  Identities=22%  Similarity=0.316  Sum_probs=45.5

Q ss_pred             EEEEcCCCCCchhhhhhhhhCcCCCCccCCceeEeEEEEEEecCCeEEEEEEEeCCCCC
Q psy10878         73 VIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQN  131 (131)
Q Consensus        73 i~vvG~~~vGKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gqe  131 (131)
                      ++++|++|||||||+++|.++.+...+.||++.++  ..  + ++..+.+++|||+||+
T Consensus         2 i~ivG~~~vGKTsli~~~~~~~~~~~~~pt~g~~~--~~--i-~~~~~~l~i~Dt~G~~   55 (164)
T cd04162           2 ILVLGLDGAGKTSLLHSLSSERSLESVVPTTGFNS--VA--I-PTQDAIMELLEIGGSQ   55 (164)
T ss_pred             EEEECCCCCCHHHHHHHHhcCCCcccccccCCcce--EE--E-eeCCeEEEEEECCCCc
Confidence            78999999999999999999888888899998653  22  3 4456889999999985

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.

>KOG0395|consensus

Probab=99.42  E-value=3.8e-13  Score=93.10  Aligned_cols=61  Identities=30%  Similarity=0.535  Sum_probs=55.3

Q ss_pred             eeeEEEEEcCCCCCchhhhhhhhhCcCCCCccCCceeEeEEEEEEecCCeEEEEEEEeCCCCC
Q psy10878         69 KLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQN  131 (131)
Q Consensus        69 ~~~ki~vvG~~~vGKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gqe  131 (131)
                      ..+|++++|.+|||||+|..+|+++.|...|.||++..| .+.+.+ ++..+.++|+||+||+
T Consensus         2 ~~~kvvvlG~~gVGKSal~~qf~~~~f~~~y~ptied~y-~k~~~v-~~~~~~l~ilDt~g~~   62 (196)
T KOG0395|consen    2 REYKVVVLGAGGVGKSALTIQFLTGRFVEDYDPTIEDSY-RKELTV-DGEVCMLEILDTAGQE   62 (196)
T ss_pred             CceEEEEECCCCCCcchheeeecccccccccCCCccccc-eEEEEE-CCEEEEEEEEcCCCcc
Confidence            357999999999999999999999999999999999555 677887 8999999999999975

>cd01893 Miro1 Miro1 subfamily

Probab=99.41  E-value=6.1e-13  Score=89.20  Aligned_cols=58  Identities=19%  Similarity=0.359  Sum_probs=45.2

Q ss_pred             eEEEEEcCCCCCchhhhhhhhhCcCCCCccCCceeEeEEEEEEecCCeEEEEEEEeCCCCC
Q psy10878         71 FKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQN  131 (131)
Q Consensus        71 ~ki~vvG~~~vGKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gqe  131 (131)
                      +|++++|++|||||||+++|..+.|...+. +...++ .....+ ++..+.+++|||+|++
T Consensus         1 ~kv~ivG~~~vGKTsl~~~l~~~~~~~~~~-~~~~~~-~~~~~~-~~~~~~~~i~Dt~G~~   58 (166)
T cd01893           1 VRIVLIGDEGVGKSSLIMSLVSEEFPENVP-RVLPEI-TIPADV-TPERVPTTIVDTSSRP   58 (166)
T ss_pred             CEEEEECCCCCCHHHHHHHHHhCcCCccCC-Ccccce-Eeeeee-cCCeEEEEEEeCCCch
Confidence            389999999999999999999999976643 333333 333444 6677999999999974

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.

>cd04149 Arf6 Arf6 subfamily

Probab=99.41  E-value=4.5e-13  Score=90.33  Aligned_cols=57  Identities=25%  Similarity=0.534  Sum_probs=46.3

Q ss_pred             eeeEEEEEcCCCCCchhhhhhhhhCcCCCCccCCceeEeEEEEEEecCCeEEEEEEEeCCCCC
Q psy10878         69 KLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQN  131 (131)
Q Consensus        69 ~~~ki~vvG~~~vGKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gqe  131 (131)
                      ..+||+++|.+|||||||++++..+.+. .+.||++.++.  .+..   ..+.+++|||+||+
T Consensus         8 ~~~kv~i~G~~~~GKTsli~~l~~~~~~-~~~~t~g~~~~--~~~~---~~~~~~l~Dt~G~~   64 (168)
T cd04149           8 KEMRILMLGLDAAGKTTILYKLKLGQSV-TTIPTVGFNVE--TVTY---KNVKFNVWDVGGQD   64 (168)
T ss_pred             CccEEEEECcCCCCHHHHHHHHccCCCc-cccCCcccceE--EEEE---CCEEEEEEECCCCH
Confidence            4589999999999999999999987775 46788887653  3333   45789999999985

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

>cd04147 Ras_dva Ras-dva subfamily

Probab=99.40  E-value=6.5e-13  Score=91.72  Aligned_cols=58  Identities=28%  Similarity=0.547  Sum_probs=49.7

Q ss_pred             EEEEEcCCCCCchhhhhhhhhCcCCCCccCCceeEeEEEEEEecCCeEEEEEEEeCCCCC
Q psy10878         72 KVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQN  131 (131)
Q Consensus        72 ki~vvG~~~vGKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gqe  131 (131)
                      ||+++|++|||||||+++|+.+.+...+.+|+. ++....+.+ ++..+.++||||+|++
T Consensus         1 kv~vvG~~~vGKTsll~~~~~~~~~~~~~~t~~-~~~~~~~~~-~~~~~~l~i~D~~G~~   58 (198)
T cd04147           1 RLVFMGAAGVGKTALIQRFLYDTFEPKYRRTVE-EMHRKEYEV-GGVSLTLDILDTSGSY   58 (198)
T ss_pred             CEEEECCCCCCHHHHHHHHHhCCCCccCCCchh-hheeEEEEE-CCEEEEEEEEECCCch
Confidence            689999999999999999999999888888876 444566777 7778899999999974

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.

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

Probab=99.40  E-value=6.4e-13  Score=90.11  Aligned_cols=57  Identities=23%  Similarity=0.517  Sum_probs=46.5

Q ss_pred             eeeEEEEEcCCCCCchhhhhhhhhCcCCCCccCCceeEeEEEEEEecCCeEEEEEEEeCCCCC
Q psy10878         69 KLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQN  131 (131)
Q Consensus        69 ~~~ki~vvG~~~vGKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gqe  131 (131)
                      ..+|++++|++|||||||++++..+++. .+.||++.++.  .+.+   ..+.+++|||+||+
T Consensus        12 ~~~ki~l~G~~~~GKTsL~~~~~~~~~~-~~~~t~~~~~~--~~~~---~~~~l~l~D~~G~~   68 (175)
T smart00177       12 KEMRILMVGLDAAGKTTILYKLKLGESV-TTIPTIGFNVE--TVTY---KNISFTVWDVGGQD   68 (175)
T ss_pred             CccEEEEEcCCCCCHHHHHHHHhcCCCC-CcCCccccceE--EEEE---CCEEEEEEECCCCh
Confidence            3589999999999999999999877775 57799987663  3333   34789999999985

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).

>cd00876 Ras Ras family

Probab=99.40  E-value=7.9e-13  Score=87.32  Aligned_cols=58  Identities=34%  Similarity=0.558  Sum_probs=49.5

Q ss_pred             EEEEEcCCCCCchhhhhhhhhCcCCCCccCCceeEeEEEEEEecCCeEEEEEEEeCCCCC
Q psy10878         72 KVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQN  131 (131)
Q Consensus        72 ki~vvG~~~vGKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gqe  131 (131)
                      |++++|++++|||||++++.+..+...+.++.+ +.....+.+ ++..+.+++||++|++
T Consensus         1 ki~i~G~~~~GKTsli~~l~~~~~~~~~~~~~~-~~~~~~~~~-~~~~~~~~l~D~~g~~   58 (160)
T cd00876           1 KVVVLGAGGVGKSAITIQFVKGTFVEEYDPTIE-DSYRKTIVV-DGETYTLDILDTAGQE   58 (160)
T ss_pred             CEEEECCCCCCHHHHHHHHHhCCCCcCcCCChh-HeEEEEEEE-CCEEEEEEEEECCChH
Confidence            689999999999999999998888888888887 444566666 7778999999999974

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

>PTZ00133 ADP-ribosylation factor; Provisional

Probab=99.39  E-value=6.9e-13  Score=90.61  Aligned_cols=56  Identities=21%  Similarity=0.539  Sum_probs=46.0

Q ss_pred             eeEEEEEcCCCCCchhhhhhhhhCcCCCCccCCceeEeEEEEEEecCCeEEEEEEEeCCCCC
Q psy10878         70 LFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQN  131 (131)
Q Consensus        70 ~~ki~vvG~~~vGKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gqe  131 (131)
                      .+||+++|+++||||||++++..+.+.. +.||++.++.  .+..   ..+.+++|||+||+
T Consensus        17 ~~kv~lvG~~~vGKTsli~~~~~~~~~~-~~~T~~~~~~--~~~~---~~~~~~l~D~~G~~   72 (182)
T PTZ00133         17 EVRILMVGLDAAGKTTILYKLKLGEVVT-TIPTIGFNVE--TVEY---KNLKFTMWDVGGQD   72 (182)
T ss_pred             ccEEEEEcCCCCCHHHHHHHHhcCCccc-cCCccccceE--EEEE---CCEEEEEEECCCCH
Confidence            5799999999999999999998888864 6789886653  3433   45789999999985

>PLN00223 ADP-ribosylation factor; Provisional

Probab=99.39  E-value=8.8e-13  Score=90.04  Aligned_cols=57  Identities=23%  Similarity=0.545  Sum_probs=46.7

Q ss_pred             eeeEEEEEcCCCCCchhhhhhhhhCcCCCCccCCceeEeEEEEEEecCCeEEEEEEEeCCCCC
Q psy10878         69 KLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQN  131 (131)
Q Consensus        69 ~~~ki~vvG~~~vGKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gqe  131 (131)
                      ..+||+++|+++||||||++++..+++. .+.||++.++.  .+.+   ..+.+++|||+||+
T Consensus        16 ~~~ki~ivG~~~~GKTsl~~~l~~~~~~-~~~pt~g~~~~--~~~~---~~~~~~i~D~~Gq~   72 (181)
T PLN00223         16 KEMRILMVGLDAAGKTTILYKLKLGEIV-TTIPTIGFNVE--TVEY---KNISFTVWDVGGQD   72 (181)
T ss_pred             CccEEEEECCCCCCHHHHHHHHccCCCc-cccCCcceeEE--EEEE---CCEEEEEEECCCCH
Confidence            4579999999999999999999988886 57799986653  3433   45789999999985

>cd04129 Rho2 Rho2 subfamily

Probab=99.38  E-value=1.9e-12  Score=88.57  Aligned_cols=59  Identities=32%  Similarity=0.618  Sum_probs=50.7

Q ss_pred             eEEEEEcCCCCCchhhhhhhhhCcCCCCccCCceeEeEEEEEEecCCeEEEEEEEeCCCCC
Q psy10878         71 FKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQN  131 (131)
Q Consensus        71 ~ki~vvG~~~vGKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gqe  131 (131)
                      .|++++|++|+|||||++++..+.+...+.+|++..+. ..+.+ ++..+.+.+|||+||+
T Consensus         2 ~Ki~ivG~~g~GKStLl~~l~~~~~~~~~~~t~~~~~~-~~~~~-~~~~~~l~i~Dt~g~~   60 (187)
T cd04129           2 RKLVIVGDGACGKTSLLSVFTLGEFPEEYHPTVFENYV-TDCRV-DGKPVQLALWDTAGQE   60 (187)
T ss_pred             eEEEEECCCCCCHHHHHHHHHhCCCCcccCCcccceEE-EEEEE-CCEEEEEEEEECCCCh
Confidence            48999999999999999999988888888888876664 45666 7788899999999985

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).

>KOG4252|consensus

Probab=99.36  E-value=1.2e-14  Score=97.80  Aligned_cols=65  Identities=42%  Similarity=0.760  Sum_probs=59.6

Q ss_pred             CCceeeEEEEEcCCCCCchhhhhhhhhCcCCCCccCCceeEeEEEEEEecCCeEEEEEEEeCCCCC
Q psy10878         66 PPEKLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQN  131 (131)
Q Consensus        66 ~~~~~~ki~vvG~~~vGKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gqe  131 (131)
                      ..+..+|++++|..+|||||++.||+.+-|...|.-|+|.+|....+.+ +++.+++.+|||+|||
T Consensus        16 d~e~aiK~vivGng~VGKssmiqryCkgifTkdykktIgvdflerqi~v-~~Edvr~mlWdtagqe   80 (246)
T KOG4252|consen   16 DYERAIKFVIVGNGSVGKSSMIQRYCKGIFTKDYKKTIGVDFLERQIKV-LIEDVRSMLWDTAGQE   80 (246)
T ss_pred             hhhhhEEEEEECCCccchHHHHHHHhccccccccccccchhhhhHHHHh-hHHHHHHHHHHhccch
Confidence            3556799999999999999999999999999999999999998888877 7888889999999997

>cd04154 Arl2 Arl2 subfamily

Probab=99.36  E-value=1.6e-12  Score=87.77  Aligned_cols=58  Identities=24%  Similarity=0.641  Sum_probs=45.8

Q ss_pred             ceeeEEEEEcCCCCCchhhhhhhhhCcCCCCccCCceeEeEEEEEEecCCeEEEEEEEeCCCCC
Q psy10878         68 EKLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQN  131 (131)
Q Consensus        68 ~~~~ki~vvG~~~vGKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gqe  131 (131)
                      ...+|++++|.+|||||||++++.+..+ ..+.||++.  ....+.+ +  .+.+++|||+||+
T Consensus        12 ~~~~kv~ivG~~~~GKTsL~~~l~~~~~-~~~~~t~g~--~~~~~~~-~--~~~l~l~D~~G~~   69 (173)
T cd04154          12 EREMRILILGLDNAGKTTILKKLLGEDI-DTISPTLGF--QIKTLEY-E--GYKLNIWDVGGQK   69 (173)
T ss_pred             CCccEEEEECCCCCCHHHHHHHHccCCC-CCcCCcccc--ceEEEEE-C--CEEEEEEECCCCH
Confidence            3457999999999999999999997755 467788874  3445555 4  3678999999985

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.

>cd04158 ARD1 ARD1 subfamily

Probab=99.34  E-value=2.1e-12  Score=86.91  Aligned_cols=54  Identities=26%  Similarity=0.618  Sum_probs=44.2

Q ss_pred             EEEEEcCCCCCchhhhhhhhhCcCCCCccCCceeEeEEEEEEecCCeEEEEEEEeCCCCC
Q psy10878         72 KVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQN  131 (131)
Q Consensus        72 ki~vvG~~~vGKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gqe  131 (131)
                      |++++|.++||||||++++.++.+. .+.||++.++.  .+.+   ..+.+++|||+||+
T Consensus         1 ~vvlvG~~~~GKTsl~~~l~~~~~~-~~~~T~~~~~~--~~~~---~~~~i~l~Dt~G~~   54 (169)
T cd04158           1 RVVTLGLDGAGKTTILFKLKQDEFM-QPIPTIGFNVE--TVEY---KNLKFTIWDVGGKH   54 (169)
T ss_pred             CEEEECCCCCCHHHHHHHHhcCCCC-CcCCcCceeEE--EEEE---CCEEEEEEECCCCh
Confidence            5899999999999999999988776 47889886663  3433   45789999999985

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

>cd04157 Arl6 Arl6 subfamily

Probab=99.32  E-value=2.6e-12  Score=85.24  Aligned_cols=55  Identities=20%  Similarity=0.381  Sum_probs=43.1

Q ss_pred             EEEEEcCCCCCchhhhhhhhhCc-CCCCccCCceeEeEEEEEEecCCeEEEEEEEeCCCCC
Q psy10878         72 KVIVIGDPTVGKTSFVQRYVQNT-FKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQN  131 (131)
Q Consensus        72 ki~vvG~~~vGKSsli~~~~~~~-~~~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gqe  131 (131)
                      +|+++|++|||||||++++.+.. +...+.||++..+  ..+..   ..+.+++|||||++
T Consensus         1 ~i~~vG~~~~GKTsl~~~l~~~~~~~~~~~~t~g~~~--~~~~~---~~~~~~l~Dt~G~~   56 (162)
T cd04157           1 NILVVGLDNSGKTTIINQLKPENAQSQIIVPTVGFNV--ESFEK---GNLSFTAFDMSGQG   56 (162)
T ss_pred             CEEEECCCCCCHHHHHHHHcccCCCcceecCccccce--EEEEE---CCEEEEEEECCCCH
Confidence            48999999999999999999875 4567788988543  23333   35778999999985

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

>cd04171 SelB SelB subfamily

Probab=99.32  E-value=3.3e-12  Score=84.72  Aligned_cols=58  Identities=16%  Similarity=0.300  Sum_probs=40.6

Q ss_pred             EEEEEcCCCCCchhhhhhhhhC---cCCCCccCCceeEeEEEEEEecCCeEEEEEEEeCCCCC
Q psy10878         72 KVIVIGDPTVGKTSFVQRYVQN---TFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQN  131 (131)
Q Consensus        72 ki~vvG~~~vGKSsli~~~~~~---~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gqe  131 (131)
                      .++++|.+|||||||++++.+.   .+..++.+++..+.....+.+ .+ ...+++||||||+
T Consensus         2 ~i~i~G~~~~GKssl~~~l~~~~~~~~~~~~~~~~t~~~~~~~~~~-~~-~~~~~~~DtpG~~   62 (164)
T cd04171           2 IIGTAGHIDHGKTTLIKALTGIETDRLPEEKKRGITIDLGFAYLDL-PS-GKRLGFIDVPGHE   62 (164)
T ss_pred             EEEEEecCCCCHHHHHHHHhCcccccchhhhccCceEEeeeEEEEe-cC-CcEEEEEECCChH
Confidence            5899999999999999999853   344344444444444444555 31 3578999999985

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

>COG1162 Predicted GTPases [General function prediction only]

Probab=99.31  E-value=3e-12  Score=92.89  Aligned_cols=70  Identities=16%  Similarity=0.214  Sum_probs=53.7

Q ss_pred             cCCCcEEeeccCCCcccccccc-cc-------c-CCCCccccccCCcccccccccccccccCCCcccCCCCCCceeeEEE
Q psy10878          4 KAKKPILLPSASEDPSIDNWDK-AS-------W-ENVTPIVSEQGDGEIIEIIDPSLKLVRVPSIRKSFNAPPEKLFKVI   74 (131)
Q Consensus         4 ~~~kp~vlv~NK~Dl~~~~~~~-~~-------~-~~~~~is~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ki~   74 (131)
                      ..+..+++|+||+||.+++... .+       + ..++.+|++.+.+ +..+.+.+....                  .+
T Consensus       108 ~~gi~pvIvlnK~DL~~~~~~~~~~~~~~y~~~gy~v~~~s~~~~~~-~~~l~~~l~~~~------------------sv  168 (301)
T COG1162         108 AGGIEPVIVLNKIDLLDDEEAAVKELLREYEDIGYPVLFVSAKNGDG-LEELAELLAGKI------------------TV  168 (301)
T ss_pred             HcCCcEEEEEEccccCcchHHHHHHHHHHHHhCCeeEEEecCcCccc-HHHHHHHhcCCe------------------EE
Confidence            3577889999999997665333 11       1 6788899998888 777655444443                  88


Q ss_pred             EEcCCCCCchhhhhhhhh
Q psy10878         75 VIGDPTVGKTSFVQRYVQ   92 (131)
Q Consensus        75 vvG~~~vGKSsli~~~~~   92 (131)
                      ++|.+|||||||+|++..
T Consensus       169 l~GqSGVGKSSLiN~L~p  186 (301)
T COG1162         169 LLGQSGVGKSTLINALLP  186 (301)
T ss_pred             EECCCCCcHHHHHHhhCc
Confidence            999999999999999985

>cd04159 Arl10_like Arl10-like subfamily

Probab=99.29  E-value=7.3e-12  Score=82.18  Aligned_cols=54  Identities=30%  Similarity=0.550  Sum_probs=45.6

Q ss_pred             EEEEcCCCCCchhhhhhhhhCcCCCCccCCceeEeEEEEEEecCCeEEEEEEEeCCCCC
Q psy10878         73 VIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQN  131 (131)
Q Consensus        73 i~vvG~~~vGKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gqe  131 (131)
                      ++++|.+|||||||++++.+.++...+.||++.++.  .+.. ++  +.+.+|||+|++
T Consensus         2 i~i~G~~~~GKssl~~~l~~~~~~~~~~~t~~~~~~--~~~~-~~--~~~~~~D~~g~~   55 (159)
T cd04159           2 ITLVGLQNSGKTTLVNVIAGGQFSEDTIPTVGFNMR--KVTK-GN--VTLKVWDLGGQP   55 (159)
T ss_pred             EEEEcCCCCCHHHHHHHHccCCCCcCccCCCCcceE--EEEE-CC--EEEEEEECCCCH
Confidence            789999999999999999999999899999987664  3333 33  779999999974

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.

>cd04161 Arl2l1_Arl13_like Arl2l1/Arl13 subfamily

Probab=99.28  E-value=7.3e-12  Score=84.26  Aligned_cols=54  Identities=22%  Similarity=0.398  Sum_probs=43.8

Q ss_pred             EEEEEcCCCCCchhhhhhhhhCcCCCCccCCceeEeEEEEEEecCCeEEEEEEEeCCCCC
Q psy10878         72 KVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQN  131 (131)
Q Consensus        72 ki~vvG~~~vGKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gqe  131 (131)
                      +|+++|.++||||||++++.++ +...+.||++..  ...+.+   ..+.+++|||+|++
T Consensus         1 ~i~~~G~~~~GKTsl~~~l~~~-~~~~~~~t~g~~--~~~~~~---~~~~~~i~D~~G~~   54 (167)
T cd04161           1 TLLTVGLDNAGKTTLVSALQGE-IPKKVAPTVGFT--PTKLRL---DKYEVCIFDLGGGA   54 (167)
T ss_pred             CEEEECCCCCCHHHHHHHHhCC-CCccccCcccce--EEEEEE---CCEEEEEEECCCcH
Confidence            4799999999999999999865 777888999854  345554   34779999999974

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.

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

Probab=99.28  E-value=1.1e-11  Score=82.86  Aligned_cols=56  Identities=18%  Similarity=0.296  Sum_probs=38.3

Q ss_pred             EEEEEcCCCCCchhhhhhhhhCcCCCCccCCceeEeEEEEEEecCCeEEEEEEEeCCCC
Q psy10878         72 KVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQ  130 (131)
Q Consensus        72 ki~vvG~~~vGKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gq  130 (131)
                      +++++|.+|+|||||++++.+..+.....+....+.....+.+   ..+.++||||||+
T Consensus         2 ~i~~~G~~~~GKssli~~l~~~~~~~~~~~~~t~~~~~~~~~~---~~~~~~i~Dt~G~   57 (168)
T cd01897           2 TLVIAGYPNVGKSSLVNKLTRAKPEVAPYPFTTKSLFVGHFDY---KYLRWQVIDTPGL   57 (168)
T ss_pred             eEEEEcCCCCCHHHHHHHHhcCCCccCCCCCcccceeEEEEcc---CceEEEEEECCCc
Confidence            6899999999999999999987764332222112222222322   3467999999997

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.

>cd04153 Arl5_Arl8 Arl5/Arl8 subfamily

Probab=99.28  E-value=8.9e-12  Score=84.31  Aligned_cols=56  Identities=27%  Similarity=0.598  Sum_probs=45.7

Q ss_pred             eeEEEEEcCCCCCchhhhhhhhhCcCCCCccCCceeEeEEEEEEecCCeEEEEEEEeCCCCC
Q psy10878         70 LFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQN  131 (131)
Q Consensus        70 ~~ki~vvG~~~vGKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gqe  131 (131)
                      .+||+++|.+++|||||++++..+.+.. +.||++.++.  .+.+ +  .+.+.+|||+|++
T Consensus        15 ~~kv~~~G~~~~GKTsl~~~l~~~~~~~-~~~t~~~~~~--~~~~-~--~~~~~l~D~~G~~   70 (174)
T cd04153          15 EYKVIIVGLDNAGKTTILYQFLLGEVVH-TSPTIGSNVE--EIVY-K--NIRFLMWDIGGQE   70 (174)
T ss_pred             ccEEEEECCCCCCHHHHHHHHccCCCCC-cCCccccceE--EEEE-C--CeEEEEEECCCCH
Confidence            4799999999999999999999888874 6788886653  3444 3  4779999999985

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.

>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=99.26  E-value=1.3e-11  Score=78.28  Aligned_cols=59  Identities=32%  Similarity=0.621  Sum_probs=41.4

Q ss_pred             EEEEEcCCCCCchhhhhhhhhCcCC--CCccCCceeEeEEEEEEecCCeEEEEEEEeCCCCC
Q psy10878         72 KVIVIGDPTVGKTSFVQRYVQNTFK--KDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQN  131 (131)
Q Consensus        72 ki~vvG~~~vGKSsli~~~~~~~~~--~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gqe  131 (131)
                      ||+|+|.+|||||||+++|+++.+.  ..+.++.+..+....... .+....+++||++|++
T Consensus         1 kI~V~G~~g~GKTsLi~~l~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~d~~g~~   61 (119)
T PF08477_consen    1 KIVVLGDSGVGKTSLIRRLCGGEFPDNSVPEETSEITIGVDVIVV-DGDRQSLQFWDFGGQE   61 (119)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHSS--------SSTTSCEEEEEEEE-TTEEEEEEEEEESSSH
T ss_pred             CEEEECcCCCCHHHHHHHHhcCCCcccccccccCCCcEEEEEEEe-cCCceEEEEEecCccc
Confidence            7999999999999999999988776  222333344444444454 6676779999999974

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.

>cd04151 Arl1 Arl1 subfamily

Probab=99.26  E-value=8.6e-12  Score=82.86  Aligned_cols=54  Identities=26%  Similarity=0.587  Sum_probs=42.8

Q ss_pred             EEEEEcCCCCCchhhhhhhhhCcCCCCccCCceeEeEEEEEEecCCeEEEEEEEeCCCCC
Q psy10878         72 KVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQN  131 (131)
Q Consensus        72 ki~vvG~~~vGKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gqe  131 (131)
                      |++++|+++||||||++++..+.+. .+.||++.++.  .+.+   ..+.+++|||+|++
T Consensus         1 kv~lvG~~~~GKTsl~~~l~~~~~~-~~~~t~~~~~~--~~~~---~~~~~~i~Dt~G~~   54 (158)
T cd04151           1 RILILGLDNAGKTTILYRLQLGEVV-TTIPTIGFNVE--TVTY---KNLKFQVWDLGGQT   54 (158)
T ss_pred             CEEEECCCCCCHHHHHHHHccCCCc-CcCCccCcCeE--EEEE---CCEEEEEEECCCCH
Confidence            5899999999999999999877775 45688876543  3433   45789999999984

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.

>cd04156 ARLTS1 ARLTS1 subfamily

Probab=99.26  E-value=1.1e-11  Score=82.27  Aligned_cols=55  Identities=22%  Similarity=0.575  Sum_probs=43.4

Q ss_pred             EEEEEcCCCCCchhhhhhhhhCcCCCCccCCceeEeEEEEEEecCCeEEEEEEEeCCCCC
Q psy10878         72 KVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQN  131 (131)
Q Consensus        72 ki~vvG~~~vGKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gqe  131 (131)
                      +++++|.+|||||||+++|.++.+.. +.||.+.++  ..+.. + ..+.+.+|||+||+
T Consensus         1 ~i~i~G~~~~GKTsl~~~~~~~~~~~-~~~t~~~~~--~~~~~-~-~~~~l~i~D~~G~~   55 (160)
T cd04156           1 QVLLLGLDSAGKSTLLYKLKHAELVT-TIPTVGFNV--EMLQL-E-KHLSLTVWDVGGQE   55 (160)
T ss_pred             CEEEEcCCCCCHHHHHHHHhcCCccc-ccCccCcce--EEEEe-C-CceEEEEEECCCCH
Confidence            58999999999999999999888864 468887554  33433 3 45789999999984

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

>cd01850 CDC_Septin CDC/Septin

Probab=99.25  E-value=3.8e-11  Score=87.14  Aligned_cols=60  Identities=22%  Similarity=0.414  Sum_probs=48.5

Q ss_pred             eeeEEEEEcCCCCCchhhhhhhhhCcCCCC----------ccCCceeEeEEEEEEecCCeEEEEEEEeCCC
Q psy10878         69 KLFKVIVIGDPTVGKTSFVQRYVQNTFKKD----------YKGTVGVDFALKIVKWRDQQKIKLQLWDIAG  129 (131)
Q Consensus        69 ~~~ki~vvG~~~vGKSsli~~~~~~~~~~~----------~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~G  129 (131)
                      ..++++++|.+|+|||||+|++++..+...          +.+|+..+.....+.. +|..+.+.+|||||
T Consensus         3 ~~f~I~vvG~sg~GKSTliN~L~~~~~~~~~~~~~~~~~~~~~T~~i~~~~~~i~~-~g~~~~l~iiDTpG   72 (276)
T cd01850           3 FQFNIMVVGESGLGKSTFINTLFNTKLIPSDYPPDPAEEHIDKTVEIKSSKAEIEE-NGVKLKLTVIDTPG   72 (276)
T ss_pred             cEEEEEEEcCCCCCHHHHHHHHHcCCCccccCCCCccccccCCceEEEEEEEEEEE-CCEEEEEEEEecCC
Confidence            468999999999999999999998766433          3556666665666665 78889999999999

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.

>cd04160 Arfrp1 Arfrp1 subfamily

Probab=99.23  E-value=1.8e-11  Score=81.75  Aligned_cols=55  Identities=25%  Similarity=0.543  Sum_probs=41.4

Q ss_pred             EEEEEcCCCCCchhhhhhhhhCc------CCCCccCCceeEeEEEEEEecCCeEEEEEEEeCCCCC
Q psy10878         72 KVIVIGDPTVGKTSFVQRYVQNT------FKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQN  131 (131)
Q Consensus        72 ki~vvG~~~vGKSsli~~~~~~~------~~~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gqe  131 (131)
                      +|+++|.+|||||||++++....      +...+.||++.++.  .+.+ +  ...+++|||+||+
T Consensus         1 ~i~~vG~~~~GKstLi~~l~~~~~~~~~~~~~~~~~t~~~~~~--~~~~-~--~~~~~l~Dt~G~~   61 (167)
T cd04160           1 SVLILGLDNAGKTTFLEQLKTLFSKYKGLPPSKITPTVGLNIG--TIEV-G--NARLKFWDLGGQE   61 (167)
T ss_pred             CEEEEecCCCCHHHHHHHHhhhcccccCCcccccCCccccceE--EEEE-C--CEEEEEEECCCCh
Confidence            58999999999999999987532      23456678776663  4444 4  3678999999985

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.

>KOG0096|consensus

Probab=99.23  E-value=3.3e-11  Score=81.84  Aligned_cols=63  Identities=35%  Similarity=0.698  Sum_probs=54.5

Q ss_pred             ceeeEEEEEcCCCCCchhhhhhhhhCcCCCCccCCceeEeEEEEEEecCCeEEEEEEEeCCCCC
Q psy10878         68 EKLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQN  131 (131)
Q Consensus        68 ~~~~ki~vvG~~~vGKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gqe  131 (131)
                      ...+|++++|+.|.|||++.+|.+.++|...|.+|+|.+.....+.- +...+++..|||+|||
T Consensus         8 ~~~fklvlvGdgg~gKtt~vkr~ltgeFe~~y~at~Gv~~~pl~f~t-n~g~irf~~wdtagqE   70 (216)
T KOG0096|consen    8 GLTFKLVLVGDGGTGKTTFVKRHLTGEFEKTYPATLGVEVHPLLFDT-NRGQIRFNVWDTAGQE   70 (216)
T ss_pred             cceEEEEEecCCcccccchhhhhhcccceecccCcceeEEeeeeeec-ccCcEEEEeeecccce
Confidence            45789999999999999999999999999999999998876555543 3336999999999997

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

Probab=99.23  E-value=1.1e-11  Score=85.26  Aligned_cols=59  Identities=20%  Similarity=0.372  Sum_probs=42.9

Q ss_pred             EEEEEcCCCCCchhhhhhhhh--CcCCCCc------------cCCceeEeEEEEEEecCCeEEEEEEEeCCCCC
Q psy10878         72 KVIVIGDPTVGKTSFVQRYVQ--NTFKKDY------------KGTVGVDFALKIVKWRDQQKIKLQLWDIAGQN  131 (131)
Q Consensus        72 ki~vvG~~~vGKSsli~~~~~--~~~~~~~------------~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gqe  131 (131)
                      +++++|.++||||||+++|+.  +.|...+            .++.+.++..+...+ +...+.+++|||||++
T Consensus         4 ~i~ivG~~~~GKTsL~~~l~~~~~~~~~~~~~~~~~~~~~~~e~~~g~t~~~~~~~~-~~~~~~~~l~DtpG~~   76 (194)
T cd01891           4 NIAIIAHVDHGKTTLVDALLKQSGTFRENEEVEERVMDSNDLERERGITILAKNTAV-TYKDTKINIVDTPGHA   76 (194)
T ss_pred             EEEEEecCCCCHHHHHHHHHHHcCCCCccCcccccccccchhHHhcccccccceeEE-EECCEEEEEEECCCcH
Confidence            799999999999999999996  5554433            233454454444444 4456789999999985

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

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

Probab=99.23  E-value=1.8e-11  Score=81.05  Aligned_cols=54  Identities=20%  Similarity=0.550  Sum_probs=42.8

Q ss_pred             EEEEEcCCCCCchhhhhhhhhCcCCCCccCCceeEeEEEEEEecCCeEEEEEEEeCCCCC
Q psy10878         72 KVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQN  131 (131)
Q Consensus        72 ki~vvG~~~vGKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gqe  131 (131)
                      |++++|.+|||||||+++++++.+. .+.+|++..+  ..+.+ +  .+.+.+|||+|++
T Consensus         1 ki~iiG~~~~GKssli~~~~~~~~~-~~~~t~~~~~--~~~~~-~--~~~~~i~D~~G~~   54 (158)
T cd00878           1 RILILGLDGAGKTTILYKLKLGEVV-TTIPTIGFNV--ETVEY-K--NVSFTVWDVGGQD   54 (158)
T ss_pred             CEEEEcCCCCCHHHHHHHHhcCCCC-CCCCCcCcce--EEEEE-C--CEEEEEEECCCCh
Confidence            6899999999999999999987743 5677887554  34444 3  4679999999985

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

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

Probab=99.21  E-value=2.9e-11  Score=82.65  Aligned_cols=58  Identities=19%  Similarity=0.316  Sum_probs=44.4

Q ss_pred             ceeeEEEEEcCCCCCchhhhhhhhhCcCCCCccCCceeEeEEEEEEecCCeEEEEEEEeCCCCC
Q psy10878         68 EKLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQN  131 (131)
Q Consensus        68 ~~~~ki~vvG~~~vGKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gqe  131 (131)
                      ...++++++|.+|||||||++++.++.+. .+.||.+...  ..+.+ +  .+.+.+|||+|++
T Consensus        15 ~~~~~i~ivG~~~~GKTsli~~l~~~~~~-~~~~t~~~~~--~~~~~-~--~~~~~~~D~~G~~   72 (184)
T smart00178       15 NKHAKILFLGLDNAGKTTLLHMLKNDRLA-QHQPTQHPTS--EELAI-G--NIKFTTFDLGGHQ   72 (184)
T ss_pred             cccCEEEEECCCCCCHHHHHHHHhcCCCc-ccCCccccce--EEEEE-C--CEEEEEEECCCCH
Confidence            34589999999999999999999987775 4567766432  33444 3  3678999999984

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

>PRK04213 GTP-binding protein; Provisional

Probab=99.20  E-value=4.3e-11  Score=82.51  Aligned_cols=55  Identities=18%  Similarity=0.389  Sum_probs=41.8

Q ss_pred             ceeeEEEEEcCCCCCchhhhhhhhhCcCCCCccCCceeEeEEEEEEecCCeEEEEEEEeCCC
Q psy10878         68 EKLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAG  129 (131)
Q Consensus        68 ~~~~ki~vvG~~~vGKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~G  129 (131)
                      ...++|+++|.+|||||||++++.+..+...+.|+++  +....+.+ +    .+.+|||||
T Consensus         7 ~~~~~i~i~G~~~~GKSsLin~l~~~~~~~~~~~~~t--~~~~~~~~-~----~~~l~Dt~G   61 (201)
T PRK04213          7 DRKPEIVFVGRSNVGKSTLVRELTGKKVRVGKRPGVT--RKPNHYDW-G----DFILTDLPG   61 (201)
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHhCCCCccCCCCcee--eCceEEee-c----ceEEEeCCc
Confidence            3467999999999999999999998877665656554  33334433 2    489999999

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

Probab=99.20  E-value=4.1e-11  Score=79.90  Aligned_cols=59  Identities=17%  Similarity=0.229  Sum_probs=43.5

Q ss_pred             EEEEEcCCCCCchhhhhhhhhCcCCCCccCCceeEeEEEEEEecC-CeEEEEEEEeCCCCC
Q psy10878         72 KVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRD-QQKIKLQLWDIAGQN  131 (131)
Q Consensus        72 ki~vvG~~~vGKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~-~~~~~l~i~Dt~Gqe  131 (131)
                      .++++|.+|+|||||++++..+++...+.+++..++....+.. + +....+.+|||+|++
T Consensus         2 ~i~iiG~~~~GKtsli~~l~~~~~~~~~~~~~t~~~~~~~~~~-~~~~~~~~~iiDtpG~~   61 (168)
T cd01887           2 VVTVMGHVDHGKTTLLDKIRKTNVAAGEAGGITQHIGAFEVPA-EVLKIPGITFIDTPGHE   61 (168)
T ss_pred             EEEEEecCCCCHHHHHHHHHhcccccccCCCeEEeeccEEEec-ccCCcceEEEEeCCCcH
Confidence            4899999999999999999988877655455544444344433 2 235678999999984

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.

>PRK01889 GTPase RsgA; Reviewed

Probab=99.19  E-value=8.6e-12  Score=93.45  Aligned_cols=73  Identities=16%  Similarity=0.167  Sum_probs=54.5

Q ss_pred             ccCCCcEEeeccCCCcccccc-ccccc------CCCCccccccCCcccccccccccccccCCCcccCCCCCCceeeEEEE
Q psy10878          3 YKAKKPILLPSASEDPSIDNW-DKASW------ENVTPIVSEQGDGEIIEIIDPSLKLVRVPSIRKSFNAPPEKLFKVIV   75 (131)
Q Consensus         3 ~~~~kp~vlv~NK~Dl~~~~~-~~~~~------~~~~~is~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ki~v   75 (131)
                      ...+.|+++|+||+||.+... ....+      .+++++|+.++.| +.+|...+..                 .-++++
T Consensus       139 ~~~~i~piIVLNK~DL~~~~~~~~~~~~~~~~g~~Vi~vSa~~g~g-l~~L~~~L~~-----------------g~~~~l  200 (356)
T PRK01889        139 WESGAEPVIVLTKADLCEDAEEKIAEVEALAPGVPVLAVSALDGEG-LDVLAAWLSG-----------------GKTVAL  200 (356)
T ss_pred             HHcCCCEEEEEEChhcCCCHHHHHHHHHHhCCCCcEEEEECCCCcc-HHHHHHHhhc-----------------CCEEEE
Confidence            346889999999999975421 11111      5778999999999 8776554321                 126999


Q ss_pred             EcCCCCCchhhhhhhhhC
Q psy10878         76 IGDPTVGKTSFVQRYVQN   93 (131)
Q Consensus        76 vG~~~vGKSsli~~~~~~   93 (131)
                      +|.+|+|||||+|.+++.
T Consensus       201 vG~sgvGKStLin~L~g~  218 (356)
T PRK01889        201 LGSSGVGKSTLVNALLGE  218 (356)
T ss_pred             ECCCCccHHHHHHHHHHh
Confidence            999999999999998864

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

Probab=99.19  E-value=2.6e-11  Score=79.99  Aligned_cols=54  Identities=22%  Similarity=0.298  Sum_probs=42.0

Q ss_pred             EEcCCCCCchhhhhhhhhCcCCCCccCCceeEeEEEEEEecCCeEEEEEEEeCCCCC
Q psy10878         75 VIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQN  131 (131)
Q Consensus        75 vvG~~~vGKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gqe  131 (131)
                      ++|.+|||||||++++.+..+...+.++++.+.....+.+ ++  ..+.+|||||++
T Consensus         1 l~G~~~~GKssl~~~~~~~~~~~~~~~~~t~~~~~~~~~~-~~--~~~~liDtpG~~   54 (158)
T cd01879           1 LVGNPNVGKTTLFNALTGARQKVGNWPGVTVEKKEGRFKL-GG--KEIEIVDLPGTY   54 (158)
T ss_pred             CCCCCCCCHHHHHHHHhcCcccccCCCCcccccceEEEee-CC--eEEEEEECCCcc
Confidence            5899999999999999987655555566666665666776 55  468999999974

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.

>cd00879 Sar1 Sar1 subfamily

Probab=99.19  E-value=5.4e-11  Score=81.26  Aligned_cols=57  Identities=19%  Similarity=0.325  Sum_probs=45.2

Q ss_pred             eeeEEEEEcCCCCCchhhhhhhhhCcCCCCccCCceeEeEEEEEEecCCeEEEEEEEeCCCCC
Q psy10878         69 KLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQN  131 (131)
Q Consensus        69 ~~~ki~vvG~~~vGKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gqe  131 (131)
                      +.+|++++|++|||||||++++.++.+. .+.||.+...  ..+.+ ++  +.+++|||+|++
T Consensus        18 ~~~ki~ilG~~~~GKStLi~~l~~~~~~-~~~~T~~~~~--~~i~~-~~--~~~~l~D~~G~~   74 (190)
T cd00879          18 KEAKILFLGLDNAGKTTLLHMLKDDRLA-QHVPTLHPTS--EELTI-GN--IKFKTFDLGGHE   74 (190)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhcCCCc-ccCCccCcce--EEEEE-CC--EEEEEEECCCCH
Confidence            4679999999999999999999987774 5778877543  44555 44  568999999984

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.

>KOG1673|consensus

Probab=99.19  E-value=3.1e-11  Score=79.71  Aligned_cols=65  Identities=37%  Similarity=0.681  Sum_probs=60.3

Q ss_pred             CCceeeEEEEEcCCCCCchhhhhhhhhCcCCCCccCCceeEeEEEEEEecCCeEEEEEEEeCCCCC
Q psy10878         66 PPEKLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQN  131 (131)
Q Consensus        66 ~~~~~~ki~vvG~~~vGKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gqe  131 (131)
                      ...-.+|+-++|++.+|||||+..|.++++.+++..+.|.++..+++.+ .|..+.+.|||..|||
T Consensus        16 ~n~Vslkv~llGD~qiGKTs~mvkYV~~~~de~~~q~~GvN~mdkt~~i-~~t~IsfSIwdlgG~~   80 (205)
T KOG1673|consen   16 SNLVSLKVGLLGDAQIGKTSLMVKYVQNEYDEEYTQTLGVNFMDKTVSI-RGTDISFSIWDLGGQR   80 (205)
T ss_pred             ccceEEEEEeecccccCceeeehhhhcchhHHHHHHHhCccceeeEEEe-cceEEEEEEEecCCcH
Confidence            3556889999999999999999999999998899999999999999998 8999999999999996

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

Probab=99.18  E-value=7.5e-11  Score=80.14  Aligned_cols=60  Identities=18%  Similarity=0.286  Sum_probs=44.2

Q ss_pred             CceeeEEEEEcCCCCCchhhhhhhhhCcCCCCccCCceeEeEEEEEEecCCeEEEEEEEeCCCC
Q psy10878         67 PEKLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQ  130 (131)
Q Consensus        67 ~~~~~ki~vvG~~~vGKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gq  130 (131)
                      +....+++++|.+|+|||||+|++.+..+...+.++.+.......+.+ ++   .+.+|||||.
T Consensus        15 ~~~~~~i~ivG~~~~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~-~~---~~~liDtpG~   74 (179)
T TIGR03598        15 PDDGPEIAFAGRSNVGKSSLINALTNRKKLARTSKTPGRTQLINFFEV-ND---GFRLVDLPGY   74 (179)
T ss_pred             CCCCCEEEEEcCCCCCHHHHHHHHhCCCCcccccCCCCcceEEEEEEe-CC---cEEEEeCCCC
Confidence            345679999999999999999999987655555566654443333444 33   4889999994

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=99.18  E-value=6.4e-11  Score=81.12  Aligned_cols=60  Identities=22%  Similarity=0.288  Sum_probs=45.1

Q ss_pred             CceeeEEEEEcCCCCCchhhhhhhhhCcCCCCccCCceeEeEEEEEEecCCeEEEEEEEeCCCC
Q psy10878         67 PEKLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQ  130 (131)
Q Consensus        67 ~~~~~ki~vvG~~~vGKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gq  130 (131)
                      .....+++++|.+|+|||||+++++++++...+.++.+.........+    ...+.||||||.
T Consensus        21 ~~~~~~v~ivG~~~~GKSsli~~l~~~~~~~~~~~~~~~t~~~~~~~~----~~~l~l~DtpG~   80 (196)
T PRK00454         21 PDDGPEIAFAGRSNVGKSSLINALTNRKNLARTSKTPGRTQLINFFEV----NDKLRLVDLPGY   80 (196)
T ss_pred             CCCCCEEEEEcCCCCCHHHHHHHHhCCCCcccccCCCCceeEEEEEec----CCeEEEeCCCCC
Confidence            345678999999999999999999987766666677665443333322    256899999994

>TIGR00450 mnmE_trmE_thdF tRNA modification GTPase TrmE

Probab=99.15  E-value=1.5e-10  Score=89.02  Aligned_cols=59  Identities=24%  Similarity=0.362  Sum_probs=46.0

Q ss_pred             ceeeEEEEEcCCCCCchhhhhhhhhCcC--CCCccCCceeEeEEEEEEecCCeEEEEEEEeCCCC
Q psy10878         68 EKLFKVIVIGDPTVGKTSFVQRYVQNTF--KKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQ  130 (131)
Q Consensus        68 ~~~~ki~vvG~~~vGKSsli~~~~~~~~--~~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gq  130 (131)
                      ...+|++++|.+|||||||+|++++..+  ...+ |+++.++....+.+ +|.  .+.+|||||+
T Consensus       201 ~~g~kVvIvG~~nvGKSSLiN~L~~~~~aivs~~-pgtTrd~~~~~i~~-~g~--~v~l~DTaG~  261 (442)
T TIGR00450       201 DDGFKLAIVGSPNVGKSSLLNALLKQDRAIVSDI-KGTTRDVVEGDFEL-NGI--LIKLLDTAGI  261 (442)
T ss_pred             hcCCEEEEECCCCCcHHHHHHHHhCCCCcccCCC-CCcEEEEEEEEEEE-CCE--EEEEeeCCCc
Confidence            3457999999999999999999997643  3333 55666777777777 664  4689999997

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.

>KOG0073|consensus

Probab=99.13  E-value=1.6e-10  Score=76.88  Aligned_cols=58  Identities=26%  Similarity=0.637  Sum_probs=48.7

Q ss_pred             CceeeEEEEEcCCCCCchhhhhhhhhCcCCCCccCCceeEeEEEEEEecCCeEEEEEEEeCCCC
Q psy10878         67 PEKLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQ  130 (131)
Q Consensus        67 ~~~~~ki~vvG~~~vGKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gq  130 (131)
                      .+++++|+++|..|+|||+++++|.+.. .....||.|  |..+++.+   +.+.+++||..||
T Consensus        13 kerE~riLiLGLdNsGKTti~~kl~~~~-~~~i~pt~g--f~Iktl~~---~~~~L~iwDvGGq   70 (185)
T KOG0073|consen   13 KEREVRILILGLDNSGKTTIVKKLLGED-TDTISPTLG--FQIKTLEY---KGYTLNIWDVGGQ   70 (185)
T ss_pred             hhheeEEEEEecCCCCchhHHHHhcCCC-ccccCCccc--eeeEEEEe---cceEEEEEEcCCc
Confidence            3458999999999999999999998655 556779998  66777777   5588999999998

>cd01890 LepA LepA subfamily

Probab=99.13  E-value=1.2e-10  Score=78.64  Aligned_cols=60  Identities=23%  Similarity=0.421  Sum_probs=39.8

Q ss_pred             EEEEEcCCCCCchhhhhhhhhCc-------CCCCccCCc------eeEeEEEEE--Eec--CCeEEEEEEEeCCCCC
Q psy10878         72 KVIVIGDPTVGKTSFVQRYVQNT-------FKKDYKGTV------GVDFALKIV--KWR--DQQKIKLQLWDIAGQN  131 (131)
Q Consensus        72 ki~vvG~~~vGKSsli~~~~~~~-------~~~~~~~t~------~~~~~~~~~--~~~--~~~~~~l~i~Dt~Gqe  131 (131)
                      +++++|.++||||||+++|++..       +...+.++.      |.++..+.+  .+.  ++..+.+++|||||++
T Consensus         2 ni~~vG~~~~GKssL~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~g~t~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~   78 (179)
T cd01890           2 NFSIIAHIDHGKSTLADRLLELTGTVSKREMKEQVLDSMDLERERGITIKAQTVRLNYKAKDGQEYLLNLIDTPGHV   78 (179)
T ss_pred             cEEEEeecCCCHHHHHHHHHHHhCCCCcCCCceEeccCChhHHHCCCeEecceEEEEEecCCCCcEEEEEEECCCCh
Confidence            58999999999999999998632       222333332      333433222  221  4567889999999985

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.

>KOG0070|consensus

Probab=99.12  E-value=1e-10  Score=78.97  Aligned_cols=59  Identities=24%  Similarity=0.572  Sum_probs=50.1

Q ss_pred             CceeeEEEEEcCCCCCchhhhhhhhhCcCCCCccCCceeEeEEEEEEecCCeEEEEEEEeCCCCC
Q psy10878         67 PEKLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQN  131 (131)
Q Consensus        67 ~~~~~ki~vvG~~~vGKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gqe  131 (131)
                      ...+++|+++|..++||||+++++-.+++... .||+|  |....+.+   +.+++++||..||+
T Consensus        14 ~~~e~~IlmlGLD~AGKTTILykLk~~E~vtt-vPTiG--fnVE~v~y---kn~~f~vWDvGGq~   72 (181)
T KOG0070|consen   14 GKKEMRILMVGLDAAGKTTILYKLKLGEIVTT-VPTIG--FNVETVEY---KNISFTVWDVGGQE   72 (181)
T ss_pred             CcceEEEEEEeccCCCceeeeEeeccCCcccC-CCccc--cceeEEEE---cceEEEEEecCCCc
Confidence            45678999999999999999999998877654 79999  55677777   46889999999996

>PRK15494 era GTPase Era; Provisional

Probab=99.11  E-value=1e-10  Score=87.22  Aligned_cols=60  Identities=22%  Similarity=0.384  Sum_probs=41.6

Q ss_pred             ceeeEEEEEcCCCCCchhhhhhhhhCcCCC-CccCCceeEeEEEEEEecCCeEEEEEEEeCCCC
Q psy10878         68 EKLFKVIVIGDPTVGKTSFVQRYVQNTFKK-DYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQ  130 (131)
Q Consensus        68 ~~~~ki~vvG~~~vGKSsli~~~~~~~~~~-~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gq  130 (131)
                      .+.++++++|.+|||||||+|+|++..+.. +..+.+..++....+.+ ++  ..+.+|||||+
T Consensus        50 ~k~~kV~ivG~~nvGKSTLin~l~~~k~~ivs~k~~tTr~~~~~~~~~-~~--~qi~~~DTpG~  110 (339)
T PRK15494         50 QKTVSVCIIGRPNSGKSTLLNRIIGEKLSIVTPKVQTTRSIITGIITL-KD--TQVILYDTPGI  110 (339)
T ss_pred             cceeEEEEEcCCCCCHHHHHHHHhCCceeeccCCCCCccCcEEEEEEe-CC--eEEEEEECCCc
Confidence            456799999999999999999999877642 11121222333444555 44  35799999997

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

Probab=99.11  E-value=1.7e-10  Score=77.05  Aligned_cols=57  Identities=21%  Similarity=0.343  Sum_probs=42.4

Q ss_pred             eEEEEEcCCCCCchhhhhhhhhCcCCCCccCCceeEeEEEEEEecCCeEEEEEEEeCCCC
Q psy10878         71 FKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQ  130 (131)
Q Consensus        71 ~ki~vvG~~~vGKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gq  130 (131)
                      ++|+++|.||||||||+|++.+.+......|.+..+.....+.+ ++  ..+.++|+||.
T Consensus         1 i~ialvG~PNvGKStLfN~Ltg~~~~v~n~pG~Tv~~~~g~~~~-~~--~~~~lvDlPG~   57 (156)
T PF02421_consen    1 IRIALVGNPNVGKSTLFNALTGAKQKVGNWPGTTVEKKEGIFKL-GD--QQVELVDLPGI   57 (156)
T ss_dssp             -EEEEEESTTSSHHHHHHHHHTTSEEEEESTTSSSEEEEEEEEE-TT--EEEEEEE----
T ss_pred             CEEEEECCCCCCHHHHHHHHHCCCceecCCCCCCeeeeeEEEEe-cC--ceEEEEECCCc
Confidence            57999999999999999999987765555577777777777777 55  45789999994

FeoB has been identified as part of this transport system and may play a role in the transport of ferrous iron. FeoB is a large 700-800 amino acid integral membrane protein. The N terminus contains a P-loop motif suggesting that iron transport may be ATP dependent [].; GO: 0005525 GTP binding, 0015093 ferrous iron transmembrane transporter activity, 0015684 ferrous iron transport, 0016021 integral to membrane; PDB: 3TAH_B 3B1X_A 3SS8_A 3B1W_C 3B1V_A 3LX5_A 3B1Y_A 3LX8_A 3B1Z_A 3K53_B ....

>cd04155 Arl3 Arl3 subfamily

Probab=99.11  E-value=2.7e-10  Score=76.50  Aligned_cols=56  Identities=29%  Similarity=0.554  Sum_probs=43.9

Q ss_pred             eeEEEEEcCCCCCchhhhhhhhhCcCCCCccCCceeEeEEEEEEecCCeEEEEEEEeCCCCC
Q psy10878         70 LFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQN  131 (131)
Q Consensus        70 ~~ki~vvG~~~vGKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gqe  131 (131)
                      .++++++|.+|+|||||++++.+..+. .+.||.+.++  ..+.+ ++  ..+.+|||+|++
T Consensus        14 ~~~v~i~G~~g~GKStLl~~l~~~~~~-~~~~t~g~~~--~~i~~-~~--~~~~~~D~~G~~   69 (173)
T cd04155          14 EPRILILGLDNAGKTTILKQLASEDIS-HITPTQGFNI--KTVQS-DG--FKLNVWDIGGQR   69 (173)
T ss_pred             ccEEEEEccCCCCHHHHHHHHhcCCCc-ccCCCCCcce--EEEEE-CC--EEEEEEECCCCH
Confidence            689999999999999999999987664 4667777443  34444 44  568999999973

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.

>cd01878 HflX HflX subfamily

Probab=99.10  E-value=1.7e-10  Score=79.75  Aligned_cols=61  Identities=13%  Similarity=0.157  Sum_probs=41.2

Q ss_pred             ceeeEEEEEcCCCCCchhhhhhhhhCcCCCCccCCceeEeEEEEEEecCCeEEEEEEEeCCCC
Q psy10878         68 EKLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQ  130 (131)
Q Consensus        68 ~~~~ki~vvG~~~vGKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gq  130 (131)
                      ...++|+++|.+|||||||++++.+..+.....+....+.....+.+ ++. ..+.+|||+|+
T Consensus        39 ~~~~~I~iiG~~g~GKStLl~~l~~~~~~~~~~~~~t~~~~~~~~~~-~~~-~~~~i~Dt~G~   99 (204)
T cd01878          39 SGIPTVALVGYTNAGKSTLFNALTGADVYAEDQLFATLDPTTRRLRL-PDG-REVLLTDTVGF   99 (204)
T ss_pred             cCCCeEEEECCCCCCHHHHHHHHhcchhccCCccceeccceeEEEEe-cCC-ceEEEeCCCcc
Confidence            34579999999999999999999987643222222222333344444 332 36889999996

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.

>TIGR03156 GTP_HflX GTP-binding protein HflX

Probab=99.09  E-value=2.3e-10  Score=85.66  Aligned_cols=60  Identities=15%  Similarity=0.141  Sum_probs=43.7

Q ss_pred             eeeEEEEEcCCCCCchhhhhhhhhCcCCCCccCCceeEeEEEEEEecCCeEEEEEEEeCCCC
Q psy10878         69 KLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQ  130 (131)
Q Consensus        69 ~~~ki~vvG~~~vGKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gq  130 (131)
                      ..++|+++|.+|||||||+|++.+..+.....+....++....+.+.++  ..+.||||+|+
T Consensus       188 ~~~~ValvG~~NvGKSSLln~L~~~~~~v~~~~~tT~d~~~~~i~~~~~--~~i~l~DT~G~  247 (351)
T TIGR03156       188 DVPTVALVGYTNAGKSTLFNALTGADVYAADQLFATLDPTTRRLDLPDG--GEVLLTDTVGF  247 (351)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhCCceeeccCCccccCCEEEEEEeCCC--ceEEEEecCcc
Confidence            4579999999999999999999987654333333334555666666334  36789999996

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).

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

Probab=99.08  E-value=2.6e-10  Score=79.26  Aligned_cols=58  Identities=19%  Similarity=0.378  Sum_probs=40.9

Q ss_pred             EEEEEcCCCCCchhhhhhhhhCcCCCCccCCceeEeEEEEEEecCCeEEEEEEEeCCCCC
Q psy10878         72 KVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQN  131 (131)
Q Consensus        72 ki~vvG~~~vGKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gqe  131 (131)
                      +++++|++++|||+|+++|..+.+...+.++ ...+....+.. .+....+.||||||++
T Consensus         2 ~vll~G~~~sGKTsL~~~l~~~~~~~t~~s~-~~~~~~~~~~~-~~~~~~~~l~D~pG~~   59 (203)
T cd04105           2 TVLLLGPSDSGKTALFTKLTTGKYRSTVTSI-EPNVATFILNS-EGKGKKFRLVDVPGHP   59 (203)
T ss_pred             eEEEEcCCCCCHHHHHHHHhcCCCCCccCcE-eecceEEEeec-CCCCceEEEEECCCCH
Confidence            5899999999999999999988886655333 32332212211 2345679999999985

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

>KOG1424|consensus

Probab=99.07  E-value=1.5e-10  Score=88.69  Aligned_cols=55  Identities=24%  Similarity=0.288  Sum_probs=42.4

Q ss_pred             eeEEEEEcCCCCCchhhhhhhhhCcCCCCccCCceeEeEEEEEEecCCeEEEEEEEeCCC
Q psy10878         70 LFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAG  129 (131)
Q Consensus        70 ~~ki~vvG~~~vGKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~G  129 (131)
                      .+.|-+||.|||||||.||.+++.+.. +.+.|.|..-.-+++.+..+    +.|.|+||
T Consensus       314 ~vtVG~VGYPNVGKSSTINaLvG~KkV-sVS~TPGkTKHFQTi~ls~~----v~LCDCPG  368 (562)
T KOG1424|consen  314 VVTVGFVGYPNVGKSSTINALVGRKKV-SVSSTPGKTKHFQTIFLSPS----VCLCDCPG  368 (562)
T ss_pred             eeEEEeecCCCCchhHHHHHHhcCcee-eeecCCCCcceeEEEEcCCC----ceecCCCC
Confidence            688999999999999999999976654 45567776555556655233    68999998

>TIGR02528 EutP ethanolamine utilization protein, EutP

Probab=99.07  E-value=1.1e-10  Score=76.09  Aligned_cols=44  Identities=27%  Similarity=0.487  Sum_probs=34.2

Q ss_pred             EEEEEcCCCCCchhhhhhhhhCcCCCCccCCceeEeEEEEEEecCCeEEEEEEEeCCCC
Q psy10878         72 KVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQ  130 (131)
Q Consensus        72 ki~vvG~~~vGKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gq  130 (131)
                      ||+++|++|||||||+++|.++.+  .+.+|.+.++        .+     .+|||||+
T Consensus         2 kv~liG~~~vGKSsL~~~l~~~~~--~~~~t~~~~~--------~~-----~~iDt~G~   45 (142)
T TIGR02528         2 RIMFIGSVGCGKTTLTQALQGEEI--LYKKTQAVEY--------ND-----GAIDTPGE   45 (142)
T ss_pred             eEEEECCCCCCHHHHHHHHcCCcc--ccccceeEEE--------cC-----eeecCchh
Confidence            799999999999999999997765  3445554333        22     58999997

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.

>cd01898 Obg Obg subfamily

Probab=99.06  E-value=3e-10  Score=75.92  Aligned_cols=57  Identities=21%  Similarity=0.215  Sum_probs=36.0

Q ss_pred             EEEEEcCCCCCchhhhhhhhhCcCCCCccCCceeEeEEEEEEecCCeEEEEEEEeCCCC
Q psy10878         72 KVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQ  130 (131)
Q Consensus        72 ki~vvG~~~vGKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gq  130 (131)
                      .|+++|.+|||||||++++.+........+....+.....+.+ ++ ...+.+|||||+
T Consensus         2 ~v~ivG~~~~GKStl~~~l~~~~~~v~~~~~~t~~~~~~~~~~-~~-~~~~~l~DtpG~   58 (170)
T cd01898           2 DVGLVGLPNAGKSTLLSAISNAKPKIADYPFTTLVPNLGVVRV-DD-GRSFVVADIPGL   58 (170)
T ss_pred             CeEEECCCCCCHHHHHHHHhcCCccccCCCccccCCcceEEEc-CC-CCeEEEEecCcc
Confidence            4899999999999999999865542111111111222222333 33 246899999996

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.

>PRK00093 GTP-binding protein Der; Reviewed

Probab=99.05  E-value=4.1e-10  Score=86.22  Aligned_cols=58  Identities=22%  Similarity=0.276  Sum_probs=43.0

Q ss_pred             eEEEEEcCCCCCchhhhhhhhhCcCC-CCccCCceeEeEEEEEEecCCeEEEEEEEeCCCCC
Q psy10878         71 FKVIVIGDPTVGKTSFVQRYVQNTFK-KDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQN  131 (131)
Q Consensus        71 ~ki~vvG~~~vGKSsli~~~~~~~~~-~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gqe  131 (131)
                      .+|+++|.+|||||||+|++.+.+.. ....+.++.+.....+.+ ++  ..+.+|||||++
T Consensus         2 ~~I~ivG~~~vGKStL~n~l~~~~~~~v~~~~~~t~d~~~~~~~~-~~--~~~~liDT~G~~   60 (435)
T PRK00093          2 PVVAIVGRPNVGKSTLFNRLTGKRDAIVADTPGVTRDRIYGEAEW-LG--REFILIDTGGIE   60 (435)
T ss_pred             CEEEEECCCCCCHHHHHHHHhCCCceeeCCCCCCcccceEEEEEE-CC--cEEEEEECCCCC
Confidence            47999999999999999999976542 222344444555556666 55  678999999985

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

Probab=99.05  E-value=5.8e-10  Score=73.18  Aligned_cols=57  Identities=25%  Similarity=0.355  Sum_probs=40.9

Q ss_pred             eEEEEEcCCCCCchhhhhhhhhCcCC-CCccCCceeEeEEEEEEecCCeEEEEEEEeCCCC
Q psy10878         71 FKVIVIGDPTVGKTSFVQRYVQNTFK-KDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQ  130 (131)
Q Consensus        71 ~ki~vvG~~~vGKSsli~~~~~~~~~-~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gq  130 (131)
                      ++++++|++|+|||||++++.+..+. ....+++..++....+.+ ++  ..+.+|||+|.
T Consensus         2 ~~i~l~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~-~~--~~~~i~DtpG~   59 (157)
T cd04164           2 IKVVIVGKPNVGKSSLLNALAGRDRAIVSDIAGTTRDVIEESIDI-GG--IPVRLIDTAGI   59 (157)
T ss_pred             cEEEEECCCCCCHHHHHHHHHCCceEeccCCCCCccceEEEEEEe-CC--EEEEEEECCCc
Confidence            58999999999999999999976542 122344444554455554 43  56899999996

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.

>cd01889 SelB_euk SelB subfamily

Probab=99.05  E-value=2.3e-10  Score=78.53  Aligned_cols=60  Identities=22%  Similarity=0.366  Sum_probs=37.8

Q ss_pred             eEEEEEcCCCCCchhhhhhhhhC----cCCC---CccCCceeEeEEEEEEec-----------CCeEEEEEEEeCCCC
Q psy10878         71 FKVIVIGDPTVGKTSFVQRYVQN----TFKK---DYKGTVGVDFALKIVKWR-----------DQQKIKLQLWDIAGQ  130 (131)
Q Consensus        71 ~ki~vvG~~~vGKSsli~~~~~~----~~~~---~~~~t~~~~~~~~~~~~~-----------~~~~~~l~i~Dt~Gq  130 (131)
                      ++++++|.+++|||||+++|+..    .+..   +..+++..+.....+.+.           ++..+.+.+|||||+
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    1211   112222222222223331           233578999999997

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

>PRK03003 GTP-binding protein Der; Reviewed

Probab=99.05  E-value=5.8e-10  Score=86.42  Aligned_cols=58  Identities=24%  Similarity=0.339  Sum_probs=43.5

Q ss_pred             eEEEEEcCCCCCchhhhhhhhhCcC-CCCccCCceeEeEEEEEEecCCeEEEEEEEeCCCCC
Q psy10878         71 FKVIVIGDPTVGKTSFVQRYVQNTF-KKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQN  131 (131)
Q Consensus        71 ~ki~vvG~~~vGKSsli~~~~~~~~-~~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gqe  131 (131)
                      .+|+++|.+|||||||+|++++..+ .....|+++.+.....+.+ ++.  .+.+|||+|++
T Consensus        39 ~~V~IvG~~nvGKSSL~nrl~~~~~~~v~~~~gvT~d~~~~~~~~-~~~--~~~l~DT~G~~   97 (472)
T PRK03003         39 PVVAVVGRPNVGKSTLVNRILGRREAVVEDVPGVTRDRVSYDAEW-NGR--RFTVVDTGGWE   97 (472)
T ss_pred             CEEEEEcCCCCCHHHHHHHHhCcCcccccCCCCCCEeeEEEEEEE-CCc--EEEEEeCCCcC
Confidence            5899999999999999999997654 2344455555555555666 554  47899999975

>PRK05291 trmE tRNA modification GTPase TrmE; Reviewed

Probab=99.03  E-value=5.3e-10  Score=86.18  Aligned_cols=60  Identities=25%  Similarity=0.311  Sum_probs=45.5

Q ss_pred             eeeEEEEEcCCCCCchhhhhhhhhCcC-CCCccCCceeEeEEEEEEecCCeEEEEEEEeCCCCC
Q psy10878         69 KLFKVIVIGDPTVGKTSFVQRYVQNTF-KKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQN  131 (131)
Q Consensus        69 ~~~ki~vvG~~~vGKSsli~~~~~~~~-~~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gqe  131 (131)
                      ..++++++|.+|+|||||+|++++... .....+.+..++....+.+ +|.  .+.+|||||++
T Consensus       214 ~~~kV~ivG~~nvGKSSLln~L~~~~~a~v~~~~gtT~d~~~~~i~~-~g~--~i~l~DT~G~~  274 (449)
T PRK05291        214 EGLKVVIAGRPNVGKSSLLNALLGEERAIVTDIAGTTRDVIEEHINL-DGI--PLRLIDTAGIR  274 (449)
T ss_pred             cCCEEEEECCCCCCHHHHHHHHhCCCCcccCCCCCcccccEEEEEEE-CCe--EEEEEeCCCCC
Confidence            357999999999999999999997654 2233455555666677777 664  57899999974

>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=99.03  E-value=2.6e-10  Score=77.50  Aligned_cols=58  Identities=26%  Similarity=0.588  Sum_probs=46.8

Q ss_pred             ceeeEEEEEcCCCCCchhhhhhhhhCcCCCCccCCceeEeEEEEEEecCCeEEEEEEEeCCCCC
Q psy10878         68 EKLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQN  131 (131)
Q Consensus        68 ~~~~ki~vvG~~~vGKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gqe  131 (131)
                      ...+||+++|..++||||+++++..+.+. .+.||.|.+  ...+.+ ++  +.+++||.+||+
T Consensus        12 ~~~~~ililGl~~sGKTtll~~l~~~~~~-~~~pT~g~~--~~~i~~-~~--~~~~~~d~gG~~   69 (175)
T PF00025_consen   12 KKEIKILILGLDGSGKTTLLNRLKNGEIS-ETIPTIGFN--IEEIKY-KG--YSLTIWDLGGQE   69 (175)
T ss_dssp             TSEEEEEEEESTTSSHHHHHHHHHSSSEE-EEEEESSEE--EEEEEE-TT--EEEEEEEESSSG
T ss_pred             CcEEEEEEECCCccchHHHHHHhhhcccc-ccCcccccc--cceeee-Cc--EEEEEEeccccc
Confidence            56789999999999999999999876655 477888854  456666 44  568999999984

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 ....

>KOG2484|consensus

Probab=99.02  E-value=2.3e-10  Score=85.39  Aligned_cols=115  Identities=21%  Similarity=0.277  Sum_probs=68.7

Q ss_pred             CCCcEEeeccCCCccccccccccc--------CCCCccccccCCcccccccc--------cccccccCCCcccCCCCCCc
Q psy10878          5 AKKPILLPSASEDPSIDNWDKASW--------ENVTPIVSEQGDGEIIEIID--------PSLKLVRVPSIRKSFNAPPE   68 (131)
Q Consensus         5 ~~kp~vlv~NK~Dl~~~~~~~~~~--------~~~~~is~~~~~~~~~~~~~--------~~~~~~~~~~~~~~~~~~~~   68 (131)
                      .+|..|||+||+|++..+ ...+|        -.+.+.++....+.-...+.        .+.+.+  .++.+  .+.-.
T Consensus       176 gnKkLILVLNK~DLVPrE-v~e~Wl~YLr~~~ptv~fkast~~~~~~~~~~~~s~c~gae~l~~~l--gny~~--~~~lk  250 (435)
T KOG2484|consen  176 GNKKLILVLNKIDLVPRE-VVEKWLVYLRREGPTVAFKASTQMQNSNSKNLQSSVCFGAETLMKVL--GNYCR--KGELK  250 (435)
T ss_pred             CCceEEEEeehhccCCHH-HHHHHHHHHHhhCCcceeecccccccccccccccchhhhHHHHHHHh--cCccc--ccccC
Confidence            459999999999998765 34444        22333333333331111111        112222  22222  22235


Q ss_pred             eeeEEEEEcCCCCCchhhhhhhhhCcCCCCccCCceeEeEEEEEEecCCeEEEEEEEeCCC
Q psy10878         69 KLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAG  129 (131)
Q Consensus        69 ~~~ki~vvG~~~vGKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~G  129 (131)
                      ..+.+-|+|-|||||||+||++...+.- ..-++.|.+...+.+.+ +..   +.|.|.||
T Consensus       251 ~sIrvGViG~PNVGKSSvINsL~~~k~C-~vg~~pGvT~smqeV~L-dk~---i~llDsPg  306 (435)
T KOG2484|consen  251 TSIRVGIIGYPNVGKSSVINSLKRRKAC-NVGNVPGVTRSMQEVKL-DKK---IRLLDSPG  306 (435)
T ss_pred             cceEeeeecCCCCChhHHHHHHHHhccc-cCCCCccchhhhhheec-cCC---ceeccCCc
Confidence            6789999999999999999999866552 22244455555666666 433   68999988

>cd01895 EngA2 EngA2 subfamily

Probab=98.98  E-value=1.4e-09  Score=72.30  Aligned_cols=58  Identities=26%  Similarity=0.315  Sum_probs=39.8

Q ss_pred             eeEEEEEcCCCCCchhhhhhhhhCcCC-CCccCCceeEeEEEEEEecCCeEEEEEEEeCCCC
Q psy10878         70 LFKVIVIGDPTVGKTSFVQRYVQNTFK-KDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQ  130 (131)
Q Consensus        70 ~~ki~vvG~~~vGKSsli~~~~~~~~~-~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gq  130 (131)
                      .++|+++|.+|+|||||++++.+..+. ....++...+.....+.. ++..  +.+|||+|+
T Consensus         2 ~~~i~i~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~--~~iiDtpG~   60 (174)
T cd01895           2 PIRIAIIGRPNVGKSSLVNALLGEERVIVSDIAGTTRDSIDVPFEY-DGKK--YTLIDTAGI   60 (174)
T ss_pred             CcEEEEEcCCCCCHHHHHHHHhCccceeccCCCCCccCceeeEEEE-CCee--EEEEECCCC
Confidence            468999999999999999999876532 222233333333444555 5543  679999995

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.

>KOG4423|consensus

Probab=98.96  E-value=1.6e-12  Score=88.00  Aligned_cols=65  Identities=58%  Similarity=1.059  Sum_probs=59.1

Q ss_pred             CceeeEEEEEcCCCCCchhhhhhhhhCcCCCCccCCceeEeEEEEEEecCCeEEEEEEEeCCCCC
Q psy10878         67 PEKLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQN  131 (131)
Q Consensus        67 ~~~~~ki~vvG~~~vGKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gqe  131 (131)
                      ....+|++|+|+.++|||+++.||+...|...|-.|+|.+|..+.+.+++...++++|||.+|||
T Consensus        22 r~hL~k~lVig~~~vgkts~i~ryv~~nfs~~yRAtIgvdfalkVl~wdd~t~vRlqLwdIagQe   86 (229)
T KOG4423|consen   22 REHLFKVLVIGDLGVGKTSSIKRYVHQNFSYHYRATIGVDFALKVLQWDDKTIVRLQLWDIAGQE   86 (229)
T ss_pred             hhhhhhhheeeeccccchhHHHHHHHHHHHHHHHHHHhHHHHHHHhccChHHHHHHHHhcchhhh
Confidence            35678999999999999999999999999889999999999999999966667899999999997

>KOG0071|consensus

Probab=98.95  E-value=2.2e-09  Score=69.93  Aligned_cols=58  Identities=26%  Similarity=0.572  Sum_probs=47.9

Q ss_pred             ceeeEEEEEcCCCCCchhhhhhhhhCcCCCCccCCceeEeEEEEEEecCCeEEEEEEEeCCCCC
Q psy10878         68 EKLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQN  131 (131)
Q Consensus        68 ~~~~ki~vvG~~~vGKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gqe  131 (131)
                      .++++++++|..++||||++..+.-+... ...||+|  |..+++.+   +.+++++||..||+
T Consensus        15 ~KE~~ilmlGLd~aGKTtiLyKLkl~~~~-~~ipTvG--FnvetVty---kN~kfNvwdvGGqd   72 (180)
T KOG0071|consen   15 NKEMRILMLGLDAAGKTTILYKLKLGQSV-TTIPTVG--FNVETVTY---KNVKFNVWDVGGQD   72 (180)
T ss_pred             cccceEEEEecccCCceehhhHHhcCCCc-ccccccc--eeEEEEEe---eeeEEeeeeccCch
Confidence            34789999999999999999998855443 4568888  66778877   67889999999996

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

Probab=98.95  E-value=2.5e-09  Score=67.66  Aligned_cols=55  Identities=25%  Similarity=0.480  Sum_probs=36.5

Q ss_pred             EEEEEcCCCCCchhhhhhhhhCcC--CCCccCCceeEeEEEEEEecCCeEEEEEEEeCCCC
Q psy10878         72 KVIVIGDPTVGKTSFVQRYVQNTF--KKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQ  130 (131)
Q Consensus        72 ki~vvG~~~vGKSsli~~~~~~~~--~~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gq  130 (131)
                      +|+++|.+|+|||||+|++++...  .....+++. ......+.+ ++..  +.++||||-
T Consensus         1 ~V~iiG~~~~GKSTlin~l~~~~~~~~~~~~~~T~-~~~~~~~~~-~~~~--~~~vDtpG~   57 (116)
T PF01926_consen    1 RVAIIGRPNVGKSTLINALTGKKLAKVSNIPGTTR-DPVYGQFEY-NNKK--FILVDTPGI   57 (116)
T ss_dssp             EEEEEESTTSSHHHHHHHHHTSTSSEESSSTTSSS-SEEEEEEEE-TTEE--EEEEESSSC
T ss_pred             CEEEECCCCCCHHHHHHHHhcccccccccccccee-eeeeeeeee-ceee--EEEEeCCCC
Confidence            589999999999999999997532  222222222 223344555 5554  469999994

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 ....

>cd00882 Ras_like_GTPase Ras-like GTPase superfamily

Probab=98.95  E-value=1.4e-09  Score=69.89  Aligned_cols=55  Identities=45%  Similarity=0.842  Sum_probs=43.0

Q ss_pred             EEcCCCCCchhhhhhhhhCcC-CCCccCCceeEeEEEEEEecCCeEEEEEEEeCCCCC
Q psy10878         75 VIGDPTVGKTSFVQRYVQNTF-KKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQN  131 (131)
Q Consensus        75 vvG~~~vGKSsli~~~~~~~~-~~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gqe  131 (131)
                      ++|.+|+|||||++++.+... ...+.+|. .++....... .+....+.+|||+|++
T Consensus         1 iiG~~~~GKStl~~~l~~~~~~~~~~~~t~-~~~~~~~~~~-~~~~~~~~l~D~~g~~   56 (157)
T cd00882           1 VVGDSGVGKTSLLNRLLGGEFVPEEYETTI-IDFYSKTIEV-DGKKVKLQIWDTAGQE   56 (157)
T ss_pred             CCCcCCCcHHHHHHHHHhCCcCCcccccch-hheeeEEEEE-CCEEEEEEEEecCChH
Confidence            589999999999999997766 45555666 6666666655 5667889999999963

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

>TIGR00436 era GTP-binding protein Era

Probab=98.95  E-value=1.8e-09  Score=78.08  Aligned_cols=55  Identities=16%  Similarity=0.259  Sum_probs=37.1

Q ss_pred             EEEEEcCCCCCchhhhhhhhhCcCCC--CccCCceeEeEEEEEEecCCeEEEEEEEeCCCC
Q psy10878         72 KVIVIGDPTVGKTSFVQRYVQNTFKK--DYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQ  130 (131)
Q Consensus        72 ki~vvG~~~vGKSsli~~~~~~~~~~--~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gq  130 (131)
                      +++++|.+|||||||+|++++..+..  ....|+. +. ...+...++  ..+.+|||||+
T Consensus         2 ~V~liG~pnvGKSTLln~L~~~~~~~vs~~~~TTr-~~-i~~i~~~~~--~qii~vDTPG~   58 (270)
T TIGR00436         2 FVAILGRPNVGKSTLLNQLHGQKISITSPKAQTTR-NR-ISGIHTTGA--SQIIFIDTPGF   58 (270)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCcEeecCCCCCccc-Cc-EEEEEEcCC--cEEEEEECcCC
Confidence            68999999999999999999876531  2223333 22 223322132  45889999996

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

>cd01876 YihA_EngB The YihA (EngB) subfamily

Probab=98.94  E-value=1.5e-09  Score=71.68  Aligned_cols=53  Identities=21%  Similarity=0.337  Sum_probs=40.9

Q ss_pred             EEEEcCCCCCchhhhhhhhhCcCCCCccCCceeEeEEEEEEecCCeEEEEEEEeCCC
Q psy10878         73 VIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAG  129 (131)
Q Consensus        73 i~vvG~~~vGKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~G  129 (131)
                      ++++|.+|+|||||++.+.++.+.....++.+.......+.. ++   .+.+|||+|
T Consensus         2 i~l~G~~g~GKTtL~~~l~~~~~~~~~~~~~~~t~~~~~~~~-~~---~~~~~D~~g   54 (170)
T cd01876           2 IAFAGRSNVGKSSLINALTNRKKLARTSKTPGKTQLINFFNV-ND---KFRLVDLPG   54 (170)
T ss_pred             EEEEcCCCCCHHHHHHHHhcCCceeeecCCCCcceeEEEEEc-cC---eEEEecCCC
Confidence            789999999999999999976666666677665554444444 33   689999998

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=98.94  E-value=2.3e-09  Score=70.58  Aligned_cols=58  Identities=17%  Similarity=0.243  Sum_probs=37.5

Q ss_pred             eeEEEEEcCCCCCchhhhhhhhhCcCCCCc-cCCceeEeEEEEEEecCCeEEEEEEEeCCCC
Q psy10878         70 LFKVIVIGDPTVGKTSFVQRYVQNTFKKDY-KGTVGVDFALKIVKWRDQQKIKLQLWDIAGQ  130 (131)
Q Consensus        70 ~~ki~vvG~~~vGKSsli~~~~~~~~~~~~-~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gq  130 (131)
                      ..+|+++|.+|+|||||++++++....... .+...... .....  ....+.+.+|||+|.
T Consensus         3 ~~~i~~~G~~g~GKttl~~~l~~~~~~~~~~~~~~~~~~-~~~~~--~~~~~~~~liDtpG~   61 (168)
T cd04163           3 SGFVAIVGRPNVGKSTLLNALVGQKISIVSPKPQTTRNR-IRGIY--TDDDAQIIFVDTPGI   61 (168)
T ss_pred             eeEEEEECCCCCCHHHHHHHHhCCceEeccCCCCceece-EEEEE--EcCCeEEEEEECCCC
Confidence            568999999999999999999876543211 11111111 12221  223467889999996

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.

>COG0486 ThdF Predicted GTPase [General function prediction only]

Probab=98.94  E-value=2.3e-09  Score=81.60  Aligned_cols=61  Identities=23%  Similarity=0.279  Sum_probs=49.0

Q ss_pred             CceeeEEEEEcCCCCCchhhhhhhhhCcC-CCCccCCceeEeEEEEEEecCCeEEEEEEEeCCCC
Q psy10878         67 PEKLFKVIVIGDPTVGKTSFVQRYVQNTF-KKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQ  130 (131)
Q Consensus        67 ~~~~~ki~vvG~~~vGKSsli~~~~~~~~-~~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gq  130 (131)
                      -...+|++++|.||||||||+|.+++.+. .....|.+..|+....+.+ +|.  .+.|.||||.
T Consensus       214 lr~G~kvvIiG~PNvGKSSLLNaL~~~d~AIVTdI~GTTRDviee~i~i-~G~--pv~l~DTAGi  275 (454)
T COG0486         214 LREGLKVVIIGRPNVGKSSLLNALLGRDRAIVTDIAGTTRDVIEEDINL-NGI--PVRLVDTAGI  275 (454)
T ss_pred             hhcCceEEEECCCCCcHHHHHHHHhcCCceEecCCCCCccceEEEEEEE-CCE--EEEEEecCCc
Confidence            44678999999999999999999996544 4455577777887888888 775  4789999994

>TIGR03594 GTPase_EngA ribosome-associated GTPase EngA

Probab=98.92  E-value=2.4e-09  Score=81.78  Aligned_cols=56  Identities=23%  Similarity=0.351  Sum_probs=40.5

Q ss_pred             EEEEEcCCCCCchhhhhhhhhCcCC-CCccCCceeEeEEEEEEecCCeEEEEEEEeCCCC
Q psy10878         72 KVIVIGDPTVGKTSFVQRYVQNTFK-KDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQ  130 (131)
Q Consensus        72 ki~vvG~~~vGKSsli~~~~~~~~~-~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gq  130 (131)
                      +|+++|.+|||||||+|++.+.+.. ....|++..+.....+.+ ++.  .+.+|||||.
T Consensus         1 ~i~ivG~~nvGKStL~n~l~~~~~~~v~~~~g~t~d~~~~~~~~-~~~--~~~liDTpG~   57 (429)
T TIGR03594         1 VVAIVGRPNVGKSTLFNRLTGKRDAIVSDTPGVTRDRKYGDAEW-GGR--EFILIDTGGI   57 (429)
T ss_pred             CEEEECCCCCCHHHHHHHHhCCCcceecCCCCcccCceEEEEEE-CCe--EEEEEECCCC
Confidence            4899999999999999999976542 222344444555556666 554  4899999995

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.

>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=3.1e-09  Score=75.41  Aligned_cols=55  Identities=24%  Similarity=0.483  Sum_probs=37.9

Q ss_pred             EEEEEcCCCCCchhhhhhhhhCcCC-CCccCCceeEeEEEEEEecCCeEEEEEEEeCCCC
Q psy10878         72 KVIVIGDPTVGKTSFVQRYVQNTFK-KDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQ  130 (131)
Q Consensus        72 ki~vvG~~~vGKSsli~~~~~~~~~-~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gq  130 (131)
                      +++++|.+|+|||||++++.+.... ..+..+ ..+.....+.+ ++  ..+++|||||+
T Consensus         2 ~v~lvG~~~~GKStLl~~Ltg~~~~v~~~~~t-T~~~~~g~~~~-~~--~~i~l~DtpG~   57 (233)
T cd01896           2 RVALVGFPSVGKSTLLSKLTNTKSEVAAYEFT-TLTCVPGVLEY-KG--AKIQLLDLPGI   57 (233)
T ss_pred             EEEEECCCCCCHHHHHHHHHCCCccccCCCCc-cccceEEEEEE-CC--eEEEEEECCCc
Confidence            6899999999999999999975432 223222 22333344555 44  46899999997

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.

>KOG2485|consensus

Probab=98.90  E-value=9.2e-10  Score=80.04  Aligned_cols=117  Identities=15%  Similarity=0.177  Sum_probs=61.6

Q ss_pred             CCcEEeeccCCCccccccc---cccc-----CCCCcccccc--CCcccccccccccccccCCCcccCCCCCCceeeEEEE
Q psy10878          6 KKPILLPSASEDPSIDNWD---KASW-----ENVTPIVSEQ--GDGEIIEIIDPSLKLVRVPSIRKSFNAPPEKLFKVIV   75 (131)
Q Consensus         6 ~kp~vlv~NK~Dl~~~~~~---~~~~-----~~~~~is~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ki~v   75 (131)
                      .||.++|+||+||.+....   ...+     ..++..+...  ..+ +.+++..+....   ....++.......+.++|
T Consensus        73 ~k~riiVlNK~DLad~~~~k~~iq~~~~~~~~~~~~~~c~~~~~~~-v~~l~~il~~~~---~~l~r~irt~~~~~~vmV  148 (335)
T KOG2485|consen   73 PKPRIIVLNKMDLADPKEQKKIIQYLEWQNLESYIKLDCNKDCNKQ-VSPLLKILTILS---EELVRFIRTLNSEYNVMV  148 (335)
T ss_pred             CCceEEEEecccccCchhhhHHHHHHHhhcccchhhhhhhhhhhhc-cccHHHHHHHHH---HHHHHhhcccCCceeEEE
Confidence            6899999999999873211   1222     3333333322  112 333322211110   111112233556789999


Q ss_pred             EcCCCCCchhhhhhhhhCcC------CCCccCCceeEeEEEE-EEecCCeEEEEEEEeCCCC
Q psy10878         76 IGDPTVGKTSFVQRYVQNTF------KKDYKGTVGVDFALKI-VKWRDQQKIKLQLWDIAGQ  130 (131)
Q Consensus        76 vG~~~vGKSsli~~~~~~~~------~~~~~~t~~~~~~~~~-~~~~~~~~~~l~i~Dt~Gq  130 (131)
                      +|.||||||||+|.......      .....|.+...  +.. +.+.+...  +.+.||+|-
T Consensus       149 vGvPNVGKSsLINa~r~~~Lrk~k~a~vG~~pGVT~~--V~~~iri~~rp~--vy~iDTPGi  206 (335)
T KOG2485|consen  149 VGVPNVGKSSLINALRNVHLRKKKAARVGAEPGVTRR--VSERIRISHRPP--VYLIDTPGI  206 (335)
T ss_pred             EcCCCCChHHHHHHHHHHHhhhccceeccCCCCceee--ehhheEeccCCc--eEEecCCCc
Confidence            99999999999997664221      11222333322  222 34423322  689999993

>cd01894 EngA1 EngA1 subfamily

Probab=98.90  E-value=3e-09  Score=69.85  Aligned_cols=54  Identities=24%  Similarity=0.410  Sum_probs=37.1

Q ss_pred             EEEcCCCCCchhhhhhhhhCc--CCCCccCCceeEeEEEEEEecCCeEEEEEEEeCCCCC
Q psy10878         74 IVIGDPTVGKTSFVQRYVQNT--FKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQN  131 (131)
Q Consensus        74 ~vvG~~~vGKSsli~~~~~~~--~~~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gqe  131 (131)
                      +++|.+|+|||||++++++..  +...+ +.+..+.......+ ++  ..+.+|||||++
T Consensus         1 ~l~G~~~~GKssl~~~l~~~~~~~~~~~-~~~t~~~~~~~~~~-~~--~~~~i~DtpG~~   56 (157)
T cd01894           1 AIVGRPNVGKSTLFNRLTGRRDAIVEDT-PGVTRDRIYGEAEW-GG--REFILIDTGGIE   56 (157)
T ss_pred             CccCCCCCCHHHHHHHHhCCcEEeecCC-CCceeCceeEEEEE-CC--eEEEEEECCCCC
Confidence            479999999999999999764  23333 33333344445544 44  568999999974

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.

>TIGR00487 IF-2 translation initiation factor IF-2

Probab=98.89  E-value=4.6e-09  Score=83.29  Aligned_cols=62  Identities=19%  Similarity=0.279  Sum_probs=47.1

Q ss_pred             ceeeEEEEEcCCCCCchhhhhhhhhCcCCCCccCCceeEeEEEEEEecCCeEEEEEEEeCCCCC
Q psy10878         68 EKLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQN  131 (131)
Q Consensus        68 ~~~~ki~vvG~~~vGKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gqe  131 (131)
                      .+..+++++|..++|||||++++.+.++...+.+++..++....+.+.++.  .+.||||||++
T Consensus        85 ~r~p~V~I~Ghvd~GKTSLl~~l~~~~v~~~e~~GIT~~ig~~~v~~~~~~--~i~~iDTPGhe  146 (587)
T TIGR00487        85 ERPPVVTIMGHVDHGKTSLLDSIRKTKVAQGEAGGITQHIGAYHVENEDGK--MITFLDTPGHE  146 (587)
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHHhCCcccccCCceeecceEEEEEECCCc--EEEEEECCCCc
Confidence            345689999999999999999999888876665666555555556552232  68999999986

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.

>PRK11058 GTPase HflX; Provisional

Probab=98.89  E-value=2.8e-09  Score=81.66  Aligned_cols=58  Identities=17%  Similarity=0.155  Sum_probs=41.3

Q ss_pred             eEEEEEcCCCCCchhhhhhhhhCcCCCCccCCceeEeEEEEEEecCCeEEEEEEEeCCCC
Q psy10878         71 FKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQ  130 (131)
Q Consensus        71 ~ki~vvG~~~vGKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gq  130 (131)
                      .+++++|.+|||||||+|++.+..+.....+..+.+.....+.+ .+. ..+.+|||+|+
T Consensus       198 p~ValVG~~NaGKSSLlN~Lt~~~~~v~~~~~tTld~~~~~i~l-~~~-~~~~l~DTaG~  255 (426)
T PRK11058        198 PTVSLVGYTNAGKSTLFNRITEARVYAADQLFATLDPTLRRIDV-ADV-GETVLADTVGF  255 (426)
T ss_pred             CEEEEECCCCCCHHHHHHHHhCCceeeccCCCCCcCCceEEEEe-CCC-CeEEEEecCcc
Confidence            48999999999999999999976654333344444555556655 332 14679999996

>cd04104 p47_IIGP_like p47 (47-kDa) family

Probab=98.88  E-value=2.1e-09  Score=74.34  Aligned_cols=60  Identities=22%  Similarity=0.454  Sum_probs=37.3

Q ss_pred             eEEEEEcCCCCCchhhhhhhhhCcCCCCccCCcee-EeEEEEEEecCCeEEEEEEEeCCCC
Q psy10878         71 FKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGV-DFALKIVKWRDQQKIKLQLWDIAGQ  130 (131)
Q Consensus        71 ~ki~vvG~~~vGKSsli~~~~~~~~~~~~~~t~~~-~~~~~~~~~~~~~~~~l~i~Dt~Gq  130 (131)
                      +||+++|.+|+|||||+|.+++..+.....++++. ........+.......+.+|||+|+
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            68999999999999999999976554333333331 1111111111111235899999996

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

>PRK09518 bifunctional cytidylate kinase/GTPase Der; Reviewed

Probab=98.87  E-value=6.3e-09  Score=84.28  Aligned_cols=62  Identities=24%  Similarity=0.363  Sum_probs=43.8

Q ss_pred             CceeeEEEEEcCCCCCchhhhhhhhhCcCC-CCccCCceeEeEEEEEEecCCeEEEEEEEeCCCCC
Q psy10878         67 PEKLFKVIVIGDPTVGKTSFVQRYVQNTFK-KDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQN  131 (131)
Q Consensus        67 ~~~~~ki~vvG~~~vGKSsli~~~~~~~~~-~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gqe  131 (131)
                      +....+|+++|.+|||||||+|++++..+. ....|++..+.......+ ++  ..+.+|||+|++
T Consensus       272 ~~~~~~V~IvG~~nvGKSSL~n~l~~~~~~iv~~~pGvT~d~~~~~~~~-~~--~~~~liDT~G~~  334 (712)
T PRK09518        272 PKAVGVVAIVGRPNVGKSTLVNRILGRREAVVEDTPGVTRDRVSYDAEW-AG--TDFKLVDTGGWE  334 (712)
T ss_pred             cccCcEEEEECCCCCCHHHHHHHHhCCCceeecCCCCeeEEEEEEEEEE-CC--EEEEEEeCCCcC
Confidence            344568999999999999999999976542 233355554554444455 44  457899999974

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

Probab=98.86  E-value=2e-09  Score=72.17  Aligned_cols=52  Identities=25%  Similarity=0.400  Sum_probs=34.2

Q ss_pred             EEcCCCCCchhhhhhhhhCcC-CCCccCCceeEeEEEEEEecC-CeEEEEEEEeCCCC
Q psy10878         75 VIGDPTVGKTSFVQRYVQNTF-KKDYKGTVGVDFALKIVKWRD-QQKIKLQLWDIAGQ  130 (131)
Q Consensus        75 vvG~~~vGKSsli~~~~~~~~-~~~~~~t~~~~~~~~~~~~~~-~~~~~l~i~Dt~Gq  130 (131)
                      ++|.+|||||||++++.+..+ ...+..+ ..+.....+.+ + +  ..+.+|||||+
T Consensus         1 iiG~~~~GKStll~~l~~~~~~~~~~~~~-t~~~~~~~~~~-~~~--~~~~i~DtpG~   54 (176)
T cd01881           1 LVGLPNVGKSTLLNALTNAKPKVANYPFT-TLEPNLGVVEV-PDG--ARIQVADIPGL   54 (176)
T ss_pred             CCCCCCCcHHHHHHHHhcCCccccCCCce-eecCcceEEEc-CCC--CeEEEEecccc
Confidence            589999999999999998764 2233222 22222333444 3 4  45799999996

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

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

Probab=98.84  E-value=7.9e-09  Score=74.06  Aligned_cols=60  Identities=18%  Similarity=0.229  Sum_probs=39.6

Q ss_pred             CceeeEEEEEcCCCCCchhhhhhhhhCcCCC--CccCCceeEeEEEEEEecCCeEEEEEEEeCCCC
Q psy10878         67 PEKLFKVIVIGDPTVGKTSFVQRYVQNTFKK--DYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQ  130 (131)
Q Consensus        67 ~~~~~ki~vvG~~~vGKSsli~~~~~~~~~~--~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gq  130 (131)
                      ....++|+++|.+|||||||+|++++.....  .+.++.. ........+ ++  ..+.+|||||-
T Consensus        28 ~~~~~~IllvG~tGvGKSSliNaLlg~~~~~v~~~~~~T~-~~~~~~~~~-~g--~~i~vIDTPGl   89 (249)
T cd01853          28 LDFSLTILVLGKTGVGKSSTINSIFGERKAATSAFQSETL-RVREVSGTV-DG--FKLNIIDTPGL   89 (249)
T ss_pred             ccCCeEEEEECCCCCcHHHHHHHHhCCCCcccCCCCCceE-EEEEEEEEE-CC--eEEEEEECCCc
Confidence            4557899999999999999999999765422  2222221 221222233 44  46899999994

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.

>PRK09554 feoB ferrous iron transport protein B; Reviewed

Probab=98.83  E-value=1.1e-08  Score=83.35  Aligned_cols=59  Identities=19%  Similarity=0.237  Sum_probs=41.9

Q ss_pred             eeEEEEEcCCCCCchhhhhhhhhCcCCCCccCCceeEeEEEEEEecCCeEEEEEEEeCCCCC
Q psy10878         70 LFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQN  131 (131)
Q Consensus        70 ~~ki~vvG~~~vGKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gqe  131 (131)
                      .++|+++|.+|||||||+|++.+.+......|.+..+.....+.+   ....+++|||||+.
T Consensus         3 ~~~IaLvG~pNvGKSTLfN~Ltg~~~~vgn~pGvTve~k~g~~~~---~~~~i~lvDtPG~y   61 (772)
T PRK09554          3 KLTIGLIGNPNSGKTTLFNQLTGARQRVGNWAGVTVERKEGQFST---TDHQVTLVDLPGTY   61 (772)
T ss_pred             ceEEEEECCCCCCHHHHHHHHhCCCCccCCCCCceEeeEEEEEEc---CceEEEEEECCCcc
Confidence            468999999999999999999876553333344444443334433   44668999999973

>cd00881 GTP_translation_factor GTP translation factor family

Probab=98.82  E-value=6.5e-09  Score=70.29  Aligned_cols=57  Identities=19%  Similarity=0.375  Sum_probs=38.3

Q ss_pred             EEEEEcCCCCCchhhhhhhhhCcCCCCccC----------------CceeEeEEEEEEecCCeEEEEEEEeCCCCC
Q psy10878         72 KVIVIGDPTVGKTSFVQRYVQNTFKKDYKG----------------TVGVDFALKIVKWRDQQKIKLQLWDIAGQN  131 (131)
Q Consensus        72 ki~vvG~~~vGKSsli~~~~~~~~~~~~~~----------------t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gqe  131 (131)
                      +|+++|.+|+|||||++++++..+...+.+                ++..+.....+.+   ....+.+|||||++
T Consensus         1 ~v~v~G~~~~GKStlln~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~---~~~~~~liDtpG~~   73 (189)
T cd00881           1 NVGIAGHVDHGKTTLTERLLYVTGDIERDGTVEETFLDVLKEERERGITIKSGVATFEW---PDRRVNFIDTPGHE   73 (189)
T ss_pred             CEEEEeCCCCCHHHHHHHHHHhcCCCCcCCceecccccCCHHHHHcCCCeecceEEEee---CCEEEEEEeCCCcH
Confidence            489999999999999999998766543322                1122222233333   24678999999973

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.

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

Probab=98.82  E-value=1.1e-08  Score=75.00  Aligned_cols=60  Identities=18%  Similarity=0.303  Sum_probs=39.1

Q ss_pred             CceeeEEEEEcCCCCCchhhhhhhhhCcCC--CCccCCceeEeEEEEEEecCCeEEEEEEEeCCCC
Q psy10878         67 PEKLFKVIVIGDPTVGKTSFVQRYVQNTFK--KDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQ  130 (131)
Q Consensus        67 ~~~~~ki~vvG~~~vGKSsli~~~~~~~~~--~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gq  130 (131)
                      ....++|+++|.+||||||++|++++.+..  ..+.+ .+.........+ +|  ..+.+|||||.
T Consensus        35 ~~~~~rIllvGktGVGKSSliNsIlG~~v~~vs~f~s-~t~~~~~~~~~~-~G--~~l~VIDTPGL   96 (313)
T TIGR00991        35 DVSSLTILVMGKGGVGKSSTVNSIIGERIATVSAFQS-EGLRPMMVSRTR-AG--FTLNIIDTPGL   96 (313)
T ss_pred             cccceEEEEECCCCCCHHHHHHHHhCCCcccccCCCC-cceeEEEEEEEE-CC--eEEEEEECCCC
Confidence            345789999999999999999999976532  12212 121111112223 44  56899999995

>TIGR00437 feoB ferrous iron transporter FeoB

Probab=98.80  E-value=1.1e-08  Score=81.27  Aligned_cols=52  Identities=17%  Similarity=0.282  Sum_probs=41.9

Q ss_pred             cCCCCCchhhhhhhhhCcCCCCccCCceeEeEEEEEEecCCeEEEEEEEeCCCCC
Q psy10878         77 GDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQN  131 (131)
Q Consensus        77 G~~~vGKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gqe  131 (131)
                      |.+|||||||+|++.+..+...+.|+++.+.....+.+ ++.  .+++|||||++
T Consensus         1 G~pNvGKSSL~N~Ltg~~~~v~n~pG~Tv~~~~~~i~~-~~~--~i~lvDtPG~~   52 (591)
T TIGR00437         1 GNPNVGKSTLFNALTGANQTVGNWPGVTVEKKEGKLGF-QGE--DIEIVDLPGIY   52 (591)
T ss_pred             CCCCCCHHHHHHHHhCCCCeecCCCCeEEEEEEEEEEE-CCe--EEEEEECCCcc
Confidence            89999999999999987775556677777776667776 554  47899999985

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.

>PRK00089 era GTPase Era; Reviewed

Probab=98.79  E-value=1.8e-08  Score=73.43  Aligned_cols=59  Identities=19%  Similarity=0.252  Sum_probs=37.9

Q ss_pred             eeeEEEEEcCCCCCchhhhhhhhhCcCCC-CccCCceeEeEEEEEEecCCeEEEEEEEeCCCC
Q psy10878         69 KLFKVIVIGDPTVGKTSFVQRYVQNTFKK-DYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQ  130 (131)
Q Consensus        69 ~~~ki~vvG~~~vGKSsli~~~~~~~~~~-~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gq  130 (131)
                      +.-.|+++|.+|+|||||+|++++..... +..+.+.... ...+.. .+ ...+.+|||||.
T Consensus         4 ~~g~V~iiG~pn~GKSTLin~L~g~~~~~vs~~~~tt~~~-i~~i~~-~~-~~qi~~iDTPG~   63 (292)
T PRK00089          4 KSGFVAIVGRPNVGKSTLLNALVGQKISIVSPKPQTTRHR-IRGIVT-ED-DAQIIFVDTPGI   63 (292)
T ss_pred             eeEEEEEECCCCCCHHHHHHHHhCCceeecCCCCCccccc-EEEEEE-cC-CceEEEEECCCC
Confidence            34579999999999999999999776532 2222222122 222221 22 267899999995

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

Probab=98.79  E-value=2.9e-08  Score=72.31  Aligned_cols=60  Identities=20%  Similarity=0.381  Sum_probs=40.1

Q ss_pred             eeeEEEEEcCCCCCchhhhhhhhhCcCCCCc----------cCCceeEeEEEEEEecCCeEEEEEEEeCCC
Q psy10878         69 KLFKVIVIGDPTVGKTSFVQRYVQNTFKKDY----------KGTVGVDFALKIVKWRDQQKIKLQLWDIAG  129 (131)
Q Consensus        69 ~~~ki~vvG~~~vGKSsli~~~~~~~~~~~~----------~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~G  129 (131)
                      ..++++|+|.+|+|||||+|.+++.......          ..+.........+.- ++..+.|.++||+|
T Consensus         3 ~~fnImVvG~sG~GKTTFIntL~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~l~e-~~~~l~LtiiDTpG   72 (281)
T PF00735_consen    3 FNFNIMVVGESGLGKTTFINTLFNSDIISEDSSIPPPSASISRTLEIEERTVELEE-NGVKLNLTIIDTPG   72 (281)
T ss_dssp             EEEEEEEEECTTSSHHHHHHHHHTSS---------S------SCEEEEEEEEEEEE-TCEEEEEEEEEEC-
T ss_pred             ceEEEEEECCCCCCHHHHHHHHHhcccccccccccccccccccccceeeEEEEecc-CCcceEEEEEeCCC
Confidence            3689999999999999999999875443221          123333333333443 77889999999998

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.

>KOG2423|consensus

Probab=98.78  E-value=1.1e-09  Score=82.03  Aligned_cols=110  Identities=18%  Similarity=0.201  Sum_probs=68.0

Q ss_pred             CCCcEEeeccCCCccccccccccc----CCCCc-----cccccCCcccccccccccccccCCCcccCCCCCCceeeEEEE
Q psy10878          5 AKKPILLPSASEDPSIDNWDKASW----ENVTP-----IVSEQGDGEIIEIIDPSLKLVRVPSIRKSFNAPPEKLFKVIV   75 (131)
Q Consensus         5 ~~kp~vlv~NK~Dl~~~~~~~~~~----~~~~~-----is~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ki~v   75 (131)
                      ..|..++|+||+||+.-. ..+.|    ..-+|     .|-.+..| -+.++..+.++..+.        .....+.+-+
T Consensus       243 phKHli~vLNKvDLVPtw-vt~~Wv~~lSkeyPTiAfHAsi~nsfG-KgalI~llRQf~kLh--------~dkkqISVGf  312 (572)
T KOG2423|consen  243 PHKHLIYVLNKVDLVPTW-VTAKWVRHLSKEYPTIAFHASINNSFG-KGALIQLLRQFAKLH--------SDKKQISVGF  312 (572)
T ss_pred             CcceeEEEeeccccccHH-HHHHHHHHHhhhCcceeeehhhcCccc-hhHHHHHHHHHHhhc--------cCccceeeee
Confidence            457789999999998654 33333    22222     23333345 556665555444332        2445788999


Q ss_pred             EcCCCCCchhhhhhhhhCcCCCCccCCceeEeEEEEEEecCCeEEEEEEEeCCC
Q psy10878         76 IGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAG  129 (131)
Q Consensus        76 vG~~~vGKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~G  129 (131)
                      ||.||+||||+||.+...... ...|-.|..-..+.+.+ -   -++-+.|+||
T Consensus       313 iGYPNvGKSSiINTLR~KkVC-kvAPIpGETKVWQYItL-m---krIfLIDcPG  361 (572)
T KOG2423|consen  313 IGYPNVGKSSIINTLRKKKVC-KVAPIPGETKVWQYITL-M---KRIFLIDCPG  361 (572)
T ss_pred             ecCCCCchHHHHHHHhhcccc-cccCCCCcchHHHHHHH-H---hceeEecCCC
Confidence            999999999999999876664 34455554332222222 1   2256889888

>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=98.77  E-value=4.1e-09  Score=70.70  Aligned_cols=46  Identities=24%  Similarity=0.377  Sum_probs=36.9

Q ss_pred             CCCCccccccCCcccccccccccccccCCCcccCCCCCCceeeEEEEEcCCCCCchhhhhhhhhC
Q psy10878         29 ENVTPIVSEQGDGEIIEIIDPSLKLVRVPSIRKSFNAPPEKLFKVIVIGDPTVGKTSFVQRYVQN   93 (131)
Q Consensus        29 ~~~~~is~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ki~vvG~~~vGKSsli~~~~~~   93 (131)
                      .+++.+|+.++.+ +.++.+.+...                  .++++|.+|||||||+|.+...
T Consensus        13 y~v~~~S~~~~~g-~~~l~~~l~~k------------------~~vl~G~SGvGKSSLiN~L~~~   58 (161)
T PF03193_consen   13 YPVFFISAKTGEG-IEELKELLKGK------------------TSVLLGQSGVGKSSLINALLPE   58 (161)
T ss_dssp             SEEEE-BTTTTTT-HHHHHHHHTTS------------------EEEEECSTTSSHHHHHHHHHTS
T ss_pred             CcEEEEeCCCCcC-HHHHHHHhcCC------------------EEEEECCCCCCHHHHHHHHHhh
Confidence            5678999999999 87775554443                  3899999999999999999865

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.

>TIGR00475 selB selenocysteine-specific elongation factor SelB

Probab=98.77  E-value=1.5e-08  Score=80.37  Aligned_cols=58  Identities=16%  Similarity=0.350  Sum_probs=45.7

Q ss_pred             eEEEEEcCCCCCchhhhhhhhh---CcCCCCccCCceeEeEEEEEEecCCeEEEEEEEeCCCCC
Q psy10878         71 FKVIVIGDPTVGKTSFVQRYVQ---NTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQN  131 (131)
Q Consensus        71 ~ki~vvG~~~vGKSsli~~~~~---~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gqe  131 (131)
                      +.|+++|..++|||||++++.+   +.+.+++.++++.++....+.+ ++  ..+.+|||||+|
T Consensus         1 ~~I~iiG~~d~GKTTLi~aLtg~~~d~~~eE~~rGiTid~~~~~~~~-~~--~~v~~iDtPGhe   61 (581)
T TIGR00475         1 MIIATAGHVDHGKTTLLKALTGIAADRLPEEKKRGMTIDLGFAYFPL-PD--YRLGFIDVPGHE   61 (581)
T ss_pred             CEEEEECCCCCCHHHHHHHHhCccCcCChhHhcCCceEEeEEEEEEe-CC--EEEEEEECCCHH
Confidence            3689999999999999999985   4455566677777776666766 44  678999999975

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.

>TIGR01393 lepA GTP-binding protein LepA

Probab=98.76  E-value=1.9e-08  Score=79.95  Aligned_cols=61  Identities=18%  Similarity=0.364  Sum_probs=41.3

Q ss_pred             eEEEEEcCCCCCchhhhhhhhhCc-------CCCCccCC------ceeEeEEEE--EEec--CCeEEEEEEEeCCCCC
Q psy10878         71 FKVIVIGDPTVGKTSFVQRYVQNT-------FKKDYKGT------VGVDFALKI--VKWR--DQQKIKLQLWDIAGQN  131 (131)
Q Consensus        71 ~ki~vvG~~~vGKSsli~~~~~~~-------~~~~~~~t------~~~~~~~~~--~~~~--~~~~~~l~i~Dt~Gqe  131 (131)
                      -+++++|..++|||||+++|+...       +...+..+      .|.++..+.  +.+.  ++..+.++||||||++
T Consensus         4 RNi~IIGh~d~GKTTL~~rLl~~~g~i~~~~~~~~~~D~~~~ErerGiTi~~~~v~~~~~~~~g~~~~l~liDTPG~~   81 (595)
T TIGR01393         4 RNFSIIAHIDHGKSTLADRLLEYTGAISEREMREQVLDSMDLERERGITIKAQAVRLNYKAKDGETYVLNLIDTPGHV   81 (595)
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHcCCCccccccccccCCChHHHhcCCCeeeeEEEEEEEcCCCCEEEEEEEECCCcH
Confidence            379999999999999999998541       22223222      244443333  2231  4667899999999984

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.

>cd01899 Ygr210 Ygr210 subfamily

Probab=98.74  E-value=2.2e-08  Score=74.12  Aligned_cols=57  Identities=23%  Similarity=0.394  Sum_probs=38.9

Q ss_pred             EEEEcCCCCCchhhhhhhhhCcCC------CCccCCceeEeEEEE---------------EEecCC-eEEEEEEEeCCCC
Q psy10878         73 VIVIGDPTVGKTSFVQRYVQNTFK------KDYKGTVGVDFALKI---------------VKWRDQ-QKIKLQLWDIAGQ  130 (131)
Q Consensus        73 i~vvG~~~vGKSsli~~~~~~~~~------~~~~~t~~~~~~~~~---------------~~~~~~-~~~~l~i~Dt~Gq  130 (131)
                      +.++|.||||||||+|++.+..+.      ..+.|++|..+....               ..+ ++ ..+.+++|||||+
T Consensus         1 i~ivG~pnvGKStLfn~lt~~~~~~~~~pftT~~p~~g~~~~~~~~~~~r~~~~~~~~~~~~~-~~~~~v~i~l~D~aGl   79 (318)
T cd01899           1 IGLVGKPNAGKSTFFNAATLADVEIANYPFTTIDPNVGVGYVRVECPCKELGVSCNPRYGKCI-DGKRYVPVELIDVAGL   79 (318)
T ss_pred             CEEECCCCCCHHHHHHHHhCCCCcccCCCCccccceeEEEEEecCCCchhhhhhhcccccccc-cCcCcceEEEEECCCC
Confidence            478999999999999999977643      233466665443210               112 33 3467999999997

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.

>KOG0074|consensus

Probab=98.73  E-value=4.1e-08  Score=64.19  Aligned_cols=59  Identities=29%  Similarity=0.622  Sum_probs=47.9

Q ss_pred             ceeeEEEEEcCCCCCchhhhhhhhhCcCCCCccCCceeEeEEEEEEecCCeEEEEEEEeCCCCC
Q psy10878         68 EKLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQN  131 (131)
Q Consensus        68 ~~~~ki~vvG~~~vGKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gqe  131 (131)
                      ...+++.++|-.++|||+|+.++.... +....||-|  |..+.+.+ +| .+.|++||..||.
T Consensus        15 ~rEirilllGldnAGKTT~LKqL~sED-~~hltpT~G--Fn~k~v~~-~g-~f~LnvwDiGGqr   73 (185)
T KOG0074|consen   15 RREIRILLLGLDNAGKTTFLKQLKSED-PRHLTPTNG--FNTKKVEY-DG-TFHLNVWDIGGQR   73 (185)
T ss_pred             cceEEEEEEecCCCcchhHHHHHccCC-hhhccccCC--cceEEEee-cC-cEEEEEEecCCcc
Confidence            468999999999999999999987544 335567877  66788877 54 5889999999983

>PRK05306 infB translation initiation factor IF-2; Validated

Probab=98.72  E-value=4.1e-08  Score=80.03  Aligned_cols=62  Identities=18%  Similarity=0.216  Sum_probs=46.3

Q ss_pred             CceeeEEEEEcCCCCCchhhhhhhhhCcCCCCccCCceeEeEEEEEEecCCeEEEEEEEeCCCCC
Q psy10878         67 PEKLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQN  131 (131)
Q Consensus        67 ~~~~~ki~vvG~~~vGKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gqe  131 (131)
                      ..+...|+++|..++|||||++++....+.....+++..+.....+.+ ++  ..++||||||++
T Consensus       287 ~~R~pvV~ImGhvd~GKTSLl~~Lr~~~v~~~e~~GIT~~iga~~v~~-~~--~~ItfiDTPGhe  348 (787)
T PRK05306        287 VPRPPVVTIMGHVDHGKTSLLDAIRKTNVAAGEAGGITQHIGAYQVET-NG--GKITFLDTPGHE  348 (787)
T ss_pred             ccCCCEEEEECCCCCCHHHHHHHHHhCCccccccCceeeeccEEEEEE-CC--EEEEEEECCCCc
Confidence            445668999999999999999999887776554454444444445555 44  468899999985

>TIGR02729 Obg_CgtA Obg family GTPase CgtA

Probab=98.71  E-value=3.7e-08  Score=73.25  Aligned_cols=57  Identities=26%  Similarity=0.324  Sum_probs=37.5

Q ss_pred             eEEEEEcCCCCCchhhhhhhhhCcCC-CCccCCceeEeEEEEEEecCCeEEEEEEEeCCCC
Q psy10878         71 FKVIVIGDPTVGKTSFVQRYVQNTFK-KDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQ  130 (131)
Q Consensus        71 ~ki~vvG~~~vGKSsli~~~~~~~~~-~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gq  130 (131)
                      ..|+++|.+|||||||++++...+.. ..|.-| ........+.+ ++ ...+.||||||+
T Consensus       158 adV~lvG~pnaGKSTLl~~lt~~~~~va~y~fT-T~~p~ig~v~~-~~-~~~~~i~D~PGl  215 (329)
T TIGR02729       158 ADVGLVGLPNAGKSTLISAVSAAKPKIADYPFT-TLVPNLGVVRV-DD-GRSFVIADIPGL  215 (329)
T ss_pred             ccEEEEcCCCCCHHHHHHHHhcCCccccCCCCC-ccCCEEEEEEe-CC-ceEEEEEeCCCc
Confidence            46899999999999999999865432 223212 22222333444 33 256799999996

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

>COG1160 Predicted GTPases [General function prediction only]

Probab=98.69  E-value=2.4e-08  Score=75.93  Aligned_cols=57  Identities=23%  Similarity=0.352  Sum_probs=44.1

Q ss_pred             EEEEEcCCCCCchhhhhhhhhCcC-CCCccCCceeEeEEEEEEecCCeEEEEEEEeCCCCC
Q psy10878         72 KVIVIGDPTVGKTSFVQRYVQNTF-KKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQN  131 (131)
Q Consensus        72 ki~vvG~~~vGKSsli~~~~~~~~-~~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gqe  131 (131)
                      .|+++|.||||||||.||+++.+. ..+..|.+..|.......+ .+..  +.+.||+|-|
T Consensus         5 ~VAIVGRPNVGKSTLFNRL~g~r~AIV~D~pGvTRDr~y~~~~~-~~~~--f~lIDTgGl~   62 (444)
T COG1160           5 VVAIVGRPNVGKSTLFNRLTGRRIAIVSDTPGVTRDRIYGDAEW-LGRE--FILIDTGGLD   62 (444)
T ss_pred             EEEEECCCCCcHHHHHHHHhCCeeeEeecCCCCccCCccceeEE-cCce--EEEEECCCCC
Confidence            699999999999999999997655 3344466666666677777 5554  8899999954

>cd04167 Snu114p Snu114p subfamily

Probab=98.68  E-value=4.6e-08  Score=68.33  Aligned_cols=60  Identities=18%  Similarity=0.289  Sum_probs=37.8

Q ss_pred             EEEEEcCCCCCchhhhhhhhhCcCCCC-----------cc------CCceeEeE--EEEEEec--CCeEEEEEEEeCCCC
Q psy10878         72 KVIVIGDPTVGKTSFVQRYVQNTFKKD-----------YK------GTVGVDFA--LKIVKWR--DQQKIKLQLWDIAGQ  130 (131)
Q Consensus        72 ki~vvG~~~vGKSsli~~~~~~~~~~~-----------~~------~t~~~~~~--~~~~~~~--~~~~~~l~i~Dt~Gq  130 (131)
                      +++++|..++|||||+.+++...+...           +.      ...+..+.  ...+.+.  ++..+.+++|||||+
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            589999999999999999986443221           00      11112221  1222221  355788999999998


Q ss_pred             C
Q psy10878        131 N  131 (131)
Q Consensus       131 e  131 (131)
                      +
T Consensus        82 ~   82 (213)
T cd04167          82 V   82 (213)
T ss_pred             c
Confidence            4

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.

>cd01852 AIG1 AIG1 (avrRpt2-induced gene 1)

Probab=98.68  E-value=2.8e-08  Score=68.51  Aligned_cols=56  Identities=14%  Similarity=0.326  Sum_probs=36.5

Q ss_pred             EEEEEcCCCCCchhhhhhhhhCcCC-CCc-cCCceeEeEEEEEEecCCeEEEEEEEeCCCC
Q psy10878         72 KVIVIGDPTVGKTSFVQRYVQNTFK-KDY-KGTVGVDFALKIVKWRDQQKIKLQLWDIAGQ  130 (131)
Q Consensus        72 ki~vvG~~~vGKSsli~~~~~~~~~-~~~-~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gq  130 (131)
                      +|+++|.+|+|||||+|.+++.... ... .+............+ ++.  .+.++||||-
T Consensus         2 ~i~lvG~~g~GKSsl~N~ilg~~~~~~~~~~~~~T~~~~~~~~~~-~~~--~i~viDTPG~   59 (196)
T cd01852           2 RLVLVGKTGAGKSATGNTILGREVFESKLSASSVTKTCQKESAVW-DGR--RVNVIDTPGL   59 (196)
T ss_pred             EEEEECCCCCCHHHHHHHhhCCCccccccCCCCcccccceeeEEE-CCe--EEEEEECcCC
Confidence            6999999999999999999976432 221 111222222333344 443  5789999994

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).

>PRK12296 obgE GTPase CgtA; Reviewed

Probab=98.68  E-value=4.3e-08  Score=76.26  Aligned_cols=57  Identities=19%  Similarity=0.211  Sum_probs=38.8

Q ss_pred             eEEEEEcCCCCCchhhhhhhhhCcCCCCccCCceeEeEEEEEEecCCeEEEEEEEeCCCC
Q psy10878         71 FKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQ  130 (131)
Q Consensus        71 ~ki~vvG~~~vGKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gq  130 (131)
                      ..|++||.||+|||||++++.+.+......|.+......-.+.+ ++  ..+.||||||.
T Consensus       160 adV~LVG~PNAGKSTLln~Ls~akpkIadypfTTl~P~lGvv~~-~~--~~f~laDtPGl  216 (500)
T PRK12296        160 ADVGLVGFPSAGKSSLISALSAAKPKIADYPFTTLVPNLGVVQA-GD--TRFTVADVPGL  216 (500)
T ss_pred             ceEEEEEcCCCCHHHHHHHHhcCCccccccCcccccceEEEEEE-CC--eEEEEEECCCC
Confidence            47999999999999999999865443222233333333444544 33  46899999994

>PRK09602 translation-associated GTPase; Reviewed

Probab=98.67  E-value=6.6e-08  Score=73.55  Aligned_cols=26  Identities=23%  Similarity=0.519  Sum_probs=23.4

Q ss_pred             eEEEEEcCCCCCchhhhhhhhhCcCC
Q psy10878         71 FKVIVIGDPTVGKTSFVQRYVQNTFK   96 (131)
Q Consensus        71 ~ki~vvG~~~vGKSsli~~~~~~~~~   96 (131)
                      +++.++|.||||||||+|++.+..+.
T Consensus         2 ~kigivG~pnvGKSTlfn~Lt~~~~~   27 (396)
T PRK09602          2 ITIGLVGKPNVGKSTFFNAATLADVE   27 (396)
T ss_pred             cEEEEECCCCCCHHHHHHHHhCCccc
Confidence            58999999999999999999977664

>KOG1423|consensus

Probab=98.66  E-value=1e-07  Score=69.53  Aligned_cols=63  Identities=24%  Similarity=0.369  Sum_probs=42.9

Q ss_pred             CCCCCceeeEEEEEcCCCCCchhhhhhhhhCcCCCC-c-cCCceeEeEEEEEEecCCeEEEEEEEeCCC
Q psy10878         63 FNAPPEKLFKVIVIGDPTVGKTSFVQRYVQNTFKKD-Y-KGTVGVDFALKIVKWRDQQKIKLQLWDIAG  129 (131)
Q Consensus        63 ~~~~~~~~~ki~vvG~~~vGKSsli~~~~~~~~~~~-~-~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~G  129 (131)
                      .+....+.+.++++|.||||||+|.|.+++.+.... . ..|+.... .-.+   ......+.++||||
T Consensus        65 de~e~~k~L~vavIG~PNvGKStLtN~mig~kv~~vS~K~~TTr~~i-lgi~---ts~eTQlvf~DTPG  129 (379)
T KOG1423|consen   65 DEEEAQKSLYVAVIGAPNVGKSTLTNQMIGQKVSAVSRKVHTTRHRI-LGII---TSGETQLVFYDTPG  129 (379)
T ss_pred             CchhcceEEEEEEEcCCCcchhhhhhHhhCCccccccccccceeeee-eEEE---ecCceEEEEecCCc
Confidence            345567889999999999999999999998765421 1 12322222 1222   22346789999999

>CHL00189 infB translation initiation factor 2; Provisional

Probab=98.66  E-value=3.8e-08  Score=79.70  Aligned_cols=63  Identities=14%  Similarity=0.258  Sum_probs=44.4

Q ss_pred             ceeeEEEEEcCCCCCchhhhhhhhhCcCCCCccCCceeE--eEEEEEEecCCeEEEEEEEeCCCCC
Q psy10878         68 EKLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVD--FALKIVKWRDQQKIKLQLWDIAGQN  131 (131)
Q Consensus        68 ~~~~ki~vvG~~~vGKSsli~~~~~~~~~~~~~~t~~~~--~~~~~~~~~~~~~~~l~i~Dt~Gqe  131 (131)
                      .+...|+++|..++|||||++++....+.....+++..+  .....+.. ++....+.||||||++
T Consensus       242 ~r~p~V~IvGhvdvGKTSLld~L~~~~~~~~e~~GiTq~i~~~~v~~~~-~~~~~kItfiDTPGhe  306 (742)
T CHL00189        242 NRPPIVTILGHVDHGKTTLLDKIRKTQIAQKEAGGITQKIGAYEVEFEY-KDENQKIVFLDTPGHE  306 (742)
T ss_pred             ccCCEEEEECCCCCCHHHHHHHHHhccCccccCCccccccceEEEEEEe-cCCceEEEEEECCcHH
Confidence            455689999999999999999999877765444333322  22223333 4456789999999974

>COG3596 Predicted GTPase [General function prediction only]

Probab=98.66  E-value=1.5e-08  Score=72.86  Aligned_cols=62  Identities=27%  Similarity=0.510  Sum_probs=39.1

Q ss_pred             CceeeEEEEEcCCCCCchhhhhhhhhCcCCCCccCCceeEeEEE-EEEecCCeEEEEEEEeCCCCC
Q psy10878         67 PEKLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALK-IVKWRDQQKIKLQLWDIAGQN  131 (131)
Q Consensus        67 ~~~~~ki~vvG~~~vGKSsli~~~~~~~~~~~~~~t~~~~~~~~-~~~~~~~~~~~l~i~Dt~Gqe  131 (131)
                      ....++++++|.+|+||||++|++..+...+...-.++.+.... ...+ +++  .+.||||||-+
T Consensus        36 ~~~pvnvLi~G~TG~GKSSliNALF~~~~~~v~~vg~~t~~~~~~~~~~-~~~--~l~lwDtPG~g   98 (296)
T COG3596          36 EKEPVNVLLMGATGAGKSSLINALFQGEVKEVSKVGVGTDITTRLRLSY-DGE--NLVLWDTPGLG   98 (296)
T ss_pred             ccCceeEEEecCCCCcHHHHHHHHHhccCceeeecccCCCchhhHHhhc-ccc--ceEEecCCCcc
Confidence            34568999999999999999999986554332211222222111 1122 443  47899999953

>KOG1191|consensus

Probab=98.65  E-value=3.9e-08  Score=75.39  Aligned_cols=59  Identities=20%  Similarity=0.222  Sum_probs=45.4

Q ss_pred             eeeEEEEEcCCCCCchhhhhhhhhCcC-CCCccCCceeEeEEEEEEecCCeEEEEEEEeCCCC
Q psy10878         69 KLFKVIVIGDPTVGKTSFVQRYVQNTF-KKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQ  130 (131)
Q Consensus        69 ~~~ki~vvG~~~vGKSsli~~~~~~~~-~~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gq  130 (131)
                      ..++++++|.||||||||+|.+...+. ..+..|.+..|.....+++ +|.  .+.|.||||-
T Consensus       267 ~gl~iaIvGrPNvGKSSLlNaL~~~drsIVSpv~GTTRDaiea~v~~-~G~--~v~L~DTAGi  326 (531)
T KOG1191|consen  267 SGLQIAIVGRPNVGKSSLLNALSREDRSIVSPVPGTTRDAIEAQVTV-NGV--PVRLSDTAGI  326 (531)
T ss_pred             cCCeEEEEcCCCCCHHHHHHHHhcCCceEeCCCCCcchhhheeEeec-CCe--EEEEEecccc
Confidence            458999999999999999999996554 3455566666666667776 775  4679999993

>cd00880 Era_like Era (E

Probab=98.63  E-value=5.3e-08  Score=63.25  Aligned_cols=55  Identities=15%  Similarity=0.136  Sum_probs=35.1

Q ss_pred             EEcCCCCCchhhhhhhhhCcCC-CCccCCceeEeEEEEEEecCCeEEEEEEEeCCCCC
Q psy10878         75 VIGDPTVGKTSFVQRYVQNTFK-KDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQN  131 (131)
Q Consensus        75 vvG~~~vGKSsli~~~~~~~~~-~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gqe  131 (131)
                      ++|.+|+|||||++++.+.... ....+............. + ....+.+|||+|++
T Consensus         1 i~G~~gsGKstl~~~l~~~~~~~~~~~~~~~~~~~~~~~~~-~-~~~~~~~~Dt~g~~   56 (163)
T cd00880           1 LFGRTNAGKSSLLNALLGQEVAIVSPVPGTTTDPVEYVWEL-G-PLGPVVLIDTPGID   56 (163)
T ss_pred             CcCCCCCCHHHHHHHHhCccccccCCCCCcEECCeEEEEEe-c-CCCcEEEEECCCCC
Confidence            5899999999999999865443 222233232333333332 2 14568999999963

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

>COG0218 Predicted GTPase [General function prediction only]

Probab=98.63  E-value=8.3e-08  Score=66.10  Aligned_cols=57  Identities=23%  Similarity=0.346  Sum_probs=41.4

Q ss_pred             eeeEEEEEcCCCCCchhhhhhhhhCcCCCCccCCceeEeEEEEEEecCCeEEEEEEEeCCC
Q psy10878         69 KLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAG  129 (131)
Q Consensus        69 ~~~ki~vvG~~~vGKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~G  129 (131)
                      ...-|+++|.+|||||||+|.+++..-......|.|.+....-+.+ ++.   +.+.|.||
T Consensus        23 ~~~EIaF~GRSNVGKSSlIN~l~~~k~LArtSktPGrTq~iNff~~-~~~---~~lVDlPG   79 (200)
T COG0218          23 DLPEIAFAGRSNVGKSSLINALTNQKNLARTSKTPGRTQLINFFEV-DDE---LRLVDLPG   79 (200)
T ss_pred             CCcEEEEEccCcccHHHHHHHHhCCcceeecCCCCCccceeEEEEe-cCc---EEEEeCCC
Confidence            4456999999999999999999986633344456665554445555 443   67999998

>PRK12299 obgE GTPase CgtA; Reviewed

Probab=98.63  E-value=8.4e-08  Score=71.52  Aligned_cols=56  Identities=25%  Similarity=0.351  Sum_probs=36.7

Q ss_pred             EEEEEcCCCCCchhhhhhhhhCcCC-CCccCCceeEeEEEEEEecCCeEEEEEEEeCCCC
Q psy10878         72 KVIVIGDPTVGKTSFVQRYVQNTFK-KDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQ  130 (131)
Q Consensus        72 ki~vvG~~~vGKSsli~~~~~~~~~-~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gq  130 (131)
                      .|.+||.||||||||++++...+.. ..| |.+......-.+.+.++  ..+.+|||||+
T Consensus       160 dVglVG~PNaGKSTLln~ls~a~~~va~y-pfTT~~p~~G~v~~~~~--~~~~i~D~PGl  216 (335)
T PRK12299        160 DVGLVGLPNAGKSTLISAVSAAKPKIADY-PFTTLHPNLGVVRVDDY--KSFVIADIPGL  216 (335)
T ss_pred             CEEEEcCCCCCHHHHHHHHHcCCCccCCC-CCceeCceEEEEEeCCC--cEEEEEeCCCc
Confidence            5899999999999999999865432 223 22232333334444222  35789999995

>KOG0075|consensus

Probab=98.62  E-value=3.4e-08  Score=64.91  Aligned_cols=60  Identities=25%  Similarity=0.513  Sum_probs=48.8

Q ss_pred             CceeeEEEEEcCCCCCchhhhhhhhhCcCCCCccCCceeEeEEEEEEecCCeEEEEEEEeCCCCC
Q psy10878         67 PEKLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQN  131 (131)
Q Consensus        67 ~~~~~ki~vvG~~~vGKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gqe  131 (131)
                      ....+.+.++|..++|||||.|..+.+.+.+...||+|.+.  ..+   +...+.+.+||.+||-
T Consensus        17 ~k~emel~lvGLq~sGKtt~Vn~ia~g~~~edmiptvGfnm--rk~---tkgnvtiklwD~gGq~   76 (186)
T KOG0075|consen   17 WKEEMELSLVGLQNSGKTTLVNVIARGQYLEDMIPTVGFNM--RKV---TKGNVTIKLWDLGGQP   76 (186)
T ss_pred             HHheeeEEEEeeccCCcceEEEEEeeccchhhhccccccee--EEe---ccCceEEEEEecCCCc
Confidence            34567899999999999999999999899988889999544  444   3345788999999983

>COG1159 Era GTPase [General function prediction only]

Probab=98.60  E-value=9.5e-08  Score=69.32  Aligned_cols=59  Identities=20%  Similarity=0.256  Sum_probs=39.4

Q ss_pred             eeeEEEEEcCCCCCchhhhhhhhhCcCC-CCccCCceeEeEEEEEEecCCeEEEEEEEeCCCC
Q psy10878         69 KLFKVIVIGDPTVGKTSFVQRYVQNTFK-KDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQ  130 (131)
Q Consensus        69 ~~~ki~vvG~~~vGKSsli~~~~~~~~~-~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gq  130 (131)
                      +.-.++++|.||||||||+|++++.... .+..|.+.... .+.+.. ++ ..++-+.||||-
T Consensus         5 ksGfVaIiGrPNvGKSTLlN~l~G~KisIvS~k~QTTR~~-I~GI~t-~~-~~QiIfvDTPGi   64 (298)
T COG1159           5 KSGFVAIIGRPNVGKSTLLNALVGQKISIVSPKPQTTRNR-IRGIVT-TD-NAQIIFVDTPGI   64 (298)
T ss_pred             eEEEEEEEcCCCCcHHHHHHHHhcCceEeecCCcchhhhh-eeEEEE-cC-CceEEEEeCCCC
Confidence            4557999999999999999999987652 23333333222 333332 22 466789999993

>PTZ00258 GTP-binding protein; Provisional

Probab=98.59  E-value=9.8e-08  Score=72.30  Aligned_cols=62  Identities=23%  Similarity=0.297  Sum_probs=40.6

Q ss_pred             ceeeEEEEEcCCCCCchhhhhhhhhCcCCCCccCCceeEeEEEEEEecCCe--------------EEEEEEEeCCC
Q psy10878         68 EKLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQ--------------KIKLQLWDIAG  129 (131)
Q Consensus        68 ~~~~ki~vvG~~~vGKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~--------------~~~l~i~Dt~G  129 (131)
                      ...+++.++|.||||||||+|++.+........|..+.+...-.+.+.+..              ...+++.||||
T Consensus        19 ~~~~kvgIVG~PNvGKSTLfnaLt~~~~~v~n~pftTi~p~~g~v~~~d~r~~~l~~~~~~~~~~~aqi~lvDtpG   94 (390)
T PTZ00258         19 GNNLKMGIVGLPNVGKSTTFNALCKQQVPAENFPFCTIDPNTARVNVPDERFDWLCKHFKPKSIVPAQLDITDIAG   94 (390)
T ss_pred             CCCcEEEEECCCCCChHHHHHHHhcCcccccCCCCCcccceEEEEecccchhhHHHHHcCCcccCCCCeEEEECCC
Confidence            356799999999999999999997655433333444433333334332211              23589999999

>PRK12297 obgE GTPase CgtA; Reviewed

Probab=98.58  E-value=1.4e-07  Score=72.30  Aligned_cols=56  Identities=25%  Similarity=0.312  Sum_probs=36.5

Q ss_pred             EEEEEcCCCCCchhhhhhhhhCcCC-CCccCCceeEeEEEEEEecCCeEEEEEEEeCCCC
Q psy10878         72 KVIVIGDPTVGKTSFVQRYVQNTFK-KDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQ  130 (131)
Q Consensus        72 ki~vvG~~~vGKSsli~~~~~~~~~-~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gq  130 (131)
                      .|+++|.||||||||++++.+.+.. ..| |.+......-.+.+.++  ..+.+|||||.
T Consensus       160 dVglVG~pNaGKSTLLn~Lt~ak~kIa~y-pfTTl~PnlG~v~~~~~--~~~~laD~PGl  216 (424)
T PRK12297        160 DVGLVGFPNVGKSTLLSVVSNAKPKIANY-HFTTLVPNLGVVETDDG--RSFVMADIPGL  216 (424)
T ss_pred             cEEEEcCCCCCHHHHHHHHHcCCCccccC-CcceeceEEEEEEEeCC--ceEEEEECCCC
Confidence            6999999999999999999965532 222 22222222223333112  45889999995

>PRK10218 GTP-binding protein; Provisional

Probab=98.58  E-value=2.1e-07  Score=74.18  Aligned_cols=61  Identities=21%  Similarity=0.354  Sum_probs=43.7

Q ss_pred             eeEEEEEcCCCCCchhhhhhhhh--CcCCCCc------------cCCceeEeEEEEEEecCCeEEEEEEEeCCCCC
Q psy10878         70 LFKVIVIGDPTVGKTSFVQRYVQ--NTFKKDY------------KGTVGVDFALKIVKWRDQQKIKLQLWDIAGQN  131 (131)
Q Consensus        70 ~~ki~vvG~~~vGKSsli~~~~~--~~~~~~~------------~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gqe  131 (131)
                      ..+|+++|..++|||||+.+|+.  +.|...+            ..+.+.++..+...+ +...+++++|||||++
T Consensus         5 iRnIaIiGh~d~GKTTLv~~Ll~~~g~~~~~~~~~~~v~D~~~~E~erGiTi~~~~~~i-~~~~~~inliDTPG~~   79 (607)
T PRK10218          5 LRNIAIIAHVDHGKTTLVDKLLQQSGTFDSRAETQERVMDSNDLEKERGITILAKNTAI-KWNDYRINIVDTPGHA   79 (607)
T ss_pred             ceEEEEECCCCCcHHHHHHHHHHhcCCcccccccceeeeccccccccCceEEEEEEEEE-ecCCEEEEEEECCCcc
Confidence            45899999999999999999996  4443221            234555555555444 4456889999999984

>cd04169 RF3 RF3 subfamily

Probab=98.57  E-value=1.5e-07  Score=68.07  Aligned_cols=21  Identities=24%  Similarity=0.563  Sum_probs=19.6

Q ss_pred             EEEEEcCCCCCchhhhhhhhh
Q psy10878         72 KVIVIGDPTVGKTSFVQRYVQ   92 (131)
Q Consensus        72 ki~vvG~~~vGKSsli~~~~~   92 (131)
                      +|+++|.+|+|||||+++++.
T Consensus         4 ni~ivGh~~~GKTTL~e~ll~   24 (267)
T cd04169           4 TFAIISHPDAGKTTLTEKLLL   24 (267)
T ss_pred             EEEEEcCCCCCHHHHHHHHHH
Confidence            699999999999999999874

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.

>PRK15467 ethanolamine utilization protein EutP; Provisional

Probab=98.57  E-value=7.2e-08  Score=64.45  Aligned_cols=21  Identities=19%  Similarity=0.401  Sum_probs=19.3

Q ss_pred             EEEEEcCCCCCchhhhhhhhh
Q psy10878         72 KVIVIGDPTVGKTSFVQRYVQ   92 (131)
Q Consensus        72 ki~vvG~~~vGKSsli~~~~~   92 (131)
                      +|+++|.+|+|||||+|++.+
T Consensus         3 ~i~~iG~~~~GKstl~~~l~~   23 (158)
T PRK15467          3 RIAFVGAVGAGKTTLFNALQG   23 (158)
T ss_pred             EEEEECCCCCCHHHHHHHHcC
Confidence            699999999999999999764

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

Probab=98.56  E-value=1e-07  Score=75.65  Aligned_cols=60  Identities=22%  Similarity=0.200  Sum_probs=37.7

Q ss_pred             EEEEEcCCCCCchhhhhhhhhCcCCCC----ccCCceeEeEEEEEEe------cCCeE-----EEEEEEeCCCCC
Q psy10878         72 KVIVIGDPTVGKTSFVQRYVQNTFKKD----YKGTVGVDFALKIVKW------RDQQK-----IKLQLWDIAGQN  131 (131)
Q Consensus        72 ki~vvG~~~vGKSsli~~~~~~~~~~~----~~~t~~~~~~~~~~~~------~~~~~-----~~l~i~Dt~Gqe  131 (131)
                      -|+++|.+++|||||++++.+..+...    +.+++|..+.......      .....     ..+.||||||||
T Consensus         6 iV~IiG~~d~GKTSLln~l~~~~v~~~e~ggiTq~iG~~~v~~~~~~~~~~~~~~~~~v~~~~~~l~~iDTpG~e   80 (590)
T TIGR00491         6 IVSVLGHVDHGKTTLLDKIRGSAVAKREAGGITQHIGATEIPMDVIEGICGDLLKKFKIRLKIPGLLFIDTPGHE   80 (590)
T ss_pred             EEEEECCCCCCHHHHHHHHhccccccccCCceecccCeeEeeeccccccccccccccccccccCcEEEEECCCcH
Confidence            499999999999999999998766533    2234444332111100      00011     238899999986

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.

>COG1084 Predicted GTPase [General function prediction only]

Probab=98.54  E-value=2.2e-07  Score=68.31  Aligned_cols=61  Identities=20%  Similarity=0.253  Sum_probs=41.4

Q ss_pred             CceeeEEEEEcCCCCCchhhhhhhhhCcCCCCccCCceeEeEEEEEEecCCeEEEEEEEeCCCC
Q psy10878         67 PEKLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQ  130 (131)
Q Consensus        67 ~~~~~ki~vvG~~~vGKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gq  130 (131)
                      ......+++.|.||||||||++.+.+-+-.....|-+.-....-.+..   ...++|+.||||-
T Consensus       165 dp~~pTivVaG~PNVGKSSlv~~lT~AkpEvA~YPFTTK~i~vGhfe~---~~~R~QvIDTPGl  225 (346)
T COG1084         165 DPDLPTIVVAGYPNVGKSSLVRKLTTAKPEVAPYPFTTKGIHVGHFER---GYLRIQVIDTPGL  225 (346)
T ss_pred             CCCCCeEEEecCCCCcHHHHHHHHhcCCCccCCCCccccceeEeeeec---CCceEEEecCCcc
Confidence            334568999999999999999998865543332343333344444433   3357899999993

>cd04168 TetM_like Tet(M)-like subfamily

Probab=98.53  E-value=2e-07  Score=66.33  Aligned_cols=21  Identities=14%  Similarity=0.349  Sum_probs=19.3

Q ss_pred             EEEEEcCCCCCchhhhhhhhh
Q psy10878         72 KVIVIGDPTVGKTSFVQRYVQ   92 (131)
Q Consensus        72 ki~vvG~~~vGKSsli~~~~~   92 (131)
                      +++++|..++|||||+++++.
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=98.51  E-value=2.5e-07  Score=70.94  Aligned_cols=62  Identities=24%  Similarity=0.318  Sum_probs=41.4

Q ss_pred             CceeeEEEEEcCCCCCchhhhhhhhhCcC-C------------------------------CCccCCceeEeEEEEEEec
Q psy10878         67 PEKLFKVIVIGDPTVGKTSFVQRYVQNTF-K------------------------------KDYKGTVGVDFALKIVKWR  115 (131)
Q Consensus        67 ~~~~~ki~vvG~~~vGKSsli~~~~~~~~-~------------------------------~~~~~t~~~~~~~~~~~~~  115 (131)
                      +...++++++|.+++|||||+++++...- .                              ++..+.+..+.....+.. 
T Consensus         3 ~k~~~~v~iiGh~d~GKSTL~~~Ll~~~g~i~~~~~~~~~~~~~~~g~~~~~~~~~~D~~~~Er~rG~T~d~~~~~~~~-   81 (425)
T PRK12317          3 EKPHLNLAVIGHVDHGKSTLVGRLLYETGAIDEHIIEELREEAKEKGKESFKFAWVMDRLKEERERGVTIDLAHKKFET-   81 (425)
T ss_pred             CCCEEEEEEECCCCCChHHHHHHHHHHcCCcCHHHHHHHHHHHHhcCCcccchhhhhccCHhHhhcCccceeeeEEEec-
Confidence            34568999999999999999999983211 0                              111233444444444443 


Q ss_pred             CCeEEEEEEEeCCCCC
Q psy10878        116 DQQKIKLQLWDIAGQN  131 (131)
Q Consensus       116 ~~~~~~l~i~Dt~Gqe  131 (131)
                        ..+.+.||||||++
T Consensus        82 --~~~~i~liDtpG~~   95 (425)
T PRK12317         82 --DKYYFTIVDCPGHR   95 (425)
T ss_pred             --CCeEEEEEECCCcc
Confidence              44678999999975

>PRK12298 obgE GTPase CgtA; Reviewed

Probab=98.50  E-value=2.7e-07  Score=70.10  Aligned_cols=57  Identities=23%  Similarity=0.262  Sum_probs=36.5

Q ss_pred             EEEEEcCCCCCchhhhhhhhhCcCCCCccCCceeEeEEEEEEecCCeEEEEEEEeCCCC
Q psy10878         72 KVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQ  130 (131)
Q Consensus        72 ki~vvG~~~vGKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gq  130 (131)
                      .|.+||.||||||||+|++.+.+......|.+......-.+.+.++  ..+.++||||.
T Consensus       161 dValVG~PNaGKSTLln~Lt~~k~~vs~~p~TT~~p~~Giv~~~~~--~~i~~vDtPGi  217 (390)
T PRK12298        161 DVGLLGLPNAGKSTFIRAVSAAKPKVADYPFTTLVPNLGVVRVDDE--RSFVVADIPGL  217 (390)
T ss_pred             cEEEEcCCCCCHHHHHHHHhCCcccccCCCCCccCcEEEEEEeCCC--cEEEEEeCCCc
Confidence            5899999999999999999865443222232222222333433222  34789999995

>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=98.50  E-value=1.3e-07  Score=66.10  Aligned_cols=54  Identities=17%  Similarity=0.230  Sum_probs=33.2

Q ss_pred             eEEEEEcCCCCCchhhhhhhhhCcCCCCc----cCCceeEeEEEEEEecCCeEEEEEEEeCCC
Q psy10878         71 FKVIVIGDPTVGKTSFVQRYVQNTFKKDY----KGTVGVDFALKIVKWRDQQKIKLQLWDIAG  129 (131)
Q Consensus        71 ~ki~vvG~~~vGKSsli~~~~~~~~~~~~----~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~G  129 (131)
                      ++|+++|.+|+||||++|.+++.......    ..|....  .....+ +|.  .+.++||||
T Consensus         1 l~IlllG~tGsGKSs~~N~ilg~~~f~~~~~~~~~t~~~~--~~~~~~-~g~--~v~VIDTPG   58 (212)
T PF04548_consen    1 LRILLLGKTGSGKSSLGNSILGKEVFKSGSSAKSVTQECQ--KYSGEV-DGR--QVTVIDTPG   58 (212)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHTSS-SS--TTTSS--SS-E--EEEEEE-TTE--EEEEEE--S
T ss_pred             CEEEEECCCCCCHHHHHHHHhcccceeeccccCCcccccc--eeeeee-cce--EEEEEeCCC
Confidence            47999999999999999999976543222    1222222  223344 664  468999998

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 ....

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

Probab=98.49  E-value=2e-07  Score=69.29  Aligned_cols=63  Identities=19%  Similarity=0.370  Sum_probs=47.4

Q ss_pred             CCceeeEEEEEcCCCCCchhhhhhhhhCcCCCC----------ccCCceeEeEEEEEEecCCeEEEEEEEeCCC
Q psy10878         66 PPEKLFKVIVIGDPTVGKTSFVQRYVQNTFKKD----------YKGTVGVDFALKIVKWRDQQKIKLQLWDIAG  129 (131)
Q Consensus        66 ~~~~~~ki~vvG~~~vGKSsli~~~~~~~~~~~----------~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~G  129 (131)
                      .....+.++++|.+|.|||||+|.+++......          ..+++........+.- +|..+.|++.||+|
T Consensus        19 k~Gi~f~im~~G~sG~GKttfiNtL~~~~l~~~~~~~~~~~~~~~~~~~i~~~~~~l~e-~~~~~~l~vIDtpG   91 (373)
T COG5019          19 KKGIDFTIMVVGESGLGKTTFINTLFGTSLVDETEIDDIRAEGTSPTLEIKITKAELEE-DGFHLNLTVIDTPG   91 (373)
T ss_pred             hcCCceEEEEecCCCCchhHHHHhhhHhhccCCCCccCcccccCCcceEEEeeeeeeec-CCeEEEEEEeccCC
Confidence            346678999999999999999999997633222          2355555555555543 78889999999999

>KOG3883|consensus

Probab=98.48  E-value=3.4e-07  Score=60.67  Aligned_cols=61  Identities=26%  Similarity=0.404  Sum_probs=48.2

Q ss_pred             eeeEEEEEcCCCCCchhhhhhhhhCcC--CCCccCCceeEeEEEEEEecCCeEEEEEEEeCCCC
Q psy10878         69 KLFKVIVIGDPTVGKTSFVQRYVQNTF--KKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQ  130 (131)
Q Consensus        69 ~~~ki~vvG~~~vGKSsli~~~~~~~~--~~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gq  130 (131)
                      +..|++++|..+||||+++.+++.++.  ..++.||+.+-| ...+.-.+|..-.+.|+||+|-
T Consensus         8 k~~kVvVcG~k~VGKTaileQl~yg~~~~~~e~~pTiEDiY-~~svet~rgarE~l~lyDTaGl   70 (198)
T KOG3883|consen    8 KVCKVVVCGMKSVGKTAILEQLLYGNHVPGTELHPTIEDIY-VASVETDRGAREQLRLYDTAGL   70 (198)
T ss_pred             cceEEEEECCccccHHHHHHHHHhccCCCCCccccchhhhe-eEeeecCCChhheEEEeecccc
Confidence            457999999999999999999985544  346778888655 5666555677788999999983

>KOG2655|consensus

Probab=98.48  E-value=1.7e-07  Score=69.89  Aligned_cols=72  Identities=19%  Similarity=0.338  Sum_probs=48.5

Q ss_pred             CCcccCCCCCCceeeEEEEEcCCCCCchhhhhhhhhCcCCCC---------ccCCceeEeEEEEEEecCCeEEEEEEEeC
Q psy10878         57 PSIRKSFNAPPEKLFKVIVIGDPTVGKTSFVQRYVQNTFKKD---------YKGTVGVDFALKIVKWRDQQKIKLQLWDI  127 (131)
Q Consensus        57 ~~~~~~~~~~~~~~~ki~vvG~~~vGKSsli~~~~~~~~~~~---------~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt  127 (131)
                      |..+.+........|.++++|++|.|||||+|.++...+...         ...|+.+......+.- +|..+.|++.||
T Consensus         8 P~q~~r~~~KkG~~ftlmvvG~sGlGKsTfiNsLf~~~l~~~~~~~~~~~~~~~t~~i~~~~~~iee-~g~~l~Ltvidt   86 (366)
T KOG2655|consen    8 PNQVHRKSVKKGFDFTLMVVGESGLGKSTFINSLFLTDLSGNREVPGASERIKETVEIESTKVEIEE-NGVKLNLTVIDT   86 (366)
T ss_pred             hHHHHHHHHhcCCceEEEEecCCCccHHHHHHHHHhhhccCCcccCCcccCccccceeeeeeeeecC-CCeEEeeEEecc
Confidence            333333333455678999999999999999999776544322         1224444444344433 788999999999


Q ss_pred             CC
Q psy10878        128 AG  129 (131)
Q Consensus       128 ~G  129 (131)
                      ||
T Consensus        87 PG   88 (366)
T KOG2655|consen   87 PG   88 (366)
T ss_pred             CC
Confidence            98

>cd04166 CysN_ATPS CysN_ATPS subfamily

Probab=98.48  E-value=1.4e-07  Score=65.66  Aligned_cols=21  Identities=19%  Similarity=0.455  Sum_probs=19.2

Q ss_pred             EEEEEcCCCCCchhhhhhhhh
Q psy10878         72 KVIVIGDPTVGKTSFVQRYVQ   92 (131)
Q Consensus        72 ki~vvG~~~vGKSsli~~~~~   92 (131)
                      +++++|.+++|||||+++++.
T Consensus         1 ~i~iiG~~~~GKStL~~~Ll~   21 (208)
T cd04166           1 RFLTCGSVDDGKSTLIGRLLY   21 (208)
T ss_pred             CEEEEECCCCCHHHHHHHHHH
Confidence            489999999999999999874

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.

>PRK09601 GTP-binding protein YchF; Reviewed

Probab=98.47  E-value=4e-07  Score=68.40  Aligned_cols=59  Identities=20%  Similarity=0.323  Sum_probs=38.0

Q ss_pred             eEEEEEcCCCCCchhhhhhhhhCcCCCCccCCceeEeEEEEEEecCCe--------------EEEEEEEeCCC
Q psy10878         71 FKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQ--------------KIKLQLWDIAG  129 (131)
Q Consensus        71 ~ki~vvG~~~vGKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~--------------~~~l~i~Dt~G  129 (131)
                      +++.++|.||||||||+|++.+........|..+.+...-.+.+.+.+              ...+++.||||
T Consensus         3 ~~vgIVG~PNvGKSTLfnaLt~~~~~v~nypftTi~p~~G~~~v~d~r~~~l~~~~~p~~~~~a~i~lvD~pG   75 (364)
T PRK09601          3 LKCGIVGLPNVGKSTLFNALTKAGAEAANYPFCTIEPNVGVVPVPDPRLDKLAEIVKPKKIVPATIEFVDIAG   75 (364)
T ss_pred             cEEEEECCCCCCHHHHHHHHhCCCCeecccccccccceEEEEEeccccchhhHHhcCCccccCceEEEEECCC
Confidence            689999999999999999998765432222333333333333332211              13589999999

>cd01900 YchF YchF subfamily

Probab=98.46  E-value=2.1e-07  Score=67.61  Aligned_cols=57  Identities=21%  Similarity=0.339  Sum_probs=36.9

Q ss_pred             EEEEcCCCCCchhhhhhhhhCcCCCCccCCceeEeEEEEEEecCCe--------------EEEEEEEeCCC
Q psy10878         73 VIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQ--------------KIKLQLWDIAG  129 (131)
Q Consensus        73 i~vvG~~~vGKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~--------------~~~l~i~Dt~G  129 (131)
                      +.++|.||||||||+|++.+........|..+.+.....+.+.+.+              ...++++||||
T Consensus         1 igivG~PN~GKSTLfn~Lt~~~~~~~n~pftTi~p~~g~v~v~d~r~~~l~~~~~~~k~~~~~i~lvD~pG   71 (274)
T cd01900           1 IGIVGLPNVGKSTLFNALTKAGAEAANYPFCTIEPNVGIVPVPDERLDKLAEIVKPKKIVPATIEFVDIAG   71 (274)
T ss_pred             CeEeCCCCCcHHHHHHHHhCCCCccccccccchhceeeeEEeccchhhhHHHHhCCceeeeeEEEEEECCC
Confidence            4689999999999999998765533333443333333334432211              23589999999

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.

>PRK04004 translation initiation factor IF-2; Validated

Probab=98.45  E-value=4.3e-07  Score=72.26  Aligned_cols=25  Identities=24%  Similarity=0.384  Sum_probs=21.5

Q ss_pred             eEEEEEcCCCCCchhhhhhhhhCcC
Q psy10878         71 FKVIVIGDPTVGKTSFVQRYVQNTF   95 (131)
Q Consensus        71 ~ki~vvG~~~vGKSsli~~~~~~~~   95 (131)
                      -.|+++|.+++|||||++++.+..+
T Consensus         7 p~V~i~Gh~~~GKTSLl~~l~~~~v   31 (586)
T PRK04004          7 PIVVVLGHVDHGKTTLLDKIRGTAV   31 (586)
T ss_pred             cEEEEECCCCCCHHHHHHHHhCccc
Confidence            3699999999999999999976543

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

Probab=98.45  E-value=5.8e-07  Score=71.39  Aligned_cols=58  Identities=22%  Similarity=0.365  Sum_probs=46.1

Q ss_pred             eeEEEEEcCCCCCchhhhhhhhhCcCCCCccCCceeEeEEEEEEecCCeEEEEEEEeCCCC
Q psy10878         70 LFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQ  130 (131)
Q Consensus        70 ~~ki~vvG~~~vGKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gq  130 (131)
                      ..+++++|.||||||||.|++.+.+....+-|.+.++...-.+.+ .+..  +++.|.||.
T Consensus         3 ~~~valvGNPNvGKTtlFN~LTG~~q~VgNwpGvTVEkkeg~~~~-~~~~--i~ivDLPG~   60 (653)
T COG0370           3 KLTVALVGNPNVGKTTLFNALTGANQKVGNWPGVTVEKKEGKLKY-KGHE--IEIVDLPGT   60 (653)
T ss_pred             cceEEEecCCCccHHHHHHHHhccCceecCCCCeeEEEEEEEEEe-cCce--EEEEeCCCc
Confidence            346999999999999999999976555455588888877777776 4543  789999994

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

Probab=98.44  E-value=4.2e-07  Score=69.77  Aligned_cols=62  Identities=19%  Similarity=0.274  Sum_probs=42.7

Q ss_pred             CceeeEEEEEcCCCCCchhhhhhhhh--CcCC-----------------------------CCccCCceeEeEEEEEEec
Q psy10878         67 PEKLFKVIVIGDPTVGKTSFVQRYVQ--NTFK-----------------------------KDYKGTVGVDFALKIVKWR  115 (131)
Q Consensus        67 ~~~~~ki~vvG~~~vGKSsli~~~~~--~~~~-----------------------------~~~~~t~~~~~~~~~~~~~  115 (131)
                      +...++++++|..++|||||+.+++.  +...                             .+...++..+.....+.+ 
T Consensus         4 ~~~~~~v~i~Ghvd~GKSTL~~~ll~~~g~i~~~~~~~~~~~~~~~g~~~~~~~~~~d~~~~e~~rg~Tid~~~~~~~~-   82 (426)
T TIGR00483         4 EKEHINVAFIGHVDHGKSTTVGHLLYKCGAIDEQTIEKFEKEAQEKGKASFEFAWVMDRLKEERERGVTIDVAHWKFET-   82 (426)
T ss_pred             CCceeEEEEEeccCCcHHHHHHHHHHHhCCcCHHHHHHHHhHHHhcCCcccchhhhhccCHHHhhcCceEEEEEEEEcc-
Confidence            34568999999999999999999984  2221                             112234455555555544 


Q ss_pred             CCeEEEEEEEeCCCCC
Q psy10878        116 DQQKIKLQLWDIAGQN  131 (131)
Q Consensus       116 ~~~~~~l~i~Dt~Gqe  131 (131)
                        ..+.+.||||||++
T Consensus        83 --~~~~i~iiDtpGh~   96 (426)
T TIGR00483        83 --DKYEVTIVDCPGHR   96 (426)
T ss_pred             --CCeEEEEEECCCHH
Confidence              34678999999975

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.

>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=98.42  E-value=2e-07  Score=66.16  Aligned_cols=56  Identities=25%  Similarity=0.449  Sum_probs=32.9

Q ss_pred             EEEEEcCCCCCchhhhhhhhhCcCCC---CccCCceeEeEEEEEEecCCeEEEEEEEeCCCCC
Q psy10878         72 KVIVIGDPTVGKTSFVQRYVQNTFKK---DYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQN  131 (131)
Q Consensus        72 ki~vvG~~~vGKSsli~~~~~~~~~~---~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gqe  131 (131)
                      |++++|.+++||||+......+-.+.   .-.+|...+.  ..+.. .+ .+.++|||.+||+
T Consensus         1 KiLLmG~~~SGKTSi~~vIF~~~~p~dT~~L~~T~~ve~--~~v~~-~~-~~~l~iwD~pGq~   59 (232)
T PF04670_consen    1 KILLMGPRRSGKTSIRSVIFHKYSPRDTLRLEPTIDVEK--SHVRF-LS-FLPLNIWDCPGQD   59 (232)
T ss_dssp             EEEEEESTTSSHHHHHHHHHS---GGGGGG-----SEEE--EEEEC-TT-SCEEEEEEE-SSC
T ss_pred             CEEEEcCCCCChhhHHHHHHcCCCchhccccCCcCCceE--EEEec-CC-CcEEEEEEcCCcc
Confidence            79999999999999888766432221   1225554443  33332 22 3578999999995

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.

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

Probab=98.37  E-value=4.4e-07  Score=65.52  Aligned_cols=21  Identities=19%  Similarity=0.483  Sum_probs=19.1

Q ss_pred             EEEEEcCCCCCchhhhhhhhh
Q psy10878         72 KVIVIGDPTVGKTSFVQRYVQ   92 (131)
Q Consensus        72 ki~vvG~~~vGKSsli~~~~~   92 (131)
                      +|+++|.+|+|||||+++++.
T Consensus         1 ni~ivG~~gsGKStL~~~Ll~   21 (268)
T cd04170           1 NIALVGHSGSGKTTLAEALLY   21 (268)
T ss_pred             CEEEECCCCCCHHHHHHHHHH
Confidence            489999999999999999874

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

>KOG1547|consensus

Probab=98.35  E-value=1.5e-06  Score=61.74  Aligned_cols=61  Identities=18%  Similarity=0.356  Sum_probs=42.7

Q ss_pred             ceeeEEEEEcCCCCCchhhhhhhhhCcCCC---------CccCCceeEeEEEEEEecCCeEEEEEEEeCCC
Q psy10878         68 EKLFKVIVIGDPTVGKTSFVQRYVQNTFKK---------DYKGTVGVDFALKIVKWRDQQKIKLQLWDIAG  129 (131)
Q Consensus        68 ~~~~ki~vvG~~~vGKSsli~~~~~~~~~~---------~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~G  129 (131)
                      ...|+|+|||.+|.|||||+|.+.......         .+..|+........+.- +|...+|++.||+|
T Consensus        44 GF~FNIMVVgqSglgkstlinTlf~s~v~~~s~~~~~~~p~pkT~eik~~thvieE-~gVklkltviDTPG  113 (336)
T KOG1547|consen   44 GFDFNIMVVGQSGLGKSTLINTLFKSHVSDSSSSDNSAEPIPKTTEIKSITHVIEE-KGVKLKLTVIDTPG  113 (336)
T ss_pred             cCceEEEEEecCCCCchhhHHHHHHHHHhhccCCCcccCcccceEEEEeeeeeeee-cceEEEEEEecCCC
Confidence            357899999999999999999876433322         12224444443444443 78889999999998

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

Probab=98.34  E-value=1.2e-07  Score=71.32  Aligned_cols=25  Identities=24%  Similarity=0.460  Sum_probs=21.3

Q ss_pred             ceeeEEEEEcCCCCCchhhhhhhhh
Q psy10878         68 EKLFKVIVIGDPTVGKTSFVQRYVQ   92 (131)
Q Consensus        68 ~~~~ki~vvG~~~vGKSsli~~~~~   92 (131)
                      ...++|+|+|++|+|||||||.+.+
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            3468999999999999999999975

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.

>PRK05433 GTP-binding protein LepA; Provisional

Probab=98.34  E-value=9.3e-07  Score=70.56  Aligned_cols=62  Identities=18%  Similarity=0.327  Sum_probs=39.2

Q ss_pred             eeEEEEEcCCCCCchhhhhhhhhC--cCC-----CCc------cCCceeEeEE--EEEEec--CCeEEEEEEEeCCCCC
Q psy10878         70 LFKVIVIGDPTVGKTSFVQRYVQN--TFK-----KDY------KGTVGVDFAL--KIVKWR--DQQKIKLQLWDIAGQN  131 (131)
Q Consensus        70 ~~ki~vvG~~~vGKSsli~~~~~~--~~~-----~~~------~~t~~~~~~~--~~~~~~--~~~~~~l~i~Dt~Gqe  131 (131)
                      .-+++++|..++|||||+.+++..  .+.     ..+      ..+.|.++..  ..+.+.  ++..+.++||||||++
T Consensus         7 iRNi~IiGhvd~GKTTL~~rLl~~tg~i~~~~~~~~~lD~~~~ErerGiTi~~~~v~~~~~~~dg~~~~lnLiDTPGh~   85 (600)
T PRK05433          7 IRNFSIIAHIDHGKSTLADRLIELTGTLSEREMKAQVLDSMDLERERGITIKAQAVRLNYKAKDGETYILNLIDTPGHV   85 (600)
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHhcCCCcccccccccccCchHHhhcCCcccccEEEEEEEccCCCcEEEEEEECCCcH
Confidence            347999999999999999999852  111     111      0112222222  222221  5667899999999984

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

Probab=98.28  E-value=3.2e-06  Score=67.69  Aligned_cols=59  Identities=17%  Similarity=0.235  Sum_probs=38.5

Q ss_pred             ceeeEEEEEcCCCCCchhhhhhhhhCc-CCCCc-cCCceeEeEEEEEEecCCeEEEEEEEeCCCC
Q psy10878         68 EKLFKVIVIGDPTVGKTSFVQRYVQNT-FKKDY-KGTVGVDFALKIVKWRDQQKIKLQLWDIAGQ  130 (131)
Q Consensus        68 ~~~~ki~vvG~~~vGKSsli~~~~~~~-~~~~~-~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gq  130 (131)
                      ...++|+++|.+||||||++|.+++.. |.... .+.+.. .......+ +|  ..+.++||||-
T Consensus       116 dfslrIvLVGKTGVGKSSLINSILGekvf~vss~~~~TTr-~~ei~~~i-dG--~~L~VIDTPGL  176 (763)
T TIGR00993       116 DFSLNILVLGKSGVGKSATINSIFGEVKFSTDAFGMGTTS-VQEIEGLV-QG--VKIRVIDTPGL  176 (763)
T ss_pred             CcceEEEEECCCCCCHHHHHHHHhccccccccCCCCCceE-EEEEEEEE-CC--ceEEEEECCCC
Confidence            456789999999999999999999764 33221 122221 11112233 44  45899999994

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.

>TIGR00490 aEF-2 translation elongation factor aEF-2

Probab=98.25  E-value=1.6e-06  Score=70.58  Aligned_cols=62  Identities=13%  Similarity=0.220  Sum_probs=41.1

Q ss_pred             eeeEEEEEcCCCCCchhhhhhhhhC---------------cCCCC---ccCCceeEeEEEEEEecCCeEEEEEEEeCCCC
Q psy10878         69 KLFKVIVIGDPTVGKTSFVQRYVQN---------------TFKKD---YKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQ  130 (131)
Q Consensus        69 ~~~ki~vvG~~~vGKSsli~~~~~~---------------~~~~~---~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gq  130 (131)
                      ...+|+++|..++|||||+.+++..               .+...   +..|+...+....+.+ ++..+.+.+|||||+
T Consensus        18 ~irnI~ivGh~~~GKTTL~~~ll~~~g~i~~~~~~~~~~~d~~~~e~~rg~Ti~~~~~~~~~~~-~~~~~~i~liDTPG~   96 (720)
T TIGR00490        18 FIRNIGIVAHIDHGKTTLSDNLLAGAGMISEELAGQQLYLDFDEQEQERGITINAANVSMVHEY-EGNEYLINLIDTPGH   96 (720)
T ss_pred             cccEEEEEEeCCCCHHHHHHHHHHHcCCCchhcCCceeecCCCHHHHhhcchhhcccceeEEee-cCCceEEEEEeCCCc
Confidence            3468999999999999999999742               11111   2224433332223334 556788999999997


Q ss_pred             C
Q psy10878        131 N  131 (131)
Q Consensus       131 e  131 (131)
                      +
T Consensus        97 ~   97 (720)
T TIGR00490        97 V   97 (720)
T ss_pred             c
Confidence            4

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.

>PRK10512 selenocysteinyl-tRNA-specific translation factor; Provisional

Probab=98.25  E-value=2.5e-06  Score=68.30  Aligned_cols=58  Identities=19%  Similarity=0.308  Sum_probs=38.7

Q ss_pred             EEEEEcCCCCCchhhhhhhhh---CcCCCCccCCceeEeEEEEEEecCCeEEEEEEEeCCCCC
Q psy10878         72 KVIVIGDPTVGKTSFVQRYVQ---NTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQN  131 (131)
Q Consensus        72 ki~vvG~~~vGKSsli~~~~~---~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gqe  131 (131)
                      -|.++|..++|||||++++.+   ..+.++....+..+.....+...++.  .+.+|||||+|
T Consensus         2 ii~~~GhvdhGKTtLi~aLtg~~~dr~~eE~~rGiTI~l~~~~~~~~~g~--~i~~IDtPGhe   62 (614)
T PRK10512          2 IIATAGHVDHGKTTLLQAITGVNADRLPEEKKRGMTIDLGYAYWPQPDGR--VLGFIDVPGHE   62 (614)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCCCccchhcccCCceEEeeeEEEecCCCc--EEEEEECCCHH
Confidence            478999999999999999984   34444443344444433333332343  47899999985

>cd01885 EF2 EF2 (for archaea and eukarya)

Probab=98.22  E-value=2.1e-06  Score=60.57  Aligned_cols=21  Identities=19%  Similarity=0.384  Sum_probs=19.4

Q ss_pred             EEEEEcCCCCCchhhhhhhhh
Q psy10878         72 KVIVIGDPTVGKTSFVQRYVQ   92 (131)
Q Consensus        72 ki~vvG~~~vGKSsli~~~~~   92 (131)
                      +++++|..+.|||||+.+++.
T Consensus         2 NvaiiGhvd~GKTTL~d~Ll~   22 (222)
T cd01885           2 NICIIAHVDHGKTTLSDSLLA   22 (222)
T ss_pred             eEEEECCCCCCHHHHHHHHHH
Confidence            689999999999999999874

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

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

Probab=98.21  E-value=3.7e-06  Score=61.02  Aligned_cols=56  Identities=16%  Similarity=0.353  Sum_probs=36.4

Q ss_pred             EEEEEcCCCCCchhhhhhhhh--CcCC----------------CCccCCceeEeEEEEEEecCCeEEEEEEEeCCCC
Q psy10878         72 KVIVIGDPTVGKTSFVQRYVQ--NTFK----------------KDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQ  130 (131)
Q Consensus        72 ki~vvG~~~vGKSsli~~~~~--~~~~----------------~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gq  130 (131)
                      +++++|.+++|||||+++++.  +...                .+....+..+.....+.+ ++  .++.+|||||.
T Consensus         1 nv~ivGh~~~GKTtL~~~Ll~~~g~~~~~g~v~~~~~~~D~~~~E~~rgiti~~~~~~~~~-~~--~~i~liDTPG~   74 (270)
T cd01886           1 NIGIIAHIDAGKTTTTERILYYTGRIHKIGEVHGGGATMDFMEQERERGITIQSAATTCFW-KD--HRINIIDTPGH   74 (270)
T ss_pred             CEEEEcCCCCCHHHHHHHHHHHcCCCcccccccCCccccCCCccccCCCcCeeccEEEEEE-CC--EEEEEEECCCc
Confidence            478999999999999999873  1110                111123333334455556 43  56889999996

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

>TIGR00503 prfC peptide chain release factor 3

Probab=98.19  E-value=3.9e-06  Score=66.13  Aligned_cols=62  Identities=16%  Similarity=0.330  Sum_probs=38.1

Q ss_pred             eeeEEEEEcCCCCCchhhhhhhhh-CcCCCC-------------------ccCCceeEeEEEEEEecCCeEEEEEEEeCC
Q psy10878         69 KLFKVIVIGDPTVGKTSFVQRYVQ-NTFKKD-------------------YKGTVGVDFALKIVKWRDQQKIKLQLWDIA  128 (131)
Q Consensus        69 ~~~ki~vvG~~~vGKSsli~~~~~-~~~~~~-------------------~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~  128 (131)
                      +..+++++|.+++|||||+.+++. ......                   .....|..+......+ +...+.+++||||
T Consensus        10 ~~RniaiiGh~~aGKTTL~e~Ll~~~g~i~~~g~v~~~g~~~~t~~D~~~~E~~rgisi~~~~~~~-~~~~~~inliDTP   88 (527)
T TIGR00503        10 KRRTFAIISHPDAGKTTITEKVLLYGGAIQTAGAVKGRGSQRHAKSDWMEMEKQRGISITTSVMQF-PYRDCLVNLLDTP   88 (527)
T ss_pred             cCCEEEEEcCCCCCHHHHHHHHHHhCCCccccceeccccccccccCCCCHHHHhcCCcEEEEEEEE-eeCCeEEEEEECC
Confidence            345899999999999999999862 211100                   0011222333333333 3345789999999


Q ss_pred             CCC
Q psy10878        129 GQN  131 (131)
Q Consensus       129 Gqe  131 (131)
                      |++
T Consensus        89 G~~   91 (527)
T TIGR00503        89 GHE   91 (527)
T ss_pred             Chh
Confidence            974

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.

>TIGR01394 TypA_BipA GTP-binding protein TypA/BipA

Probab=98.18  E-value=2.4e-06  Score=68.17  Aligned_cols=57  Identities=19%  Similarity=0.430  Sum_probs=37.8

Q ss_pred             EEEEEcCCCCCchhhhhhhhh--CcCCCCc------------cCCceeEeE--EEEEEecCCeEEEEEEEeCCCCC
Q psy10878         72 KVIVIGDPTVGKTSFVQRYVQ--NTFKKDY------------KGTVGVDFA--LKIVKWRDQQKIKLQLWDIAGQN  131 (131)
Q Consensus        72 ki~vvG~~~vGKSsli~~~~~--~~~~~~~------------~~t~~~~~~--~~~~~~~~~~~~~l~i~Dt~Gqe  131 (131)
                      +|+++|..++|||||+.+++.  +.+....            ....|.++.  ...+.+   ..++++||||||++
T Consensus         3 NIaIiGHvd~GKTTLv~~LL~~sg~~~~~~~v~~~~~D~~~~ErerGiTI~~~~~~v~~---~~~kinlIDTPGh~   75 (594)
T TIGR01394         3 NIAIIAHVDHGKTTLVDALLKQSGTFRANEAVAERVMDSNDLERERGITILAKNTAIRY---NGTKINIVDTPGHA   75 (594)
T ss_pred             EEEEEcCCCCCHHHHHHHHHHhcCCCcccccceeecccCchHHHhCCccEEeeeEEEEE---CCEEEEEEECCCHH
Confidence            699999999999999999985  3332211            011222332  334455   34778999999973

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=98.17  E-value=3.7e-06  Score=63.97  Aligned_cols=62  Identities=15%  Similarity=0.210  Sum_probs=39.8

Q ss_pred             CceeeEEEEEcCCCCCchhhhhhhhhC-------cC---------CCCccCCceeEeEEEEEEecCCeEEEEEEEeCCCC
Q psy10878         67 PEKLFKVIVIGDPTVGKTSFVQRYVQN-------TF---------KKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQ  130 (131)
Q Consensus        67 ~~~~~ki~vvG~~~vGKSsli~~~~~~-------~~---------~~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gq  130 (131)
                      ....++++++|..++|||||+.++++.       ++         ..+....+..+..  .+.+ +.....+.||||||+
T Consensus         9 ~~~~~~i~i~Ghvd~GKStL~~~L~~~~~~~g~~~~~~~~~~d~~~~E~~rG~Ti~~~--~~~~-~~~~~~~~liDtpGh   85 (394)
T TIGR00485         9 TKPHVNIGTIGHVDHGKTTLTAAITTVLAKEGGAAARAYDQIDNAPEEKARGITINTA--HVEY-ETENRHYAHVDCPGH   85 (394)
T ss_pred             CCceEEEEEEeecCCCHHHHHHHHHhhHHHhhcccccccccccCCHHHHhcCcceeeE--EEEE-cCCCEEEEEEECCch
Confidence            345689999999999999999999732       00         1111233333332  3333 334456889999998


Q ss_pred             C
Q psy10878        131 N  131 (131)
Q Consensus       131 e  131 (131)
                      +
T Consensus        86 ~   86 (394)
T TIGR00485        86 A   86 (394)
T ss_pred             H
Confidence            5

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.

>COG1163 DRG Predicted GTPase [General function prediction only]

Probab=98.15  E-value=3.7e-06  Score=61.94  Aligned_cols=60  Identities=22%  Similarity=0.383  Sum_probs=40.5

Q ss_pred             CCceeeEEEEEcCCCCCchhhhhhhhhCcC-CCCccCCceeEeEEEEEEecCCeEEEEEEEeCCC
Q psy10878         66 PPEKLFKVIVIGDPTVGKTSFVQRYVQNTF-KKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAG  129 (131)
Q Consensus        66 ~~~~~~ki~vvG~~~vGKSsli~~~~~~~~-~~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~G  129 (131)
                      .+..-..+++||.|+||||||++.+.+-.. ...|.-| ..+..--.+.+ +|  ..+||.|+||
T Consensus        59 ~KsGda~v~lVGfPsvGKStLL~~LTnt~seva~y~FT-Tl~~VPG~l~Y-~g--a~IQild~Pg  119 (365)
T COG1163          59 KKSGDATVALVGFPSVGKSTLLNKLTNTKSEVADYPFT-TLEPVPGMLEY-KG--AQIQLLDLPG  119 (365)
T ss_pred             eccCCeEEEEEcCCCccHHHHHHHHhCCCccccccCce-ecccccceEee-cC--ceEEEEcCcc
Confidence            355567899999999999999999885433 2344322 22232334555 44  5689999997

>PRK13351 elongation factor G; Reviewed

Probab=98.13  E-value=3.7e-06  Score=68.12  Aligned_cols=58  Identities=19%  Similarity=0.298  Sum_probs=38.4

Q ss_pred             eeeEEEEEcCCCCCchhhhhhhhhCcC-------------CC-------CccCCceeEeEEEEEEecCCeEEEEEEEeCC
Q psy10878         69 KLFKVIVIGDPTVGKTSFVQRYVQNTF-------------KK-------DYKGTVGVDFALKIVKWRDQQKIKLQLWDIA  128 (131)
Q Consensus        69 ~~~ki~vvG~~~vGKSsli~~~~~~~~-------------~~-------~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~  128 (131)
                      ...+|+++|..++|||||+++++...-             ..       .+..|+...  ...+.+ +  .+.+++||||
T Consensus         7 ~irni~iiG~~~~GKTtL~~~ll~~~g~~~~~~~v~~~~~~~d~~~~e~~r~~ti~~~--~~~~~~-~--~~~i~liDtP   81 (687)
T PRK13351          7 QIRNIGILAHIDAGKTTLTERILFYTGKIHKMGEVEDGTTVTDWMPQEQERGITIESA--ATSCDW-D--NHRINLIDTP   81 (687)
T ss_pred             cccEEEEECCCCCcchhHHHHHHHhcCCccccccccCCcccCCCCHHHHhcCCCcccc--eEEEEE-C--CEEEEEEECC
Confidence            456899999999999999999984210             00       122233322  234444 3  4678999999


Q ss_pred             CCC
Q psy10878        129 GQN  131 (131)
Q Consensus       129 Gqe  131 (131)
                      |+.
T Consensus        82 G~~   84 (687)
T PRK13351         82 GHI   84 (687)
T ss_pred             CcH
Confidence            973

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

Probab=98.13  E-value=1.7e-06  Score=54.65  Aligned_cols=34  Identities=44%  Similarity=0.555  Sum_probs=28.1

Q ss_pred             eEEEEEcCCCCCchhhhhhhhhCcCCCCcc-CCce
Q psy10878         71 FKVIVIGDPTVGKTSFVQRYVQNTFKKDYK-GTVG  104 (131)
Q Consensus        71 ~ki~vvG~~~vGKSsli~~~~~~~~~~~~~-~t~~  104 (131)
                      +|++++|+.|||||+|+.||....|...+. +|++
T Consensus         1 ~kvv~~G~~gvGKt~l~~~~~~~~~~~~~~~~t~~   35 (124)
T smart00010        1 FKVVGIGDSGVGKVGKSARFVQFPFDYVPTVFTIG   35 (124)
T ss_pred             CEEEEECCCChhHHHHHHHHhcCCccccCceehhh
Confidence            489999999999999999998887765554 5544

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.

>PRK00741 prfC peptide chain release factor 3; Provisional

Probab=98.12  E-value=3.4e-06  Score=66.44  Aligned_cols=22  Identities=23%  Similarity=0.480  Sum_probs=20.3

Q ss_pred             eeEEEEEcCCCCCchhhhhhhh
Q psy10878         70 LFKVIVIGDPTVGKTSFVQRYV   91 (131)
Q Consensus        70 ~~ki~vvG~~~vGKSsli~~~~   91 (131)
                      ..+++++|.+++|||||+.+++
T Consensus        10 ~Rni~IiGh~daGKTTL~e~Ll   31 (526)
T PRK00741         10 RRTFAIISHPDAGKTTLTEKLL   31 (526)
T ss_pred             CCEEEEECCCCCCHHHHHHHHH
Confidence            4589999999999999999987

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

Probab=98.11  E-value=5e-06  Score=54.76  Aligned_cols=24  Identities=25%  Similarity=0.486  Sum_probs=21.4

Q ss_pred             EEEEEcCCCCCchhhhhhhhhCcC
Q psy10878         72 KVIVIGDPTVGKTSFVQRYVQNTF   95 (131)
Q Consensus        72 ki~vvG~~~vGKSsli~~~~~~~~   95 (131)
                      |++++|..++|||||++++.+.+.
T Consensus         3 rimliG~~g~GKTTL~q~L~~~~~   26 (143)
T PF10662_consen    3 RIMLIGPSGSGKTTLAQALNGEEI   26 (143)
T ss_pred             eEEEECCCCCCHHHHHHHHcCCCC
Confidence            799999999999999999886544

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

>KOG0072|consensus

Probab=98.09  E-value=2e-06  Score=56.49  Aligned_cols=56  Identities=29%  Similarity=0.634  Sum_probs=45.2

Q ss_pred             eeeEEEEEcCCCCCchhhhhhhhhCcCCCCccCCceeEeEEEEEEecCCeEEEEEEEeCCCC
Q psy10878         69 KLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQ  130 (131)
Q Consensus        69 ~~~ki~vvG~~~vGKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gq  130 (131)
                      ..++++++|.-|+|||+++.|+--++.. ...||+|  |...++.+   +..++++||..||
T Consensus        17 ~e~rililgldGaGkttIlyrlqvgevv-ttkPtig--fnve~v~y---KNLk~~vwdLggq   72 (182)
T KOG0072|consen   17 REMRILILGLDGAGKTTILYRLQVGEVV-TTKPTIG--FNVETVPY---KNLKFQVWDLGGQ   72 (182)
T ss_pred             cceEEEEeeccCCCeeEEEEEcccCccc-ccCCCCC--cCcccccc---ccccceeeEccCc
Confidence            6789999999999999999998866655 4458888  44556655   6678999999997

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

Probab=98.08  E-value=8.8e-06  Score=57.48  Aligned_cols=59  Identities=19%  Similarity=0.186  Sum_probs=39.6

Q ss_pred             eeEEEEEcCCCCCchhhhhhhhhC--cCCCC---ccCCceeEeEEEEEEecCCeEEEEEEEeCCCC
Q psy10878         70 LFKVIVIGDPTVGKTSFVQRYVQN--TFKKD---YKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQ  130 (131)
Q Consensus        70 ~~ki~vvG~~~vGKSsli~~~~~~--~~~~~---~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gq  130 (131)
                      ..-|.++|.+++|||+|+|++++.  .|...   ...|.|+......+  ..+....+.++||+|.
T Consensus         7 v~vvsv~G~~~sGKS~llN~l~~~~~~f~~~~~~~~~T~gi~~~~~~~--~~~~~~~v~~lDteG~   70 (224)
T cd01851           7 VAVVSVFGPQSSGKSFLLNHLFGTLSGFDVMDTSQQTTKGIWMWSVPF--KLGKEHAVLLLDTEGT   70 (224)
T ss_pred             EEEEEEECCCCCCHHHHHHHHhCCCCCeEecCCCCCCccceEEEeccc--cCCCcceEEEEecCCc
Confidence            345899999999999999999987  66432   22344443322222  1223467899999995

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

>PRK12735 elongation factor Tu; Reviewed

Probab=98.07  E-value=9e-06  Score=61.97  Aligned_cols=25  Identities=24%  Similarity=0.288  Sum_probs=22.5

Q ss_pred             ceeeEEEEEcCCCCCchhhhhhhhh
Q psy10878         68 EKLFKVIVIGDPTVGKTSFVQRYVQ   92 (131)
Q Consensus        68 ~~~~ki~vvG~~~vGKSsli~~~~~   92 (131)
                      ...++++++|..++|||||++++++
T Consensus        10 ~~~~~i~iiGhvd~GKSTL~~~L~~   34 (396)
T PRK12735         10 KPHVNVGTIGHVDHGKTTLTAAITK   34 (396)
T ss_pred             CCeEEEEEECcCCCCHHHHHHHHHH
Confidence            3468999999999999999999985

>PLN03126 Elongation factor Tu; Provisional

Probab=98.05  E-value=9.6e-06  Score=63.22  Aligned_cols=62  Identities=13%  Similarity=0.128  Sum_probs=39.7

Q ss_pred             CceeeEEEEEcCCCCCchhhhhhhhhC------cC----------CCCccCCceeEeEEEEEEecCCeEEEEEEEeCCCC
Q psy10878         67 PEKLFKVIVIGDPTVGKTSFVQRYVQN------TF----------KKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQ  130 (131)
Q Consensus        67 ~~~~~ki~vvG~~~vGKSsli~~~~~~------~~----------~~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gq  130 (131)
                      ....++++++|..++|||||+++++..      ..          .++....+..+.....+.. +  ...+.++||||+
T Consensus        78 ~k~~~ni~iiGhvd~GKSTLi~~Ll~~~~~i~~~~~~~~~~~D~~~~Er~rGiTi~~~~~~~~~-~--~~~i~liDtPGh  154 (478)
T PLN03126         78 KKPHVNIGTIGHVDHGKTTLTAALTMALASMGGSAPKKYDEIDAAPEERARGITINTATVEYET-E--NRHYAHVDCPGH  154 (478)
T ss_pred             cCCeeEEEEECCCCCCHHHHHHHHHHhhhhhccccccccccccCChhHHhCCeeEEEEEEEEec-C--CcEEEEEECCCH
Confidence            455789999999999999999999851      11          1122223333333333333 3  346789999997


Q ss_pred             C
Q psy10878        131 N  131 (131)
Q Consensus       131 e  131 (131)
                      +
T Consensus       155 ~  155 (478)
T PLN03126        155 A  155 (478)
T ss_pred             H
Confidence            4

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

Probab=98.04  E-value=7.1e-06  Score=56.94  Aligned_cols=22  Identities=23%  Similarity=0.385  Sum_probs=19.3

Q ss_pred             eEEEEEcCCCCCchhhhhhhhh
Q psy10878         71 FKVIVIGDPTVGKTSFVQRYVQ   92 (131)
Q Consensus        71 ~ki~vvG~~~vGKSsli~~~~~   92 (131)
                      +++.++|..++|||||+..+.+
T Consensus         1 ~~i~~~g~~~~GKttL~~~l~~   22 (203)
T cd01888           1 INIGTIGHVAHGKSTLVKALSG   22 (203)
T ss_pred             CEEEEECCCCCCHHHHHHHHhC
Confidence            3689999999999999998753

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

>COG2229 Predicted GTPase [General function prediction only]

Probab=98.02  E-value=1.3e-05  Score=54.53  Aligned_cols=61  Identities=26%  Similarity=0.374  Sum_probs=42.9

Q ss_pred             CceeeEEEEEcCCCCCchhhhhhhhhCcC--------CCCc----cCCceeEeEEEEEEecCCeEEEEEEEeCCCCC
Q psy10878         67 PEKLFKVIVIGDPTVGKTSFVQRYVQNTF--------KKDY----KGTVGVDFALKIVKWRDQQKIKLQLWDIAGQN  131 (131)
Q Consensus        67 ~~~~~ki~vvG~~~vGKSsli~~~~~~~~--------~~~~----~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gqe  131 (131)
                      .....||++.|.-++|||+++.+......        ..++    ..|+..+|....+  .+  ...+.++|||||+
T Consensus         7 k~~~~KIvv~G~~~agKtTfv~~~s~k~~v~t~~~~~~~s~k~kr~tTva~D~g~~~~--~~--~~~v~LfgtPGq~   79 (187)
T COG2229           7 KMIETKIVVIGPVGAGKTTFVRALSDKPLVITEADASSVSGKGKRPTTVAMDFGSIEL--DE--DTGVHLFGTPGQE   79 (187)
T ss_pred             cccceeEEEEcccccchhhHHHHhhccccceeeccccccccccccceeEeecccceEE--cC--cceEEEecCCCcH
Confidence            45678999999999999999999886542        1122    2355666654433  12  2458999999996

>TIGR00484 EF-G translation elongation factor EF-G

Probab=98.01  E-value=1.8e-05  Score=64.26  Aligned_cols=60  Identities=17%  Similarity=0.231  Sum_probs=39.6

Q ss_pred             eeeEEEEEcCCCCCchhhhhhhhhCcC-C---CC--------------ccCCceeEeEEEEEEecCCeEEEEEEEeCCCC
Q psy10878         69 KLFKVIVIGDPTVGKTSFVQRYVQNTF-K---KD--------------YKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQ  130 (131)
Q Consensus        69 ~~~ki~vvG~~~vGKSsli~~~~~~~~-~---~~--------------~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gq  130 (131)
                      ...+|+++|..++|||||+++++...- .   ..              ....+..+.....+.+ ++  ..+.+|||||+
T Consensus         9 ~irni~iiG~~~~GKsTL~~~ll~~~g~~~~~~~~~~g~~~~D~~~~e~~rgiti~~~~~~~~~-~~--~~i~liDTPG~   85 (689)
T TIGR00484         9 RFRNIGISAHIDAGKTTTTERILFYTGRIHKIGEVHDGAATMDWMEQEKERGITITSAATTVFW-KG--HRINIIDTPGH   85 (689)
T ss_pred             cccEEEEECCCCCCHHHHHHHHHHhCCCccccccccCCccccCCCHHHHhcCCCEecceEEEEE-CC--eEEEEEECCCC
Confidence            345899999999999999999973211 0   00              1123333444555666 43  57899999997


Q ss_pred             C
Q psy10878        131 N  131 (131)
Q Consensus       131 e  131 (131)
                      .
T Consensus        86 ~   86 (689)
T TIGR00484        86 V   86 (689)
T ss_pred             c
Confidence            3

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.

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

Probab=98.00  E-value=1.1e-05  Score=56.70  Aligned_cols=20  Identities=25%  Similarity=0.507  Sum_probs=18.4

Q ss_pred             EEEEEcCCCCCchhhhhhhh
Q psy10878         72 KVIVIGDPTVGKTSFVQRYV   91 (131)
Q Consensus        72 ki~vvG~~~vGKSsli~~~~   91 (131)
                      +|+++|..++|||||+.+++
T Consensus         1 nv~i~Gh~~~GKttL~~~ll   20 (219)
T cd01883           1 NLVVIGHVDAGKSTTTGHLL   20 (219)
T ss_pred             CEEEecCCCCChHHHHHHHH
Confidence            48899999999999999886

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

>cd01884 EF_Tu EF-Tu subfamily

Probab=98.00  E-value=1.4e-05  Score=55.26  Aligned_cols=23  Identities=26%  Similarity=0.304  Sum_probs=21.0

Q ss_pred             eeEEEEEcCCCCCchhhhhhhhh
Q psy10878         70 LFKVIVIGDPTVGKTSFVQRYVQ   92 (131)
Q Consensus        70 ~~ki~vvG~~~vGKSsli~~~~~   92 (131)
                      .++++++|..++|||||+++++.
T Consensus         2 ~~ni~iiGh~~~GKTTL~~~Ll~   24 (195)
T cd01884           2 HVNVGTIGHVDHGKTTLTAAITK   24 (195)
T ss_pred             cEEEEEECCCCCCHHHHHHHHHH
Confidence            46899999999999999999985

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

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

Probab=97.98  E-value=1.9e-06  Score=58.93  Aligned_cols=56  Identities=21%  Similarity=0.310  Sum_probs=32.7

Q ss_pred             EEEEEcCCCCCchhhhhhhhhCcCCCCccCCceeEeEEEEEEecCCeEEEEEEEeCCCCC
Q psy10878         72 KVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQN  131 (131)
Q Consensus        72 ki~vvG~~~vGKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gqe  131 (131)
                      .++++|++|+|||+|..++..+.+...+.+. ...   ..+.+.+...-.+.+.|+||.+
T Consensus         5 ~vlL~Gps~SGKTaLf~~L~~~~~~~T~tS~-e~n---~~~~~~~~~~~~~~lvD~PGH~   60 (181)
T PF09439_consen    5 TVLLVGPSGSGKTALFSQLVNGKTVPTVTSM-ENN---IAYNVNNSKGKKLRLVDIPGHP   60 (181)
T ss_dssp             EEEEE-STTSSHHHHHHHHHHSS---B---S-SEE---EECCGSSTCGTCECEEEETT-H
T ss_pred             eEEEEcCCCCCHHHHHHHHhcCCcCCeeccc-cCC---ceEEeecCCCCEEEEEECCCcH
Confidence            5899999999999999999988655333222 111   1111112233457899999973

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=97.94  E-value=2.4e-05  Score=59.87  Aligned_cols=26  Identities=19%  Similarity=0.234  Sum_probs=23.1

Q ss_pred             CceeeEEEEEcCCCCCchhhhhhhhh
Q psy10878         67 PEKLFKVIVIGDPTVGKTSFVQRYVQ   92 (131)
Q Consensus        67 ~~~~~ki~vvG~~~vGKSsli~~~~~   92 (131)
                      +...++++++|.+++|||||++++++
T Consensus         9 ~~~~~~i~i~Gh~d~GKSTL~~~Ll~   34 (409)
T CHL00071          9 KKPHVNIGTIGHVDHGKTTLTAAITM   34 (409)
T ss_pred             CCCeEEEEEECCCCCCHHHHHHHHHH
Confidence            34568999999999999999999985

>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=6.8e-06  Score=56.23  Aligned_cols=23  Identities=22%  Similarity=0.447  Sum_probs=21.0

Q ss_pred             eeEEEEEcCCCCCchhhhhhhhh
Q psy10878         70 LFKVIVIGDPTVGKTSFVQRYVQ   92 (131)
Q Consensus        70 ~~ki~vvG~~~vGKSsli~~~~~   92 (131)
                      ..+|+++|..++|||||+.+++.
T Consensus         3 ~~~I~i~G~~~sGKTTL~~~L~~   25 (188)
T PF00009_consen    3 IRNIAIIGHVDSGKTTLLGALLG   25 (188)
T ss_dssp             EEEEEEEESTTSSHHHHHHHHHH
T ss_pred             EEEEEEECCCCCCcEeechhhhh
Confidence            46899999999999999999884

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 ....

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

Probab=97.92  E-value=1.1e-05  Score=61.71  Aligned_cols=26  Identities=23%  Similarity=0.312  Sum_probs=22.1

Q ss_pred             CceeeEEEEEcCCCCCchhhhhhhhh
Q psy10878         67 PEKLFKVIVIGDPTVGKTSFVQRYVQ   92 (131)
Q Consensus        67 ~~~~~ki~vvG~~~vGKSsli~~~~~   92 (131)
                      ....++++++|..++|||||+.++.+
T Consensus         6 ~~~~~ni~v~Gh~d~GKSTL~~~L~~   31 (411)
T PRK04000          6 VQPEVNIGMVGHVDHGKTTLVQALTG   31 (411)
T ss_pred             CCCcEEEEEEccCCCCHHHHHHHhhC
Confidence            34568999999999999999988853

>TIGR03680 eif2g_arch translation initiation factor 2 subunit gamma

Probab=97.91  E-value=1.2e-05  Score=61.41  Aligned_cols=24  Identities=17%  Similarity=0.275  Sum_probs=21.4

Q ss_pred             eeeEEEEEcCCCCCchhhhhhhhh
Q psy10878         69 KLFKVIVIGDPTVGKTSFVQRYVQ   92 (131)
Q Consensus        69 ~~~ki~vvG~~~vGKSsli~~~~~   92 (131)
                      ..++++++|..++|||||+.++.+
T Consensus         3 ~~~~i~iiG~~~~GKSTL~~~Lt~   26 (406)
T TIGR03680         3 PEVNIGMVGHVDHGKTTLTKALTG   26 (406)
T ss_pred             ceEEEEEEccCCCCHHHHHHHHhC
Confidence            467999999999999999998864

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

>PRK12736 elongation factor Tu; Reviewed

Probab=97.88  E-value=2.6e-05  Score=59.42  Aligned_cols=61  Identities=16%  Similarity=0.232  Sum_probs=38.3

Q ss_pred             ceeeEEEEEcCCCCCchhhhhhhhhCc-------C---------CCCccCCceeEeEEEEEEecCCeEEEEEEEeCCCCC
Q psy10878         68 EKLFKVIVIGDPTVGKTSFVQRYVQNT-------F---------KKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQN  131 (131)
Q Consensus        68 ~~~~ki~vvG~~~vGKSsli~~~~~~~-------~---------~~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gqe  131 (131)
                      ...++++++|..++|||||+.++++..       +         ..+....+..+..  ...+ ......+.+|||||++
T Consensus        10 k~~~ni~i~Ghvd~GKSTL~~~L~~~~~~~g~~~~~~~~~~d~~~~E~~rg~T~~~~--~~~~-~~~~~~i~~iDtPGh~   86 (394)
T PRK12736         10 KPHVNIGTIGHVDHGKTTLTAAITKVLAERGLNQAKDYDSIDAAPEEKERGITINTA--HVEY-ETEKRHYAHVDCPGHA   86 (394)
T ss_pred             CCeeEEEEEccCCCcHHHHHHHHHhhhhhhccccccchhhhcCCHHHHhcCccEEEE--eeEe-cCCCcEEEEEECCCHH
Confidence            346899999999999999999987521       1         0111222333332  2333 2233467899999974

>TIGR02034 CysN sulfate adenylyltransferase, large subunit

Probab=97.84  E-value=2.3e-05  Score=59.91  Aligned_cols=21  Identities=19%  Similarity=0.513  Sum_probs=19.6

Q ss_pred             eEEEEEcCCCCCchhhhhhhh
Q psy10878         71 FKVIVIGDPTVGKTSFVQRYV   91 (131)
Q Consensus        71 ~ki~vvG~~~vGKSsli~~~~   91 (131)
                      ++++++|..++|||||+.+++
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).

>KOG3859|consensus

Probab=97.82  E-value=3.6e-05  Score=55.96  Aligned_cols=62  Identities=16%  Similarity=0.340  Sum_probs=45.9

Q ss_pred             CceeeEEEEEcCCCCCchhhhhhhhhCcCCCCc----cCCceeEeEEEEEEecCCeEEEEEEEeCCC
Q psy10878         67 PEKLFKVIVIGDPTVGKTSFVQRYVQNTFKKDY----KGTVGVDFALKIVKWRDQQKIKLQLWDIAG  129 (131)
Q Consensus        67 ~~~~~ki~vvG~~~vGKSsli~~~~~~~~~~~~----~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~G  129 (131)
                      +...++|+.||..|.|||||+..+.+-.|....    .|++.....+..+.- .+..++|.|.||.|
T Consensus        39 ~GF~FNilCvGETg~GKsTLmdtLFNt~f~~~p~~H~~~~V~L~~~TyelqE-snvrlKLtiv~tvG  104 (406)
T KOG3859|consen   39 QGFCFNILCVGETGLGKSTLMDTLFNTKFESEPSTHTLPNVKLQANTYELQE-SNVRLKLTIVDTVG  104 (406)
T ss_pred             cCceEEEEEeccCCccHHHHHHHHhccccCCCCCccCCCCceeecchhhhhh-cCeeEEEEEEeecc
Confidence            556889999999999999999999987775432    244443333333333 56789999999998

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

Probab=97.79  E-value=3.5e-05  Score=62.03  Aligned_cols=24  Identities=25%  Similarity=0.499  Sum_probs=21.7

Q ss_pred             eeeEEEEEcCCCCCchhhhhhhhh
Q psy10878         69 KLFKVIVIGDPTVGKTSFVQRYVQ   92 (131)
Q Consensus        69 ~~~ki~vvG~~~vGKSsli~~~~~   92 (131)
                      ..++++++|.+++|||||+++++.
T Consensus        23 ~~~~i~iiGh~~~GKSTL~~~Ll~   46 (632)
T PRK05506         23 SLLRFITCGSVDDGKSTLIGRLLY   46 (632)
T ss_pred             CeeEEEEECCCCCChHHHHHHHHH
Confidence            457899999999999999999985

>PRK12739 elongation factor G; Reviewed

Probab=97.79  E-value=5e-05  Score=61.75  Aligned_cols=59  Identities=15%  Similarity=0.259  Sum_probs=39.9

Q ss_pred             eeeEEEEEcCCCCCchhhhhhhhhC--cC--C--------------CCccCCceeEeEEEEEEecCCeEEEEEEEeCCCC
Q psy10878         69 KLFKVIVIGDPTVGKTSFVQRYVQN--TF--K--------------KDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQ  130 (131)
Q Consensus        69 ~~~ki~vvG~~~vGKSsli~~~~~~--~~--~--------------~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gq  130 (131)
                      ...+|+++|..++|||||+++++..  ..  .              .+....+..+.....+.+ ++  ..+.+|||||+
T Consensus         7 ~irni~iiGh~~~GKsTL~~~ll~~~g~~~~~~~v~~~~~~~D~~~~E~~rgiti~~~~~~~~~-~~--~~i~liDTPG~   83 (691)
T PRK12739          7 KTRNIGIMAHIDAGKTTTTERILYYTGKSHKIGEVHDGAATMDWMEQEQERGITITSAATTCFW-KG--HRINIIDTPGH   83 (691)
T ss_pred             CeeEEEEECCCCCCHHHHHHHHHHhCCCccccccccCCccccCCChhHhhcCCCccceeEEEEE-CC--EEEEEEcCCCH
Confidence            4568999999999999999999742  10  0              011233444444556666 44  46789999995

>cd04165 GTPBP1_like GTPBP1-like

Probab=97.78  E-value=2e-05  Score=55.74  Aligned_cols=25  Identities=24%  Similarity=0.507  Sum_probs=22.0

Q ss_pred             EEEEEcCCCCCchhhhhhhhhCcCC
Q psy10878         72 KVIVIGDPTVGKTSFVQRYVQNTFK   96 (131)
Q Consensus        72 ki~vvG~~~vGKSsli~~~~~~~~~   96 (131)
                      |++++|+.++|||||+++|..+.|.
T Consensus         1 ~v~~~G~~~~GKttl~~~~~~~~~~   25 (224)
T cd04165           1 RVAVVGNVDAGKSTLLGVLTQGELD   25 (224)
T ss_pred             CEEEECCCCCCHHHHHHHHHhCCcC
Confidence            5899999999999999999976554

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

>KOG1491|consensus

Probab=97.78  E-value=6.5e-05  Score=55.81  Aligned_cols=62  Identities=23%  Similarity=0.284  Sum_probs=41.8

Q ss_pred             ceeeEEEEEcCCCCCchhhhhhhhhCcCCCCccCCceeEeEEEEEEec--------------CCeEEEEEEEeCCC
Q psy10878         68 EKLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWR--------------DQQKIKLQLWDIAG  129 (131)
Q Consensus        68 ~~~~ki~vvG~~~vGKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~--------------~~~~~~l~i~Dt~G  129 (131)
                      ...+|+-+||.||||||||+|.+..........|-..++.....+.+.              ...+..|+++|+||
T Consensus        18 ~~~lkiGIVGlPNvGKST~fnalT~~~a~~~NfPF~TIdPn~a~V~v~d~Rfd~l~~~Y~~~~~vpa~l~v~DIAG   93 (391)
T KOG1491|consen   18 GNNLKIGIVGLPNVGKSTFFNALTKSKAGAANFPFCTIDPNEARVEVPDSRFDLLCPIYGPKSKVPAFLTVYDIAG   93 (391)
T ss_pred             CCcceeeEeeCCCCchHHHHHHHhcCCCCccCCCcceeccccceeecCchHHHHHHHhcCCcceeeeeEEEEeecc
Confidence            356799999999999999999998765544444544433332222211              22356799999998

>PRK05124 cysN sulfate adenylyltransferase subunit 1; Provisional

Probab=97.77  E-value=5.5e-05  Score=59.03  Aligned_cols=25  Identities=20%  Similarity=0.518  Sum_probs=22.4

Q ss_pred             ceeeEEEEEcCCCCCchhhhhhhhh
Q psy10878         68 EKLFKVIVIGDPTVGKTSFVQRYVQ   92 (131)
Q Consensus        68 ~~~~ki~vvG~~~vGKSsli~~~~~   92 (131)
                      ...++++++|..++|||||+.+++.
T Consensus        25 ~~~~~i~iiGhvdaGKSTL~~~LL~   49 (474)
T PRK05124         25 KSLLRFLTCGSVDDGKSTLIGRLLH   49 (474)
T ss_pred             cCceEEEEECCCCCChHHHHHHHHH
Confidence            4568999999999999999999884

>KOG3886|consensus

Probab=97.77  E-value=1e-05  Score=57.25  Aligned_cols=59  Identities=25%  Similarity=0.415  Sum_probs=36.7

Q ss_pred             eEEEEEcCCCCCchhhhhhhhhCcC-CCCccCCceeEeEEEEEEecCCeEEEEEEEeCCCCC
Q psy10878         71 FKVIVIGDPTVGKTSFVQRYVQNTF-KKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQN  131 (131)
Q Consensus        71 ~ki~vvG~~~vGKSsli~~~~~~~~-~~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gqe  131 (131)
                      -|++++|.+|+||||+--.+..+.. .....++...++.-.++.+ -|. +.|++||..|||
T Consensus         5 kKvlLMGrsGsGKsSmrsiiF~ny~a~D~~rlg~tidveHsh~Rf-lGn-l~LnlwDcGgqe   64 (295)
T KOG3886|consen    5 KKVLLMGRSGSGKSSMRSIIFANYIARDTRRLGATIDVEHSHVRF-LGN-LVLNLWDCGGQE   64 (295)
T ss_pred             ceEEEeccCCCCccccchhhhhhhhhhhhhccCCcceeeehhhhh-hhh-heeehhccCCcH
Confidence            4899999999999998765542211 1111233333443344444 332 568999999996

>KOG0076|consensus

Probab=97.75  E-value=1.9e-05  Score=53.39  Aligned_cols=58  Identities=24%  Similarity=0.567  Sum_probs=40.5

Q ss_pred             eeeEEEEEcCCCCCchhhhhhhhhC---cC----CCCccCCceeEeEEEEEEecCCeEEEEEEEeCCCCC
Q psy10878         69 KLFKVIVIGDPTVGKTSFVQRYVQN---TF----KKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQN  131 (131)
Q Consensus        69 ~~~ki~vvG~~~vGKSsli~~~~~~---~~----~~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gqe  131 (131)
                      ..+.++++|..++|||+|+-+.-..   .+    .....||+|.+..  ++.+ +  ...+.+||..|||
T Consensus        16 e~y~vlIlgldnAGKttfLe~~Kt~~~~~~~~l~~~ki~~tvgLnig--~i~v-~--~~~l~fwdlgGQe   80 (197)
T KOG0076|consen   16 EDYSVLILGLDNAGKTTFLEALKTDFSKAYGGLNPSKITPTVGLNIG--TIEV-C--NAPLSFWDLGGQE   80 (197)
T ss_pred             hhhhheeeccccCCchhHHHHHHHHHHhhhcCCCHHHeecccceeec--ceee-c--cceeEEEEcCChH
Confidence            4578999999999999999764421   11    1245578886554  4444 4  3458899999996

>TIGR00436 era GTP-binding protein Era

Probab=97.73  E-value=7.3e-06  Score=59.32  Aligned_cols=58  Identities=16%  Similarity=0.205  Sum_probs=42.4

Q ss_pred             ccCCCcEEeeccCCCcccccccc---c------ccCCCCccccccCCcccccccccccccccCCCcccCC
Q psy10878          3 YKAKKPILLPSASEDPSIDNWDK---A------SWENVTPIVSEQGDGEIIEIIDPSLKLVRVPSIRKSF   63 (131)
Q Consensus         3 ~~~~kp~vlv~NK~Dl~~~~~~~---~------~~~~~~~is~~~~~~~~~~~~~~~~~~~~~~~~~~~~   63 (131)
                      ...++|+++|+||+|+.......   .      .+..++++||+++.| +.++++.+.+.+  |..+..+
T Consensus       104 ~~~~~p~ilV~NK~Dl~~~~~~~~~~~~~~~~~~~~~v~~iSA~~g~g-i~~L~~~l~~~l--~~~~~~~  170 (270)
T TIGR00436       104 QNLKRPVVLTRNKLDNKFKDKLLPLIDKYAILEDFKDIVPISALTGDN-TSFLAAFIEVHL--PEGPFRY  170 (270)
T ss_pred             HhcCCCEEEEEECeeCCCHHHHHHHHHHHHhhcCCCceEEEecCCCCC-HHHHHHHHHHhC--CCCCCCC
Confidence            34578999999999996432211   1      114789999999999 999999988877  4444433

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

>PLN03127 Elongation factor Tu; Provisional

Probab=97.72  E-value=9.4e-05  Score=57.34  Aligned_cols=62  Identities=16%  Similarity=0.108  Sum_probs=39.9

Q ss_pred             CceeeEEEEEcCCCCCchhhhhhhhhC------c----------CCCCccCCceeEeEEEEEEecCCeEEEEEEEeCCCC
Q psy10878         67 PEKLFKVIVIGDPTVGKTSFVQRYVQN------T----------FKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQ  130 (131)
Q Consensus        67 ~~~~~ki~vvG~~~vGKSsli~~~~~~------~----------~~~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gq  130 (131)
                      ....++++++|-.++|||||++++.+.      .          ..++..+.+..+.....+..   ...++.+.||||.
T Consensus        58 ~k~~~ni~iiGhvd~GKSTL~~~L~~~~~~~g~~~~~~~~~~D~~~~E~~rGiTi~~~~~~~~~---~~~~i~~iDtPGh  134 (447)
T PLN03127         58 TKPHVNVGTIGHVDHGKTTLTAAITKVLAEEGKAKAVAFDEIDKAPEEKARGITIATAHVEYET---AKRHYAHVDCPGH  134 (447)
T ss_pred             CCceEEEEEECcCCCCHHHHHHHHHhHHHHhhcccceeeccccCChhHhhcCceeeeeEEEEcC---CCeEEEEEECCCc
Confidence            445689999999999999999998621      1          01122234444443333332   3356789999997


Q ss_pred             C
Q psy10878        131 N  131 (131)
Q Consensus       131 e  131 (131)
                      +
T Consensus       135 ~  135 (447)
T PLN03127        135 A  135 (447)
T ss_pred             c
Confidence            4

>COG1159 Era GTPase [General function prediction only]

Probab=97.71  E-value=9.7e-06  Score=59.03  Aligned_cols=59  Identities=17%  Similarity=0.254  Sum_probs=45.3

Q ss_pred             ccCCCcEEeeccCCCccccccc-c---------cccCCCCccccccCCcccccccccccccccCCCcccCCC
Q psy10878          3 YKAKKPILLPSASEDPSIDNWD-K---------ASWENVTPIVSEQGDGEIIEIIDPSLKLVRVPSIRKSFN   64 (131)
Q Consensus         3 ~~~~kp~vlv~NK~Dl~~~~~~-~---------~~~~~~~~is~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   64 (131)
                      ++.+.|+++++||+|...+... .         -.|.+++|+||+++.+ +..+++.+..++  |.....++
T Consensus       111 k~~~~pvil~iNKID~~~~~~~l~~~~~~~~~~~~f~~ivpiSA~~g~n-~~~L~~~i~~~L--peg~~~yp  179 (298)
T COG1159         111 KKTKTPVILVVNKIDKVKPKTVLLKLIAFLKKLLPFKEIVPISALKGDN-VDTLLEIIKEYL--PEGPWYYP  179 (298)
T ss_pred             hhcCCCeEEEEEccccCCcHHHHHHHHHHHHhhCCcceEEEeeccccCC-HHHHHHHHHHhC--CCCCCcCC
Confidence            4457899999999998766542 1         1128899999999999 999999998888  55554444

>TIGR00092 GTP-binding protein YchF

Probab=97.70  E-value=7.7e-05  Score=56.31  Aligned_cols=25  Identities=20%  Similarity=0.242  Sum_probs=22.3

Q ss_pred             eEEEEEcCCCCCchhhhhhhhhCcC
Q psy10878         71 FKVIVIGDPTVGKTSFVQRYVQNTF   95 (131)
Q Consensus        71 ~ki~vvG~~~vGKSsli~~~~~~~~   95 (131)
                      +|+.++|.||+|||||.+.+.+...
T Consensus         3 lk~GivGlPn~GKSTlfnaLT~~~~   27 (368)
T TIGR00092         3 LSGGIVGLPNVGKSTLFAATTNLLG   27 (368)
T ss_pred             ceEEEECCCCCChHHHHHHHhCCCc
Confidence            6899999999999999999886554

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.

>COG1618 Predicted nucleotide kinase [Nucleotide transport and metabolism]

Probab=97.67  E-value=0.00014  Score=48.86  Aligned_cols=56  Identities=30%  Similarity=0.527  Sum_probs=40.6

Q ss_pred             eeeEEEEEcCCCCCchhhhhhhhhCcCCCCccCCceeEeEEEEEEecCCeEEEEEEEeCC
Q psy10878         69 KLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIA  128 (131)
Q Consensus        69 ~~~ki~vvG~~~vGKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~  128 (131)
                      ..+|+.+-|.|||||||++.+..+.-....|  +++ -|....+.- +|+.+-+.|.|.+
T Consensus         4 ~~mki~ITG~PGvGKtTl~~ki~e~L~~~g~--kvg-Gf~t~EVR~-gGkR~GF~Ivdl~   59 (179)
T COG1618           4 MAMKIFITGRPGVGKTTLVLKIAEKLREKGY--KVG-GFITPEVRE-GGKRIGFKIVDLA   59 (179)
T ss_pred             cceEEEEeCCCCccHHHHHHHHHHHHHhcCc--eee-eEEeeeeec-CCeEeeeEEEEcc
Confidence            3579999999999999999988753222222  233 245666664 8888889999987

>KOG1490|consensus

Probab=97.63  E-value=4.3e-05  Score=59.35  Aligned_cols=59  Identities=19%  Similarity=0.252  Sum_probs=40.2

Q ss_pred             eeeEEEEEcCCCCCchhhhhhhhhCcCCCCccCCceeEeEEEEEEecCCeEEEEEEEeCCCC
Q psy10878         69 KLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQ  130 (131)
Q Consensus        69 ~~~ki~vvG~~~vGKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gq  130 (131)
                      ..-.++++|.||||||||++..........+.+.+...+..-.+.+   +-...++.||||-
T Consensus       167 ~trTlllcG~PNVGKSSf~~~vtradvevqpYaFTTksL~vGH~dy---kYlrwQViDTPGI  225 (620)
T KOG1490|consen  167 NTRTLLVCGYPNVGKSSFNNKVTRADDEVQPYAFTTKLLLVGHLDY---KYLRWQVIDTPGI  225 (620)
T ss_pred             CcCeEEEecCCCCCcHhhcccccccccccCCcccccchhhhhhhhh---heeeeeecCCccc
Confidence            4457999999999999999988765554444444443344444433   4566788899984

>PRK00049 elongation factor Tu; Reviewed

Probab=97.63  E-value=0.00014  Score=55.47  Aligned_cols=25  Identities=24%  Similarity=0.288  Sum_probs=22.6

Q ss_pred             ceeeEEEEEcCCCCCchhhhhhhhh
Q psy10878         68 EKLFKVIVIGDPTVGKTSFVQRYVQ   92 (131)
Q Consensus        68 ~~~~ki~vvG~~~vGKSsli~~~~~   92 (131)
                      ...++++++|..++|||||+++++.
T Consensus        10 ~~~~ni~iiGhvd~GKSTL~~~L~~   34 (396)
T PRK00049         10 KPHVNVGTIGHVDHGKTTLTAAITK   34 (396)
T ss_pred             CCEEEEEEEeECCCCHHHHHHHHHH
Confidence            4568999999999999999999985

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

Probab=97.62  E-value=9.8e-05  Score=55.45  Aligned_cols=26  Identities=23%  Similarity=0.447  Sum_probs=22.4

Q ss_pred             eeEEEEEcCCCCCchhhhhhhhhCcC
Q psy10878         70 LFKVIVIGDPTVGKTSFVQRYVQNTF   95 (131)
Q Consensus        70 ~~ki~vvG~~~vGKSsli~~~~~~~~   95 (131)
                      .+++-+||.||||||||.|.+.....
T Consensus         2 ~l~~GIVGlPNVGKSTlFnAlT~~~a   27 (372)
T COG0012           2 SLKIGIVGLPNVGKSTLFNALTKAGA   27 (372)
T ss_pred             CceeEEecCCCCcHHHHHHHHHcCCc
Confidence            36899999999999999999886544

>PTZ00141 elongation factor 1- alpha; Provisional

Probab=97.61  E-value=0.00016  Score=55.98  Aligned_cols=25  Identities=20%  Similarity=0.392  Sum_probs=22.1

Q ss_pred             ceeeEEEEEcCCCCCchhhhhhhhh
Q psy10878         68 EKLFKVIVIGDPTVGKTSFVQRYVQ   92 (131)
Q Consensus        68 ~~~~ki~vvG~~~vGKSsli~~~~~   92 (131)
                      ...++++++|..++|||||+.+++.
T Consensus         5 k~~~nv~i~Ghvd~GKSTL~~~Ll~   29 (446)
T PTZ00141          5 KTHINLVVIGHVDSGKSTTTGHLIY   29 (446)
T ss_pred             CceEEEEEEecCCCCHHHHHHHHHH
Confidence            4568999999999999999998874

>TIGR02836 spore_IV_A stage IV sporulation protein A

Probab=97.59  E-value=0.00015  Score=55.55  Aligned_cols=25  Identities=20%  Similarity=0.472  Sum_probs=22.7

Q ss_pred             eeeEEEEEcCCCCCchhhhhhhhhC
Q psy10878         69 KLFKVIVIGDPTVGKTSFVQRYVQN   93 (131)
Q Consensus        69 ~~~ki~vvG~~~vGKSsli~~~~~~   93 (131)
                      ..+-+.++|..++|||||+|+|++.
T Consensus        16 G~IyIGvvGpvrtGKSTfIn~fm~q   40 (492)
T TIGR02836        16 GDIYIGVVGPVRTGKSTFIKKFMEL   40 (492)
T ss_pred             CcEEEEEEcCCCCChHHHHHHHHhh
Confidence            4567999999999999999999976

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=97.56  E-value=9.1e-05  Score=58.32  Aligned_cols=34  Identities=29%  Similarity=0.500  Sum_probs=29.5

Q ss_pred             CceeeEEEEEcCCCCCchhhhhhhhhCcCCCCcc
Q psy10878         67 PEKLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYK  100 (131)
Q Consensus        67 ~~~~~ki~vvG~~~vGKSsli~~~~~~~~~~~~~  100 (131)
                      ....++|+++|+.|||||||+-.++..+|.....
T Consensus         6 t~kdVRIvliGD~G~GKtSLImSL~~eef~~~VP   39 (625)
T KOG1707|consen    6 TLKDVRIVLIGDEGVGKTSLIMSLLEEEFVDAVP   39 (625)
T ss_pred             CccceEEEEECCCCccHHHHHHHHHhhhcccccc
Confidence            4457899999999999999999999999986543

>PRK00007 elongation factor G; Reviewed

Probab=97.54  E-value=0.00029  Score=57.37  Aligned_cols=59  Identities=14%  Similarity=0.262  Sum_probs=39.8

Q ss_pred             eeeEEEEEcCCCCCchhhhhhhhh--CcC--CC--------------CccCCceeEeEEEEEEecCCeEEEEEEEeCCCC
Q psy10878         69 KLFKVIVIGDPTVGKTSFVQRYVQ--NTF--KK--------------DYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQ  130 (131)
Q Consensus        69 ~~~ki~vvG~~~vGKSsli~~~~~--~~~--~~--------------~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gq  130 (131)
                      ...+|+++|.+++|||||+++++.  +..  ..              +....+..+.....+.+ ++  ..+.+.||||.
T Consensus         9 ~Irni~iiG~~~~GKsTL~~~ll~~~g~~~~~g~v~~~~~~~D~~~~E~~rg~ti~~~~~~~~~-~~--~~~~liDTPG~   85 (693)
T PRK00007          9 RYRNIGIMAHIDAGKTTTTERILFYTGVNHKIGEVHDGAATMDWMEQEQERGITITSAATTCFW-KD--HRINIIDTPGH   85 (693)
T ss_pred             ceeEEEEECCCCCCHHHHHHHHHHhcCCccccccccCCcccCCCCHHHHhCCCCEeccEEEEEE-CC--eEEEEEeCCCc
Confidence            456899999999999999999973  211  00              01233444444555666 44  56889999995

>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=97.52  E-value=0.00016  Score=48.91  Aligned_cols=52  Identities=23%  Similarity=0.429  Sum_probs=34.3

Q ss_pred             EEEEEcCCCCCchhhhhhhhhCcCCCCccCCceeEeEEEEEEecCCeEEEEEEEeC
Q psy10878         72 KVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDI  127 (131)
Q Consensus        72 ki~vvG~~~vGKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt  127 (131)
                      ++++-|.+|+||||++++++..-.. ...+.-|  |.+..+.- +|..+-+.+.|.
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 HIFITGPPGVGKTTLLKKVIEELKK-KGLPVGG--FYTEEVRE-NGRRIGFDIVDL   52 (168)
T ss_dssp             EEEEES-TTSSHHHHHHHHHHHHHH-TCGGEEE--EEEEEEET-TSSEEEEEEEET
T ss_pred             CEEEECcCCCCHHHHHHHHHHHhhc-cCCccce--EEeecccC-CCceEEEEEEEC
Confidence            5899999999999999998843211 1112333  44555543 777777888876

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.

>cd01894 EngA1 EngA1 subfamily

Probab=97.50  E-value=1.7e-05  Score=51.86  Aligned_cols=50  Identities=32%  Similarity=0.476  Sum_probs=37.4

Q ss_pred             ccCCCcEEeeccCCCcccccccccc---c--CCCCccccccCCccccccccccccc
Q psy10878          3 YKAKKPILLPSASEDPSIDNWDKAS---W--ENVTPIVSEQGDGEIIEIIDPSLKL   53 (131)
Q Consensus         3 ~~~~kp~vlv~NK~Dl~~~~~~~~~---~--~~~~~is~~~~~~~~~~~~~~~~~~   53 (131)
                      +..++|+++|+||+|+.........   .  .+++++|++++.| +.++++.+.+.
T Consensus       102 ~~~~~piiiv~nK~D~~~~~~~~~~~~~~~~~~~~~~Sa~~~~g-v~~l~~~l~~~  156 (157)
T cd01894         102 RKSKKPVILVVNKVDNIKEEDEAAEFYSLGFGEPIPISAEHGRG-IGDLLDAILEL  156 (157)
T ss_pred             HhcCCCEEEEEECcccCChHHHHHHHHhcCCCCeEEEecccCCC-HHHHHHHHHhh
Confidence            4457999999999999765432211   2  4779999999999 99888776543

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.

>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=97.46  E-value=0.0002  Score=47.74  Aligned_cols=32  Identities=16%  Similarity=0.307  Sum_probs=24.2

Q ss_pred             EEEEcCCCCCchhhhhhhhhCcC-CCCccCCce
Q psy10878         73 VIVIGDPTVGKTSFVQRYVQNTF-KKDYKGTVG  104 (131)
Q Consensus        73 i~vvG~~~vGKSsli~~~~~~~~-~~~~~~t~~  104 (131)
                      |+|+|..++|||||+|.+++... +....|++.
T Consensus         1 V~v~G~~ssGKSTliNaLlG~~ilp~~~~~~T~   33 (168)
T PF00350_consen    1 VAVVGQFSSGKSTLINALLGRPILPSGVGPCTA   33 (168)
T ss_dssp             EEEEEBTTSSHHHHHHHHHTSS-SSSSSSSTTS
T ss_pred             CEEEcCCCCCHHHHHHHHHhcccCccccccccc
Confidence            68999999999999999998764 333334443

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 ....

>KOG1486|consensus

Probab=97.29  E-value=0.00067  Score=48.89  Aligned_cols=60  Identities=22%  Similarity=0.356  Sum_probs=38.7

Q ss_pred             CceeeEEEEEcCCCCCchhhhhhhhhCc-CCCCccCCceeEeEEEEEEecCCeEEEEEEEeCCCC
Q psy10878         67 PEKLFKVIVIGDPTVGKTSFVQRYVQNT-FKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQ  130 (131)
Q Consensus        67 ~~~~~ki~vvG~~~vGKSsli~~~~~~~-~~~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gq  130 (131)
                      +....+++++|.|.||||||+..+..-. -..+|.-|+- ....-.+.+ +|.  .+++.|.||.
T Consensus        59 KsGdaRValIGfPSVGKStlLs~iT~T~SeaA~yeFTTL-tcIpGvi~y-~ga--~IQllDLPGI  119 (364)
T KOG1486|consen   59 KSGDARVALIGFPSVGKSTLLSKITSTHSEAASYEFTTL-TCIPGVIHY-NGA--NIQLLDLPGI  119 (364)
T ss_pred             ccCCeEEEEecCCCccHHHHHHHhhcchhhhhceeeeEE-EeecceEEe-cCc--eEEEecCccc
Confidence            4455689999999999999999876322 2234433322 122334455 554  4789999983

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

Probab=97.29  E-value=7.5e-05  Score=48.95  Aligned_cols=48  Identities=10%  Similarity=0.091  Sum_probs=35.3

Q ss_pred             CCCcEEeeccCCCcccccccc---ccc-----CCCCccccccCCccccccccccccc
Q psy10878          5 AKKPILLPSASEDPSIDNWDK---ASW-----ENVTPIVSEQGDGEIIEIIDPSLKL   53 (131)
Q Consensus         5 ~~kp~vlv~NK~Dl~~~~~~~---~~~-----~~~~~is~~~~~~~~~~~~~~~~~~   53 (131)
                      .++|+++|+||+|+.......   ..+     ...+++|++++.| +.++++.+.+.
T Consensus       105 ~~~piivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~g-i~~l~~~l~~~  160 (162)
T cd04138         105 DDVPMVLVGNKCDLAARTVSSRQGQDLAKSYGIPYIETSAKTRQG-VEEAFYTLVRE  160 (162)
T ss_pred             CCCCEEEEEECcccccceecHHHHHHHHHHhCCeEEEecCCCCCC-HHHHHHHHHHH
Confidence            478999999999996533211   112     4567999999999 99998876543

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.

>cd01882 BMS1 Bms1

Probab=97.28  E-value=0.00049  Score=48.60  Aligned_cols=56  Identities=27%  Similarity=0.415  Sum_probs=33.9

Q ss_pred             eeeEEEEEcCCCCCchhhhhhhhhCcCCCCccCCceeEeEEEEEEecCCeEEEEEEEeCCCC
Q psy10878         69 KLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQ  130 (131)
Q Consensus        69 ~~~ki~vvG~~~vGKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gq  130 (131)
                      ....++++|.+|+|||+|++.+....-........|. +   .+.  .....++.++||+|.
T Consensus        38 ~~~~i~ivG~~~~GKstl~~~l~~~~~~~~~~~~~g~-i---~i~--~~~~~~i~~vDtPg~   93 (225)
T cd01882          38 PPLVVAVVGPPGVGKTTLIKSLVKNYTKQNISDIKGP-I---TVV--TGKKRRLTFIECPND   93 (225)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHhhcccCcccccccc-E---EEE--ecCCceEEEEeCCch
Confidence            3467999999999999999988753211111111121 1   111  123455789999984

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.

>PRK12740 elongation factor G; Reviewed

Probab=97.28  E-value=0.00029  Score=57.15  Aligned_cols=52  Identities=21%  Similarity=0.395  Sum_probs=32.8

Q ss_pred             EcCCCCCchhhhhhhhhCcCC--C----------------CccCCceeEeEEEEEEecCCeEEEEEEEeCCCC
Q psy10878         76 IGDPTVGKTSFVQRYVQNTFK--K----------------DYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQ  130 (131)
Q Consensus        76 vG~~~vGKSsli~~~~~~~~~--~----------------~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gq  130 (131)
                      +|..++|||||+++++...-.  .                +....+........+.+ ++  +.+.+|||||+
T Consensus         1 ig~~~~GKTTL~~~Ll~~~g~i~~~~~~~~~~~~~d~~~~e~~rgiTi~~~~~~~~~-~~--~~i~liDtPG~   70 (668)
T PRK12740          1 VGHSGAGKTTLTEAILFYTGAIHRIGEVEDGTTTMDFMPEERERGISITSAATTCEW-KG--HKINLIDTPGH   70 (668)
T ss_pred             CCCCCCcHHHHHHHHHHhcCCCccCccccCCcccCCCChHHHhcCCCeeeceEEEEE-CC--EEEEEEECCCc
Confidence            589999999999999632110  0                01122333344455655 33  67899999997

>COG2262 HflX GTPases [General function prediction only]

Probab=97.27  E-value=0.00054  Score=52.05  Aligned_cols=61  Identities=16%  Similarity=0.181  Sum_probs=39.6

Q ss_pred             CceeeEEEEEcCCCCCchhhhhhhhhCcCCCCccCCceeEeEEEEEEecCCeEEEEEEEeCCC
Q psy10878         67 PEKLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAG  129 (131)
Q Consensus        67 ~~~~~ki~vvG~~~vGKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~G  129 (131)
                      ......+.++|.+|+|||||+|++.+........--...+...+.+.+.+|..  +-+-||-|
T Consensus       189 ~~~~p~vaLvGYTNAGKSTL~N~LT~~~~~~~d~LFATLdpttR~~~l~~g~~--vlLtDTVG  249 (411)
T COG2262         189 RSGIPLVALVGYTNAGKSTLFNALTGADVYVADQLFATLDPTTRRIELGDGRK--VLLTDTVG  249 (411)
T ss_pred             ccCCCeEEEEeeccccHHHHHHHHhccCeeccccccccccCceeEEEeCCCce--EEEecCcc
Confidence            34456799999999999999999885444322222222234456666644443  56788877

>PLN00043 elongation factor 1-alpha; Provisional

Probab=97.24  E-value=0.00074  Score=52.43  Aligned_cols=24  Identities=21%  Similarity=0.425  Sum_probs=21.2

Q ss_pred             ceeeEEEEEcCCCCCchhhhhhhh
Q psy10878         68 EKLFKVIVIGDPTVGKTSFVQRYV   91 (131)
Q Consensus        68 ~~~~ki~vvG~~~vGKSsli~~~~   91 (131)
                      ...++++++|..++|||||+-+++
T Consensus         5 k~~~ni~i~Ghvd~GKSTL~g~Ll   28 (447)
T PLN00043          5 KVHINIVVIGHVDSGKSTTTGHLI   28 (447)
T ss_pred             CceEEEEEEecCCCCHHHHHHHHH
Confidence            346789999999999999998876

>cd04143 Rhes_like Rhes_like subfamily

Probab=97.21  E-value=0.0002  Score=51.35  Aligned_cols=75  Identities=15%  Similarity=0.247  Sum_probs=48.9

Q ss_pred             CCCcEEeeccCCCcccc-ccccccc---------CCCCccccccCCcccccccccccccccCCCcccCCCCCCceeeEE-
Q psy10878          5 AKKPILLPSASEDPSID-NWDKASW---------ENVTPIVSEQGDGEIIEIIDPSLKLVRVPSIRKSFNAPPEKLFKV-   73 (131)
Q Consensus         5 ~~kp~vlv~NK~Dl~~~-~~~~~~~---------~~~~~is~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ki-   73 (131)
                      .++|+++|.||+|+... .....++         ...+++||+++.| +.++++.+......|...+     +....++ 
T Consensus       112 ~~~piIivgNK~Dl~~~~~v~~~ei~~~~~~~~~~~~~evSAktg~g-I~elf~~L~~~~~~p~e~~-----~~~~~~~~  185 (247)
T cd04143         112 VKIPMVICGNKADRDFPREVQRDEVEQLVGGDENCAYFEVSAKKNSN-LDEMFRALFSLAKLPNEMS-----PSLHRKIS  185 (247)
T ss_pred             CCCcEEEEEECccchhccccCHHHHHHHHHhcCCCEEEEEeCCCCCC-HHHHHHHHHHHhccccccC-----ccccceee
Confidence            46899999999999642 1111111         2468999999999 9999999988776555432     2222333 


Q ss_pred             EEEcCCCCCchh
Q psy10878         74 IVIGDPTVGKTS   85 (131)
Q Consensus        74 ~vvG~~~vGKSs   85 (131)
                      +..|++..+|+-
T Consensus       186 ~~~~~~~~~~~~  197 (247)
T cd04143         186 VQYGDALHKKSR  197 (247)
T ss_pred             eeeccccccccc
Confidence            344665555554

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

>PRK00089 era GTPase Era; Reviewed

Probab=97.18  E-value=0.00016  Score=52.73  Aligned_cols=50  Identities=26%  Similarity=0.371  Sum_probs=38.1

Q ss_pred             cCCCcEEeeccCCCcccc-cccc---c------ccCCCCccccccCCcccccccccccccc
Q psy10878          4 KAKKPILLPSASEDPSID-NWDK---A------SWENVTPIVSEQGDGEIIEIIDPSLKLV   54 (131)
Q Consensus         4 ~~~kp~vlv~NK~Dl~~~-~~~~---~------~~~~~~~is~~~~~~~~~~~~~~~~~~~   54 (131)
                      ..++|+++|+||+|+... ....   .      .+.+++++|+..+.| +.++++.+.+.+
T Consensus       111 ~~~~pvilVlNKiDl~~~~~~l~~~~~~l~~~~~~~~i~~iSA~~~~g-v~~L~~~L~~~l  170 (292)
T PRK00089        111 KVKTPVILVLNKIDLVKDKEELLPLLEELSELMDFAEIVPISALKGDN-VDELLDVIAKYL  170 (292)
T ss_pred             hcCCCEEEEEECCcCCCCHHHHHHHHHHHHhhCCCCeEEEecCCCCCC-HHHHHHHHHHhC
Confidence            346899999999999733 2111   1      126688999999999 999999888776

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

Probab=97.18  E-value=0.00015  Score=47.82  Aligned_cols=49  Identities=6%  Similarity=0.076  Sum_probs=35.7

Q ss_pred             CCCcEEeeccCCCcccccc----ccccc-----CCCCccccccCCcccccccccccccc
Q psy10878          5 AKKPILLPSASEDPSIDNW----DKASW-----ENVTPIVSEQGDGEIIEIIDPSLKLV   54 (131)
Q Consensus         5 ~~kp~vlv~NK~Dl~~~~~----~~~~~-----~~~~~is~~~~~~~~~~~~~~~~~~~   54 (131)
                      .+.|+++|+||+|+.....    ....+     ...+++|++.+.| +.++++.+.+.+
T Consensus       106 ~~~piiiv~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~-i~~l~~~l~~~~  163 (164)
T cd04145         106 DEFPMILVGNKADLEHQRKVSREEGQELARKLKIPYIETSAKDRLN-VDKAFHDLVRVI  163 (164)
T ss_pred             CCCCEEEEeeCccccccceecHHHHHHHHHHcCCcEEEeeCCCCCC-HHHHHHHHHHhh
Confidence            4789999999999965321    11122     4568999999999 999988776543

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

>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=97.14  E-value=0.00032  Score=44.29  Aligned_cols=21  Identities=24%  Similarity=0.583  Sum_probs=19.1

Q ss_pred             EEEEEcCCCCCchhhhhhhhh
Q psy10878         72 KVIVIGDPTVGKTSFVQRYVQ   92 (131)
Q Consensus        72 ki~vvG~~~vGKSsli~~~~~   92 (131)
                      .|+|.|.+|+||||+.+.+..
T Consensus         1 vI~I~G~~gsGKST~a~~La~   21 (121)
T PF13207_consen    1 VIIISGPPGSGKSTLAKELAE   21 (121)
T ss_dssp             EEEEEESTTSSHHHHHHHHHH
T ss_pred             CEEEECCCCCCHHHHHHHHHH
Confidence            488999999999999998875

...

>cd04139 RalA_RalB RalA/RalB subfamily

Probab=97.12  E-value=0.00013  Score=47.89  Aligned_cols=49  Identities=10%  Similarity=0.156  Sum_probs=36.4

Q ss_pred             CCCcEEeeccCCCcccc-ccccc-------cc-CCCCccccccCCcccccccccccccc
Q psy10878          5 AKKPILLPSASEDPSID-NWDKA-------SW-ENVTPIVSEQGDGEIIEIIDPSLKLV   54 (131)
Q Consensus         5 ~~kp~vlv~NK~Dl~~~-~~~~~-------~~-~~~~~is~~~~~~~~~~~~~~~~~~~   54 (131)
                      .++|+++|+||+|+... .....       ++ ..++++|+.++.| +.++++.+.+.+
T Consensus       104 ~~~piiiv~NK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~g-i~~l~~~l~~~~  161 (164)
T cd04139         104 DNVPLLLVGNKCDLEDKRQVSSEEAANLARQWGVPYVETSAKTRQN-VEKAFYDLVREI  161 (164)
T ss_pred             CCCCEEEEEEccccccccccCHHHHHHHHHHhCCeEEEeeCCCCCC-HHHHHHHHHHHH
Confidence            47999999999999652 11111       12 5678999999999 999988776544

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

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

Probab=97.12  E-value=0.0001  Score=48.19  Aligned_cols=49  Identities=22%  Similarity=0.274  Sum_probs=35.7

Q ss_pred             cCCCcEEeeccCCCcccccccc---ccc-----CCCCccccccCCccccccccccccc
Q psy10878          4 KAKKPILLPSASEDPSIDNWDK---ASW-----ENVTPIVSEQGDGEIIEIIDPSLKL   53 (131)
Q Consensus         4 ~~~kp~vlv~NK~Dl~~~~~~~---~~~-----~~~~~is~~~~~~~~~~~~~~~~~~   53 (131)
                      ..++|+++|+||+|+.+.....   ..+     ..++++|+.++.| +.++++.+.+.
T Consensus        99 ~~~~~~iiv~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~iSa~~~~~-~~~l~~~l~~~  155 (158)
T cd01879          99 ELGLPVVVALNMIDEAEKRGIKIDLDKLSELLGVPVVPTSARKGEG-IDELKDAIAEL  155 (158)
T ss_pred             HcCCCEEEEEehhhhcccccchhhHHHHHHhhCCCeEEEEccCCCC-HHHHHHHHHHH
Confidence            4579999999999996543111   111     4679999999999 88887766543

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.

>cd01898 Obg Obg subfamily

Probab=97.12  E-value=0.00013  Score=48.50  Aligned_cols=48  Identities=21%  Similarity=0.208  Sum_probs=34.8

Q ss_pred             CCCcEEeeccCCCccccccccc---cc------CCCCccccccCCccccccccccccc
Q psy10878          5 AKKPILLPSASEDPSIDNWDKA---SW------ENVTPIVSEQGDGEIIEIIDPSLKL   53 (131)
Q Consensus         5 ~~kp~vlv~NK~Dl~~~~~~~~---~~------~~~~~is~~~~~~~~~~~~~~~~~~   53 (131)
                      .++|+++|+||+|+.+......   .+      ..++++|++++.| +.++++.+.++
T Consensus       113 ~~~p~ivv~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~g-i~~l~~~i~~~  169 (170)
T cd01898         113 LEKPRIVVLNKIDLLDEEELFELLKELLKELWGKPVFPISALTGEG-LDELLRKLAEL  169 (170)
T ss_pred             cccccEEEEEchhcCCchhhHHHHHHHHhhCCCCCEEEEecCCCCC-HHHHHHHHHhh
Confidence            4689999999999865432211   11      3468999999999 99888776543

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.

>cd04140 ARHI_like ARHI subfamily

Probab=97.11  E-value=0.00017  Score=47.93  Aligned_cols=48  Identities=21%  Similarity=0.297  Sum_probs=34.9

Q ss_pred             CCCcEEeeccCCCccccccccc----c----c-CCCCccccccCCccccccccccccc
Q psy10878          5 AKKPILLPSASEDPSIDNWDKA----S----W-ENVTPIVSEQGDGEIIEIIDPSLKL   53 (131)
Q Consensus         5 ~~kp~vlv~NK~Dl~~~~~~~~----~----~-~~~~~is~~~~~~~~~~~~~~~~~~   53 (131)
                      .+.|+++|.||+|+.+......    .    + ...+++||+++.| +.++++.+.+.
T Consensus       107 ~~~piilv~nK~Dl~~~~~v~~~~~~~~~~~~~~~~~e~SA~~g~~-v~~~f~~l~~~  163 (165)
T cd04140         107 EKIPIMLVGNKCDESHKREVSSNEGAACATEWNCAFMETSAKTNHN-VQELFQELLNL  163 (165)
T ss_pred             CCCCEEEEEECccccccCeecHHHHHHHHHHhCCcEEEeecCCCCC-HHHHHHHHHhc
Confidence            4689999999999965221111    1    1 3467899999999 99998877643

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

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

Probab=97.11  E-value=0.00014  Score=48.23  Aligned_cols=47  Identities=19%  Similarity=0.157  Sum_probs=35.2

Q ss_pred             CCcEEeeccCCCcccccccc--ccc-----CCCCccccccCCccccccccccccc
Q psy10878          6 KKPILLPSASEDPSIDNWDK--ASW-----ENVTPIVSEQGDGEIIEIIDPSLKL   53 (131)
Q Consensus         6 ~kp~vlv~NK~Dl~~~~~~~--~~~-----~~~~~is~~~~~~~~~~~~~~~~~~   53 (131)
                      ++|+++|+||+|+.......  ..+     ..++++|++++.| +.++++.+.+.
T Consensus       113 ~~pvilv~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~g-i~~l~~~l~~~  166 (168)
T cd01897         113 NKPVIVVLNKIDLLTFEDLSEIEEEEELEGEEVLKISTLTEEG-VDEVKNKACEL  166 (168)
T ss_pred             cCCeEEEEEccccCchhhHHHHHHhhhhccCceEEEEecccCC-HHHHHHHHHHH
Confidence            78999999999986533211  122     4578899999999 99998876654

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.

>cd04136 Rap_like Rap-like subfamily

Probab=97.10  E-value=0.00016  Score=47.66  Aligned_cols=48  Identities=8%  Similarity=0.022  Sum_probs=34.6

Q ss_pred             CCCcEEeeccCCCccccccc----cccc-----CCCCccccccCCccccccccccccc
Q psy10878          5 AKKPILLPSASEDPSIDNWD----KASW-----ENVTPIVSEQGDGEIIEIIDPSLKL   53 (131)
Q Consensus         5 ~~kp~vlv~NK~Dl~~~~~~----~~~~-----~~~~~is~~~~~~~~~~~~~~~~~~   53 (131)
                      .++|+++|+||+|+......    ...+     ...+++||+++.| +.++++.+.+.
T Consensus       105 ~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~-v~~l~~~l~~~  161 (163)
T cd04136         105 ENVPMVLVGNKCDLEDERVVSREEGQALARQWGCPFYETSAKSKIN-VDEVFADLVRQ  161 (163)
T ss_pred             CCCCEEEEEECccccccceecHHHHHHHHHHcCCeEEEecCCCCCC-HHHHHHHHHHh
Confidence            36899999999998643211    1111     3468999999999 99998877653

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.

>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=97.08  E-value=7.1e-05  Score=51.17  Aligned_cols=51  Identities=25%  Similarity=0.336  Sum_probs=37.1

Q ss_pred             ccCCCcEEeeccCCCcccccc------ccccc------C-----CCCccccccCCcccccccccccccc
Q psy10878          3 YKAKKPILLPSASEDPSIDNW------DKASW------E-----NVTPIVSEQGDGEIIEIIDPSLKLV   54 (131)
Q Consensus         3 ~~~~kp~vlv~NK~Dl~~~~~------~~~~~------~-----~~~~is~~~~~~~~~~~~~~~~~~~   54 (131)
                      +..+.|+++|+||+|+...+.      ....+      .     .++|+|+.++.| +.+|++.+.+++
T Consensus       119 ~~~~~p~ivvlNK~D~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~vi~~Sa~~g~g-i~~Ll~~l~~~~  186 (188)
T PF00009_consen  119 RELGIPIIVVLNKMDLIEKELEEIIEEIKEKLLKEYGENGEEIVPVIPISALTGDG-IDELLEALVELL  186 (188)
T ss_dssp             HHTT-SEEEEEETCTSSHHHHHHHHHHHHHHHHHHTTSTTTSTEEEEEEBTTTTBT-HHHHHHHHHHHS
T ss_pred             cccccceEEeeeeccchhhhHHHHHHHHHHHhccccccCccccceEEEEecCCCCC-HHHHHHHHHHhC
Confidence            456889999999999974211      11111      2     389999999999 999999888776

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 ....

>cd01878 HflX HflX subfamily

Probab=97.08  E-value=0.00019  Score=49.46  Aligned_cols=47  Identities=19%  Similarity=0.227  Sum_probs=35.0

Q ss_pred             CCCcEEeeccCCCcccccccc----cccCCCCccccccCCcccccccccccc
Q psy10878          5 AKKPILLPSASEDPSIDNWDK----ASWENVTPIVSEQGDGEIIEIIDPSLK   52 (131)
Q Consensus         5 ~~kp~vlv~NK~Dl~~~~~~~----~~~~~~~~is~~~~~~~~~~~~~~~~~   52 (131)
                      .++|+++|+||+|+.......    .....++++|++++.| +.++++.+.+
T Consensus       152 ~~~~viiV~NK~Dl~~~~~~~~~~~~~~~~~~~~Sa~~~~g-i~~l~~~L~~  202 (204)
T cd01878         152 EDIPMILVLNKIDLLDDEELEERLEAGRPDAVFISAKTGEG-LDELLEAIEE  202 (204)
T ss_pred             CCCCEEEEEEccccCChHHHHHHhhcCCCceEEEEcCCCCC-HHHHHHHHHh
Confidence            468999999999996544221    1115678999999999 9988776654

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.

>PRK04213 GTP-binding protein; Provisional

Probab=97.08  E-value=9e-05  Score=50.93  Aligned_cols=49  Identities=18%  Similarity=0.214  Sum_probs=35.8

Q ss_pred             cCCCcEEeeccCCCccccc-ccccc----cC----------CCCccccccCCcccccccccccccc
Q psy10878          4 KAKKPILLPSASEDPSIDN-WDKAS----WE----------NVTPIVSEQGDGEIIEIIDPSLKLV   54 (131)
Q Consensus         4 ~~~kp~vlv~NK~Dl~~~~-~~~~~----~~----------~~~~is~~~~~~~~~~~~~~~~~~~   54 (131)
                      ..++|+++|+||+|+.... ....+    ++          .++++||+++ | +.++++.+.+.+
T Consensus       128 ~~~~p~iiv~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~SA~~g-g-i~~l~~~l~~~~  191 (201)
T PRK04213        128 ELGIPPIVAVNKMDKIKNRDEVLDEIAERLGLYPPWRQWQDIIAPISAKKG-G-IEELKEAIRKRL  191 (201)
T ss_pred             HcCCCeEEEEECccccCcHHHHHHHHHHHhcCCccccccCCcEEEEecccC-C-HHHHHHHHHHhh
Confidence            3579999999999986432 11111    11          3589999999 9 999998887765

>cd01890 LepA LepA subfamily

Probab=97.06  E-value=0.00023  Score=47.77  Aligned_cols=49  Identities=10%  Similarity=0.125  Sum_probs=36.0

Q ss_pred             CCCcEEeeccCCCcccccc--ccccc--------CCCCccccccCCcccccccccccccc
Q psy10878          5 AKKPILLPSASEDPSIDNW--DKASW--------ENVTPIVSEQGDGEIIEIIDPSLKLV   54 (131)
Q Consensus         5 ~~kp~vlv~NK~Dl~~~~~--~~~~~--------~~~~~is~~~~~~~~~~~~~~~~~~~   54 (131)
                      .++|+++|+||+|+.....  ...++        ..++++|++++.| +.++++.+.+.+
T Consensus       118 ~~~~iiiv~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~g~g-i~~l~~~l~~~~  176 (179)
T cd01890         118 NNLEIIPVINKIDLPSADPERVKQQIEDVLGLDPSEAILVSAKTGLG-VEDLLEAIVERI  176 (179)
T ss_pred             cCCCEEEEEECCCCCcCCHHHHHHHHHHHhCCCcccEEEeeccCCCC-HHHHHHHHHhhC
Confidence            4789999999999854321  11111        2468999999999 999988887665

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.

>cd04151 Arl1 Arl1 subfamily

Probab=97.06  E-value=0.00017  Score=47.53  Aligned_cols=46  Identities=13%  Similarity=0.011  Sum_probs=33.3

Q ss_pred             CCCcEEeeccCCCccccc---cccccc---------CCCCccccccCCccccccccccc
Q psy10878          5 AKKPILLPSASEDPSIDN---WDKASW---------ENVTPIVSEQGDGEIIEIIDPSL   51 (131)
Q Consensus         5 ~~kp~vlv~NK~Dl~~~~---~~~~~~---------~~~~~is~~~~~~~~~~~~~~~~   51 (131)
                      .++|+++|+||+|+.+..   .....+         ..++++|++++.| +.++++.+.
T Consensus        99 ~~~piiiv~nK~Dl~~~~~~~~i~~~~~~~~~~~~~~~~~~~Sa~~~~g-i~~l~~~l~  156 (158)
T cd04151          99 KGAVLLVFANKQDMPGALSEAEISEKLGLSELKDRTWSIFKTSAIKGEG-LDEGMDWLV  156 (158)
T ss_pred             cCCcEEEEEeCCCCCCCCCHHHHHHHhCccccCCCcEEEEEeeccCCCC-HHHHHHHHh
Confidence            378999999999986432   111111         2389999999999 998877654

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.

>KOG0077|consensus

Probab=97.06  E-value=0.00045  Score=46.59  Aligned_cols=56  Identities=16%  Similarity=0.283  Sum_probs=38.8

Q ss_pred             eeeEEEEEcCCCCCchhhhhhhhhCcCCCCccCCceeEeEEEEEEecCCeEEEEEEEeCCCC
Q psy10878         69 KLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQ  130 (131)
Q Consensus        69 ~~~ki~vvG~~~vGKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gq  130 (131)
                      +.-|++++|-.|+|||||++-+-+++. ..+.||.-..  ...+.+ .|  ++++-+|..|.
T Consensus        19 K~gKllFlGLDNAGKTTLLHMLKdDrl-~qhvPTlHPT--SE~l~I-g~--m~ftt~DLGGH   74 (193)
T KOG0077|consen   19 KFGKLLFLGLDNAGKTTLLHMLKDDRL-GQHVPTLHPT--SEELSI-GG--MTFTTFDLGGH   74 (193)
T ss_pred             cCceEEEEeecCCchhhHHHHHccccc-cccCCCcCCC--hHHhee-cC--ceEEEEccccH
Confidence            445899999999999999997766554 3666765322  333444 33  56778888774

>smart00173 RAS Ras subfamily of RAS small GTPases

Probab=97.04  E-value=0.00017  Score=47.63  Aligned_cols=49  Identities=10%  Similarity=0.062  Sum_probs=36.4

Q ss_pred             CCCcEEeeccCCCcccccc----ccccc-----CCCCccccccCCcccccccccccccc
Q psy10878          5 AKKPILLPSASEDPSIDNW----DKASW-----ENVTPIVSEQGDGEIIEIIDPSLKLV   54 (131)
Q Consensus         5 ~~kp~vlv~NK~Dl~~~~~----~~~~~-----~~~~~is~~~~~~~~~~~~~~~~~~~   54 (131)
                      .++|+++|.||+|+.....    ....+     ...+++|++++.| +.++++.+.+.+
T Consensus       104 ~~~pii~v~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~-i~~l~~~l~~~~  161 (164)
T smart00173      104 DDVPIVLVGNKCDLESERVVSTEEGKELARQWGCPFLETSAKERVN-VDEAFYDLVREI  161 (164)
T ss_pred             CCCCEEEEEECccccccceEcHHHHHHHHHHcCCEEEEeecCCCCC-HHHHHHHHHHHH
Confidence            4689999999999865321    11112     4568999999999 999998887654

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

>COG0563 Adk Adenylate kinase and related kinases [Nucleotide transport and metabolism]

Probab=97.04  E-value=0.00044  Score=47.25  Aligned_cols=23  Identities=17%  Similarity=0.726  Sum_probs=20.6

Q ss_pred             eEEEEEcCCCCCchhhhhhhhhC
Q psy10878         71 FKVIVIGDPTVGKTSFVQRYVQN   93 (131)
Q Consensus        71 ~ki~vvG~~~vGKSsli~~~~~~   93 (131)
                      ++++++|.||+||||+..++...
T Consensus         1 ~riiilG~pGaGK~T~A~~La~~   23 (178)
T COG0563           1 MRILILGPPGAGKSTLAKKLAKK   23 (178)
T ss_pred             CeEEEECCCCCCHHHHHHHHHHH
Confidence            37999999999999999998864

>PRK07261 topology modulation protein; Provisional

Probab=97.02  E-value=0.00045  Score=46.75  Aligned_cols=21  Identities=29%  Similarity=0.564  Sum_probs=19.2

Q ss_pred             EEEEEcCCCCCchhhhhhhhh
Q psy10878         72 KVIVIGDPTVGKTSFVQRYVQ   92 (131)
Q Consensus        72 ki~vvG~~~vGKSsli~~~~~   92 (131)
                      +|+++|.+|+|||||...+..
T Consensus         2 ri~i~G~~GsGKSTla~~l~~   22 (171)
T PRK07261          2 KIAIIGYSGSGKSTLARKLSQ   22 (171)
T ss_pred             EEEEEcCCCCCHHHHHHHHHH
Confidence            799999999999999998764

>PRK08118 topology modulation protein; Reviewed

Probab=97.02  E-value=0.0005  Score=46.42  Aligned_cols=21  Identities=29%  Similarity=0.569  Sum_probs=19.2

Q ss_pred             EEEEEcCCCCCchhhhhhhhh
Q psy10878         72 KVIVIGDPTVGKTSFVQRYVQ   92 (131)
Q Consensus        72 ki~vvG~~~vGKSsli~~~~~   92 (131)
                      +|+|+|.+|+|||||...+..
T Consensus         3 rI~I~G~~GsGKSTlak~L~~   23 (167)
T PRK08118          3 KIILIGSGGSGKSTLARQLGE   23 (167)
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            799999999999999998774

>PLN00116 translation elongation factor EF-2 subunit; Provisional

Probab=96.98  E-value=0.0013  Score=54.76  Aligned_cols=24  Identities=21%  Similarity=0.337  Sum_probs=21.2

Q ss_pred             eeeEEEEEcCCCCCchhhhhhhhh
Q psy10878         69 KLFKVIVIGDPTVGKTSFVQRYVQ   92 (131)
Q Consensus        69 ~~~ki~vvG~~~vGKSsli~~~~~   92 (131)
                      ...+|+++|..++|||||+.+++.
T Consensus        18 ~Irni~iiGhvd~GKTTL~~~Ll~   41 (843)
T PLN00116         18 NIRNMSVIAHVDHGKSTLTDSLVA   41 (843)
T ss_pred             CccEEEEEcCCCCCHHHHHHHHHH
Confidence            345899999999999999999884

>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=96.97  E-value=0.00047  Score=44.65  Aligned_cols=19  Identities=32%  Similarity=0.709  Sum_probs=17.8

Q ss_pred             EEEEcCCCCCchhhhhhhh
Q psy10878         73 VIVIGDPTVGKTSFVQRYV   91 (131)
Q Consensus        73 i~vvG~~~vGKSsli~~~~   91 (131)
                      ++++|.||+||||++.++.
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            6899999999999999987

...

>PRK12299 obgE GTPase CgtA; Reviewed

Probab=96.97  E-value=0.0002  Score=53.62  Aligned_cols=49  Identities=24%  Similarity=0.248  Sum_probs=36.9

Q ss_pred             CCCcEEeeccCCCcccccccc----ccc-----CCCCccccccCCcccccccccccccc
Q psy10878          5 AKKPILLPSASEDPSIDNWDK----ASW-----ENVTPIVSEQGDGEIIEIIDPSLKLV   54 (131)
Q Consensus         5 ~~kp~vlv~NK~Dl~~~~~~~----~~~-----~~~~~is~~~~~~~~~~~~~~~~~~~   54 (131)
                      .++|+++|+||+|+.+.....    ..+     ..++++||.++.| +.++++.+.+.+
T Consensus       270 ~~kp~IIV~NKiDL~~~~~~~~~~~~~~~~~~~~~i~~iSAktg~G-I~eL~~~L~~~l  327 (335)
T PRK12299        270 ADKPRILVLNKIDLLDEEEEREKRAALELAALGGPVFLISAVTGEG-LDELLRALWELL  327 (335)
T ss_pred             ccCCeEEEEECcccCCchhHHHHHHHHHHHhcCCCEEEEEcCCCCC-HHHHHHHHHHHH
Confidence            478999999999986433111    111     4678999999999 999998887665

>cd01892 Miro2 Miro2 subfamily

Probab=96.95  E-value=0.00031  Score=47.11  Aligned_cols=49  Identities=16%  Similarity=0.156  Sum_probs=35.5

Q ss_pred             CCCcEEeeccCCCcccccc----ccccc------CCCCccccccCCcccccccccccccc
Q psy10878          5 AKKPILLPSASEDPSIDNW----DKASW------ENVTPIVSEQGDGEIIEIIDPSLKLV   54 (131)
Q Consensus         5 ~~kp~vlv~NK~Dl~~~~~----~~~~~------~~~~~is~~~~~~~~~~~~~~~~~~~   54 (131)
                      .+.|+++|+||+|+.+...    ...++      ..++++||.++.| +.++++.+.+.+
T Consensus       107 ~~~p~iiv~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~-v~~lf~~l~~~~  165 (169)
T cd01892         107 GEIPCLFVAAKADLDEQQQRYEVQPDEFCRKLGLPPPLHFSSKLGDS-SNELFTKLATAA  165 (169)
T ss_pred             CCCeEEEEEEcccccccccccccCHHHHHHHcCCCCCEEEEeccCcc-HHHHHHHHHHHh
Confidence            4789999999999954321    11222      3468999999999 998887776544

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.

>cd01864 Rab19 Rab19 subfamily

Probab=96.95  E-value=0.0003  Score=46.64  Aligned_cols=47  Identities=11%  Similarity=-0.033  Sum_probs=34.1

Q ss_pred             CCCcEEeeccCCCcccccccc----ccc------CCCCccccccCCcccccccccccc
Q psy10878          5 AKKPILLPSASEDPSIDNWDK----ASW------ENVTPIVSEQGDGEIIEIIDPSLK   52 (131)
Q Consensus         5 ~~kp~vlv~NK~Dl~~~~~~~----~~~------~~~~~is~~~~~~~~~~~~~~~~~   52 (131)
                      .+.|+++|+||+|+.+.....    ..+      ...+++|++++.| +.+++..+.+
T Consensus       107 ~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~-v~~~~~~l~~  163 (165)
T cd01864         107 SNVVLLLIGNKCDLEEQREVLFEEACTLAEKNGMLAVLETSAKESQN-VEEAFLLMAT  163 (165)
T ss_pred             CCCcEEEEEECcccccccccCHHHHHHHHHHcCCcEEEEEECCCCCC-HHHHHHHHHH
Confidence            468899999999996543111    111      3468999999999 9888876654

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.

>PRK12297 obgE GTPase CgtA; Reviewed

Probab=96.94  E-value=0.0002  Score=55.15  Aligned_cols=49  Identities=18%  Similarity=0.310  Sum_probs=36.8

Q ss_pred             CCCcEEeeccCCCccccccccccc-----CCCCccccccCCcccccccccccccc
Q psy10878          5 AKKPILLPSASEDPSIDNWDKASW-----ENVTPIVSEQGDGEIIEIIDPSLKLV   54 (131)
Q Consensus         5 ~~kp~vlv~NK~Dl~~~~~~~~~~-----~~~~~is~~~~~~~~~~~~~~~~~~~   54 (131)
                      .++|.++|+||+|+.........+     ..++++||.++.| +.++++.+.+.+
T Consensus       273 ~~kP~IVV~NK~DL~~~~e~l~~l~~~l~~~i~~iSA~tgeG-I~eL~~~L~~~l  326 (424)
T PRK12297        273 LERPQIVVANKMDLPEAEENLEEFKEKLGPKVFPISALTGQG-LDELLYAVAELL  326 (424)
T ss_pred             cCCcEEEEEeCCCCcCCHHHHHHHHHHhCCcEEEEeCCCCCC-HHHHHHHHHHHH
Confidence            479999999999985432222222     4578999999999 999998876655

>PTZ00416 elongation factor 2; Provisional

Probab=96.93  E-value=0.0016  Score=54.20  Aligned_cols=23  Identities=22%  Similarity=0.309  Sum_probs=20.8

Q ss_pred             eeEEEEEcCCCCCchhhhhhhhh
Q psy10878         70 LFKVIVIGDPTVGKTSFVQRYVQ   92 (131)
Q Consensus        70 ~~ki~vvG~~~vGKSsli~~~~~   92 (131)
                      ..+|+++|..++|||||+.+++.
T Consensus        19 irni~iiGh~d~GKTTL~~~Ll~   41 (836)
T PTZ00416         19 IRNMSVIAHVDHGKSTLTDSLVC   41 (836)
T ss_pred             cCEEEEECCCCCCHHHHHHHHHH
Confidence            44899999999999999999985

>KOG1489|consensus

Probab=96.93  E-value=0.0013  Score=48.78  Aligned_cols=55  Identities=22%  Similarity=0.351  Sum_probs=33.7

Q ss_pred             EEEEEcCCCCCchhhhhhhhhCc-CCCCccCCceeEeEEEEEEecCCeEEEEEEEeCCC
Q psy10878         72 KVIVIGDPTVGKTSFVQRYVQNT-FKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAG  129 (131)
Q Consensus        72 ki~vvG~~~vGKSsli~~~~~~~-~~~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~G  129 (131)
                      .+-+||.||+|||||++.+...+ ....|.-|+ .....-++.+.+..  .+.+-|.||
T Consensus       198 dvGLVG~PNAGKSTLL~als~AKpkVa~YaFTT-L~P~iG~v~yddf~--q~tVADiPG  253 (366)
T KOG1489|consen  198 DVGLVGFPNAGKSTLLNALSRAKPKVAHYAFTT-LRPHIGTVNYDDFS--QITVADIPG  253 (366)
T ss_pred             ccceecCCCCcHHHHHHHhhccCCcccccceee-eccccceeeccccc--eeEeccCcc
Confidence            46799999999999999988532 233443221 11122234442332  278889888

>PRK09866 hypothetical protein; Provisional

Probab=96.92  E-value=0.0003  Score=56.61  Aligned_cols=51  Identities=16%  Similarity=0.064  Sum_probs=38.2

Q ss_pred             CcEEeeccCCCcccccc----cc-c-----------ccCCCCccccccCCcccccccccccccccCCC
Q psy10878          7 KPILLPSASEDPSIDNW----DK-A-----------SWENVTPIVSEQGDGEIIEIIDPSLKLVRVPS   58 (131)
Q Consensus         7 kp~vlv~NK~Dl~~~~~----~~-~-----------~~~~~~~is~~~~~~~~~~~~~~~~~~~~~~~   58 (131)
                      +|+++|+||+|+.+.+.    .. .           .|.+++|+||..+.| +.++++.+...-++|.
T Consensus       290 ~PVILVVNKIDl~dreeddkE~Lle~V~~~L~q~~i~f~eIfPVSAlkG~n-id~LLdeI~~~~~l~~  356 (741)
T PRK09866        290 VPLYVLVNKFDQQDRNSDDADQVRALISGTLMKGCITPQQIFPVSSMWGYL-ANRARHELANNGKLPP  356 (741)
T ss_pred             CCEEEEEEcccCCCcccchHHHHHHHHHHHHHhcCCCCceEEEEeCCCCCC-HHHHHHHHHhCCCCCc
Confidence            49999999999864211    11 1           125789999999999 9999999888765543

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

Probab=96.92  E-value=0.00013  Score=48.61  Aligned_cols=47  Identities=19%  Similarity=0.262  Sum_probs=35.0

Q ss_pred             CCCcEEeeccCCCcccccccccc----c-----CCCCccccccCCcccccccccccc
Q psy10878          5 AKKPILLPSASEDPSIDNWDKAS----W-----ENVTPIVSEQGDGEIIEIIDPSLK   52 (131)
Q Consensus         5 ~~kp~vlv~NK~Dl~~~~~~~~~----~-----~~~~~is~~~~~~~~~~~~~~~~~   52 (131)
                      .++|+++|+||+|+.........    .     ..++++|+.++.| +.++++.+..
T Consensus       119 ~~~p~ivv~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~g-l~~l~~~l~~  174 (176)
T cd01881         119 TAKPVIYVLNKIDLDDAEELEEELVRELALEEGAEVVPISAKTEEG-LDELIRAIYE  174 (176)
T ss_pred             hhCCeEEEEEchhcCchhHHHHHHHHHHhcCCCCCEEEEehhhhcC-HHHHHHHHHh
Confidence            47999999999999654322211    1     6689999999999 9888776543

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

>PRK15494 era GTPase Era; Provisional

Probab=96.92  E-value=0.00024  Score=53.23  Aligned_cols=57  Identities=11%  Similarity=-0.026  Sum_probs=40.4

Q ss_pred             cCCCcEEeeccCCCcccccc-cccc-------cCCCCccccccCCcccccccccccccccCCCcccCC
Q psy10878          4 KAKKPILLPSASEDPSIDNW-DKAS-------WENVTPIVSEQGDGEIIEIIDPSLKLVRVPSIRKSF   63 (131)
Q Consensus         4 ~~~kp~vlv~NK~Dl~~~~~-~~~~-------~~~~~~is~~~~~~~~~~~~~~~~~~~~~~~~~~~~   63 (131)
                      ..++|+++|+||+|+..... ...+       +..++++||+++.| +.++++.+.+.+  +..+.-+
T Consensus       158 ~~~~p~IlViNKiDl~~~~~~~~~~~l~~~~~~~~i~~iSAktg~g-v~eL~~~L~~~l--~~~~~~~  222 (339)
T PRK15494        158 SLNIVPIFLLNKIDIESKYLNDIKAFLTENHPDSLLFPISALSGKN-IDGLLEYITSKA--KISPWLY  222 (339)
T ss_pred             hcCCCEEEEEEhhcCccccHHHHHHHHHhcCCCcEEEEEeccCccC-HHHHHHHHHHhC--CCCCCCC
Confidence            45678999999999864311 1111       13578999999999 999999998877  4444333

>cd04176 Rap2 Rap2 subgroup

Probab=96.91  E-value=0.0003  Score=46.48  Aligned_cols=48  Identities=13%  Similarity=0.079  Sum_probs=34.3

Q ss_pred             CCCcEEeeccCCCccccccc----cccc-----CCCCccccccCCccccccccccccc
Q psy10878          5 AKKPILLPSASEDPSIDNWD----KASW-----ENVTPIVSEQGDGEIIEIIDPSLKL   53 (131)
Q Consensus         5 ~~kp~vlv~NK~Dl~~~~~~----~~~~-----~~~~~is~~~~~~~~~~~~~~~~~~   53 (131)
                      .++|+++|+||+|+......    ...+     ...+++||+.+.| +.+++..+.+.
T Consensus       105 ~~~piviv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~-v~~l~~~l~~~  161 (163)
T cd04176         105 EKVPIILVGNKVDLESEREVSSAEGRALAEEWGCPFMETSAKSKTM-VNELFAEIVRQ  161 (163)
T ss_pred             CCCCEEEEEECccchhcCccCHHHHHHHHHHhCCEEEEecCCCCCC-HHHHHHHHHHh
Confidence            57999999999998543211    1111     3457899999999 99888776554

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

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

Probab=96.90  E-value=0.00037  Score=45.33  Aligned_cols=48  Identities=25%  Similarity=0.310  Sum_probs=36.2

Q ss_pred             CCCcEEeeccCCCccccccccc-cc-CCCCccccccCCccccccccccccc
Q psy10878          5 AKKPILLPSASEDPSIDNWDKA-SW-ENVTPIVSEQGDGEIIEIIDPSLKL   53 (131)
Q Consensus         5 ~~kp~vlv~NK~Dl~~~~~~~~-~~-~~~~~is~~~~~~~~~~~~~~~~~~   53 (131)
                      .++|+++|+||+|+.+...... .. ...+++|+.++.| +.++++.+.+.
T Consensus       106 ~~~~vi~v~nK~D~~~~~~~~~~~~~~~~~~~Sa~~~~~-v~~l~~~l~~~  155 (157)
T cd04164         106 ADKPIIVVLNKSDLLPDSELLSLLAGKPIIAISAKTGEG-LDELKEALLEL  155 (157)
T ss_pred             cCCCEEEEEEchhcCCccccccccCCCceEEEECCCCCC-HHHHHHHHHHh
Confidence            4799999999999976543321 11 6688999999999 98887766543

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.

>KOG0090|consensus

Probab=96.89  E-value=0.0012  Score=46.25  Aligned_cols=54  Identities=17%  Similarity=0.345  Sum_probs=35.6

Q ss_pred             EEEEEcCCCCCchhhhhhhhhCcCCCCccCCceeEeEEEEEEecCCeEEEEEEEeCCCCC
Q psy10878         72 KVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQN  131 (131)
Q Consensus        72 ki~vvG~~~vGKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gqe  131 (131)
                      .++++|..++|||+|..++..+.+...+. .+.  -....+.+ +...  +++.|.||.+
T Consensus        40 ~Vll~Gl~dSGKT~LF~qL~~gs~~~Tvt-Sie--pn~a~~r~-gs~~--~~LVD~PGH~   93 (238)
T KOG0090|consen   40 AVLLVGLSDSGKTSLFTQLITGSHRGTVT-SIE--PNEATYRL-GSEN--VTLVDLPGHS   93 (238)
T ss_pred             cEEEEecCCCCceeeeeehhcCCccCeee-eec--cceeeEee-cCcc--eEEEeCCCcH
Confidence            49999999999999999999885543221 111  11222333 2222  7899999963

>cd01863 Rab18 Rab18 subfamily

Probab=96.89  E-value=0.00036  Score=45.93  Aligned_cols=48  Identities=8%  Similarity=0.084  Sum_probs=35.3

Q ss_pred             CCCcEEeeccCCCcccccccccc---c-----CCCCccccccCCccccccccccccc
Q psy10878          5 AKKPILLPSASEDPSIDNWDKAS---W-----ENVTPIVSEQGDGEIIEIIDPSLKL   53 (131)
Q Consensus         5 ~~kp~vlv~NK~Dl~~~~~~~~~---~-----~~~~~is~~~~~~~~~~~~~~~~~~   53 (131)
                      .+.|+++|.||+|+........+   +     -..+++|++++.| +.++++.+.+.
T Consensus       105 ~~~~~~iv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~g-i~~~~~~~~~~  160 (161)
T cd01863         105 NDIVKMLVGNKIDKENREVTREEGLKFARKHNMLFIETSAKTRDG-VQQAFEELVEK  160 (161)
T ss_pred             CCCcEEEEEECCcccccccCHHHHHHHHHHcCCEEEEEecCCCCC-HHHHHHHHHHh
Confidence            47889999999999743322211   2     4478899999999 99998876553

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

>KOG1707|consensus

Probab=96.88  E-value=0.0034  Score=49.73  Aligned_cols=62  Identities=24%  Similarity=0.446  Sum_probs=47.1

Q ss_pred             CCCceeeEEEEEcCCCCCchhhhhhhhhCcCCCCccCCceeEeEEEEEEecCCeEEEEEEEeC
Q psy10878         65 APPEKLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDI  127 (131)
Q Consensus        65 ~~~~~~~ki~vvG~~~vGKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt  127 (131)
                      ....+.++|.++|..++|||.+++.|+++.+..++..+....|....+.. .|..-.+.+-|.
T Consensus       420 ~~~R~Vf~C~V~G~k~~GKs~lL~sflgr~~~~~~~~~~~~~~avn~v~~-~g~~k~LiL~ei  481 (625)
T KOG1707|consen  420 QTDRKVFQCFVVGPKNCGKSALLQSFLGRSMSDNNTGTTKPRYAVNSVEV-KGQQKYLILREI  481 (625)
T ss_pred             cccceeeeEEEEcCCcCchHHHHHHHhccccccccccCCCCceeeeeeee-ccccceEEEeec
Confidence            34667889999999999999999999998888777677776776666665 455444555443

>PRK12298 obgE GTPase CgtA; Reviewed

Probab=96.88  E-value=0.00032  Score=53.50  Aligned_cols=49  Identities=20%  Similarity=0.143  Sum_probs=37.4

Q ss_pred             CCCcEEeeccCCCcccccccc---ccc-------CCCCccccccCCcccccccccccccc
Q psy10878          5 AKKPILLPSASEDPSIDNWDK---ASW-------ENVTPIVSEQGDGEIIEIIDPSLKLV   54 (131)
Q Consensus         5 ~~kp~vlv~NK~Dl~~~~~~~---~~~-------~~~~~is~~~~~~~~~~~~~~~~~~~   54 (131)
                      .++|+++|+||+|+.......   .++       ..++++||.++.+ +.++++.+.+.+
T Consensus       274 ~~kP~IlVlNKiDl~~~~el~~~l~~l~~~~~~~~~Vi~ISA~tg~G-IdeLl~~I~~~L  332 (390)
T PRK12298        274 AEKPRWLVFNKIDLLDEEEAEERAKAIVEALGWEGPVYLISAASGLG-VKELCWDLMTFI  332 (390)
T ss_pred             cCCCEEEEEeCCccCChHHHHHHHHHHHHHhCCCCCEEEEECCCCcC-HHHHHHHHHHHh
Confidence            368999999999986432111   111       2578999999999 999999888877

>TIGR02528 EutP ethanolamine utilization protein, EutP

Probab=96.87  E-value=0.00037  Score=45.05  Aligned_cols=44  Identities=20%  Similarity=0.203  Sum_probs=31.0

Q ss_pred             CCcEEeeccCCCcccccccc---ccc------CCCCccccccCCcccccccccc
Q psy10878          6 KKPILLPSASEDPSIDNWDK---ASW------ENVTPIVSEQGDGEIIEIIDPS   50 (131)
Q Consensus         6 ~kp~vlv~NK~Dl~~~~~~~---~~~------~~~~~is~~~~~~~~~~~~~~~   50 (131)
                      .+|+++|+||+|+.+.....   .++      ..++++|++++.| +.++++.+
T Consensus        88 ~~p~ilv~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~g-i~~l~~~l  140 (142)
T TIGR02528        88 VKPVIGLVTKIDLAEADVDIERAKELLETAGAEPIFEISSVDEQG-LEALVDYL  140 (142)
T ss_pred             cCCeEEEEEeeccCCcccCHHHHHHHHHHcCCCcEEEEecCCCCC-HHHHHHHH
Confidence            46999999999996532111   122      2568899999999 88876643

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.

>PF13521 AAA_28: AAA domain; PDB: 1LW7_A

Probab=96.87  E-value=0.00046  Score=46.07  Aligned_cols=22  Identities=23%  Similarity=0.718  Sum_probs=17.3

Q ss_pred             EEEEEcCCCCCchhhhhhhhhC
Q psy10878         72 KVIVIGDPTVGKTSFVQRYVQN   93 (131)
Q Consensus        72 ki~vvG~~~vGKSsli~~~~~~   93 (131)
                      ||+|.|.+++|||||++.+...
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            6999999999999999998854

>COG4917 EutP Ethanolamine utilization protein [Amino acid transport and metabolism]

Probab=96.86  E-value=0.00087  Score=43.27  Aligned_cols=23  Identities=26%  Similarity=0.478  Sum_probs=20.6

Q ss_pred             EEEEEcCCCCCchhhhhhhhhCc
Q psy10878         72 KVIVIGDPTVGKTSFVQRYVQNT   94 (131)
Q Consensus        72 ki~vvG~~~vGKSsli~~~~~~~   94 (131)
                      |+++||..|+|||+|.+.+.+..
T Consensus         3 ri~~vG~~gcGKTtL~q~L~G~~   25 (148)
T COG4917           3 RIAFVGQVGCGKTTLFQSLYGND   25 (148)
T ss_pred             eeEEecccccCchhHHHHhhcch
Confidence            69999999999999999987653

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

Probab=96.84  E-value=0.00028  Score=48.91  Aligned_cols=47  Identities=15%  Similarity=0.135  Sum_probs=34.7

Q ss_pred             CcEEeeccCCCccccccc------ccc--------cCCCCccccccCCcccccccccccccc
Q psy10878          7 KPILLPSASEDPSIDNWD------KAS--------WENVTPIVSEQGDGEIIEIIDPSLKLV   54 (131)
Q Consensus         7 kp~vlv~NK~Dl~~~~~~------~~~--------~~~~~~is~~~~~~~~~~~~~~~~~~~   54 (131)
                      +|+++|+||+|+......      ..+        ...++++|++++.| +.++++.+.+.+
T Consensus       138 ~~iiivvNK~Dl~~~~~~~~~~~~i~~~~~~~~~~~~~i~~vSA~~g~g-i~~L~~~l~~~l  198 (203)
T cd01888         138 KHIIIVQNKIDLVKEEQALENYEQIKKFVKGTIAENAPIIPISAQLKYN-IDVLLEYIVKKI  198 (203)
T ss_pred             CcEEEEEEchhccCHHHHHHHHHHHHHHHhccccCCCcEEEEeCCCCCC-HHHHHHHHHHhC
Confidence            578999999999653210      111        13468999999999 999999888766

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

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

Probab=96.84  E-value=0.00029  Score=47.13  Aligned_cols=48  Identities=10%  Similarity=-0.012  Sum_probs=36.3

Q ss_pred             CCcEEeeccCCCcccccccc--ccc-----CCCCccccccCCcccccccccccccc
Q psy10878          6 KKPILLPSASEDPSIDNWDK--ASW-----ENVTPIVSEQGDGEIIEIIDPSLKLV   54 (131)
Q Consensus         6 ~kp~vlv~NK~Dl~~~~~~~--~~~-----~~~~~is~~~~~~~~~~~~~~~~~~~   54 (131)
                      +.|+++|+||+|+.+.....  ..+     ...+.+||+++.| +.++++.+.+.+
T Consensus       104 ~~piiiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~-v~~~f~~l~~~~  158 (166)
T cd00877         104 NIPIVLCGNKVDIKDRKVKAKQITFHRKKNLQYYEISAKSNYN-FEKPFLWLARKL  158 (166)
T ss_pred             CCcEEEEEEchhcccccCCHHHHHHHHHcCCEEEEEeCCCCCC-hHHHHHHHHHHH
Confidence            79999999999996433111  112     4579999999999 999998877654

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

>cd04175 Rap1 Rap1 subgroup

Probab=96.84  E-value=0.00031  Score=46.47  Aligned_cols=49  Identities=10%  Similarity=0.047  Sum_probs=35.8

Q ss_pred             CCCcEEeeccCCCccccccc----cccc-----CCCCccccccCCcccccccccccccc
Q psy10878          5 AKKPILLPSASEDPSIDNWD----KASW-----ENVTPIVSEQGDGEIIEIIDPSLKLV   54 (131)
Q Consensus         5 ~~kp~vlv~NK~Dl~~~~~~----~~~~-----~~~~~is~~~~~~~~~~~~~~~~~~~   54 (131)
                      .+.|+++|.||+|+......    ...+     ..++++||+.+.| +.+++..+.+.+
T Consensus       105 ~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~-v~~~~~~l~~~l  162 (164)
T cd04175         105 EDVPMILVGNKCDLEDERVVGKEQGQNLARQWGCAFLETSAKAKIN-VNEIFYDLVRQI  162 (164)
T ss_pred             CCCCEEEEEECCcchhccEEcHHHHHHHHHHhCCEEEEeeCCCCCC-HHHHHHHHHHHh
Confidence            46899999999999643211    1112     4578999999999 999988776543

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

>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=96.83  E-value=8.7e-05  Score=49.68  Aligned_cols=45  Identities=20%  Similarity=0.268  Sum_probs=34.0

Q ss_pred             cCCCcEEeeccCCCccccccc---cccc-----CCCCccccccCCccccccccc
Q psy10878          4 KAKKPILLPSASEDPSIDNWD---KASW-----ENVTPIVSEQGDGEIIEIIDP   49 (131)
Q Consensus         4 ~~~kp~vlv~NK~Dl~~~~~~---~~~~-----~~~~~is~~~~~~~~~~~~~~   49 (131)
                      ..++|+++|+||+|..+....   ...+     -.++|+||.++.| +.++.+.
T Consensus       103 e~g~P~vvvlN~~D~a~~~g~~id~~~Ls~~Lg~pvi~~sa~~~~g-~~~L~~~  155 (156)
T PF02421_consen  103 ELGIPVVVVLNKMDEAERKGIEIDAEKLSERLGVPVIPVSARTGEG-IDELKDA  155 (156)
T ss_dssp             HTTSSEEEEEETHHHHHHTTEEE-HHHHHHHHTS-EEEEBTTTTBT-HHHHHHH
T ss_pred             HcCCCEEEEEeCHHHHHHcCCEECHHHHHHHhCCCEEEEEeCCCcC-HHHHHhh
Confidence            468999999999998665321   2222     6789999999999 9888764

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 ....

>cd04114 Rab30 Rab30 subfamily

Probab=96.82  E-value=0.00039  Score=46.14  Aligned_cols=48  Identities=8%  Similarity=-0.053  Sum_probs=34.8

Q ss_pred             CCCcEEeeccCCCcccccccc----ccc-----CCCCccccccCCccccccccccccc
Q psy10878          5 AKKPILLPSASEDPSIDNWDK----ASW-----ENVTPIVSEQGDGEIIEIIDPSLKL   53 (131)
Q Consensus         5 ~~kp~vlv~NK~Dl~~~~~~~----~~~-----~~~~~is~~~~~~~~~~~~~~~~~~   53 (131)
                      .+.|+++|+||+|+.......    ..+     ...+.+|+.++.| +.++++.+.+.
T Consensus       111 ~~~~~i~v~NK~D~~~~~~i~~~~~~~~~~~~~~~~~~~Sa~~~~g-v~~l~~~i~~~  167 (169)
T cd04114         111 NKVITILVGNKIDLAERREVSQQRAEEFSDAQDMYYLETSAKESDN-VEKLFLDLACR  167 (169)
T ss_pred             CCCeEEEEEECcccccccccCHHHHHHHHHHcCCeEEEeeCCCCCC-HHHHHHHHHHH
Confidence            468899999999986433211    122     3467999999999 99998877653

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.

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

Probab=96.82  E-value=0.00028  Score=47.13  Aligned_cols=49  Identities=14%  Similarity=0.190  Sum_probs=35.5

Q ss_pred             CCCcEEeeccCCCcccccc--------------------ccccc--CCCCccccccCCcccccccccccccc
Q psy10878          5 AKKPILLPSASEDPSIDNW--------------------DKASW--ENVTPIVSEQGDGEIIEIIDPSLKLV   54 (131)
Q Consensus         5 ~~kp~vlv~NK~Dl~~~~~--------------------~~~~~--~~~~~is~~~~~~~~~~~~~~~~~~~   54 (131)
                      .++|+++|.||+|+.....                    ....+  ...+++|++++.| +.++++.+.+..
T Consensus       101 ~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~e~Sa~~~~~-v~~lf~~l~~~~  171 (174)
T smart00174      101 PNTPIILVGTKLDLREDKSTLRELSKQKQEPVTYEQGEALAKRIGAVKYLECSALTQEG-VREVFEEAIRAA  171 (174)
T ss_pred             CCCCEEEEecChhhhhChhhhhhhhcccCCCccHHHHHHHHHHcCCcEEEEecCCCCCC-HHHHHHHHHHHh
Confidence            4799999999999965321                    00111  2568899999999 999988776543

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

>COG1116 TauB ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]

Probab=96.81  E-value=0.00076  Score=48.21  Aligned_cols=22  Identities=18%  Similarity=0.330  Sum_probs=19.3

Q ss_pred             EEEEEcCCCCCchhhhhhhhhC
Q psy10878         72 KVIVIGDPTVGKTSFVQRYVQN   93 (131)
Q Consensus        72 ki~vvG~~~vGKSsli~~~~~~   93 (131)
                      -++++|.+|||||||++-..+-
T Consensus        31 fvsilGpSGcGKSTLLriiAGL   52 (248)
T COG1116          31 FVAILGPSGCGKSTLLRLIAGL   52 (248)
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            3899999999999999987753

>cd04157 Arl6 Arl6 subfamily

Probab=96.80  E-value=0.00052  Score=45.06  Aligned_cols=46  Identities=17%  Similarity=0.099  Sum_probs=32.3

Q ss_pred             CCCcEEeeccCCCcccccc--cccc---cC-------CCCccccccCCccccccccccc
Q psy10878          5 AKKPILLPSASEDPSIDNW--DKAS---WE-------NVTPIVSEQGDGEIIEIIDPSL   51 (131)
Q Consensus         5 ~~kp~vlv~NK~Dl~~~~~--~~~~---~~-------~~~~is~~~~~~~~~~~~~~~~   51 (131)
                      .++|+++|+||+|+.....  ....   +.       .++++||+.+.| +.++++.+.
T Consensus       103 ~~~p~iiv~NK~Dl~~~~~~~~~~~~l~~~~~~~~~~~~~~~Sa~~g~g-v~~~~~~l~  160 (162)
T cd04157         103 RRVPILFFANKMDLPDALTAVKITQLLGLENIKDKPWHIFASNALTGEG-LDEGVQWLQ  160 (162)
T ss_pred             CCCCEEEEEeCccccCCCCHHHHHHHhCCccccCceEEEEEeeCCCCCc-hHHHHHHHh
Confidence            4799999999999864321  1111   11       257899999999 998877653

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

>COG5257 GCD11 Translation initiation factor 2, gamma subunit (eIF-2gamma; GTPase) [Translation, ribosomal structure and biogenesis]

Probab=96.78  E-value=0.00063  Score=50.54  Aligned_cols=51  Identities=18%  Similarity=0.264  Sum_probs=41.1

Q ss_pred             CCcEEeeccCCCccccccccccc--------------CCCCccccccCCcccccccccccccccCC
Q psy10878          6 KKPILLPSASEDPSIDNWDKASW--------------ENVTPIVSEQGDGEIIEIIDPSLKLVRVP   57 (131)
Q Consensus         6 ~kp~vlv~NK~Dl~~~~~~~~~~--------------~~~~~is~~~~~~~~~~~~~~~~~~~~~~   57 (131)
                      -|.+++|=||+|++..+.....+              ..++|+||.|+.+ ++-+++.+.++...|
T Consensus       140 ik~iiIvQNKIDlV~~E~AlE~y~qIk~FvkGt~Ae~aPIIPiSA~~~~N-IDal~e~i~~~IptP  204 (415)
T COG5257         140 IKNIIIVQNKIDLVSRERALENYEQIKEFVKGTVAENAPIIPISAQHKAN-IDALIEAIEKYIPTP  204 (415)
T ss_pred             cceEEEEecccceecHHHHHHHHHHHHHHhcccccCCCceeeehhhhccC-HHHHHHHHHHhCCCC
Confidence            37799999999998876544333              5679999999999 999999998887444

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

Probab=96.78  E-value=0.00081  Score=52.27  Aligned_cols=53  Identities=13%  Similarity=0.194  Sum_probs=40.7

Q ss_pred             CCCcEEeeccCCCccccc--cccccc--------CCCCccccccCCcccccccccccccccCCC
Q psy10878          5 AKKPILLPSASEDPSIDN--WDKASW--------ENVTPIVSEQGDGEIIEIIDPSLKLVRVPS   58 (131)
Q Consensus         5 ~~kp~vlv~NK~Dl~~~~--~~~~~~--------~~~~~is~~~~~~~~~~~~~~~~~~~~~~~   58 (131)
                      .+-.++-|+||+||...+  ....+.        .+.+.+||++|.| +.++++.+......|.
T Consensus       127 ~~LeIiPViNKIDLP~Adpervk~eIe~~iGid~~dav~~SAKtG~g-I~~iLe~Iv~~iP~P~  189 (603)
T COG0481         127 NNLEIIPVLNKIDLPAADPERVKQEIEDIIGIDASDAVLVSAKTGIG-IEDVLEAIVEKIPPPK  189 (603)
T ss_pred             cCcEEEEeeecccCCCCCHHHHHHHHHHHhCCCcchheeEecccCCC-HHHHHHHHHhhCCCCC
Confidence            467789999999995432  222222        7788999999999 9999999999885443

>cd04141 Rit_Rin_Ric Rit/Rin/Ric subfamily

Probab=96.77  E-value=0.00033  Score=47.14  Aligned_cols=49  Identities=8%  Similarity=-0.015  Sum_probs=35.8

Q ss_pred             CCCcEEeeccCCCccccccc----cccc-----CCCCccccccCCcccccccccccccc
Q psy10878          5 AKKPILLPSASEDPSIDNWD----KASW-----ENVTPIVSEQGDGEIIEIIDPSLKLV   54 (131)
Q Consensus         5 ~~kp~vlv~NK~Dl~~~~~~----~~~~-----~~~~~is~~~~~~~~~~~~~~~~~~~   54 (131)
                      .+.|+++|.||+|+.+....    ...+     ...+.+||+++.| +.++++.+.+.+
T Consensus       106 ~~~piilvgNK~Dl~~~~~v~~~~~~~~a~~~~~~~~e~Sa~~~~~-v~~~f~~l~~~~  163 (172)
T cd04141         106 EDIPLVLVGNKVDLESQRQVTTEEGRNLAREFNCPFFETSAALRHY-IDDAFHGLVREI  163 (172)
T ss_pred             CCCCEEEEEEChhhhhcCccCHHHHHHHHHHhCCEEEEEecCCCCC-HHHHHHHHHHHH
Confidence            47899999999998543211    1112     3467899999999 999998876554

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

>cd04152 Arl4_Arl7 Arl4/Arl7 subfamily

Probab=96.76  E-value=0.00024  Score=48.25  Aligned_cols=49  Identities=16%  Similarity=0.254  Sum_probs=35.3

Q ss_pred             CCCcEEeeccCCCccccc--cccc------cc-----CCCCccccccCCcccccccccccccc
Q psy10878          5 AKKPILLPSASEDPSIDN--WDKA------SW-----ENVTPIVSEQGDGEIIEIIDPSLKLV   54 (131)
Q Consensus         5 ~~kp~vlv~NK~Dl~~~~--~~~~------~~-----~~~~~is~~~~~~~~~~~~~~~~~~~   54 (131)
                      .++|+++|+||+|+....  ....      .+     ..++++||+++.| +.++++.+.+.+
T Consensus       108 ~~~p~iiv~NK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~SA~~~~g-i~~l~~~l~~~l  169 (183)
T cd04152         108 QGVPVLVLANKQDLPNALSVSEVEKLLALHELSASTPWHVQPACAIIGEG-LQEGLEKLYEMI  169 (183)
T ss_pred             CCCcEEEEEECcCccccCCHHHHHHHhCccccCCCCceEEEEeecccCCC-HHHHHHHHHHHH
Confidence            579999999999985321  1111      11     1357899999999 999998877655

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.

>cd04119 RJL RJL (RabJ-Like) subfamily

Probab=96.76  E-value=0.00038  Score=45.85  Aligned_cols=48  Identities=10%  Similarity=0.159  Sum_probs=35.0

Q ss_pred             CCCcEEeeccCCCcccccc-cc---ccc-----CCCCccccccCCccccccccccccc
Q psy10878          5 AKKPILLPSASEDPSIDNW-DK---ASW-----ENVTPIVSEQGDGEIIEIIDPSLKL   53 (131)
Q Consensus         5 ~~kp~vlv~NK~Dl~~~~~-~~---~~~-----~~~~~is~~~~~~~~~~~~~~~~~~   53 (131)
                      .+.|+++|+||+|+.+... ..   ..+     ...+.+|++++.| +.++++.+.+.
T Consensus       109 ~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~g-i~~l~~~l~~~  165 (168)
T cd04119         109 ENIVVVVCANKIDLTKHRAVSEDEGRLWAESKGFKYFETSACTGEG-VNEMFQTLFSS  165 (168)
T ss_pred             CCceEEEEEEchhcccccccCHHHHHHHHHHcCCeEEEEECCCCCC-HHHHHHHHHHH
Confidence            4689999999999963211 11   112     4578999999999 99998877654

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.

>cd04150 Arf1_5_like Arf1-Arf5-like subfamily

Probab=96.75  E-value=0.00039  Score=46.14  Aligned_cols=45  Identities=16%  Similarity=0.083  Sum_probs=31.2

Q ss_pred             CCcEEeeccCCCccccc---cccccc---------CCCCccccccCCccccccccccc
Q psy10878          6 KKPILLPSASEDPSIDN---WDKASW---------ENVTPIVSEQGDGEIIEIIDPSL   51 (131)
Q Consensus         6 ~kp~vlv~NK~Dl~~~~---~~~~~~---------~~~~~is~~~~~~~~~~~~~~~~   51 (131)
                      ++|++|+.||+|+....   +....+         ..++++||++|.| +.++++.+.
T Consensus       101 ~~piilv~NK~Dl~~~~~~~~i~~~~~~~~~~~~~~~~~~~Sak~g~g-v~~~~~~l~  157 (159)
T cd04150         101 DAVLLVFANKQDLPNAMSAAEVTDKLGLHSLRNRNWYIQATCATSGDG-LYEGLDWLS  157 (159)
T ss_pred             CCCEEEEEECCCCCCCCCHHHHHHHhCccccCCCCEEEEEeeCCCCCC-HHHHHHHHh
Confidence            58999999999985431   111222         1245799999999 988877553

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

>TIGR02729 Obg_CgtA Obg family GTPase CgtA

Probab=96.75  E-value=0.00035  Score=52.17  Aligned_cols=49  Identities=22%  Similarity=0.235  Sum_probs=35.8

Q ss_pred             CCCcEEeeccCCCcccccc---ccccc-----CCCCccccccCCcccccccccccccc
Q psy10878          5 AKKPILLPSASEDPSIDNW---DKASW-----ENVTPIVSEQGDGEIIEIIDPSLKLV   54 (131)
Q Consensus         5 ~~kp~vlv~NK~Dl~~~~~---~~~~~-----~~~~~is~~~~~~~~~~~~~~~~~~~   54 (131)
                      .++|+++|+||+|+.....   ...++     ..++++||.++.| +.++++.+.+.+
T Consensus       272 ~~kp~IIV~NK~DL~~~~~~~~~~~~l~~~~~~~vi~iSAktg~G-I~eL~~~I~~~l  328 (329)
T TIGR02729       272 AEKPRIVVLNKIDLLDEEELAELLKELKKALGKPVFPISALTGEG-LDELLYALAELL  328 (329)
T ss_pred             ccCCEEEEEeCccCCChHHHHHHHHHHHHHcCCcEEEEEccCCcC-HHHHHHHHHHHh
Confidence            4799999999999865421   11112     3578999999999 999988766543

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.

>cd01865 Rab3 Rab3 subfamily

Probab=96.75  E-value=0.00042  Score=46.06  Aligned_cols=49  Identities=4%  Similarity=0.062  Sum_probs=35.6

Q ss_pred             CCCcEEeeccCCCcccccccc----ccc-----CCCCccccccCCcccccccccccccc
Q psy10878          5 AKKPILLPSASEDPSIDNWDK----ASW-----ENVTPIVSEQGDGEIIEIIDPSLKLV   54 (131)
Q Consensus         5 ~~kp~vlv~NK~Dl~~~~~~~----~~~-----~~~~~is~~~~~~~~~~~~~~~~~~~   54 (131)
                      .+.|+++|.||+|+.+.....    ..+     ...+++|++.+.| +.++++.+.+.+
T Consensus       105 ~~~piivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~g-v~~l~~~l~~~~  162 (165)
T cd01865         105 DNAQVILVGNKCDMEDERVVSSERGRQLADQLGFEFFEASAKENIN-VKQVFERLVDII  162 (165)
T ss_pred             CCCCEEEEEECcccCcccccCHHHHHHHHHHcCCEEEEEECCCCCC-HHHHHHHHHHHH
Confidence            368999999999996543211    111     3578999999999 999988776543

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

>cd01868 Rab11_like Rab11-like

Probab=96.75  E-value=0.00041  Score=45.90  Aligned_cols=47  Identities=13%  Similarity=0.039  Sum_probs=34.4

Q ss_pred             CCcEEeeccCCCcccccccc----ccc-----CCCCccccccCCccccccccccccc
Q psy10878          6 KKPILLPSASEDPSIDNWDK----ASW-----ENVTPIVSEQGDGEIIEIIDPSLKL   53 (131)
Q Consensus         6 ~kp~vlv~NK~Dl~~~~~~~----~~~-----~~~~~is~~~~~~~~~~~~~~~~~~   53 (131)
                      +.|+++|+||+|+.......    ..+     ...+++||..+.| +.++++.+.+.
T Consensus       108 ~~pi~vv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~-v~~l~~~l~~~  163 (165)
T cd01868         108 NIVIMLVGNKSDLRHLRAVPTEEAKAFAEKNGLSFIETSALDGTN-VEEAFKQLLTE  163 (165)
T ss_pred             CCeEEEEEECccccccccCCHHHHHHHHHHcCCEEEEEECCCCCC-HHHHHHHHHHH
Confidence            58999999999986532111    111     3478999999999 99998876653

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

>cd04116 Rab9 Rab9 subfamily

Probab=96.75  E-value=0.00056  Score=45.50  Aligned_cols=47  Identities=6%  Similarity=0.186  Sum_probs=33.9

Q ss_pred             CCCcEEeeccCCCccccccc---cccc------CCCCccccccCCcccccccccccc
Q psy10878          5 AKKPILLPSASEDPSIDNWD---KASW------ENVTPIVSEQGDGEIIEIIDPSLK   52 (131)
Q Consensus         5 ~~kp~vlv~NK~Dl~~~~~~---~~~~------~~~~~is~~~~~~~~~~~~~~~~~   52 (131)
                      .+.|+++|+||+|+......   ..++      ...+++|++++.| +.++++.+.+
T Consensus       113 ~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~-v~~~~~~~~~  168 (170)
T cd04116         113 ESFPFVVLGNKNDIPERQVSTEEAQAWCRENGDYPYFETSAKDATN-VAAAFEEAVR  168 (170)
T ss_pred             CCCcEEEEEECccccccccCHHHHHHHHHHCCCCeEEEEECCCCCC-HHHHHHHHHh
Confidence            46799999999998643211   1122      3568999999999 9888877654

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

>cd04156 ARLTS1 ARLTS1 subfamily

Probab=96.74  E-value=0.00087  Score=44.01  Aligned_cols=46  Identities=17%  Similarity=0.216  Sum_probs=32.3

Q ss_pred             CCCcEEeeccCCCcccc---cccc-----cccC-----CCCccccccCCccccccccccc
Q psy10878          5 AKKPILLPSASEDPSID---NWDK-----ASWE-----NVTPIVSEQGDGEIIEIIDPSL   51 (131)
Q Consensus         5 ~~kp~vlv~NK~Dl~~~---~~~~-----~~~~-----~~~~is~~~~~~~~~~~~~~~~   51 (131)
                      .+.|+++|+||+|+...   ....     ..+.     +++++||+++.| +.++++.+.
T Consensus       100 ~~~piilv~nK~Dl~~~~~~~~i~~~~~~~~~~~~~~~~~~~~Sa~~~~g-v~~~~~~i~  158 (160)
T cd04156         100 KGVPVVLLANKQDLPGALTAEEITRRFKLKKYCSDRDWYVQPCSAVTGEG-LAEAFRKLA  158 (160)
T ss_pred             cCCCEEEEEECcccccCcCHHHHHHHcCCcccCCCCcEEEEecccccCCC-hHHHHHHHh
Confidence            47899999999998532   1111     1121     367899999999 998877654

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

>cd04142 RRP22 RRP22 subfamily

Probab=96.74  E-value=0.00056  Score=47.33  Aligned_cols=49  Identities=14%  Similarity=0.194  Sum_probs=35.9

Q ss_pred             CCCcEEeeccCCCccccccc----cc-----cc-CCCCccccccCCcccccccccccccc
Q psy10878          5 AKKPILLPSASEDPSIDNWD----KA-----SW-ENVTPIVSEQGDGEIIEIIDPSLKLV   54 (131)
Q Consensus         5 ~~kp~vlv~NK~Dl~~~~~~----~~-----~~-~~~~~is~~~~~~~~~~~~~~~~~~~   54 (131)
                      .+.|+++|.||+|+......    ..     .+ ...+++||+++.| +.++++.+.+..
T Consensus       115 ~~~piiivgNK~Dl~~~~~~~~~~~~~~~~~~~~~~~~e~Sak~g~~-v~~lf~~i~~~~  173 (198)
T cd04142         115 KEPPIVVVGNKRDQQRHRFAPRHVLSVLVRKSWKCGYLECSAKYNWH-ILLLFKELLISA  173 (198)
T ss_pred             CCCCEEEEEECccccccccccHHHHHHHHHHhcCCcEEEecCCCCCC-HHHHHHHHHHHh
Confidence            56899999999999543211    11     11 3458999999999 999998877654

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.

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

Probab=96.73  E-value=0.00062  Score=44.91  Aligned_cols=47  Identities=21%  Similarity=0.321  Sum_probs=35.2

Q ss_pred             ccCCCcEEeeccCCCcccccccc---ccc------CCCCccccccCCcccccccccc
Q psy10878          3 YKAKKPILLPSASEDPSIDNWDK---ASW------ENVTPIVSEQGDGEIIEIIDPS   50 (131)
Q Consensus         3 ~~~~kp~vlv~NK~Dl~~~~~~~---~~~------~~~~~is~~~~~~~~~~~~~~~   50 (131)
                      .-.++|++=|++|+|+...+...   .+|      .++|.+|+.++.| +.+|.+.+
T Consensus        86 ~~f~~pvIGVITK~Dl~~~~~~i~~a~~~L~~aG~~~if~vS~~~~eG-i~eL~~~L  141 (143)
T PF10662_consen   86 SMFNKPVIGVITKIDLPSDDANIERAKKWLKNAGVKEIFEVSAVTGEG-IEELKDYL  141 (143)
T ss_pred             cccCCCEEEEEECccCccchhhHHHHHHHHHHcCCCCeEEEECCCCcC-HHHHHHHH
Confidence            34689999999999998332222   122      8899999999999 98886643

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

>cd04112 Rab26 Rab26 subfamily

Probab=96.72  E-value=0.00063  Score=46.50  Aligned_cols=49  Identities=12%  Similarity=-0.003  Sum_probs=36.2

Q ss_pred             CCCcEEeeccCCCccccccc----cccc-----CCCCccccccCCcccccccccccccc
Q psy10878          5 AKKPILLPSASEDPSIDNWD----KASW-----ENVTPIVSEQGDGEIIEIIDPSLKLV   54 (131)
Q Consensus         5 ~~kp~vlv~NK~Dl~~~~~~----~~~~-----~~~~~is~~~~~~~~~~~~~~~~~~~   54 (131)
                      .+.|+++|+||+|+......    ...+     ...+++|+..+.| +.+++..+.+.+
T Consensus       105 ~~~piiiv~NK~Dl~~~~~~~~~~~~~l~~~~~~~~~e~Sa~~~~~-v~~l~~~l~~~~  162 (191)
T cd04112         105 EDVVIMLLGNKADMSGERVVKREDGERLAKEYGVPFMETSAKTGLN-VELAFTAVAKEL  162 (191)
T ss_pred             CCCcEEEEEEcccchhccccCHHHHHHHHHHcCCeEEEEeCCCCCC-HHHHHHHHHHHH
Confidence            36799999999999643211    1111     3568999999999 999999887665

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.

>cd04149 Arf6 Arf6 subfamily

Probab=96.72  E-value=0.0004  Score=46.57  Aligned_cols=46  Identities=17%  Similarity=0.110  Sum_probs=31.8

Q ss_pred             CCCcEEeeccCCCccccc--cccccc----------CCCCccccccCCccccccccccc
Q psy10878          5 AKKPILLPSASEDPSIDN--WDKASW----------ENVTPIVSEQGDGEIIEIIDPSL   51 (131)
Q Consensus         5 ~~kp~vlv~NK~Dl~~~~--~~~~~~----------~~~~~is~~~~~~~~~~~~~~~~   51 (131)
                      .++|++||.||+|+.+..  ....++          ..++++||+++.| +.++++.+.
T Consensus       109 ~~~piilv~NK~Dl~~~~~~~~i~~~~~~~~~~~~~~~~~~~SAk~g~g-v~~~~~~l~  166 (168)
T cd04149         109 RDALLLVFANKQDLPDAMKPHEIQEKLGLTRIRDRNWYVQPSCATSGDG-LYEGLTWLS  166 (168)
T ss_pred             cCCcEEEEEECcCCccCCCHHHHHHHcCCCccCCCcEEEEEeeCCCCCC-hHHHHHHHh
Confidence            358999999999985421  111111          1357899999999 988877553

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

>PRK06217 hypothetical protein; Validated

Probab=96.70  E-value=0.0013  Score=44.86  Aligned_cols=22  Identities=14%  Similarity=0.345  Sum_probs=20.0

Q ss_pred             eEEEEEcCCCCCchhhhhhhhh
Q psy10878         71 FKVIVIGDPTVGKTSFVQRYVQ   92 (131)
Q Consensus        71 ~ki~vvG~~~vGKSsli~~~~~   92 (131)
                      .+|+|+|.+|+||||+..++..
T Consensus         2 ~~I~i~G~~GsGKSTla~~L~~   23 (183)
T PRK06217          2 MRIHITGASGSGTTTLGAALAE   23 (183)
T ss_pred             eEEEEECCCCCCHHHHHHHHHH
Confidence            4799999999999999998874

>cd04144 Ras2 Ras2 subfamily

Probab=96.69  E-value=0.00053  Score=46.84  Aligned_cols=49  Identities=10%  Similarity=0.072  Sum_probs=36.3

Q ss_pred             CCCcEEeeccCCCccccccc----cccc-----CCCCccccccCCcccccccccccccc
Q psy10878          5 AKKPILLPSASEDPSIDNWD----KASW-----ENVTPIVSEQGDGEIIEIIDPSLKLV   54 (131)
Q Consensus         5 ~~kp~vlv~NK~Dl~~~~~~----~~~~-----~~~~~is~~~~~~~~~~~~~~~~~~~   54 (131)
                      .+.|+++|.||+|+......    ..++     ...+++||+++.| +.+++..+.+.+
T Consensus       105 ~~~piilvgNK~Dl~~~~~v~~~~~~~~~~~~~~~~~e~SAk~~~~-v~~l~~~l~~~l  162 (190)
T cd04144         105 ADVPIMIVGNKCDKVYEREVSTEEGAALARRLGCEFIEASAKTNVN-VERAFYTLVRAL  162 (190)
T ss_pred             CCCCEEEEEEChhccccCccCHHHHHHHHHHhCCEEEEecCCCCCC-HHHHHHHHHHHH
Confidence            46899999999999542211    1112     3478999999999 999998887655

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.

>PF07728 AAA_5: AAA domain (dynein-related subfamily); InterPro: IPR011704 The ATPases Associated to a variety of cellular Activities (AAA) are a family distinguished by a highly conserved module of 230 amino acids []

Probab=96.69  E-value=0.0011  Score=42.95  Aligned_cols=20  Identities=30%  Similarity=0.687  Sum_probs=18.2

Q ss_pred             EEEEcCCCCCchhhhhhhhh
Q psy10878         73 VIVIGDPTVGKTSFVQRYVQ   92 (131)
Q Consensus        73 i~vvG~~~vGKSsli~~~~~   92 (131)
                      ++++|++|+|||+|+..++.
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            79999999999999998773

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.

>cd04107 Rab32_Rab38 Rab38/Rab32 subfamily

Probab=96.69  E-value=0.00057  Score=47.08  Aligned_cols=49  Identities=16%  Similarity=0.053  Sum_probs=36.2

Q ss_pred             CCCcEEeeccCCCcccccc----ccccc------CCCCccccccCCcccccccccccccc
Q psy10878          5 AKKPILLPSASEDPSIDNW----DKASW------ENVTPIVSEQGDGEIIEIIDPSLKLV   54 (131)
Q Consensus         5 ~~kp~vlv~NK~Dl~~~~~----~~~~~------~~~~~is~~~~~~~~~~~~~~~~~~~   54 (131)
                      .+.|++||.||+|+.+...    ...++      ...+++|++++.| +.++++.+.+.+
T Consensus       109 ~~~piilv~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~~e~Sak~~~~-v~e~f~~l~~~l  167 (201)
T cd04107         109 EPIPCLLLANKCDLKKRLAKDGEQMDQFCKENGFIGWFETSAKEGIN-IEEAMRFLVKNI  167 (201)
T ss_pred             CCCcEEEEEECCCcccccccCHHHHHHHHHHcCCceEEEEeCCCCCC-HHHHHHHHHHHH
Confidence            5689999999999963211    11122      3578999999999 999998887655

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.

>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=96.68  E-value=0.0012  Score=41.79  Aligned_cols=20  Identities=30%  Similarity=0.625  Sum_probs=18.1

Q ss_pred             EEEEcCCCCCchhhhhhhhh
Q psy10878         73 VIVIGDPTVGKTSFVQRYVQ   92 (131)
Q Consensus        73 i~vvG~~~vGKSsli~~~~~   92 (131)
                      +++.|++|+|||+++..++.
T Consensus         1 ill~G~~G~GKT~l~~~la~   20 (132)
T PF00004_consen    1 ILLHGPPGTGKTTLARALAQ   20 (132)
T ss_dssp             EEEESSTTSSHHHHHHHHHH
T ss_pred             CEEECcCCCCeeHHHHHHHh
Confidence            68999999999999998874

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 ....

>cd01862 Rab7 Rab7 subfamily

Probab=96.66  E-value=0.00054  Score=45.47  Aligned_cols=48  Identities=6%  Similarity=0.090  Sum_probs=35.4

Q ss_pred             CCcEEeeccCCCcccccc-cc---ccc------CCCCccccccCCcccccccccccccc
Q psy10878          6 KKPILLPSASEDPSIDNW-DK---ASW------ENVTPIVSEQGDGEIIEIIDPSLKLV   54 (131)
Q Consensus         6 ~kp~vlv~NK~Dl~~~~~-~~---~~~------~~~~~is~~~~~~~~~~~~~~~~~~~   54 (131)
                      ++|+++|+||+|+..+.. ..   ..+      ..++++|+..+.| +.++++.+.+.+
T Consensus       109 ~~p~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~g-v~~l~~~i~~~~  166 (172)
T cd01862         109 NFPFVVLGNKIDLEEKRQVSTKKAQQWCQSNGNIPYFETSAKEAIN-VEQAFETIARKA  166 (172)
T ss_pred             CceEEEEEECcccccccccCHHHHHHHHHHcCCceEEEEECCCCCC-HHHHHHHHHHHH
Confidence            789999999999973211 11   111      3678999999999 999988776554

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-

>smart00382 AAA ATPases associated with a variety of cellular activities

Probab=96.66  E-value=0.0015  Score=41.12  Aligned_cols=24  Identities=21%  Similarity=0.481  Sum_probs=20.7

Q ss_pred             EEEEEcCCCCCchhhhhhhhhCcC
Q psy10878         72 KVIVIGDPTVGKTSFVQRYVQNTF   95 (131)
Q Consensus        72 ki~vvG~~~vGKSsli~~~~~~~~   95 (131)
                      .++++|++|+|||+++..++..-.
T Consensus         4 ~~~l~G~~G~GKTtl~~~l~~~~~   27 (148)
T smart00382        4 VILIVGPPGSGKTTLARALARELG   27 (148)
T ss_pred             EEEEECCCCCcHHHHHHHHHhccC
Confidence            589999999999999999886433

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.

>KOG1489|consensus

Probab=96.66  E-value=0.00046  Score=51.00  Aligned_cols=47  Identities=21%  Similarity=0.388  Sum_probs=34.8

Q ss_pred             CCCcEEeeccCCCcccccccc-ccc------CCCCccccccCCcccccccccccc
Q psy10878          5 AKKPILLPSASEDPSIDNWDK-ASW------ENVTPIVSEQGDGEIIEIIDPSLK   52 (131)
Q Consensus         5 ~~kp~vlv~NK~Dl~~~~~~~-~~~------~~~~~is~~~~~~~~~~~~~~~~~   52 (131)
                      ..+|.++|+||+|+.+.+... .++      ..++|+||+.+.+ +..+++.+..
T Consensus       311 ~~rp~liVaNKiD~~eae~~~l~~L~~~lq~~~V~pvsA~~~eg-l~~ll~~lr~  364 (366)
T KOG1489|consen  311 ADRPALIVANKIDLPEAEKNLLSSLAKRLQNPHVVPVSAKSGEG-LEELLNGLRE  364 (366)
T ss_pred             ccCceEEEEeccCchhHHHHHHHHHHHHcCCCcEEEeeeccccc-hHHHHHHHhh
Confidence            578999999999996544332 333      3379999999999 8887765443

>PTZ00099 rab6; Provisional

Probab=96.64  E-value=0.00067  Score=46.11  Aligned_cols=49  Identities=10%  Similarity=0.003  Sum_probs=35.6

Q ss_pred             CCCcEEeeccCCCcccccc-c---ccc----c-CCCCccccccCCcccccccccccccc
Q psy10878          5 AKKPILLPSASEDPSIDNW-D---KAS----W-ENVTPIVSEQGDGEIIEIIDPSLKLV   54 (131)
Q Consensus         5 ~~kp~vlv~NK~Dl~~~~~-~---~~~----~-~~~~~is~~~~~~~~~~~~~~~~~~~   54 (131)
                      .+.|++||.||+|+.+... .   ...    + ...+++||+.+.| +.++++.+.+.+
T Consensus        84 ~~~piilVgNK~DL~~~~~v~~~e~~~~~~~~~~~~~e~SAk~g~n-V~~lf~~l~~~l  141 (176)
T PTZ00099         84 KDVIIALVGNKTDLGDLRKVTYEEGMQKAQEYNTMFHETSAKAGHN-IKVLFKKIAAKL  141 (176)
T ss_pred             CCCeEEEEEECcccccccCCCHHHHHHHHHHcCCEEEEEECCCCCC-HHHHHHHHHHHH
Confidence            3578899999999964211 1   111    1 2356899999999 999999888776

>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=96.64  E-value=0.0016  Score=37.42  Aligned_cols=21  Identities=14%  Similarity=0.469  Sum_probs=18.5

Q ss_pred             EEEEcCCCCCchhhhhhhhhC
Q psy10878         73 VIVIGDPTVGKTSFVQRYVQN   93 (131)
Q Consensus        73 i~vvG~~~vGKSsli~~~~~~   93 (131)
                      +++.|.+|+|||++.+.+...
T Consensus         2 i~i~G~~gsGKst~~~~l~~~   22 (69)
T cd02019           2 IAITGGSGSGKSTVAKKLAEQ   22 (69)
T ss_pred             EEEECCCCCCHHHHHHHHHHH
Confidence            678999999999999988753

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.

>PRK12296 obgE GTPase CgtA; Reviewed

Probab=96.64  E-value=0.00039  Score=54.56  Aligned_cols=49  Identities=18%  Similarity=0.100  Sum_probs=36.5

Q ss_pred             CCCcEEeeccCCCcccccccc----ccc----CCCCccccccCCcccccccccccccc
Q psy10878          5 AKKPILLPSASEDPSIDNWDK----ASW----ENVTPIVSEQGDGEIIEIIDPSLKLV   54 (131)
Q Consensus         5 ~~kp~vlv~NK~Dl~~~~~~~----~~~----~~~~~is~~~~~~~~~~~~~~~~~~~   54 (131)
                      .++|+++|+||+|+.+.....    ..+    ..++++|+.++.| +.+++..+.+.+
T Consensus       283 ~~kP~IVVlNKiDL~da~el~e~l~~~l~~~g~~Vf~ISA~tgeG-LdEL~~~L~ell  339 (500)
T PRK12296        283 AERPRLVVLNKIDVPDARELAEFVRPELEARGWPVFEVSAASREG-LRELSFALAELV  339 (500)
T ss_pred             cCCCEEEEEECccchhhHHHHHHHHHHHHHcCCeEEEEECCCCCC-HHHHHHHHHHHH
Confidence            479999999999996543211    111    3579999999999 999988776554

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

Probab=96.61  E-value=0.00047  Score=46.51  Aligned_cols=48  Identities=17%  Similarity=0.158  Sum_probs=33.4

Q ss_pred             CCcEEeeccCCCccccc--ccc-ccc--C-------CCCccccccCCcccccccccccccc
Q psy10878          6 KKPILLPSASEDPSIDN--WDK-ASW--E-------NVTPIVSEQGDGEIIEIIDPSLKLV   54 (131)
Q Consensus         6 ~kp~vlv~NK~Dl~~~~--~~~-~~~--~-------~~~~is~~~~~~~~~~~~~~~~~~~   54 (131)
                      +.|+++|.||+|+.+..  ... ..+  .       .++++||++|.| +.++++.+.+.+
T Consensus       114 ~~piilv~NK~Dl~~~~~~~~i~~~~~~~~~~~~~~~~~~~Sa~~g~g-v~e~~~~l~~~~  173 (175)
T smart00177      114 DAVILVFANKQDLPDAMKAAEITEKLGLHSIRDRNWYIQPTCATSGDG-LYEGLTWLSNNL  173 (175)
T ss_pred             CCcEEEEEeCcCcccCCCHHHHHHHhCccccCCCcEEEEEeeCCCCCC-HHHHHHHHHHHh
Confidence            57999999999986431  111 111  1       245799999999 999988776543

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).

>PRK03839 putative kinase; Provisional

Probab=96.60  E-value=0.0015  Score=44.20  Aligned_cols=21  Identities=29%  Similarity=0.528  Sum_probs=18.9

Q ss_pred             EEEEEcCCCCCchhhhhhhhh
Q psy10878         72 KVIVIGDPTVGKTSFVQRYVQ   92 (131)
Q Consensus        72 ki~vvG~~~vGKSsli~~~~~   92 (131)
                      +|+++|.||+||||+..++..
T Consensus         2 ~I~l~G~pGsGKsT~~~~La~   22 (180)
T PRK03839          2 IIAITGTPGVGKTTVSKLLAE   22 (180)
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            699999999999999988764

>cd04148 RGK RGK subfamily

Probab=96.60  E-value=0.00058  Score=48.01  Aligned_cols=51  Identities=12%  Similarity=0.188  Sum_probs=37.8

Q ss_pred             CCCcEEeeccCCCcccccccc----ccc-----CCCCccccccCCcccccccccccccccC
Q psy10878          5 AKKPILLPSASEDPSIDNWDK----ASW-----ENVTPIVSEQGDGEIIEIIDPSLKLVRV   56 (131)
Q Consensus         5 ~~kp~vlv~NK~Dl~~~~~~~----~~~-----~~~~~is~~~~~~~~~~~~~~~~~~~~~   56 (131)
                      .++|+++|.||+|+.......    ..+     ...+++|+..+.| +.++++.+.+.+..
T Consensus       105 ~~~piilV~NK~Dl~~~~~v~~~~~~~~a~~~~~~~~e~SA~~~~g-v~~l~~~l~~~~~~  164 (221)
T cd04148         105 EDRPIILVGNKSDLARSREVSVQEGRACAVVFDCKFIETSAGLQHN-VDELLEGIVRQIRL  164 (221)
T ss_pred             CCCCEEEEEEChhccccceecHHHHHHHHHHcCCeEEEecCCCCCC-HHHHHHHHHHHHHh
Confidence            468999999999996543111    111     3468899999999 99999988777643

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

>KOG0705|consensus

Probab=96.59  E-value=0.002  Score=50.90  Aligned_cols=58  Identities=33%  Similarity=0.449  Sum_probs=45.3

Q ss_pred             eeeEEEEEcCCCCCchhhhhhhhhCcCCCCccCCceeEeEEEEEEecCCeEEEEEEEeCCC
Q psy10878         69 KLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAG  129 (131)
Q Consensus        69 ~~~ki~vvG~~~vGKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~G  129 (131)
                      .++|+-+||..+.|||+|++||+.+.+..... +.+..| .+.+.. ++....+-+.|-+|
T Consensus        29 pelk~givg~~~sgktalvhr~ltgty~~~e~-~e~~~~-kkE~vv-~gqs~lLlirdeg~   86 (749)
T KOG0705|consen   29 PELKLGIVGTSQSGKTALVHRYLTGTYTQDES-PEGGRF-KKEVVV-DGQSHLLLIRDEGG   86 (749)
T ss_pred             chhheeeeecccCCceeeeeeeccceeccccC-CcCccc-eeeEEe-eccceEeeeecccC
Confidence            46799999999999999999999998876543 445566 445544 78878888888766

>PF05783 DLIC: Dynein light intermediate chain (DLIC); InterPro: IPR022780 This entry consists of several eukaryotic dynein light intermediate chain proteins

Probab=96.58  E-value=0.0048  Score=48.23  Aligned_cols=56  Identities=29%  Similarity=0.518  Sum_probs=39.5

Q ss_pred             eEEEEEcCCCCCchhhhhhhhhCcCCCCccCCceeEeEEEEEEecC-CeEEEEEEEeCCC
Q psy10878         71 FKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRD-QQKIKLQLWDIAG  129 (131)
Q Consensus        71 ~ki~vvG~~~vGKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~-~~~~~l~i~Dt~G  129 (131)
                      -.|+|+|+.++|||||+.+|.+.   +.+.++.+.+|..-.+.-.+ ....++.+|-..|
T Consensus        26 k~vlvlG~~~~GKttli~~L~~~---e~~~~~~aLeYty~~v~d~~~dd~~rl~vw~L~g   82 (472)
T PF05783_consen   26 KSVLVLGDKGSGKTTLIARLQGI---EDPKKGLALEYTYLDVKDEDRDDLARLNVWELDG   82 (472)
T ss_pred             ceEEEEeCCCCchHHHHHHhhcc---CCCCCCcccceEEEeeccCcCCcCceeeEEEcCC
Confidence            36999999999999999998653   34557888888665553211 1235678887655

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 [].

>PF13191 AAA_16: AAA ATPase domain; PDB: 2V1U_A

Probab=96.58  E-value=0.0013  Score=44.20  Aligned_cols=22  Identities=23%  Similarity=0.499  Sum_probs=16.5

Q ss_pred             eEEEEEcCCCCCchhhhhhhhh
Q psy10878         71 FKVIVIGDPTVGKTSFVQRYVQ   92 (131)
Q Consensus        71 ~ki~vvG~~~vGKSsli~~~~~   92 (131)
                      -.+++.|++|+|||+|++++..
T Consensus        25 ~~~ll~G~~G~GKT~ll~~~~~   46 (185)
T PF13191_consen   25 RNLLLTGESGSGKTSLLRALLD   46 (185)
T ss_dssp             --EEE-B-TTSSHHHHHHHHHH
T ss_pred             cEEEEECCCCCCHHHHHHHHHH
Confidence            3599999999999999998764

>TIGR02322 phosphon_PhnN phosphonate metabolism protein/1,5-bisphosphokinase (PRPP-forming) PhnN

Probab=96.57  E-value=0.0016  Score=44.00  Aligned_cols=21  Identities=19%  Similarity=0.349  Sum_probs=18.8

Q ss_pred             EEEEEcCCCCCchhhhhhhhh
Q psy10878         72 KVIVIGDPTVGKTSFVQRYVQ   92 (131)
Q Consensus        72 ki~vvG~~~vGKSsli~~~~~   92 (131)
                      .++++|.+|+||||+++.++.
T Consensus         3 ~~~i~G~sGsGKttl~~~l~~   23 (179)
T TIGR02322         3 LIYVVGPSGAGKDTLLDYARA   23 (179)
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            478999999999999998765

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.

>TIGR03156 GTP_HflX GTP-binding protein HflX

Probab=96.56  E-value=0.00068  Score=51.04  Aligned_cols=47  Identities=13%  Similarity=0.169  Sum_probs=33.9

Q ss_pred             CCCcEEeeccCCCccccccccc---ccCCCCccccccCCcccccccccccc
Q psy10878          5 AKKPILLPSASEDPSIDNWDKA---SWENVTPIVSEQGDGEIIEIIDPSLK   52 (131)
Q Consensus         5 ~~kp~vlv~NK~Dl~~~~~~~~---~~~~~~~is~~~~~~~~~~~~~~~~~   52 (131)
                      .++|+++|+||+|+.+......   .+..++++|++++.| +.++++.+.+
T Consensus       300 ~~~piIlV~NK~Dl~~~~~v~~~~~~~~~~i~iSAktg~G-I~eL~~~I~~  349 (351)
T TIGR03156       300 EDIPQLLVYNKIDLLDEPRIERLEEGYPEAVFVSAKTGEG-LDLLLEAIAE  349 (351)
T ss_pred             CCCCEEEEEEeecCCChHhHHHHHhCCCCEEEEEccCCCC-HHHHHHHHHh
Confidence            3789999999999965332111   113468999999999 9988776544

This protein family is one of a number of homologous small, well-conserved GTP-binding proteins with pleiotropic effects. Bacterial members are designated HflX, following the naming convention in Escherichia coli where HflX is encoded immediately downstream of the RNA chaperone Hfq, and immediately upstream of HflKC, a membrane-associated protease pair with an important housekeeping function. Over large numbers of other bacterial genomes, the pairing with hfq is more significant than with hflK and hlfC. The gene from Homo sapiens in this family has been named PGPL (pseudoautosomal GTP-binding protein-like).

>cd01889 SelB_euk SelB subfamily

Probab=96.56  E-value=0.00066  Score=46.44  Aligned_cols=51  Identities=14%  Similarity=0.164  Sum_probs=37.0

Q ss_pred             CCCcEEeeccCCCccccccc---c----c---------cc--CCCCccccccCCcccccccccccccccC
Q psy10878          5 AKKPILLPSASEDPSIDNWD---K----A---------SW--ENVTPIVSEQGDGEIIEIIDPSLKLVRV   56 (131)
Q Consensus         5 ~~kp~vlv~NK~Dl~~~~~~---~----~---------~~--~~~~~is~~~~~~~~~~~~~~~~~~~~~   56 (131)
                      .++|+++|+||+|+......   .    .         .+  ..++++|+.++.| +.++++.+.....+
T Consensus       119 ~~~~~iiv~NK~Dl~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~vi~iSa~~g~g-i~~L~~~l~~~~~~  187 (192)
T cd01889         119 LCKKLIVVLNKIDLIPEEERERKIEKMKKKLQKTLEKTRFKNSPIIPVSAKPGGG-EAELGKDLNNLIVL  187 (192)
T ss_pred             cCCCEEEEEECcccCCHHHHHHHHHHHHHHHHHHHHhcCcCCCCEEEEeccCCCC-HHHHHHHHHhcccc
Confidence            46899999999998632110   0    0         01  3468999999999 99999888777644

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

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

Probab=96.54  E-value=0.00065  Score=45.66  Aligned_cols=49  Identities=14%  Similarity=0.275  Sum_probs=36.4

Q ss_pred             CCCcEEeeccCCCcccccc-cc-------ccc-CCCCccccccCCcccccccccccccc
Q psy10878          5 AKKPILLPSASEDPSIDNW-DK-------ASW-ENVTPIVSEQGDGEIIEIIDPSLKLV   54 (131)
Q Consensus         5 ~~kp~vlv~NK~Dl~~~~~-~~-------~~~-~~~~~is~~~~~~~~~~~~~~~~~~~   54 (131)
                      .+.|+++|+||+|+..... ..       ..+ ..++++|+.++.| +.+++..+.+.+
T Consensus       105 ~~~p~ilv~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~g-v~~l~~~l~~~~  162 (180)
T cd04137         105 ESVPIVLVGNKSDLHTQRQVSTEEGKELAESWGAAFLESSARENEN-VEEAFELLIEEI  162 (180)
T ss_pred             CCCCEEEEEEchhhhhcCccCHHHHHHHHHHcCCeEEEEeCCCCCC-HHHHHHHHHHHH
Confidence            4689999999999864321 11       112 4578999999999 999998887665

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

>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=96.54  E-value=0.0016  Score=41.06  Aligned_cols=21  Identities=24%  Similarity=0.431  Sum_probs=18.3

Q ss_pred             EEEEcCCCCCchhhhhhhhhC
Q psy10878         73 VIVIGDPTVGKTSFVQRYVQN   93 (131)
Q Consensus        73 i~vvG~~~vGKSsli~~~~~~   93 (131)
                      |++.|.+|+||||+++.+...
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            689999999999999987743

...

>cd00881 GTP_translation_factor GTP translation factor family

Probab=96.52  E-value=0.0012  Score=44.33  Aligned_cols=49  Identities=16%  Similarity=0.180  Sum_probs=36.3

Q ss_pred             CCCcEEeeccCCCcccccc-------ccc------------------ccCCCCccccccCCcccccccccccccc
Q psy10878          5 AKKPILLPSASEDPSIDNW-------DKA------------------SWENVTPIVSEQGDGEIIEIIDPSLKLV   54 (131)
Q Consensus         5 ~~kp~vlv~NK~Dl~~~~~-------~~~------------------~~~~~~~is~~~~~~~~~~~~~~~~~~~   54 (131)
                      .++|+++|+||+|+.....       ...                  ....++++|++++.| +.++++.+...+
T Consensus       113 ~~~~i~iv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~~~Sa~~g~g-i~~l~~~l~~~l  186 (189)
T cd00881         113 GGLPIIVAINKIDRVGEEDLEEVLREIKELLGLIGFISTKEEGTRNGLLVPIVPGSALTGIG-VEELLEAIVEHL  186 (189)
T ss_pred             CCCCeEEEEECCCCcchhcHHHHHHHHHHHHccccccchhhhhcccCCcceEEEEecccCcC-HHHHHHHHHhhC
Confidence            5799999999999864211       000                  114568999999999 999988877765

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.

>PF13401 AAA_22: AAA domain; PDB: 2QBY_B 1FNN_B 1W5T_A 1W5S_B

Probab=96.52  E-value=0.0016  Score=41.40  Aligned_cols=22  Identities=27%  Similarity=0.650  Sum_probs=18.3

Q ss_pred             EEEEEcCCCCCchhhhhhhhhC
Q psy10878         72 KVIVIGDPTVGKTSFVQRYVQN   93 (131)
Q Consensus        72 ki~vvG~~~vGKSsli~~~~~~   93 (131)
                      -+++.|.+|+|||++++++...
T Consensus         6 ~~~i~G~~G~GKT~~~~~~~~~   27 (131)
T PF13401_consen    6 ILVISGPPGSGKTTLIKRLARQ   27 (131)
T ss_dssp             -EEEEE-TTSSHHHHHHHHHHH
T ss_pred             ccEEEcCCCCCHHHHHHHHHHH
Confidence            4889999999999999999864

>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=96.52  E-value=0.0017  Score=41.74  Aligned_cols=22  Identities=18%  Similarity=0.353  Sum_probs=19.5

Q ss_pred             EEEEEcCCCCCchhhhhhhhhC
Q psy10878         72 KVIVIGDPTVGKTSFVQRYVQN   93 (131)
Q Consensus        72 ki~vvG~~~vGKSsli~~~~~~   93 (131)
                      .++++|..|+|||||++.+++.
T Consensus        13 ~~~i~G~nGsGKStLl~~l~g~   34 (137)
T PF00005_consen   13 IVAIVGPNGSGKSTLLKALAGL   34 (137)
T ss_dssp             EEEEEESTTSSHHHHHHHHTTS
T ss_pred             EEEEEccCCCccccceeeeccc
Confidence            5899999999999999987753

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 ....

>PRK07560 elongation factor EF-2; Reviewed

Probab=96.51  E-value=0.0057  Score=50.29  Aligned_cols=23  Identities=17%  Similarity=0.291  Sum_probs=20.6

Q ss_pred             eeEEEEEcCCCCCchhhhhhhhh
Q psy10878         70 LFKVIVIGDPTVGKTSFVQRYVQ   92 (131)
Q Consensus        70 ~~ki~vvG~~~vGKSsli~~~~~   92 (131)
                      ..+|+++|..++|||||+.+++.
T Consensus        20 iRni~iigh~d~GKTTL~e~ll~   42 (731)
T PRK07560         20 IRNIGIIAHIDHGKTTLSDNLLA   42 (731)
T ss_pred             ccEEEEEEeCCCCHHHHHHHHHH
Confidence            44799999999999999999874

>cd00071 GMPK Guanosine monophosphate kinase (GMPK, EC 2

Probab=96.51  E-value=0.0019  Score=42.15  Aligned_cols=20  Identities=25%  Similarity=0.685  Sum_probs=18.3

Q ss_pred             EEEEcCCCCCchhhhhhhhh
Q psy10878         73 VIVIGDPTVGKTSFVQRYVQ   92 (131)
Q Consensus        73 i~vvG~~~vGKSsli~~~~~   92 (131)
                      ++++|.+|+|||||++.+..
T Consensus         2 i~i~GpsGsGKstl~~~L~~   21 (137)
T cd00071           2 IVLSGPSGVGKSTLLKRLLE   21 (137)
T ss_pred             EEEECCCCCCHHHHHHHHHh
Confidence            68999999999999999875

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.

>cd04101 RabL4 RabL4 (Rab-like4) subfamily

Probab=96.51  E-value=0.00093  Score=44.07  Aligned_cols=48  Identities=13%  Similarity=0.038  Sum_probs=34.1

Q ss_pred             CCCcEEeeccCCCcccccccc----ccc-----CCCCccccccCCccccccccccccc
Q psy10878          5 AKKPILLPSASEDPSIDNWDK----ASW-----ENVTPIVSEQGDGEIIEIIDPSLKL   53 (131)
Q Consensus         5 ~~kp~vlv~NK~Dl~~~~~~~----~~~-----~~~~~is~~~~~~~~~~~~~~~~~~   53 (131)
                      .+.|+++|+||+|+.......    ..+     ...+.+|+.++.| +.++++.+.+.
T Consensus       106 ~~~p~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~g-i~~l~~~l~~~  162 (164)
T cd04101         106 KHMPGVLVGNKMDLADKAEVTDAQAQAFAQANQLKFFKTSALRGVG-YEEPFESLARA  162 (164)
T ss_pred             CCCCEEEEEECcccccccCCCHHHHHHHHHHcCCeEEEEeCCCCCC-hHHHHHHHHHH
Confidence            368999999999995442111    111     3458999999999 99888766543

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.

>cd04106 Rab23_lke Rab23-like subfamily

Probab=96.49  E-value=0.00087  Score=44.06  Aligned_cols=46  Identities=9%  Similarity=0.039  Sum_probs=32.7

Q ss_pred             CCCcEEeeccCCCcccccc----ccccc-----CCCCccccccCCccccccccccc
Q psy10878          5 AKKPILLPSASEDPSIDNW----DKASW-----ENVTPIVSEQGDGEIIEIIDPSL   51 (131)
Q Consensus         5 ~~kp~vlv~NK~Dl~~~~~----~~~~~-----~~~~~is~~~~~~~~~~~~~~~~   51 (131)
                      .+.|+++|+||+|+.....    ....+     ...+++|++++.| +.++++.+.
T Consensus       105 ~~~p~iiv~nK~Dl~~~~~v~~~~~~~~~~~~~~~~~~~Sa~~~~~-v~~l~~~l~  159 (162)
T cd04106         105 GDIPMVLVQTKIDLLDQAVITNEEAEALAKRLQLPLFRTSVKDDFN-VTELFEYLA  159 (162)
T ss_pred             CCCCEEEEEEChhcccccCCCHHHHHHHHHHcCCeEEEEECCCCCC-HHHHHHHHH
Confidence            4789999999999854321    11112     3568899999999 888876553

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

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

Probab=96.49  E-value=0.0094  Score=45.59  Aligned_cols=25  Identities=24%  Similarity=0.505  Sum_probs=21.7

Q ss_pred             ceeeEEEEEcCCCCCchhhhhhhhh
Q psy10878         68 EKLFKVIVIGDPTVGKTSFVQRYVQ   92 (131)
Q Consensus        68 ~~~~ki~vvG~~~vGKSsli~~~~~   92 (131)
                      ...++++++|...+|||||+-|++.
T Consensus         5 Kph~nl~~iGHVD~GKSTl~GrLly   29 (428)
T COG5256           5 KPHLNLVFIGHVDAGKSTLVGRLLY   29 (428)
T ss_pred             CCceEEEEEcCCCCCchhhhhhhHH
Confidence            3467999999999999999988773

>PF05729 NACHT: NACHT domain

Probab=96.48  E-value=0.0021  Score=42.28  Aligned_cols=20  Identities=25%  Similarity=0.662  Sum_probs=18.3

Q ss_pred             EEEEcCCCCCchhhhhhhhh
Q psy10878         73 VIVIGDPTVGKTSFVQRYVQ   92 (131)
Q Consensus        73 i~vvG~~~vGKSsli~~~~~   92 (131)
                      +++.|++|+|||+++.+++.
T Consensus         3 l~I~G~~G~GKStll~~~~~   22 (166)
T PF05729_consen    3 LWISGEPGSGKSTLLRKLAQ   22 (166)
T ss_pred             EEEECCCCCChHHHHHHHHH
Confidence            78999999999999998874

>cd04109 Rab28 Rab28 subfamily

Probab=96.47  E-value=0.00084  Score=46.84  Aligned_cols=48  Identities=13%  Similarity=0.130  Sum_probs=34.8

Q ss_pred             CCcEEeeccCCCcccccccc----ccc-----CCCCccccccCCcccccccccccccc
Q psy10878          6 KKPILLPSASEDPSIDNWDK----ASW-----ENVTPIVSEQGDGEIIEIIDPSLKLV   54 (131)
Q Consensus         6 ~kp~vlv~NK~Dl~~~~~~~----~~~-----~~~~~is~~~~~~~~~~~~~~~~~~~   54 (131)
                      +.|+++|.||+|+.+.....    ..+     ...+.+||+++.| +.++++.+.+.+
T Consensus       109 ~~piilVgNK~DL~~~~~v~~~~~~~~~~~~~~~~~~iSAktg~g-v~~lf~~l~~~l  165 (215)
T cd04109         109 QPLVVLVGNKTDLEHNRTVKDDKHARFAQANGMESCLVSAKTGDR-VNLLFQQLAAEL  165 (215)
T ss_pred             CceEEEEEECcccccccccCHHHHHHHHHHcCCEEEEEECCCCCC-HHHHHHHHHHHH
Confidence            45789999999996432111    112     3468899999999 999998887665

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

>PRK10078 ribose 1,5-bisphosphokinase; Provisional

Probab=96.47  E-value=0.0021  Score=43.89  Aligned_cols=22  Identities=23%  Similarity=0.360  Sum_probs=19.5

Q ss_pred             EEEEEcCCCCCchhhhhhhhhC
Q psy10878         72 KVIVIGDPTVGKTSFVQRYVQN   93 (131)
Q Consensus        72 ki~vvG~~~vGKSsli~~~~~~   93 (131)
                      .++++|.+|+|||||++.+...
T Consensus         4 ~i~l~G~sGsGKsTl~~~l~~~   25 (186)
T PRK10078          4 LIWLMGPSGSGKDSLLAALRQR   25 (186)
T ss_pred             EEEEECCCCCCHHHHHHHHhcc
Confidence            5899999999999999998643

>COG0536 Obg Predicted GTPase [General function prediction only]

Probab=96.46  E-value=0.0044  Score=46.31  Aligned_cols=21  Identities=24%  Similarity=0.449  Sum_probs=18.5

Q ss_pred             EEEEcCCCCCchhhhhhhhhC
Q psy10878         73 VIVIGDPTVGKTSFVQRYVQN   93 (131)
Q Consensus        73 i~vvG~~~vGKSsli~~~~~~   93 (131)
                      +-+||.||+|||||++.+..-
T Consensus       162 VGLVG~PNaGKSTlls~vS~A  182 (369)
T COG0536         162 VGLVGLPNAGKSTLLSAVSAA  182 (369)
T ss_pred             cccccCCCCcHHHHHHHHhhc
Confidence            568999999999999998853

>PRK14738 gmk guanylate kinase; Provisional

Probab=96.46  E-value=0.0026  Score=44.31  Aligned_cols=24  Identities=29%  Similarity=0.473  Sum_probs=20.4

Q ss_pred             eeeEEEEEcCCCCCchhhhhhhhh
Q psy10878         69 KLFKVIVIGDPTVGKTSFVQRYVQ   92 (131)
Q Consensus        69 ~~~ki~vvG~~~vGKSsli~~~~~   92 (131)
                      ...-++++|.+|+|||||++.+..
T Consensus        12 ~~~~ivi~GpsG~GK~tl~~~L~~   35 (206)
T PRK14738         12 KPLLVVISGPSGVGKDAVLARMRE   35 (206)
T ss_pred             CCeEEEEECcCCCCHHHHHHHHHh
Confidence            344688999999999999999874

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

Probab=96.46  E-value=0.00096  Score=43.78  Aligned_cols=47  Identities=21%  Similarity=0.168  Sum_probs=33.3

Q ss_pred             CCCcEEeeccCCCccccc---cccccc---------CCCCccccccCCcccccccccccc
Q psy10878          5 AKKPILLPSASEDPSIDN---WDKASW---------ENVTPIVSEQGDGEIIEIIDPSLK   52 (131)
Q Consensus         5 ~~kp~vlv~NK~Dl~~~~---~~~~~~---------~~~~~is~~~~~~~~~~~~~~~~~   52 (131)
                      .+.|+++|+||+|+....   +.....         ..++++|++.+.| +.++++.+..
T Consensus        99 ~~~piiiv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~g-v~~~~~~l~~  157 (158)
T cd00878          99 KGVPLLIFANKQDLPGALSVSELIEKLGLEKILGRRWHIQPCSAVTGDG-LDEGLDWLLQ  157 (158)
T ss_pred             CCCcEEEEeeccCCccccCHHHHHHhhChhhccCCcEEEEEeeCCCCCC-HHHHHHHHhh
Confidence            478999999999986532   111111         3478899999999 9888776543

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

>cd04154 Arl2 Arl2 subfamily

Probab=96.45  E-value=0.001  Score=44.60  Aligned_cols=46  Identities=17%  Similarity=0.177  Sum_probs=32.8

Q ss_pred             CCCcEEeeccCCCccccc--cccccc----------CCCCccccccCCccccccccccc
Q psy10878          5 AKKPILLPSASEDPSIDN--WDKASW----------ENVTPIVSEQGDGEIIEIIDPSL   51 (131)
Q Consensus         5 ~~kp~vlv~NK~Dl~~~~--~~~~~~----------~~~~~is~~~~~~~~~~~~~~~~   51 (131)
                      .++|+++|+||+|+....  .....+          ...+++||+++.| +.++++.+.
T Consensus       114 ~~~p~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~g~g-i~~l~~~l~  171 (173)
T cd04154         114 AGATLLILANKQDLPGALSEEEIREALELDKISSHHWRIQPCSAVTGEG-LLQGIDWLV  171 (173)
T ss_pred             cCCCEEEEEECcccccCCCHHHHHHHhCccccCCCceEEEeccCCCCcC-HHHHHHHHh
Confidence            578999999999986431  111111          2478999999999 888876553

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.

>cd04171 SelB SelB subfamily

Probab=96.45  E-value=0.00066  Score=44.54  Aligned_cols=44  Identities=20%  Similarity=0.296  Sum_probs=31.1

Q ss_pred             CcEEeeccCCCcccccc------cc-ccc-------CCCCccccccCCccccccccccc
Q psy10878          7 KPILLPSASEDPSIDNW------DK-ASW-------ENVTPIVSEQGDGEIIEIIDPSL   51 (131)
Q Consensus         7 kp~vlv~NK~Dl~~~~~------~~-~~~-------~~~~~is~~~~~~~~~~~~~~~~   51 (131)
                      +|+++|+||+|+.....      .. ..+       ...+++|++++.| +.++++.+.
T Consensus       105 ~~~ilv~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~-v~~l~~~l~  162 (164)
T cd04171         105 KRGLVVLTKADLVDEDWLELVEEEIRELLAGTFLADAPIFPVSAVTGEG-IEELKEYLD  162 (164)
T ss_pred             CcEEEEEECccccCHHHHHHHHHHHHHHHHhcCcCCCcEEEEeCCCCcC-HHHHHHHHh
Confidence            59999999999964310      11 111       4578999999999 888876543

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

>COG1136 SalX ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]

Probab=96.45  E-value=0.0026  Score=45.08  Aligned_cols=21  Identities=19%  Similarity=0.327  Sum_probs=18.6

Q ss_pred             EEEEEcCCCCCchhhhhhhhh
Q psy10878         72 KVIVIGDPTVGKTSFVQRYVQ   92 (131)
Q Consensus        72 ki~vvG~~~vGKSsli~~~~~   92 (131)
                      -++++|++|+|||||+|-+.+
T Consensus        33 ~vaI~GpSGSGKSTLLniig~   53 (226)
T COG1136          33 FVAIVGPSGSGKSTLLNLLGG   53 (226)
T ss_pred             EEEEECCCCCCHHHHHHHHhc
Confidence            489999999999999997654

>cd04160 Arfrp1 Arfrp1 subfamily

Probab=96.44  E-value=0.00089  Score=44.30  Aligned_cols=45  Identities=20%  Similarity=0.175  Sum_probs=32.0

Q ss_pred             CCCcEEeeccCCCcccccc--ccccc------------CCCCccccccCCcccccccccc
Q psy10878          5 AKKPILLPSASEDPSIDNW--DKASW------------ENVTPIVSEQGDGEIIEIIDPS   50 (131)
Q Consensus         5 ~~kp~vlv~NK~Dl~~~~~--~~~~~------------~~~~~is~~~~~~~~~~~~~~~   50 (131)
                      .+.|+++++||+|+.....  ....+            ..++++||+++.| +.++++.+
T Consensus       106 ~~~p~ilv~NK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~g~g-v~e~~~~l  164 (167)
T cd04160         106 EGVPLLILANKQDLPDALSVEEIKEVFQDKAEEIGRRDCLVLPVSALEGTG-VREGIEWL  164 (167)
T ss_pred             cCCCEEEEEEccccccCCCHHHHHHHhccccccccCCceEEEEeeCCCCcC-HHHHHHHH
Confidence            4789999999999854311  11111            2478999999999 88887654

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.

>PRK15467 ethanolamine utilization protein EutP; Provisional

Probab=96.43  E-value=0.00084  Score=44.72  Aligned_cols=49  Identities=12%  Similarity=0.102  Sum_probs=36.2

Q ss_pred             CCCcEEeeccCCCcccccc-ccccc-------CCCCccccccCCcccccccccccccc
Q psy10878          5 AKKPILLPSASEDPSIDNW-DKASW-------ENVTPIVSEQGDGEIIEIIDPSLKLV   54 (131)
Q Consensus         5 ~~kp~vlv~NK~Dl~~~~~-~~~~~-------~~~~~is~~~~~~~~~~~~~~~~~~~   54 (131)
                      .++|+++++||+|+...+. ...++       ..++++|++++.| +.++++.+.+..
T Consensus        90 ~~~~ii~v~nK~Dl~~~~~~~~~~~~~~~~~~~p~~~~Sa~~g~g-i~~l~~~l~~~~  146 (158)
T PRK15467         90 VSKRQIAVISKTDMPDADVAATRKLLLETGFEEPIFELNSHDPQS-VQQLVDYLASLT  146 (158)
T ss_pred             CCCCeEEEEEccccCcccHHHHHHHHHHcCCCCCEEEEECCCccC-HHHHHHHHHHhc
Confidence            3689999999999854321 11122       2678899999999 999988876665

>PRK13695 putative NTPase; Provisional

Probab=96.43  E-value=0.0024  Score=43.14  Aligned_cols=22  Identities=36%  Similarity=0.653  Sum_probs=19.4

Q ss_pred             eEEEEEcCCCCCchhhhhhhhh
Q psy10878         71 FKVIVIGDPTVGKTSFVQRYVQ   92 (131)
Q Consensus        71 ~ki~vvG~~~vGKSsli~~~~~   92 (131)
                      +|+++.|.+|+|||||+..+..
T Consensus         1 ~~i~ltG~~G~GKTTll~~i~~   22 (174)
T PRK13695          1 MKIGITGPPGVGKTTLVLKIAE   22 (174)
T ss_pred             CEEEEECCCCCCHHHHHHHHHH
Confidence            5899999999999999998653

>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=96.41  E-value=0.0024  Score=40.60  Aligned_cols=22  Identities=23%  Similarity=0.557  Sum_probs=19.7

Q ss_pred             EEEEEcCCCCCchhhhhhhhhC
Q psy10878         72 KVIVIGDPTVGKTSFVQRYVQN   93 (131)
Q Consensus        72 ki~vvG~~~vGKSsli~~~~~~   93 (131)
                      -+++.|++|+|||++++.+...
T Consensus        21 ~v~i~G~~G~GKT~l~~~i~~~   42 (151)
T cd00009          21 NLLLYGPPGTGKTTLARAIANE   42 (151)
T ss_pred             eEEEECCCCCCHHHHHHHHHHH
Confidence            5999999999999999988754

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.

>cd04124 RabL2 RabL2 subfamily

Probab=96.41  E-value=0.00058  Score=45.26  Aligned_cols=48  Identities=13%  Similarity=0.241  Sum_probs=34.9

Q ss_pred             CCcEEeeccCCCcccccc-ccccc-----CCCCccccccCCcccccccccccccc
Q psy10878          6 KKPILLPSASEDPSIDNW-DKASW-----ENVTPIVSEQGDGEIIEIIDPSLKLV   54 (131)
Q Consensus         6 ~kp~vlv~NK~Dl~~~~~-~~~~~-----~~~~~is~~~~~~~~~~~~~~~~~~~   54 (131)
                      ++|+++|+||+|+..... ....+     ...+++||+++.| +.++++.+.+..
T Consensus       104 ~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~Sa~~~~g-v~~l~~~l~~~~  157 (161)
T cd04124         104 EIPCIVVANKIDLDPSVTQKKFNFAEKHNLPLYYVSAADGTN-VVKLFQDAIKLA  157 (161)
T ss_pred             CCcEEEEEECccCchhHHHHHHHHHHHcCCeEEEEeCCCCCC-HHHHHHHHHHHH
Confidence            689999999999853211 11112     3468999999999 999988776544

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

>PRK14532 adenylate kinase; Provisional

Probab=96.41  E-value=0.0024  Score=43.52  Aligned_cols=21  Identities=33%  Similarity=0.676  Sum_probs=19.1

Q ss_pred             EEEEEcCCCCCchhhhhhhhh
Q psy10878         72 KVIVIGDPTVGKTSFVQRYVQ   92 (131)
Q Consensus        72 ki~vvG~~~vGKSsli~~~~~   92 (131)
                      +++++|.||+||||+..++..
T Consensus         2 ~i~~~G~pGsGKsT~a~~la~   22 (188)
T PRK14532          2 NLILFGPPAAGKGTQAKRLVE   22 (188)
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            699999999999999998874

>cd01861 Rab6 Rab6 subfamily

Probab=96.39  E-value=0.001  Score=43.62  Aligned_cols=46  Identities=13%  Similarity=0.070  Sum_probs=33.3

Q ss_pred             CCcEEeeccCCCcccccc-ccccc--------CCCCccccccCCcccccccccccc
Q psy10878          6 KKPILLPSASEDPSIDNW-DKASW--------ENVTPIVSEQGDGEIIEIIDPSLK   52 (131)
Q Consensus         6 ~kp~vlv~NK~Dl~~~~~-~~~~~--------~~~~~is~~~~~~~~~~~~~~~~~   52 (131)
                      +.|+++|+||+|+..... ...+.        ..++++|+..+.| +.++++.+.+
T Consensus       105 ~~~iilv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~-v~~l~~~i~~  159 (161)
T cd01861         105 DVIIVLVGNKTDLSDKRQVSTEEGEKKAKELNAMFIETSAKAGHN-VKELFRKIAS  159 (161)
T ss_pred             CCEEEEEEEChhccccCccCHHHHHHHHHHhCCEEEEEeCCCCCC-HHHHHHHHHH
Confidence            589999999999943321 11111        4478899999999 9988877654

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

>PRK14530 adenylate kinase; Provisional

Probab=96.38  E-value=0.0025  Score=44.52  Aligned_cols=20  Identities=20%  Similarity=0.556  Sum_probs=18.7

Q ss_pred             EEEEEcCCCCCchhhhhhhh
Q psy10878         72 KVIVIGDPTVGKTSFVQRYV   91 (131)
Q Consensus        72 ki~vvG~~~vGKSsli~~~~   91 (131)
                      +|+++|.||+||||+..+++
T Consensus         5 ~I~i~G~pGsGKsT~~~~La   24 (215)
T PRK14530          5 RILLLGAPGAGKGTQSSNLA   24 (215)
T ss_pred             EEEEECCCCCCHHHHHHHHH
Confidence            79999999999999999886

>cd04163 Era Era subfamily

Probab=96.37  E-value=0.001  Score=43.39  Aligned_cols=47  Identities=23%  Similarity=0.374  Sum_probs=33.4

Q ss_pred             CCCcEEeeccCCCccccccccccc----------CCCCccccccCCcccccccccccc
Q psy10878          5 AKKPILLPSASEDPSIDNWDKASW----------ENVTPIVSEQGDGEIIEIIDPSLK   52 (131)
Q Consensus         5 ~~kp~vlv~NK~Dl~~~~~~~~~~----------~~~~~is~~~~~~~~~~~~~~~~~   52 (131)
                      .+.|+++|+||+|+........++          .+++++|+..+.+ +.++++.+.+
T Consensus       110 ~~~~~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~s~~~~~~-~~~l~~~l~~  166 (168)
T cd04163         110 SKTPVILVLNKIDLVKDKEDLLPLLEKLKELGPFAEIFPISALKGEN-VDELLEEIVK  166 (168)
T ss_pred             hCCCEEEEEEchhccccHHHHHHHHHHHHhccCCCceEEEEeccCCC-hHHHHHHHHh
Confidence            468999999999997322111111          5678899999999 8888776544

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.

>TIGR03263 guanyl_kin guanylate kinase

Probab=96.36  E-value=0.0024  Score=43.10  Aligned_cols=21  Identities=24%  Similarity=0.581  Sum_probs=19.1

Q ss_pred             EEEEEcCCCCCchhhhhhhhh
Q psy10878         72 KVIVIGDPTVGKTSFVQRYVQ   92 (131)
Q Consensus        72 ki~vvG~~~vGKSsli~~~~~   92 (131)
                      .++++|.+|+|||||++.++.
T Consensus         3 ii~l~G~~GsGKsTl~~~L~~   23 (180)
T TIGR03263         3 LIVISGPSGVGKSTLVKALLE   23 (180)
T ss_pred             EEEEECCCCCCHHHHHHHHHc
Confidence            489999999999999999875

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.

>KOG2486|consensus

Probab=96.36  E-value=0.0069  Score=44.21  Aligned_cols=58  Identities=21%  Similarity=0.227  Sum_probs=36.8

Q ss_pred             ceeeEEEEEcCCCCCchhhhhhhhhCcCCC-CccCCceeEeEEEEEEecCCeEEEEEEEeCCC
Q psy10878         68 EKLFKVIVIGDPTVGKTSFVQRYVQNTFKK-DYKGTVGVDFALKIVKWRDQQKIKLQLWDIAG  129 (131)
Q Consensus        68 ~~~~ki~vvG~~~vGKSsli~~~~~~~~~~-~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~G  129 (131)
                      .....+++.|.+|||||+|+|.+..-.... ...++.|.......+.+ +.   .+.+.|.+|
T Consensus       134 ~~~pe~~~~g~SNVGKSSLln~~~r~k~~~~t~k~K~g~Tq~in~f~v-~~---~~~~vDlPG  192 (320)
T KOG2486|consen  134 DKRPELAFYGRSNVGKSSLLNDLVRVKNIADTSKSKNGKTQAINHFHV-GK---SWYEVDLPG  192 (320)
T ss_pred             CCCceeeeecCCcccHHHHHhhhhhhhhhhhhcCCCCccceeeeeeec-cc---eEEEEecCC
Confidence            445679999999999999999888543322 22234443333334433 22   356788888

>cd04127 Rab27A Rab27a subfamily

Probab=96.36  E-value=0.001  Score=44.65  Aligned_cols=48  Identities=13%  Similarity=0.109  Sum_probs=34.8

Q ss_pred             CCCcEEeeccCCCcccccc----ccccc-----CCCCccccccCCccccccccccccc
Q psy10878          5 AKKPILLPSASEDPSIDNW----DKASW-----ENVTPIVSEQGDGEIIEIIDPSLKL   53 (131)
Q Consensus         5 ~~kp~vlv~NK~Dl~~~~~----~~~~~-----~~~~~is~~~~~~~~~~~~~~~~~~   53 (131)
                      .+.|+++|.||+|+.+...    ...++     ...+++||+.+.| +.++++.+.+.
T Consensus       119 ~~~piiiv~nK~Dl~~~~~v~~~~~~~~~~~~~~~~~e~Sak~~~~-v~~l~~~l~~~  175 (180)
T cd04127         119 ENPDIVLCGNKADLEDQRQVSEEQAKALADKYGIPYFETSAATGTN-VEKAVERLLDL  175 (180)
T ss_pred             CCCcEEEEEeCccchhcCccCHHHHHHHHHHcCCeEEEEeCCCCCC-HHHHHHHHHHH
Confidence            3678999999999965321    11222     3568999999999 99998877653

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

>PRK05291 trmE tRNA modification GTPase TrmE; Reviewed

Probab=96.36  E-value=0.001  Score=51.69  Aligned_cols=49  Identities=20%  Similarity=0.236  Sum_probs=37.9

Q ss_pred             CCCcEEeeccCCCccccccccccc-CCCCccccccCCcccccccccccccc
Q psy10878          5 AKKPILLPSASEDPSIDNWDKASW-ENVTPIVSEQGDGEIIEIIDPSLKLV   54 (131)
Q Consensus         5 ~~kp~vlv~NK~Dl~~~~~~~~~~-~~~~~is~~~~~~~~~~~~~~~~~~~   54 (131)
                      .++|+++|+||+|+.+........ ..++++|++++.| +.++++.+.+.+
T Consensus       320 ~~~piiiV~NK~DL~~~~~~~~~~~~~~i~iSAktg~G-I~~L~~~L~~~l  369 (449)
T PRK05291        320 KDKPVIVVLNKADLTGEIDLEEENGKPVIRISAKTGEG-IDELREAIKELA  369 (449)
T ss_pred             CCCCcEEEEEhhhccccchhhhccCCceEEEEeeCCCC-HHHHHHHHHHHH
Confidence            478999999999996543221111 5678999999999 999999887765

>PTZ00327 eukaryotic translation initiation factor 2 gamma subunit; Provisional

Probab=96.35  E-value=0.0013  Score=51.30  Aligned_cols=48  Identities=13%  Similarity=0.104  Sum_probs=35.0

Q ss_pred             CcEEeeccCCCcccccccc------cc--------cCCCCccccccCCccccccccccccccc
Q psy10878          7 KPILLPSASEDPSIDNWDK------AS--------WENVTPIVSEQGDGEIIEIIDPSLKLVR   55 (131)
Q Consensus         7 kp~vlv~NK~Dl~~~~~~~------~~--------~~~~~~is~~~~~~~~~~~~~~~~~~~~   55 (131)
                      +++++|+||+|+.+.++..      .+        ...++|+|+.++.| +..|++.+.+.+.
T Consensus       172 ~~iIVvlNKiDlv~~~~~~~~~~ei~~~l~~~~~~~~~iipVSA~~G~n-I~~Ll~~L~~~lp  233 (460)
T PTZ00327        172 KHIIILQNKIDLVKEAQAQDQYEEIRNFVKGTIADNAPIIPISAQLKYN-IDVVLEYICTQIP  233 (460)
T ss_pred             CcEEEEEecccccCHHHHHHHHHHHHHHHHhhccCCCeEEEeeCCCCCC-HHHHHHHHHhhCC
Confidence            5688999999997532211      11        14579999999999 9999988876553

>COG4525 TauB ABC-type taurine transport system, ATPase component [Inorganic ion transport and metabolism]

Probab=96.35  E-value=0.0024  Score=44.63  Aligned_cols=21  Identities=29%  Similarity=0.482  Sum_probs=18.6

Q ss_pred             EEEEEcCCCCCchhhhhhhhh
Q psy10878         72 KVIVIGDPTVGKTSFVQRYVQ   92 (131)
Q Consensus        72 ki~vvG~~~vGKSsli~~~~~   92 (131)
                      -++++|.+|||||||+|-..+
T Consensus        33 ~vv~lGpSGcGKTTLLnl~AG   53 (259)
T COG4525          33 LVVVLGPSGCGKTTLLNLIAG   53 (259)
T ss_pred             EEEEEcCCCccHHHHHHHHhc
Confidence            489999999999999997664

>TIGR00101 ureG urease accessory protein UreG

Probab=96.35  E-value=0.003  Score=43.84  Aligned_cols=22  Identities=27%  Similarity=0.448  Sum_probs=20.1

Q ss_pred             eEEEEEcCCCCCchhhhhhhhh
Q psy10878         71 FKVIVIGDPTVGKTSFVQRYVQ   92 (131)
Q Consensus        71 ~ki~vvG~~~vGKSsli~~~~~   92 (131)
                      +++.++|.+|+|||||+++++.
T Consensus         2 ~~i~i~G~~GsGKTTll~~l~~   23 (199)
T TIGR00101         2 LKIGVAGPVGSGKTALIEALTR   23 (199)
T ss_pred             eEEEEECCCCCCHHHHHHHHHH
Confidence            5899999999999999998875

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.

>cd04159 Arl10_like Arl10-like subfamily

Probab=96.35  E-value=0.0011  Score=42.85  Aligned_cols=47  Identities=15%  Similarity=0.056  Sum_probs=32.8

Q ss_pred             CCCcEEeeccCCCccccccc---cccc---------CCCCccccccCCcccccccccccc
Q psy10878          5 AKKPILLPSASEDPSIDNWD---KASW---------ENVTPIVSEQGDGEIIEIIDPSLK   52 (131)
Q Consensus         5 ~~kp~vlv~NK~Dl~~~~~~---~~~~---------~~~~~is~~~~~~~~~~~~~~~~~   52 (131)
                      .++|+++|+||+|+......   ...+         ...+++|++++.| +.++++.+.+
T Consensus       100 ~~~p~iiv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~g-i~~l~~~l~~  158 (159)
T cd04159         100 EGIPLLVLGNKNDLPGALSVDELIEQMNLKSITDREVSCYSISCKEKTN-IDIVLDWLIK  158 (159)
T ss_pred             cCCCEEEEEeCccccCCcCHHHHHHHhCcccccCCceEEEEEEeccCCC-hHHHHHHHhh
Confidence            47899999999998653211   1111         2357899999999 9888776543

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.

>cd04123 Rab21 Rab21 subfamily

Probab=96.35  E-value=0.0011  Score=43.31  Aligned_cols=47  Identities=15%  Similarity=0.160  Sum_probs=34.1

Q ss_pred             CCcEEeeccCCCcccccc-cc---ccc-----CCCCccccccCCccccccccccccc
Q psy10878          6 KKPILLPSASEDPSIDNW-DK---ASW-----ENVTPIVSEQGDGEIIEIIDPSLKL   53 (131)
Q Consensus         6 ~kp~vlv~NK~Dl~~~~~-~~---~~~-----~~~~~is~~~~~~~~~~~~~~~~~~   53 (131)
                      ++|+++|+||+|+..... ..   .++     ...+++|+.++.| +.++++.+.+.
T Consensus       105 ~~piiiv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~s~~~~~g-i~~~~~~l~~~  160 (162)
T cd04123         105 NISLVIVGNKIDLERQRVVSKSEAEEYAKSVGAKHFETSAKTGKG-IEELFLSLAKR  160 (162)
T ss_pred             CCeEEEEEECcccccccCCCHHHHHHHHHHcCCEEEEEeCCCCCC-HHHHHHHHHHH
Confidence            689999999999864321 11   111     4468999999999 99988876543

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

>COG3839 MalK ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]

Probab=96.35  E-value=0.003  Score=47.30  Aligned_cols=22  Identities=18%  Similarity=0.425  Sum_probs=19.6

Q ss_pred             EEEEcCCCCCchhhhhhhhhCc
Q psy10878         73 VIVIGDPTVGKTSFVQRYVQNT   94 (131)
Q Consensus        73 i~vvG~~~vGKSsli~~~~~~~   94 (131)
                      ++++|++||||||+++-+++-+
T Consensus        32 ~vllGPSGcGKSTlLr~IAGLe   53 (338)
T COG3839          32 VVLLGPSGCGKSTLLRMIAGLE   53 (338)
T ss_pred             EEEECCCCCCHHHHHHHHhCCC
Confidence            8999999999999999887643

>cd04113 Rab4 Rab4 subfamily

Probab=96.33  E-value=0.0012  Score=43.44  Aligned_cols=47  Identities=9%  Similarity=0.028  Sum_probs=34.5

Q ss_pred             CCCcEEeeccCCCccccccc----cccc-----CCCCccccccCCcccccccccccc
Q psy10878          5 AKKPILLPSASEDPSIDNWD----KASW-----ENVTPIVSEQGDGEIIEIIDPSLK   52 (131)
Q Consensus         5 ~~kp~vlv~NK~Dl~~~~~~----~~~~-----~~~~~is~~~~~~~~~~~~~~~~~   52 (131)
                      .+.|+++|.||+|+.+....    ...+     -..+.+|++++.| +.++++.+.+
T Consensus       104 ~~~~iivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~-i~~~~~~~~~  159 (161)
T cd04113         104 PNIVVILVGNKSDLADQREVTFLEASRFAQENGLLFLETSALTGEN-VEEAFLKCAR  159 (161)
T ss_pred             CCCeEEEEEEchhcchhccCCHHHHHHHHHHcCCEEEEEECCCCCC-HHHHHHHHHH
Confidence            47899999999999653211    1111     4678999999999 9998877654

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

>cd04153 Arl5_Arl8 Arl5/Arl8 subfamily

Probab=96.33  E-value=0.0011  Score=44.51  Aligned_cols=45  Identities=18%  Similarity=0.085  Sum_probs=31.6

Q ss_pred             CCcEEeeccCCCcccc---ccccccc---------CCCCccccccCCccccccccccc
Q psy10878          6 KKPILLPSASEDPSID---NWDKASW---------ENVTPIVSEQGDGEIIEIIDPSL   51 (131)
Q Consensus         6 ~kp~vlv~NK~Dl~~~---~~~~~~~---------~~~~~is~~~~~~~~~~~~~~~~   51 (131)
                      ++|+++++||+|+...   +.....+         -.++++||.++.| +.++++.+.
T Consensus       116 ~~p~viv~NK~Dl~~~~~~~~i~~~l~~~~~~~~~~~~~~~SA~~g~g-i~e~~~~l~  172 (174)
T cd04153         116 KAVLLVLANKQDLKGAMTPAEISESLGLTSIRDHTWHIQGCCALTGEG-LPEGLDWIA  172 (174)
T ss_pred             CCCEEEEEECCCCCCCCCHHHHHHHhCcccccCCceEEEecccCCCCC-HHHHHHHHh
Confidence            5899999999998542   1111111         1368999999999 988876553

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.

>KOG0410|consensus

Probab=96.33  E-value=0.0036  Score=46.67  Aligned_cols=21  Identities=19%  Similarity=0.507  Sum_probs=19.3

Q ss_pred             EEEEEcCCCCCchhhhhhhhh
Q psy10878         72 KVIVIGDPTVGKTSFVQRYVQ   92 (131)
Q Consensus        72 ki~vvG~~~vGKSsli~~~~~   92 (131)
                      -|.+||..|+|||||++.+..
T Consensus       180 viavVGYTNaGKsTLikaLT~  200 (410)
T KOG0410|consen  180 VIAVVGYTNAGKSTLIKALTK  200 (410)
T ss_pred             eEEEEeecCccHHHHHHHHHh
Confidence            589999999999999999874

>cd01870 RhoA_like RhoA-like subfamily

Probab=96.32  E-value=0.0011  Score=44.30  Aligned_cols=47  Identities=15%  Similarity=0.244  Sum_probs=33.6

Q ss_pred             CCCcEEeeccCCCcccccccc----------------c----c--cCCCCccccccCCcccccccccccc
Q psy10878          5 AKKPILLPSASEDPSIDNWDK----------------A----S--WENVTPIVSEQGDGEIIEIIDPSLK   52 (131)
Q Consensus         5 ~~kp~vlv~NK~Dl~~~~~~~----------------~----~--~~~~~~is~~~~~~~~~~~~~~~~~   52 (131)
                      .++|+++|.||+|+.+.....                .    .  +..++++||+.+.| +.++++.+.+
T Consensus       104 ~~~piilv~nK~Dl~~~~~~~~~i~~~~~~~v~~~~~~~~~~~~~~~~~~~~Sa~~~~~-v~~lf~~l~~  172 (175)
T cd01870         104 PNVPIILVGNKKDLRNDEHTRRELAKMKQEPVKPEEGRDMANKIGAFGYMECSAKTKEG-VREVFEMATR  172 (175)
T ss_pred             CCCCEEEEeeChhcccChhhhhhhhhccCCCccHHHHHHHHHHcCCcEEEEeccccCcC-HHHHHHHHHH
Confidence            478999999999986432110                0    0  12568899999999 9998877654

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

>COG1936 Predicted nucleotide kinase (related to CMP and AMP kinases) [Nucleotide transport and metabolism]

Probab=96.31  E-value=0.0028  Score=43.03  Aligned_cols=21  Identities=29%  Similarity=0.509  Sum_probs=19.1

Q ss_pred             eEEEEEcCCCCCchhhhhhhh
Q psy10878         71 FKVIVIGDPTVGKTSFVQRYV   91 (131)
Q Consensus        71 ~ki~vvG~~~vGKSsli~~~~   91 (131)
                      ++|++.|.|||||||+..++.
T Consensus         1 m~I~ITGTPGvGKTT~~~~L~   21 (180)
T COG1936           1 MLIAITGTPGVGKTTVCKLLR   21 (180)
T ss_pred             CeEEEeCCCCCchHHHHHHHH
Confidence            379999999999999999877

>cd00157 Rho Rho (Ras homology) family

Probab=96.31  E-value=0.00094  Score=44.24  Aligned_cols=47  Identities=15%  Similarity=0.212  Sum_probs=34.4

Q ss_pred             CCCcEEeeccCCCcccccccc---------------ccc------CCCCccccccCCcccccccccccc
Q psy10878          5 AKKPILLPSASEDPSIDNWDK---------------ASW------ENVTPIVSEQGDGEIIEIIDPSLK   52 (131)
Q Consensus         5 ~~kp~vlv~NK~Dl~~~~~~~---------------~~~------~~~~~is~~~~~~~~~~~~~~~~~   52 (131)
                      .++|+++|+||+|+.+.....               ..+      ...+.+|++++.| +.++++.+.+
T Consensus       103 ~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~~~Sa~~~~g-i~~l~~~i~~  170 (171)
T cd00157         103 PNVPIILVGTKIDLRDDENTLKKLEKGKEPITPEEGEKLAKEIGAIGYMECSALTQEG-VKEVFEEAIR  170 (171)
T ss_pred             CCCCEEEEEccHHhhhchhhhhhcccCCCccCHHHHHHHHHHhCCeEEEEeecCCCCC-HHHHHHHHhh
Confidence            369999999999986544211               011      3678999999999 9998876543

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

>cd01860 Rab5_related Rab5-related subfamily

Probab=96.31  E-value=0.0012  Score=43.41  Aligned_cols=49  Identities=12%  Similarity=0.102  Sum_probs=35.7

Q ss_pred             CCCcEEeeccCCCccccc-cccc---cc-----CCCCccccccCCcccccccccccccc
Q psy10878          5 AKKPILLPSASEDPSIDN-WDKA---SW-----ENVTPIVSEQGDGEIIEIIDPSLKLV   54 (131)
Q Consensus         5 ~~kp~vlv~NK~Dl~~~~-~~~~---~~-----~~~~~is~~~~~~~~~~~~~~~~~~~   54 (131)
                      .+.|+++++||+|+.... ....   .+     ..++++|+.++.| +.++++.+.+.+
T Consensus       105 ~~~~iivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~-v~~l~~~l~~~l  162 (163)
T cd01860         105 PNIIIALVGNKADLESKRQVSTEEAQEYADENGLLFFETSAKTGEN-VNELFTEIAKKL  162 (163)
T ss_pred             CCCeEEEEEECccccccCcCCHHHHHHHHHHcCCEEEEEECCCCCC-HHHHHHHHHHHh
Confidence            457899999999986322 1111   11     4578999999999 999998877653

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

>cd04122 Rab14 Rab14 subfamily

Probab=96.31  E-value=0.0011  Score=44.06  Aligned_cols=47  Identities=11%  Similarity=0.074  Sum_probs=33.4

Q ss_pred             CCCcEEeeccCCCcccccccc----ccc-----CCCCccccccCCcccccccccccc
Q psy10878          5 AKKPILLPSASEDPSIDNWDK----ASW-----ENVTPIVSEQGDGEIIEIIDPSLK   52 (131)
Q Consensus         5 ~~kp~vlv~NK~Dl~~~~~~~----~~~-----~~~~~is~~~~~~~~~~~~~~~~~   52 (131)
                      .+.|+++|.||+|+.......    .++     ...+.+||+.+.| +.+++..+..
T Consensus       106 ~~~~iiiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~-i~e~f~~l~~  161 (166)
T cd04122         106 PNTVIFLIGNKADLEAQRDVTYEEAKQFADENGLLFLECSAKTGEN-VEDAFLETAK  161 (166)
T ss_pred             CCCeEEEEEECcccccccCcCHHHHHHHHHHcCCEEEEEECCCCCC-HHHHHHHHHH
Confidence            357899999999996543211    112     3467899999999 9888766543

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

>PF13555 AAA_29: P-loop containing region of AAA domain

Probab=96.31  E-value=0.0033  Score=35.52  Aligned_cols=21  Identities=14%  Similarity=0.338  Sum_probs=18.1

Q ss_pred             EEEEEcCCCCCchhhhhhhhh
Q psy10878         72 KVIVIGDPTVGKTSFVQRYVQ   92 (131)
Q Consensus        72 ki~vvG~~~vGKSsli~~~~~   92 (131)
                      -.++.|+.|+|||||+..+..
T Consensus        25 ~tli~G~nGsGKSTllDAi~~   45 (62)
T PF13555_consen   25 VTLITGPNGSGKSTLLDAIQT   45 (62)
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            389999999999999987653

>cd04118 Rab24 Rab24 subfamily

Probab=96.30  E-value=0.0015  Score=44.49  Aligned_cols=48  Identities=13%  Similarity=0.097  Sum_probs=35.3

Q ss_pred             CCcEEeeccCCCcccccc---c-----cccc-----CCCCccccccCCcccccccccccccc
Q psy10878          6 KKPILLPSASEDPSIDNW---D-----KASW-----ENVTPIVSEQGDGEIIEIIDPSLKLV   54 (131)
Q Consensus         6 ~kp~vlv~NK~Dl~~~~~---~-----~~~~-----~~~~~is~~~~~~~~~~~~~~~~~~~   54 (131)
                      +.|+++|.||+|+.+...   .     ...+     ...+++|++++.| +.++++.+.+.+
T Consensus       105 ~~piilv~nK~Dl~~~~~~~~~v~~~~~~~~~~~~~~~~~~~Sa~~~~g-v~~l~~~i~~~~  165 (193)
T cd04118         105 HCKIYLCGTKSDLIEQDRSLRQVDFHDVQDFADEIKAQHFETSSKTGQN-VDELFQKVAEDF  165 (193)
T ss_pred             CCCEEEEEEcccccccccccCccCHHHHHHHHHHcCCeEEEEeCCCCCC-HHHHHHHHHHHH
Confidence            689999999999854321   0     1112     3468999999999 999998887655

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

>TIGR00235 udk uridine kinase

Probab=96.30  E-value=0.0041  Score=43.18  Aligned_cols=24  Identities=21%  Similarity=0.252  Sum_probs=20.5

Q ss_pred             eeeEEEEEcCCCCCchhhhhhhhh
Q psy10878         69 KLFKVIVIGDPTVGKTSFVQRYVQ   92 (131)
Q Consensus        69 ~~~ki~vvG~~~vGKSsli~~~~~   92 (131)
                      ...-+.++|.+|+|||||++.+.+
T Consensus         5 ~g~vi~I~G~sGsGKSTl~~~l~~   28 (207)
T TIGR00235         5 KGIIIGIGGGSGSGKTTVARKIYE   28 (207)
T ss_pred             CeEEEEEECCCCCCHHHHHHHHHH
Confidence            345699999999999999998874

Model contains a number of longer eukaryotic proteins and starts bringing in phosphoribulokinase hits at scores of 160 and below

>cd01895 EngA2 EngA2 subfamily

Probab=96.29  E-value=0.0014  Score=43.21  Aligned_cols=46  Identities=13%  Similarity=0.112  Sum_probs=32.7

Q ss_pred             CCCcEEeeccCCCccccc-ccc--------ccc-----CCCCccccccCCccccccccccc
Q psy10878          5 AKKPILLPSASEDPSIDN-WDK--------ASW-----ENVTPIVSEQGDGEIIEIIDPSL   51 (131)
Q Consensus         5 ~~kp~vlv~NK~Dl~~~~-~~~--------~~~-----~~~~~is~~~~~~~~~~~~~~~~   51 (131)
                      .++|+++++||+|+.... ...        ..+     ...+++|++++.| +.++++.+.
T Consensus       112 ~~~~~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~-i~~~~~~l~  171 (174)
T cd01895         112 EGKALVIVVNKWDLVEKDSKTMKEFKKEIRRKLPFLDYAPIVFISALTGQG-VDKLFDAID  171 (174)
T ss_pred             cCCCEEEEEeccccCCccHHHHHHHHHHHHhhcccccCCceEEEeccCCCC-HHHHHHHHH
Confidence            579999999999986541 111        111     4578899999999 888766543

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.

>cd04120 Rab12 Rab12 subfamily

Probab=96.29  E-value=0.0013  Score=45.75  Aligned_cols=49  Identities=12%  Similarity=0.041  Sum_probs=34.9

Q ss_pred             CCCcEEeeccCCCcccccccc----ccc------CCCCccccccCCcccccccccccccc
Q psy10878          5 AKKPILLPSASEDPSIDNWDK----ASW------ENVTPIVSEQGDGEIIEIIDPSLKLV   54 (131)
Q Consensus         5 ~~kp~vlv~NK~Dl~~~~~~~----~~~------~~~~~is~~~~~~~~~~~~~~~~~~~   54 (131)
                      .+.|+++|.||+|+.+.....    .++      ...+.+||+.+.| +.+++..+.+.+
T Consensus       104 ~~~piilVgNK~DL~~~~~v~~~~~~~~a~~~~~~~~~etSAktg~g-V~e~F~~l~~~~  162 (202)
T cd04120         104 EDAELLLVGNKLDCETDREISRQQGEKFAQQITGMRFCEASAKDNFN-VDEIFLKLVDDI  162 (202)
T ss_pred             CCCcEEEEEECcccccccccCHHHHHHHHHhcCCCEEEEecCCCCCC-HHHHHHHHHHHH
Confidence            468999999999996432111    112      2357899999999 999988776544

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

>cd00876 Ras Ras family

Probab=96.29  E-value=0.0017  Score=42.29  Aligned_cols=47  Identities=13%  Similarity=0.070  Sum_probs=34.3

Q ss_pred             CCCcEEeeccCCCccccccc----cccc-----CCCCccccccCCcccccccccccc
Q psy10878          5 AKKPILLPSASEDPSIDNWD----KASW-----ENVTPIVSEQGDGEIIEIIDPSLK   52 (131)
Q Consensus         5 ~~kp~vlv~NK~Dl~~~~~~----~~~~-----~~~~~is~~~~~~~~~~~~~~~~~   52 (131)
                      .++|+++|+||+|+......    ...+     ...+++|+..+.| +.++++.+.+
T Consensus       103 ~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~S~~~~~~-i~~l~~~l~~  158 (160)
T cd00876         103 EDIPIVLVGNKCDLENERQVSKEEGKALAKEWGCPFIETSAKDNIN-IDEVFKLLVR  158 (160)
T ss_pred             CCCcEEEEEECCcccccceecHHHHHHHHHHcCCcEEEeccCCCCC-HHHHHHHHHh
Confidence            47999999999998753211    1111     3678999999999 9988876654

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

>TIGR01360 aden_kin_iso1 adenylate kinase, isozyme 1 subfamily

Probab=96.29  E-value=0.0029  Score=42.85  Aligned_cols=20  Identities=25%  Similarity=0.586  Sum_probs=18.3

Q ss_pred             EEEEEcCCCCCchhhhhhhh
Q psy10878         72 KVIVIGDPTVGKTSFVQRYV   91 (131)
Q Consensus        72 ki~vvG~~~vGKSsli~~~~   91 (131)
                      .++++|.+|+||||++.++.
T Consensus         5 ii~i~G~~GsGKsTl~~~l~   24 (188)
T TIGR01360         5 IIFIVGGPGSGKGTQCEKIV   24 (188)
T ss_pred             EEEEECCCCCCHHHHHHHHH
Confidence            58899999999999998887

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.

>PHA00729 NTP-binding motif containing protein

Probab=96.28  E-value=0.0036  Score=44.39  Aligned_cols=22  Identities=18%  Similarity=0.499  Sum_probs=19.9

Q ss_pred             eEEEEEcCCCCCchhhhhhhhh
Q psy10878         71 FKVIVIGDPTVGKTSFVQRYVQ   92 (131)
Q Consensus        71 ~ki~vvG~~~vGKSsli~~~~~   92 (131)
                      .++++.|.||+|||+|+.+++.
T Consensus        18 ~nIlItG~pGvGKT~LA~aLa~   39 (226)
T PHA00729         18 VSAVIFGKQGSGKTTYALKVAR   39 (226)
T ss_pred             EEEEEECCCCCCHHHHHHHHHH
Confidence            4799999999999999998774

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

Probab=96.27  E-value=0.00064  Score=44.90  Aligned_cols=51  Identities=22%  Similarity=0.430  Sum_probs=36.2

Q ss_pred             ccCCCcEEeeccCCCcccccc-----ccc--------cc---CCCCccccccCCcccccccccccccc
Q psy10878          3 YKAKKPILLPSASEDPSIDNW-----DKA--------SW---ENVTPIVSEQGDGEIIEIIDPSLKLV   54 (131)
Q Consensus         3 ~~~~kp~vlv~NK~Dl~~~~~-----~~~--------~~---~~~~~is~~~~~~~~~~~~~~~~~~~   54 (131)
                      +..++|+++|+||+|+.....     ...        .+   ..++++|+..+.| +.++++.+.++.
T Consensus        99 ~~~~~p~ivv~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~g-i~~l~~~l~~~~  165 (168)
T cd01887          99 KAANVPFIVALNKIDKPNANPERVKNELSELGLQGEDEWGGDVQIVPTSAKTGEG-IDDLLEAILLLA  165 (168)
T ss_pred             HHcCCCEEEEEEceecccccHHHHHHHHHHhhccccccccCcCcEEEeecccCCC-HHHHHHHHHHhh
Confidence            346899999999999864311     000        11   3568999999999 999988776553

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.

>cd04177 RSR1 RSR1 subgroup

Probab=96.27  E-value=0.0014  Score=43.63  Aligned_cols=49  Identities=12%  Similarity=0.190  Sum_probs=35.8

Q ss_pred             CCCcEEeeccCCCcccccccc--------ccc--CCCCccccccCCcccccccccccccc
Q psy10878          5 AKKPILLPSASEDPSIDNWDK--------ASW--ENVTPIVSEQGDGEIIEIIDPSLKLV   54 (131)
Q Consensus         5 ~~kp~vlv~NK~Dl~~~~~~~--------~~~--~~~~~is~~~~~~~~~~~~~~~~~~~   54 (131)
                      .+.|++++.||.|+.......        ..+  ...+++||+.+.| +.++++.+.+.+
T Consensus       105 ~~~piiiv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~SA~~~~~-i~~~f~~i~~~~  163 (168)
T cd04177         105 DNVPMVLVGNKADLEDDRQVSREDGVSLSQQWGNVPFYETSARKRTN-VDEVFIDLVRQI  163 (168)
T ss_pred             CCCCEEEEEEChhccccCccCHHHHHHHHHHcCCceEEEeeCCCCCC-HHHHHHHHHHHH
Confidence            478999999999986533111        112  3478999999999 999988877654

RSR1/Bud1p is a member of the Rap subfamily of the Ras family that is found in fungi. In budding yeasts, RSR1 is involved in selecting a site for bud growth on the cell cortex, which directs the establishment of cell polarization. The Rho family GTPase cdc42 and its GEF, cdc24, then establish an axis of polarized growth by organizing the actin cytoskeleton and secretory apparatus at the bud site. It is believed that cdc42 interacts directly with RSR1 in vivo. In filamentous fungi, polar growth occurs at the tips of hypha and at novel growth sites along the extending hypha. In Ashbya gossypii, RSR1 is a key regulator of hyphal growth, localizing at the tip region and regulating in apical polarization of the actin cytoskeleton. Most Ras proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an aliphatic amino acid and X = any amino acid. Lipid binding is essential for membrane attachment, a key featu

>cd01867 Rab8_Rab10_Rab13_like Rab8/Sec4/Ypt2

Probab=96.27  E-value=0.0013  Score=43.82  Aligned_cols=49  Identities=8%  Similarity=-0.090  Sum_probs=35.7

Q ss_pred             CCCcEEeeccCCCcccccccc----ccc-----CCCCccccccCCcccccccccccccc
Q psy10878          5 AKKPILLPSASEDPSIDNWDK----ASW-----ENVTPIVSEQGDGEIIEIIDPSLKLV   54 (131)
Q Consensus         5 ~~kp~vlv~NK~Dl~~~~~~~----~~~-----~~~~~is~~~~~~~~~~~~~~~~~~~   54 (131)
                      .+.|+++|.||+|+.+.....    ..+     ...+++|+..+.| +.+++..+.+.+
T Consensus       107 ~~~p~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~-v~~~~~~i~~~~  164 (167)
T cd01867         107 EDVERMLVGNKCDMEEKRVVSKEEGEALADEYGIKFLETSAKANIN-VEEAFFTLAKDI  164 (167)
T ss_pred             CCCcEEEEEECcccccccCCCHHHHHHHHHHcCCEEEEEeCCCCCC-HHHHHHHHHHHH
Confidence            467999999999997532111    111     4468999999999 999988776654

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

>cd00880 Era_like Era (E

Probab=96.26  E-value=0.001  Score=42.73  Aligned_cols=48  Identities=21%  Similarity=0.264  Sum_probs=35.0

Q ss_pred             cCCCcEEeeccCCCccccccccc-------cc-----CCCCccccccCCcccccccccccc
Q psy10878          4 KAKKPILLPSASEDPSIDNWDKA-------SW-----ENVTPIVSEQGDGEIIEIIDPSLK   52 (131)
Q Consensus         4 ~~~kp~vlv~NK~Dl~~~~~~~~-------~~-----~~~~~is~~~~~~~~~~~~~~~~~   52 (131)
                      ..++|+++|+||+|+........       ..     ..++++|+.++.| +.++++.+..
T Consensus       102 ~~~~~~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~-v~~l~~~l~~  161 (163)
T cd00880         102 ERGKPVLLVLNKIDLLPEEEEEELLELRLLILLLLLGLPVIAVSALTGEG-IDELREALIE  161 (163)
T ss_pred             hcCCeEEEEEEccccCChhhHHHHHHHHHhhcccccCCceEEEeeeccCC-HHHHHHHHHh
Confidence            45899999999999865432211       11     6678899999999 8888776654

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

>PTZ00369 Ras-like protein; Provisional

Probab=96.26  E-value=0.0012  Score=45.07  Aligned_cols=49  Identities=10%  Similarity=0.072  Sum_probs=35.4

Q ss_pred             CCCcEEeeccCCCcccccc-c---cccc-----CCCCccccccCCcccccccccccccc
Q psy10878          5 AKKPILLPSASEDPSIDNW-D---KASW-----ENVTPIVSEQGDGEIIEIIDPSLKLV   54 (131)
Q Consensus         5 ~~kp~vlv~NK~Dl~~~~~-~---~~~~-----~~~~~is~~~~~~~~~~~~~~~~~~~   54 (131)
                      .+.|+++|.||+|+..... .   ...+     ...+.+||.++.| +.++++.+.+.+
T Consensus       109 ~~~piiiv~nK~Dl~~~~~i~~~~~~~~~~~~~~~~~e~Sak~~~g-i~~~~~~l~~~l  166 (189)
T PTZ00369        109 DRVPMILVGNKCDLDSERQVSTGEGQELAKSFGIPFLETSAKQRVN-VDEAFYELVREI  166 (189)
T ss_pred             CCCCEEEEEECcccccccccCHHHHHHHHHHhCCEEEEeeCCCCCC-HHHHHHHHHHHH
Confidence            3679999999999854321 1   1112     3468999999999 999888776554

>COG2262 HflX GTPases [General function prediction only]

Probab=96.26  E-value=0.0018  Score=49.32  Aligned_cols=49  Identities=22%  Similarity=0.210  Sum_probs=37.8

Q ss_pred             CCCcEEeeccCCCccccccccccc----CCCCccccccCCcccccccccccccc
Q psy10878          5 AKKPILLPSASEDPSIDNWDKASW----ENVTPIVSEQGDGEIIEIIDPSLKLV   54 (131)
Q Consensus         5 ~~kp~vlv~NK~Dl~~~~~~~~~~----~~~~~is~~~~~~~~~~~~~~~~~~~   54 (131)
                      ..+|+++|+||+|+..+.......    ..++++||.++.| +..+.+.+...+
T Consensus       303 ~~~p~i~v~NKiD~~~~~~~~~~~~~~~~~~v~iSA~~~~g-l~~L~~~i~~~l  355 (411)
T COG2262         303 DEIPIILVLNKIDLLEDEEILAELERGSPNPVFISAKTGEG-LDLLRERIIELL  355 (411)
T ss_pred             CCCCEEEEEecccccCchhhhhhhhhcCCCeEEEEeccCcC-HHHHHHHHHHHh
Confidence            468999999999986655422222    3589999999999 988888877766

>cd04158 ARD1 ARD1 subfamily

Probab=96.25  E-value=0.0015  Score=43.73  Aligned_cols=48  Identities=13%  Similarity=0.066  Sum_probs=33.7

Q ss_pred             CCcEEeeccCCCccccc--cccccc--------C---CCCccccccCCcccccccccccccc
Q psy10878          6 KKPILLPSASEDPSIDN--WDKASW--------E---NVTPIVSEQGDGEIIEIIDPSLKLV   54 (131)
Q Consensus         6 ~kp~vlv~NK~Dl~~~~--~~~~~~--------~---~~~~is~~~~~~~~~~~~~~~~~~~   54 (131)
                      ++|+++|.||+|+.+..  ....++        .   ..+++||+++.| +.++++.+.+.+
T Consensus       100 ~~piilv~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~g~g-v~~~f~~l~~~~  160 (169)
T cd04158         100 DALLLIFANKQDVAGALSVEEMTELLSLHKLCCGRSWYIQGCDARSGMG-LYEGLDWLSRQL  160 (169)
T ss_pred             CCCEEEEEeCcCcccCCCHHHHHHHhCCccccCCCcEEEEeCcCCCCCC-HHHHHHHHHHHH
Confidence            58999999999996431  111111        1   245679999999 999998887654

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

>cd04117 Rab15 Rab15 subfamily

Probab=96.23  E-value=0.0016  Score=43.16  Aligned_cols=47  Identities=9%  Similarity=-0.020  Sum_probs=33.6

Q ss_pred             CCCcEEeeccCCCccccccc----ccc----c-CCCCccccccCCcccccccccccc
Q psy10878          5 AKKPILLPSASEDPSIDNWD----KAS----W-ENVTPIVSEQGDGEIIEIIDPSLK   52 (131)
Q Consensus         5 ~~kp~vlv~NK~Dl~~~~~~----~~~----~-~~~~~is~~~~~~~~~~~~~~~~~   52 (131)
                      .+.|+++|.||.|+.+....    ...    + ...+++||+++.| +.+++..+.+
T Consensus       104 ~~~~iilvgnK~Dl~~~~~v~~~~~~~~~~~~~~~~~e~Sa~~~~~-v~~~f~~l~~  159 (161)
T cd04117         104 EGVQKILIGNKADEEQKRQVGDEQGNKLAKEYGMDFFETSACTNSN-IKESFTRLTE  159 (161)
T ss_pred             CCCeEEEEEECcccccccCCCHHHHHHHHHHcCCEEEEEeCCCCCC-HHHHHHHHHh
Confidence            36799999999998543211    111    1 4568999999999 9988876654

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

>PRK00625 shikimate kinase; Provisional

Probab=96.23  E-value=0.0035  Score=42.63  Aligned_cols=21  Identities=43%  Similarity=0.684  Sum_probs=18.8

Q ss_pred             EEEEEcCCCCCchhhhhhhhh
Q psy10878         72 KVIVIGDPTVGKTSFVQRYVQ   92 (131)
Q Consensus        72 ki~vvG~~~vGKSsli~~~~~   92 (131)
                      +|+++|.+|+||||+...+..
T Consensus         2 ~I~LiG~pGsGKTT~~k~La~   22 (173)
T PRK00625          2 QIFLCGLPTVGKTSFGKALAK   22 (173)
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            699999999999999987764

>PRK05433 GTP-binding protein LepA; Provisional

Probab=96.23  E-value=0.0027  Score=51.08  Aligned_cols=82  Identities=15%  Similarity=0.131  Sum_probs=50.5

Q ss_pred             CCCcEEeeccCCCcccccc--ccccc--------CCCCccccccCCcccccccccccccccCCCcccCCCCCCceeeEEE
Q psy10878          5 AKKPILLPSASEDPSIDNW--DKASW--------ENVTPIVSEQGDGEIIEIIDPSLKLVRVPSIRKSFNAPPEKLFKVI   74 (131)
Q Consensus         5 ~~kp~vlv~NK~Dl~~~~~--~~~~~--------~~~~~is~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ki~   74 (131)
                      .+.|+++|+||+|+.....  ...++        .+++++||.++.| +.++++.+...+..|..... .......+++.
T Consensus       125 ~~lpiIvViNKiDl~~a~~~~v~~ei~~~lg~~~~~vi~iSAktG~G-I~~Ll~~I~~~lp~P~~~~~-~pl~~~Vfd~~  202 (600)
T PRK05433        125 NDLEIIPVLNKIDLPAADPERVKQEIEDVIGIDASDAVLVSAKTGIG-IEEVLEAIVERIPPPKGDPD-APLKALIFDSW  202 (600)
T ss_pred             CCCCEEEEEECCCCCcccHHHHHHHHHHHhCCCcceEEEEecCCCCC-HHHHHHHHHHhCccccCCCC-CCceEEEEEEE
Confidence            5789999999999854321  11111        2478999999999 99999999887733321110 01112233443


Q ss_pred             EEcCCCCCchhhhhhh
Q psy10878         75 VIGDPTVGKTSFVQRY   90 (131)
Q Consensus        75 vvG~~~vGKSsli~~~   90 (131)
                      .  +++.|+-++..-+
T Consensus       203 ~--d~~~G~v~~~rV~  216 (600)
T PRK05433        203 Y--DNYRGVVVLVRVV  216 (600)
T ss_pred             e--cCCCceEEEEEEE
Confidence            3  4677877655433

>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=96.21  E-value=0.0012  Score=46.97  Aligned_cols=48  Identities=17%  Similarity=0.007  Sum_probs=36.8

Q ss_pred             CCCcEEeeccCCCccccccccccc---CCCCccccccCCcccccccccccccc
Q psy10878          5 AKKPILLPSASEDPSIDNWDKASW---ENVTPIVSEQGDGEIIEIIDPSLKLV   54 (131)
Q Consensus         5 ~~kp~vlv~NK~Dl~~~~~~~~~~---~~~~~is~~~~~~~~~~~~~~~~~~~   54 (131)
                      .-+|+++|+||+|+...++.. .+   ...+++|+..+.| +.++++.+.+.+
T Consensus       175 ~y~p~iiV~NK~Dl~~~~~~~-~~~~~~~~~~~SA~~g~g-i~~l~~~i~~~L  225 (233)
T cd01896         175 VYIPCLYVYNKIDLISIEELD-LLARQPNSVVISAEKGLN-LDELKERIWDKL  225 (233)
T ss_pred             eEeeEEEEEECccCCCHHHHH-HHhcCCCEEEEcCCCCCC-HHHHHHHHHHHh
Confidence            347999999999996544221 22   4568899999999 999998887766

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.

>cd00820 PEPCK_HprK Phosphoenolpyruvate carboxykinase (PEPCK), a critical gluconeogenic enzyme, catalyzes the first committed step in the diversion of tricarboxylic acid cycle intermediates toward gluconeogenesis

Probab=96.21  E-value=0.0035  Score=39.35  Aligned_cols=20  Identities=30%  Similarity=0.630  Sum_probs=18.2

Q ss_pred             EEEEEcCCCCCchhhhhhhh
Q psy10878         72 KVIVIGDPTVGKTSFVQRYV   91 (131)
Q Consensus        72 ki~vvG~~~vGKSsli~~~~   91 (131)
                      .++++|++|+|||||+..+.
T Consensus        17 ~v~I~GpSGsGKSTLl~~l~   36 (107)
T cd00820          17 GVLITGDSGIGKTELALELI   36 (107)
T ss_pred             EEEEEcCCCCCHHHHHHHhh
Confidence            48999999999999999866

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

>smart00175 RAB Rab subfamily of small GTPases

Probab=96.19  E-value=0.0013  Score=43.20  Aligned_cols=49  Identities=8%  Similarity=0.073  Sum_probs=36.2

Q ss_pred             CCCcEEeeccCCCcccccc-c---cccc-----CCCCccccccCCcccccccccccccc
Q psy10878          5 AKKPILLPSASEDPSIDNW-D---KASW-----ENVTPIVSEQGDGEIIEIIDPSLKLV   54 (131)
Q Consensus         5 ~~kp~vlv~NK~Dl~~~~~-~---~~~~-----~~~~~is~~~~~~~~~~~~~~~~~~~   54 (131)
                      .+.|+++|+||+|+..... .   ...+     -+.+++|+.++.| +.++++.+.+.+
T Consensus       104 ~~~pivvv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~-i~~l~~~i~~~~  161 (164)
T smart00175      104 PNVVIMLVGNKSDLEDQRQVSREEAEAFAEEHGLPFFETSAKTNTN-VEEAFEELAREI  161 (164)
T ss_pred             CCCeEEEEEEchhcccccCCCHHHHHHHHHHcCCeEEEEeCCCCCC-HHHHHHHHHHHH
Confidence            4689999999999865321 1   1122     4578999999999 999988776654

Rab GTPases are implicated in vesicle trafficking.

>PRK02496 adk adenylate kinase; Provisional

Probab=96.18  E-value=0.0043  Score=42.16  Aligned_cols=22  Identities=23%  Similarity=0.421  Sum_probs=19.4

Q ss_pred             eEEEEEcCCCCCchhhhhhhhh
Q psy10878         71 FKVIVIGDPTVGKTSFVQRYVQ   92 (131)
Q Consensus        71 ~ki~vvG~~~vGKSsli~~~~~   92 (131)
                      ++++++|.+|+||||+...+..
T Consensus         2 ~~i~i~G~pGsGKst~a~~la~   23 (184)
T PRK02496          2 TRLIFLGPPGAGKGTQAVVLAE   23 (184)
T ss_pred             eEEEEECCCCCCHHHHHHHHHH
Confidence            5799999999999999987763

>TIGR00231 small_GTP small GTP-binding protein domain

Probab=96.18  E-value=0.0016  Score=41.88  Aligned_cols=44  Identities=20%  Similarity=0.241  Sum_probs=32.1

Q ss_pred             CCcEEeeccCCCcccccc---ccccc-----CCCCccccccCCcccccccccc
Q psy10878          6 KKPILLPSASEDPSIDNW---DKASW-----ENVTPIVSEQGDGEIIEIIDPS   50 (131)
Q Consensus         6 ~kp~vlv~NK~Dl~~~~~---~~~~~-----~~~~~is~~~~~~~~~~~~~~~   50 (131)
                      +.|+++++||+|+.....   ....+     ...+++|+.++.| +.++++.+
T Consensus       108 ~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~g-v~~~~~~l  159 (161)
T TIGR00231       108 NVPIILVGNKIDLRDAKLKTHVAFLFAKLNGEPIIPLSAETGKN-IDSAFKIV  159 (161)
T ss_pred             CCcEEEEEEcccCCcchhhHHHHHHHhhccCCceEEeecCCCCC-HHHHHHHh
Confidence            789999999999966321   11111     5689999999999 88876643

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.

>PF03205 MobB: Molybdopterin guanine dinucleotide synthesis protein B; PDB: 2F1R_B 1P9N_A 1NP6_B 2NPI_A 1XJC_A

Probab=96.18  E-value=0.0034  Score=41.18  Aligned_cols=21  Identities=29%  Similarity=0.604  Sum_probs=18.5

Q ss_pred             EEEEEcCCCCCchhhhhhhhh
Q psy10878         72 KVIVIGDPTVGKTSFVQRYVQ   92 (131)
Q Consensus        72 ki~vvG~~~vGKSsli~~~~~   92 (131)
                      -++|+|..|+|||||+..+++
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            378999999999999988764

>PRK05480 uridine/cytidine kinase; Provisional

Probab=96.18  E-value=0.0049  Score=42.77  Aligned_cols=24  Identities=21%  Similarity=0.274  Sum_probs=20.9

Q ss_pred             eeeEEEEEcCCCCCchhhhhhhhh
Q psy10878         69 KLFKVIVIGDPTVGKTSFVQRYVQ   92 (131)
Q Consensus        69 ~~~ki~vvG~~~vGKSsli~~~~~   92 (131)
                      ....|.+.|.+|+|||||++.+..
T Consensus         5 ~~~iI~I~G~sGsGKTTl~~~l~~   28 (209)
T PRK05480          5 KPIIIGIAGGSGSGKTTVASTIYE   28 (209)
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHH
Confidence            456799999999999999998774

>cd01869 Rab1_Ypt1 Rab1/Ypt1 subfamily

Probab=96.17  E-value=0.0014  Score=43.46  Aligned_cols=49  Identities=6%  Similarity=-0.032  Sum_probs=35.2

Q ss_pred             CCCcEEeeccCCCccccccc----cccc-----CCCCccccccCCcccccccccccccc
Q psy10878          5 AKKPILLPSASEDPSIDNWD----KASW-----ENVTPIVSEQGDGEIIEIIDPSLKLV   54 (131)
Q Consensus         5 ~~kp~vlv~NK~Dl~~~~~~----~~~~-----~~~~~is~~~~~~~~~~~~~~~~~~~   54 (131)
                      .+.|+++|.||+|+......    ...+     ...+++|++++.| +.+++..+.+.+
T Consensus       106 ~~~~~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~-v~~~~~~i~~~~  163 (166)
T cd01869         106 ENVNKLLVGNKCDLTDKRVVDYSEAQEFADELGIPFLETSAKNATN-VEQAFMTMAREI  163 (166)
T ss_pred             CCCcEEEEEEChhcccccCCCHHHHHHHHHHcCCeEEEEECCCCcC-HHHHHHHHHHHH
Confidence            36899999999998543211    1112     4568899999999 999887766543

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

>PRK09602 translation-associated GTPase; Reviewed

Probab=96.17  E-value=0.0016  Score=49.90  Aligned_cols=51  Identities=14%  Similarity=0.165  Sum_probs=37.0

Q ss_pred             ccCCCcEEeeccCCCccccccccc-----ccCCCCccccccCCccccc-ccccccccc
Q psy10878          3 YKAKKPILLPSASEDPSIDNWDKA-----SWENVTPIVSEQGDGEIIE-IIDPSLKLV   54 (131)
Q Consensus         3 ~~~~kp~vlv~NK~Dl~~~~~~~~-----~~~~~~~is~~~~~~~~~~-~~~~~~~~~   54 (131)
                      +...||+++|+||+|+...+....     .+.+++++||.++.+ +.+ +++.+.+++
T Consensus       214 l~t~KPvI~VlNK~D~~~~~~~l~~i~~~~~~~vvpISA~~e~~-l~~~l~~~i~~~l  270 (396)
T PRK09602        214 RKISKPMVIAANKADLPPAEENIERLKEEKYYIVVPTSAEAELA-LRRAAKAGLIDYI  270 (396)
T ss_pred             hhcCCCEEEEEEchhcccchHHHHHHHhcCCCcEEEEcchhhhh-HHHHHHHhHHhhC
Confidence            345799999999999864321111     236689999999999 887 666777666

>PRK13949 shikimate kinase; Provisional

Probab=96.16  E-value=0.0042  Score=41.97  Aligned_cols=21  Identities=19%  Similarity=0.431  Sum_probs=18.6

Q ss_pred             EEEEEcCCCCCchhhhhhhhh
Q psy10878         72 KVIVIGDPTVGKTSFVQRYVQ   92 (131)
Q Consensus        72 ki~vvG~~~vGKSsli~~~~~   92 (131)
                      +|+++|.+|+||||+...+..
T Consensus         3 ~I~liG~~GsGKstl~~~La~   23 (169)
T PRK13949          3 RIFLVGYMGAGKTTLGKALAR   23 (169)
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            699999999999999987663

>PRK00300 gmk guanylate kinase; Provisional

Probab=96.16  E-value=0.0037  Score=43.10  Aligned_cols=22  Identities=18%  Similarity=0.490  Sum_probs=19.5

Q ss_pred             EEEEEcCCCCCchhhhhhhhhC
Q psy10878         72 KVIVIGDPTVGKTSFVQRYVQN   93 (131)
Q Consensus        72 ki~vvG~~~vGKSsli~~~~~~   93 (131)
                      -++++|.+|+|||||+..+...
T Consensus         7 ~i~i~G~sGsGKstl~~~l~~~   28 (205)
T PRK00300          7 LIVLSGPSGAGKSTLVKALLER   28 (205)
T ss_pred             EEEEECCCCCCHHHHHHHHHhh
Confidence            5899999999999999988753

>cd04135 Tc10 TC10 subfamily

Probab=96.15  E-value=0.0013  Score=43.81  Aligned_cols=47  Identities=15%  Similarity=0.116  Sum_probs=33.7

Q ss_pred             CCCcEEeeccCCCccccccc-----------c---------ccc--CCCCccccccCCcccccccccccc
Q psy10878          5 AKKPILLPSASEDPSIDNWD-----------K---------ASW--ENVTPIVSEQGDGEIIEIIDPSLK   52 (131)
Q Consensus         5 ~~kp~vlv~NK~Dl~~~~~~-----------~---------~~~--~~~~~is~~~~~~~~~~~~~~~~~   52 (131)
                      .++|+++|.||+|+.+....           .         ..+  ...+.+||+++.| +.++++.+..
T Consensus       103 ~~~piivv~nK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~e~Sa~~~~g-i~~~f~~~~~  171 (174)
T cd04135         103 PNVPYLLVGTQIDLRDDPKTLARLNDMKEKPVTVEQGQKLAKEIGAHCYVECSALTQKG-LKTVFDEAIL  171 (174)
T ss_pred             CCCCEEEEeEchhhhcChhhHHHHhhccCCCCCHHHHHHHHHHcCCCEEEEecCCcCCC-HHHHHHHHHH
Confidence            57999999999998543210           0         011  2467899999999 9999887654

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

>PLN03071 GTP-binding nuclear protein Ran; Provisional

Probab=96.14  E-value=0.0013  Score=46.15  Aligned_cols=49  Identities=10%  Similarity=0.019  Sum_probs=35.7

Q ss_pred             CCCcEEeeccCCCcccccccc--ccc-----CCCCccccccCCcccccccccccccc
Q psy10878          5 AKKPILLPSASEDPSIDNWDK--ASW-----ENVTPIVSEQGDGEIIEIIDPSLKLV   54 (131)
Q Consensus         5 ~~kp~vlv~NK~Dl~~~~~~~--~~~-----~~~~~is~~~~~~~~~~~~~~~~~~~   54 (131)
                      .+.|++||.||+|+.......  ..+     -..+.+||+++.| +.+++..+.+.+
T Consensus       116 ~~~piilvgNK~Dl~~~~v~~~~~~~~~~~~~~~~e~SAk~~~~-i~~~f~~l~~~~  171 (219)
T PLN03071        116 ENIPIVLCGNKVDVKNRQVKAKQVTFHRKKNLQYYEISAKSNYN-FEKPFLYLARKL  171 (219)
T ss_pred             CCCcEEEEEEchhhhhccCCHHHHHHHHhcCCEEEEcCCCCCCC-HHHHHHHHHHHH
Confidence            468999999999985432111  122     3468999999999 999998776554

>PRK14737 gmk guanylate kinase; Provisional

Probab=96.14  E-value=0.0038  Score=42.91  Aligned_cols=22  Identities=18%  Similarity=0.306  Sum_probs=19.7

Q ss_pred             EEEEEcCCCCCchhhhhhhhhC
Q psy10878         72 KVIVIGDPTVGKTSFVQRYVQN   93 (131)
Q Consensus        72 ki~vvG~~~vGKSsli~~~~~~   93 (131)
                      =++++|++|+|||||+++++..
T Consensus         6 ~ivl~GpsG~GK~tl~~~l~~~   27 (186)
T PRK14737          6 LFIISSVAGGGKSTIIQALLEE   27 (186)
T ss_pred             EEEEECCCCCCHHHHHHHHHhc
Confidence            4899999999999999999853

>cd02023 UMPK Uridine monophosphate kinase (UMPK, EC 2

Probab=96.13  E-value=0.0039  Score=42.88  Aligned_cols=20  Identities=20%  Similarity=0.436  Sum_probs=18.1

Q ss_pred             EEEEcCCCCCchhhhhhhhh
Q psy10878         73 VIVIGDPTVGKTSFVQRYVQ   92 (131)
Q Consensus        73 i~vvG~~~vGKSsli~~~~~   92 (131)
                      +.+.|.+|+|||||++.+..
T Consensus         2 igi~G~~GsGKSTl~~~l~~   21 (198)
T cd02023           2 IGIAGGSGSGKTTVAEEIIE   21 (198)
T ss_pred             EEEECCCCCCHHHHHHHHHH
Confidence            67999999999999998865

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.

>cd04147 Ras_dva Ras-dva subfamily

Probab=96.13  E-value=0.0024  Score=43.93  Aligned_cols=49  Identities=14%  Similarity=0.312  Sum_probs=36.0

Q ss_pred             CCCcEEeeccCCCcccccccc-c---------cc-CCCCccccccCCcccccccccccccc
Q psy10878          5 AKKPILLPSASEDPSIDNWDK-A---------SW-ENVTPIVSEQGDGEIIEIIDPSLKLV   54 (131)
Q Consensus         5 ~~kp~vlv~NK~Dl~~~~~~~-~---------~~-~~~~~is~~~~~~~~~~~~~~~~~~~   54 (131)
                      .++|+++|+||+|+....... .         .+ ...+.+|+.++.| +.++++.+.+.+
T Consensus       103 ~~~piilv~NK~Dl~~~~~~v~~~~~~~~~~~~~~~~~~~~Sa~~g~g-v~~l~~~l~~~~  162 (198)
T cd04147         103 KFVPIVVVGNKADSLEEERQVPAKDALSTVELDWNCGFVETSAKDNEN-VLEVFKELLRQA  162 (198)
T ss_pred             CCCcEEEEEEccccccccccccHHHHHHHHHhhcCCcEEEecCCCCCC-HHHHHHHHHHHh
Confidence            579999999999986531111 0         12 2457899999999 999999887765

Ras-dva (Ras - dorsal-ventral anterior localization) subfamily consists of a set of proteins characterized only in Xenopus leavis, to date. In Xenopus Ras-dva expression is activated by the transcription factor Otx2 and begins during gastrulation throughout the anterior ectoderm. Ras-dva expression is inhibited in the anterior neural plate by factor Xanf1. Downregulation of Ras-dva results in head development abnormalities through the inhibition of several regulators of the anterior neural plate and folds patterning, including Otx2, BF-1, Xag2, Pax6, Slug, and Sox9. Downregulation of Ras-dva also interferes with the FGF-8a signaling within the anterior ectoderm. Most Ras proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an aliphatic amino acid and X = any amino acid. Lipid binding is essential for membrane attachment, a key feature of most Ras proteins.

>cd04132 Rho4_like Rho4-like subfamily

Probab=96.13  E-value=0.0018  Score=43.83  Aligned_cols=49  Identities=16%  Similarity=0.200  Sum_probs=35.8

Q ss_pred             CCCcEEeeccCCCccccc--------cccccc-----C-CCCccccccCCcccccccccccccc
Q psy10878          5 AKKPILLPSASEDPSIDN--------WDKASW-----E-NVTPIVSEQGDGEIIEIIDPSLKLV   54 (131)
Q Consensus         5 ~~kp~vlv~NK~Dl~~~~--------~~~~~~-----~-~~~~is~~~~~~~~~~~~~~~~~~~   54 (131)
                      .+.|+++|.||.|+....        ....++     . ..+.+|++++.| +.+++..+...+
T Consensus       104 ~~~piilv~nK~Dl~~~~~~~~~v~~~~~~~~~~~~~~~~~~e~Sa~~~~~-v~~~f~~l~~~~  166 (187)
T cd04132         104 PGTPIMLVGLKTDLRKDKNLDRKVTPAQAESVAKKQGAFAYLECSAKTMEN-VEEVFDTAIEEA  166 (187)
T ss_pred             CCCCEEEEEeChhhhhCccccCCcCHHHHHHHHHHcCCcEEEEccCCCCCC-HHHHHHHHHHHH
Confidence            468999999999985432        111112     2 568999999999 999988776655

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.

>PTZ00088 adenylate kinase 1; Provisional

Probab=96.13  E-value=0.0042  Score=44.10  Aligned_cols=22  Identities=32%  Similarity=0.720  Sum_probs=19.9

Q ss_pred             eEEEEEcCCCCCchhhhhhhhh
Q psy10878         71 FKVIVIGDPTVGKTSFVQRYVQ   92 (131)
Q Consensus        71 ~ki~vvG~~~vGKSsli~~~~~   92 (131)
                      ++++++|.||+||||+..++..
T Consensus         7 mrIvl~G~PGsGK~T~a~~La~   28 (229)
T PTZ00088          7 LKIVLFGAPGVGKGTFAEILSK   28 (229)
T ss_pred             ceEEEECCCCCCHHHHHHHHHH
Confidence            6799999999999999998764

>PLN00223 ADP-ribosylation factor; Provisional

Probab=96.12  E-value=0.0021  Score=43.65  Aligned_cols=49  Identities=12%  Similarity=0.147  Sum_probs=33.7

Q ss_pred             CCCcEEeeccCCCcccccc--ccc-cc--CC-------CCccccccCCcccccccccccccc
Q psy10878          5 AKKPILLPSASEDPSIDNW--DKA-SW--EN-------VTPIVSEQGDGEIIEIIDPSLKLV   54 (131)
Q Consensus         5 ~~kp~vlv~NK~Dl~~~~~--~~~-~~--~~-------~~~is~~~~~~~~~~~~~~~~~~~   54 (131)
                      .+.|++||+||+|+.....  ... .+  ..       .+++||+++.| +.++++.+.+.+
T Consensus       117 ~~~piilv~NK~Dl~~~~~~~~~~~~l~l~~~~~~~~~~~~~Sa~~g~g-v~e~~~~l~~~~  177 (181)
T PLN00223        117 RDAVLLVFANKQDLPNAMNAAEITDKLGLHSLRQRHWYIQSTCATSGEG-LYEGLDWLSNNI  177 (181)
T ss_pred             CCCCEEEEEECCCCCCCCCHHHHHHHhCccccCCCceEEEeccCCCCCC-HHHHHHHHHHHH
Confidence            3689999999999864321  111 11  11       34689999999 999988776554

>PF13173 AAA_14: AAA domain

Probab=96.12  E-value=0.0041  Score=39.87  Aligned_cols=22  Identities=27%  Similarity=0.575  Sum_probs=19.5

Q ss_pred             EEEEEcCCCCCchhhhhhhhhC
Q psy10878         72 KVIVIGDPTVGKTSFVQRYVQN   93 (131)
Q Consensus        72 ki~vvG~~~vGKSsli~~~~~~   93 (131)
                      -+++.|..+||||+++.+++..
T Consensus         4 ~~~l~G~R~vGKTtll~~~~~~   25 (128)
T PF13173_consen    4 IIILTGPRGVGKTTLLKQLAKD   25 (128)
T ss_pred             eEEEECCCCCCHHHHHHHHHHH
Confidence            3789999999999999998854

>KOG3347|consensus

Probab=96.12  E-value=0.0038  Score=41.62  Aligned_cols=24  Identities=25%  Similarity=0.569  Sum_probs=20.8

Q ss_pred             eeeEEEEEcCCCCCchhhhhhhhh
Q psy10878         69 KLFKVIVIGDPTVGKTSFVQRYVQ   92 (131)
Q Consensus        69 ~~~ki~vvG~~~vGKSsli~~~~~   92 (131)
                      ...+|++.|.||+||||+..+++.
T Consensus         6 ~~PNILvtGTPG~GKstl~~~lae   29 (176)
T KOG3347|consen    6 ERPNILVTGTPGTGKSTLAERLAE   29 (176)
T ss_pred             cCCCEEEeCCCCCCchhHHHHHHH
Confidence            345799999999999999998873

>PRK08233 hypothetical protein; Provisional

Probab=96.11  E-value=0.0048  Score=41.50  Aligned_cols=22  Identities=18%  Similarity=0.250  Sum_probs=19.3

Q ss_pred             eEEEEEcCCCCCchhhhhhhhh
Q psy10878         71 FKVIVIGDPTVGKTSFVQRYVQ   92 (131)
Q Consensus        71 ~ki~vvG~~~vGKSsli~~~~~   92 (131)
                      +-|++.|.+|+|||||..++..
T Consensus         4 ~iI~I~G~~GsGKtTla~~L~~   25 (182)
T PRK08233          4 KIITIAAVSGGGKTTLTERLTH   25 (182)
T ss_pred             eEEEEECCCCCCHHHHHHHHHh
Confidence            4578899999999999998874

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

Probab=96.11  E-value=0.0016  Score=45.18  Aligned_cols=49  Identities=10%  Similarity=-0.005  Sum_probs=35.8

Q ss_pred             CCCcEEeeccCCCccccccccc--cc-----CCCCccccccCCcccccccccccccc
Q psy10878          5 AKKPILLPSASEDPSIDNWDKA--SW-----ENVTPIVSEQGDGEIIEIIDPSLKLV   54 (131)
Q Consensus         5 ~~kp~vlv~NK~Dl~~~~~~~~--~~-----~~~~~is~~~~~~~~~~~~~~~~~~~   54 (131)
                      .+.|++||.||+|+........  .+     -..+.+||+.+.| +.+++..+.+.+
T Consensus        98 ~~~piilvgNK~Dl~~~~v~~~~~~~~~~~~~~~~e~SAk~~~~-v~~~F~~l~~~i  153 (200)
T smart00176       98 ENIPIVLCGNKVDVKDRKVKAKSITFHRKKNLQYYDISAKSNYN-FEKPFLWLARKL  153 (200)
T ss_pred             CCCCEEEEEECcccccccCCHHHHHHHHHcCCEEEEEeCCCCCC-HHHHHHHHHHHH
Confidence            4689999999999854321111  12     4568899999999 999998887654

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

>cd01899 Ygr210 Ygr210 subfamily

Probab=96.09  E-value=0.0013  Score=48.98  Aligned_cols=50  Identities=18%  Similarity=0.158  Sum_probs=38.2

Q ss_pred             cCCCcEEeeccCCCccccccccc------ccCCCCccccccCCcccccccc-cccccc
Q psy10878          4 KAKKPILLPSASEDPSIDNWDKA------SWENVTPIVSEQGDGEIIEIID-PSLKLV   54 (131)
Q Consensus         4 ~~~kp~vlv~NK~Dl~~~~~~~~------~~~~~~~is~~~~~~~~~~~~~-~~~~~~   54 (131)
                      ...||+++|+||+|+...+....      .+.+++++|+..+.+ +.++.+ .+.+++
T Consensus       212 lt~KPvI~VlNK~Dl~~~~~~~~~l~~~~~~~~iI~iSA~~e~~-L~~L~~~~i~~~l  268 (318)
T cd01899         212 KRSKPMVIAANKADIPDAENNISKLRLKYPDEIVVPTSAEAELA-LRRAAKQGLIKYD  268 (318)
T ss_pred             hcCCcEEEEEEHHHccChHHHHHHHHhhCCCCeEEEEeCccccc-HHHHHHhhHHHhC
Confidence            35699999999999864332111      136789999999999 999987 588887

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.

>smart00053 DYNc Dynamin, GTPase

Probab=96.08  E-value=0.0047  Score=44.21  Aligned_cols=23  Identities=26%  Similarity=0.632  Sum_probs=21.2

Q ss_pred             EEEEEcCCCCCchhhhhhhhhCc
Q psy10878         72 KVIVIGDPTVGKTSFVQRYVQNT   94 (131)
Q Consensus        72 ki~vvG~~~vGKSsli~~~~~~~   94 (131)
                      .++++|+.++||||+++.+++..
T Consensus        28 ~i~vvG~~~~GKSt~l~~i~g~~   50 (240)
T smart00053       28 QIAVVGGQSAGKSSVLENFVGRD   50 (240)
T ss_pred             eEEEEcCCCccHHHHHHHHhCCC
Confidence            69999999999999999998765

Large GTPases that mediate vesicle trafficking. Dynamin participates in the endocytic uptake of receptors, associated ligands, and plasma membrane following an exocytic event.

>cd01874 Cdc42 Cdc42 subfamily

Probab=96.07  E-value=0.0013  Score=44.42  Aligned_cols=47  Identities=17%  Similarity=0.186  Sum_probs=33.6

Q ss_pred             CCCcEEeeccCCCccccccc--------------------cccc--CCCCccccccCCcccccccccccc
Q psy10878          5 AKKPILLPSASEDPSIDNWD--------------------KASW--ENVTPIVSEQGDGEIIEIIDPSLK   52 (131)
Q Consensus         5 ~~kp~vlv~NK~Dl~~~~~~--------------------~~~~--~~~~~is~~~~~~~~~~~~~~~~~   52 (131)
                      .+.|+++|.||+|+.+....                    ..++  ...+.+||+++.| +.++++.+.+
T Consensus       104 ~~~piilvgnK~Dl~~~~~~~~~l~~~~~~~v~~~~~~~~a~~~~~~~~~e~SA~tg~~-v~~~f~~~~~  172 (175)
T cd01874         104 PKTPFLLVGTQIDLRDDPSTIEKLAKNKQKPITPETGEKLARDLKAVKYVECSALTQKG-LKNVFDEAIL  172 (175)
T ss_pred             CCCCEEEEEECHhhhhChhhHHHhhhccCCCcCHHHHHHHHHHhCCcEEEEecCCCCCC-HHHHHHHHHH
Confidence            36899999999998543110                    0111  2468899999999 9999877655

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

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

Probab=96.06  E-value=0.002  Score=43.83  Aligned_cols=47  Identities=15%  Similarity=-0.038  Sum_probs=33.3

Q ss_pred             CCCcEEeeccCCCcccc---ccccccc----------------CCCCccccccCCcccccccccccc
Q psy10878          5 AKKPILLPSASEDPSID---NWDKASW----------------ENVTPIVSEQGDGEIIEIIDPSLK   52 (131)
Q Consensus         5 ~~kp~vlv~NK~Dl~~~---~~~~~~~----------------~~~~~is~~~~~~~~~~~~~~~~~   52 (131)
                      .++|+++|+||+|+...   ++....+                .+++++|+..+.| +.++++.+.+
T Consensus       117 ~~~piliv~NK~Dl~~~~~~~~i~~~l~l~~~~~~~~~~~~~~~~i~~~Sa~~~~g-~~~~~~wl~~  182 (184)
T smart00178      117 ATVPFLILGNKIDAPYAASEDELRYALGLTNTTGSKGKVGVRPLEVFMCSVVRRMG-YGEGFKWLSQ  182 (184)
T ss_pred             cCCCEEEEEeCccccCCCCHHHHHHHcCCCcccccccccCCceeEEEEeecccCCC-hHHHHHHHHh
Confidence            57899999999998532   1111111                2378999999999 9888876654

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

>PF04665 Pox_A32: Poxvirus A32 protein; InterPro: IPR006758 This entry contains uncharacterised proteins belonging to the B354L family which include the pox virus A32 protein

Probab=96.06  E-value=0.0047  Score=44.22  Aligned_cols=25  Identities=24%  Similarity=0.622  Sum_probs=21.3

Q ss_pred             ceeeEEEEEcCCCCCchhhhhhhhh
Q psy10878         68 EKLFKVIVIGDPTVGKTSFVQRYVQ   92 (131)
Q Consensus        68 ~~~~ki~vvG~~~vGKSsli~~~~~   92 (131)
                      ...++++|+|.+|+|||+|+..++.
T Consensus        11 ~~~fr~viIG~sGSGKT~li~~lL~   35 (241)
T PF04665_consen   11 KDPFRMVIIGKSGSGKTTLIKSLLY   35 (241)
T ss_pred             CCCceEEEECCCCCCHHHHHHHHHH
Confidence            3457999999999999999887764

This is thought to be an ATPase involved in viral DNA packaging [].

>cd00879 Sar1 Sar1 subfamily

Probab=96.04  E-value=0.002  Score=43.68  Aligned_cols=48  Identities=15%  Similarity=-0.040  Sum_probs=33.0

Q ss_pred             CCCcEEeeccCCCcccc--ccccccc---------------------CCCCccccccCCccccccccccccc
Q psy10878          5 AKKPILLPSASEDPSID--NWDKASW---------------------ENVTPIVSEQGDGEIIEIIDPSLKL   53 (131)
Q Consensus         5 ~~kp~vlv~NK~Dl~~~--~~~~~~~---------------------~~~~~is~~~~~~~~~~~~~~~~~~   53 (131)
                      .+.|+++++||+|+...  ......+                     -..+++||+++.| +.++++.+.+.
T Consensus       119 ~~~pvivv~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~g-v~e~~~~l~~~  189 (190)
T cd00879         119 ANVPFLILGNKIDLPGAVSEEELRQALGLYGTTTGKGVSLKVSGIRPIEVFMCSVVKRQG-YGEAFRWLSQY  189 (190)
T ss_pred             cCCCEEEEEeCCCCCCCcCHHHHHHHhCcccccccccccccccCceeEEEEEeEecCCCC-hHHHHHHHHhh
Confidence            46999999999998532  0111110                     1357899999999 99888766543

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.

>cd01428 ADK Adenylate kinase (ADK) catalyzes the reversible phosphoryl transfer from adenosine triphosphates (ATP) to adenosine monophosphates (AMP) and to yield adenosine diphosphates (ADP)

Probab=96.03  E-value=0.0042  Score=42.30  Aligned_cols=21  Identities=24%  Similarity=0.640  Sum_probs=18.7

Q ss_pred             EEEEEcCCCCCchhhhhhhhh
Q psy10878         72 KVIVIGDPTVGKTSFVQRYVQ   92 (131)
Q Consensus        72 ki~vvG~~~vGKSsli~~~~~   92 (131)
                      +|+++|.+|+|||++...+..
T Consensus         1 ~I~i~G~pGsGKst~a~~La~   21 (194)
T cd01428           1 RILLLGPPGSGKGTQAERLAK   21 (194)
T ss_pred             CEEEECCCCCCHHHHHHHHHH
Confidence            489999999999999998774

This enzyme is required for the biosynthesis of ADP and is essential for homeostasis of adenosine phosphates.

>TIGR01313 therm_gnt_kin carbohydrate kinase, thermoresistant glucokinase family

Probab=96.02  E-value=0.0038  Score=41.54  Aligned_cols=20  Identities=15%  Similarity=0.404  Sum_probs=17.5

Q ss_pred             EEEEcCCCCCchhhhhhhhh
Q psy10878         73 VIVIGDPTVGKTSFVQRYVQ   92 (131)
Q Consensus        73 i~vvG~~~vGKSsli~~~~~   92 (131)
                      ++++|.+|+||||+.+.+..
T Consensus         1 i~l~G~~GsGKSTla~~l~~   20 (163)
T TIGR01313         1 FVLMGVAGSGKSTIASALAH   20 (163)
T ss_pred             CEEECCCCCCHHHHHHHHHH
Confidence            47899999999999998764

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.

>PRK14531 adenylate kinase; Provisional

Probab=96.02  E-value=0.0052  Score=41.86  Aligned_cols=22  Identities=23%  Similarity=0.487  Sum_probs=19.3

Q ss_pred             eEEEEEcCCCCCchhhhhhhhh
Q psy10878         71 FKVIVIGDPTVGKTSFVQRYVQ   92 (131)
Q Consensus        71 ~ki~vvG~~~vGKSsli~~~~~   92 (131)
                      .+++++|.||+||||+..++..
T Consensus         3 ~~i~i~G~pGsGKsT~~~~la~   24 (183)
T PRK14531          3 QRLLFLGPPGAGKGTQAARLCA   24 (183)
T ss_pred             cEEEEECCCCCCHHHHHHHHHH
Confidence            4799999999999999988763

>TIGR01359 UMP_CMP_kin_fam UMP-CMP kinase family

Probab=96.00  E-value=0.0049  Score=41.70  Aligned_cols=20  Identities=35%  Similarity=0.622  Sum_probs=17.9

Q ss_pred             EEEEcCCCCCchhhhhhhhh
Q psy10878         73 VIVIGDPTVGKTSFVQRYVQ   92 (131)
Q Consensus        73 i~vvG~~~vGKSsli~~~~~   92 (131)
                      ++++|.||+||||+..++..
T Consensus         2 i~i~G~pGsGKst~a~~la~   21 (183)
T TIGR01359         2 VFVLGGPGSGKGTQCAKIVE   21 (183)
T ss_pred             EEEECCCCCCHHHHHHHHHH
Confidence            68999999999999988764

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.

>COG1126 GlnQ ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]

Probab=95.99  E-value=0.0064  Score=42.94  Aligned_cols=21  Identities=24%  Similarity=0.458  Sum_probs=18.4

Q ss_pred             EEEEEcCCCCCchhhhhhhhh
Q psy10878         72 KVIVIGDPTVGKTSFVQRYVQ   92 (131)
Q Consensus        72 ki~vvG~~~vGKSsli~~~~~   92 (131)
                      .++++|++|+|||||+..+-.
T Consensus        30 vv~iiGpSGSGKSTlLRclN~   50 (240)
T COG1126          30 VVVIIGPSGSGKSTLLRCLNG   50 (240)
T ss_pred             EEEEECCCCCCHHHHHHHHHC
Confidence            589999999999999987654

>cd00882 Ras_like_GTPase Ras-like GTPase superfamily

Probab=95.99  E-value=0.0033  Score=39.77  Aligned_cols=46  Identities=13%  Similarity=0.151  Sum_probs=33.5

Q ss_pred             cCCCcEEeeccCCCcccccccccc-----c-----CCCCccccccCCcccccccccc
Q psy10878          4 KAKKPILLPSASEDPSIDNWDKAS-----W-----ENVTPIVSEQGDGEIIEIIDPS   50 (131)
Q Consensus         4 ~~~kp~vlv~NK~Dl~~~~~~~~~-----~-----~~~~~is~~~~~~~~~~~~~~~   50 (131)
                      ..++|+++++||+|+.........     +     ..++++|+..+.+ +.++++.+
T Consensus       100 ~~~~~~ivv~nk~D~~~~~~~~~~~~~~~~~~~~~~~~~~~s~~~~~~-i~~~~~~l  155 (157)
T cd00882         100 GENIPIILVGNKIDLPEERVVSEEELAEQLAKELGVPYFETSAKTGEN-VEELFEEL  155 (157)
T ss_pred             cCCCcEEEEEeccccccccchHHHHHHHHHHhhcCCcEEEEecCCCCC-hHHHHHHH
Confidence            457999999999999654322211     1     5678899999999 88776654

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

>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=95.97  E-value=0.0056  Score=41.73  Aligned_cols=20  Identities=30%  Similarity=0.439  Sum_probs=18.3

Q ss_pred             EEEEEcCCCCCchhhhhhhh
Q psy10878         72 KVIVIGDPTVGKTSFVQRYV   91 (131)
Q Consensus        72 ki~vvG~~~vGKSsli~~~~   91 (131)
                      .++++|+.|+|||||++..+
T Consensus        23 ~~~l~G~nG~GKSTLl~~il   42 (176)
T cd03238          23 LVVVTGVSGSGKSTLVNEGL   42 (176)
T ss_pred             EEEEECCCCCCHHHHHHHHh
Confidence            69999999999999999775

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.

>TIGR00150 HI0065_YjeE ATPase, YjeE family

Probab=95.97  E-value=0.018  Score=37.58  Aligned_cols=22  Identities=41%  Similarity=0.576  Sum_probs=19.6

Q ss_pred             EEEEEcCCCCCchhhhhhhhhC
Q psy10878         72 KVIVIGDPTVGKTSFVQRYVQN   93 (131)
Q Consensus        72 ki~vvG~~~vGKSsli~~~~~~   93 (131)
                      -+++.|+.|+|||||+..++..
T Consensus        24 ~i~l~G~lGaGKTtl~~~l~~~   45 (133)
T TIGR00150        24 VVLLKGDLGAGKTTLVQGLLQG   45 (133)
T ss_pred             EEEEEcCCCCCHHHHHHHHHHH
Confidence            4899999999999999988854

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.

>cd04146 RERG_RasL11_like RERG/RasL11-like subfamily

Probab=95.96  E-value=0.0018  Score=42.84  Aligned_cols=48  Identities=8%  Similarity=0.032  Sum_probs=33.3

Q ss_pred             CCCcEEeeccCCCccccccc----cccc-----CCCCccccccCC-ccccccccccccc
Q psy10878          5 AKKPILLPSASEDPSIDNWD----KASW-----ENVTPIVSEQGD-GEIIEIIDPSLKL   53 (131)
Q Consensus         5 ~~kp~vlv~NK~Dl~~~~~~----~~~~-----~~~~~is~~~~~-~~~~~~~~~~~~~   53 (131)
                      .+.|+++|.||+|+......    ...+     ...+++|++++. | +.+++..+.+.
T Consensus       105 ~~~piilv~nK~Dl~~~~~v~~~~~~~~~~~~~~~~~e~Sa~~~~~~-v~~~f~~l~~~  162 (165)
T cd04146         105 REIPVILVGNKADLLHYRQVSTEEGEKLASELGCLFFEVSAAEDYDG-VHSVFHELCRE  162 (165)
T ss_pred             CCCCEEEEEECCchHHhCccCHHHHHHHHHHcCCEEEEeCCCCCchh-HHHHHHHHHHH
Confidence            47899999999998543211    1112     345789999984 7 98888776554

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

>cd04155 Arl3 Arl3 subfamily

Probab=95.96  E-value=0.0023  Score=42.56  Aligned_cols=46  Identities=15%  Similarity=0.162  Sum_probs=32.3

Q ss_pred             CCCcEEeeccCCCcccccc---ccccc---------CCCCccccccCCccccccccccc
Q psy10878          5 AKKPILLPSASEDPSIDNW---DKASW---------ENVTPIVSEQGDGEIIEIIDPSL   51 (131)
Q Consensus         5 ~~kp~vlv~NK~Dl~~~~~---~~~~~---------~~~~~is~~~~~~~~~~~~~~~~   51 (131)
                      .++|+++++||+|+.+...   ....+         -.++++||+++.| +.++++.+.
T Consensus       114 ~~~p~ivv~nK~D~~~~~~~~~i~~~l~~~~~~~~~~~~~~~Sa~~~~g-i~~~~~~l~  171 (173)
T cd04155         114 AGVPVLVFANKQDLATAAPAEEIAEALNLHDLRDRTWHIQACSAKTGEG-LQEGMNWVC  171 (173)
T ss_pred             cCCCEEEEEECCCCccCCCHHHHHHHcCCcccCCCeEEEEEeECCCCCC-HHHHHHHHh
Confidence            4689999999999865321   11111         1256899999999 998877654

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.

>cd04134 Rho3 Rho3 subfamily

Probab=95.95  E-value=0.0022  Score=43.71  Aligned_cols=49  Identities=8%  Similarity=0.026  Sum_probs=35.7

Q ss_pred             CCCcEEeeccCCCccccccc----------------cccc------CCCCccccccCCcccccccccccccc
Q psy10878          5 AKKPILLPSASEDPSIDNWD----------------KASW------ENVTPIVSEQGDGEIIEIIDPSLKLV   54 (131)
Q Consensus         5 ~~kp~vlv~NK~Dl~~~~~~----------------~~~~------~~~~~is~~~~~~~~~~~~~~~~~~~   54 (131)
                      .+.|+++|.||+|+.+....                ...+      ...+.+||+.+.| +.+++..+.+.+
T Consensus       103 ~~~piilvgNK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~e~SAk~~~~-v~e~f~~l~~~~  173 (189)
T cd04134         103 PGVKLVLVALKCDLREARNERDDLQRYGKHTISYEEGLAVAKRINALRYLECSAKLNRG-VNEAFTEAARVA  173 (189)
T ss_pred             CCCCEEEEEEChhhccChhhHHHHhhccCCCCCHHHHHHHHHHcCCCEEEEccCCcCCC-HHHHHHHHHHHH
Confidence            36899999999999653210                0011      2367899999999 999998887665

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.

>TIGR00073 hypB hydrogenase accessory protein HypB

Probab=95.95  E-value=0.0062  Score=42.32  Aligned_cols=24  Identities=21%  Similarity=0.509  Sum_probs=21.0

Q ss_pred             eeeEEEEEcCCCCCchhhhhhhhh
Q psy10878         69 KLFKVIVIGDPTVGKTSFVQRYVQ   92 (131)
Q Consensus        69 ~~~ki~vvG~~~vGKSsli~~~~~   92 (131)
                      ....+.++|..|+|||||+++++.
T Consensus        21 ~~~~i~~~G~~gsGKTTli~~l~~   44 (207)
T TIGR00073        21 GLVVLNFMSSPGSGKTTLIEKLID   44 (207)
T ss_pred             CcEEEEEECCCCCCHHHHHHHHHH
Confidence            345799999999999999999874

HypB is implicated in insertion of nickel into the large subunit of NiFe hydrogenases.

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	131
3dz8_A	191	Crystal Structure Of Human Rab3b Gtpase Bound With		2e-13
3rab_A	169	Gppnhp-bound Rab3a At 2.0 A Resolution Length = 169		1e-12
3tw8_B	181	Gef Domain Of Dennd 1b In Complex With Rab Gtpase R		1e-12
2gf9_A	189	Crystal Structure Of Human Rab3d In Complex With Gd		3e-12
2bcg_Y	206	Structure Of Doubly Prenylated Ypt1:gdi Complex Len		5e-12
1ukv_Y	206	Structure Of Rabgdp-Dissociation Inhibitor In Compl		5e-12
1zbd_A	203	Structural Basis Of Rab Effector Specificity: Cryst		8e-12
3tkl_A	196	Crystal Structure Of The Gtp-Bound Rab1a In Complex		8e-12
3cpj_B	223	Crystal Structure Of Ypt31 In Complex With Yeast Ra		8e-12
1z22_A	168	Gdp-Bound Rab23 Gtpase Crystallized In C222(1) Spac		9e-12
2il1_A	192	Crystal Structure Of A Predicted Human Gtpase In Co		1e-11
3sfv_A	181	Crystal Structure Of The Gdp-Bound Rab1a S25n Mutan		1e-11
3l0i_B	199	Complex Structure Of Sidm/drra With The Wild Type R		2e-11
3bfk_A	181	Crystal Structure Of Plasmodium Falciparum Rab11a I		2e-11
2wwx_A	175	Crystal Structure Of The SidmDRRA(GEFGDF DOMAIN)-Ra		2e-11
2p5s_A	199	Rab Domain Of Human Rasef In Complex With Gdp Lengt		3e-11
2ew1_A	201	Crystal Structure Of Rab30 In Complex With A Gtp An		3e-11
1yzq_A	170	Gppnhp-Bound Rab6 Gtpase Length = 170		3e-11
4fmb_B	171	Vira-Rab1 Complex Structure Length = 171		3e-11
1yzn_A	185	Gppnhp-Bound Ypt1p Gtpase Length = 185		4e-11
3jza_A	175	Crystal Structure Of Human Rab1b In Complex With Th		4e-11
4i1o_A	181	Crystal Structure Of The Legionella Pneumophila Gap		4e-11
4fmc_B	171	Espg-Rab1 Complex Length = 171		4e-11
2fol_A	191	Crystal Structure Of Human Rab1a In Complex With Gd		4e-11
2hup_A	201	Crystal Structure Of Human Rab43 In Complex With Gd		5e-11
2g77_B	198	Crystal Structure Of Gyp1 Tbc Domain In Complex Wit		5e-11
2f9l_A	199	3d Structure Of Inactive Human Rab11b Gtpase Length		5e-11
2y8e_A	179	Crystal Structure Of D. Melanogaster Rab6 Gtpase Bo		5e-11
1oiv_A	191	X-Ray Structure Of The Small G Protein Rab11a In Co		6e-11
1yzk_A	184	Gppnhp Bound Rab11 Gtpase Length = 184		6e-11
1z06_A	189	Gppnhp-Bound Rab33 Gtpase Length = 189		7e-11
1ky2_A	182	Gppnhp-Bound Ypt7p At 1.6 A Resolution Length = 182		7e-11
3qbt_A	174	Crystal Structure Of Ocrl1 540-678 In Complex With		1e-10
2fu5_C	183	Structure Of Rab8 In Complex With Mss4 Length = 183		1e-10
1vg0_B	207	The Crystal Structures Of The Rep-1 Protein In Comp		1e-10
4dkx_A	216	Crystal Structure Of The Rab 6a'(Q72l) Length = 216		1e-10
2fe4_A	171	The Crystal Structure Of Human Neuronal Rab6b In It		1e-10
2gil_A	162	Structure Of The Extremely Slow Gtpase Rab6a In The		2e-10
3law_A	207	Structure Of Gtp-Bound L129f Mutant Rab7 Length = 2		2e-10
2rhd_A	175	Crystal Structure Of Cryptosporidium Parvum Small G		2e-10
1vg1_A	185	Gdp-bound Rab7 Length = 185		2e-10
3cwz_A	188	Strucure Of Rab6(Gtp)-R6ip1 Complex Length = 188		2e-10
1oiw_A	191	X-ray Structure Of The Small G Protein Rab11a In Co		3e-10
2hv8_A	172	Crystal Structure Of Gtp-Bound Rab11 In Complex Wit		3e-10
2gzd_A	173	Crystal Structure Of Rab11 In Complex With Rab11-Fi		3e-10
2d7c_A	167	Crystal Structure Of Human Rab11 In Complex With Fi		3e-10
1d5c_A	162	Crystal Structure Of Plasmodium Falciparum Rab6 Com		3e-10
3bbp_A	211	Rab6-Gtp:gcc185 Rab Binding Domain Complex Length =		3e-10
1z0f_A	179	Gdp-Bound Rab14 Gtpase Length = 179		4e-10
4drz_A	196	Crystal Structure Of Human Rab14 Length = 196		4e-10
2hxs_A	178	Crystal Structure Of Rab28a Gtpase In The Inactive		5e-10
1t91_A	207	Crystal Structure Of Human Small Gtpase Rab7(Gtp) L		6e-10
2o52_A	200	Crystal Structure Of Human Rab4b In Complex With Gd		7e-10
4fmd_F	164	Espg-Rab1 Complex Structure At 3.05 A Length = 164		7e-10
3cph_A	213	Crystal Structure Of Sec4 In Complex With Rab-Gdi L		9e-10
3rwm_B	185	Crystal Structure Of Ypt32 In Complex With Gppnhp L		9e-10
2eqb_A	174	Crystal Structure Of The Rab Gtpase Sec4p, The Sec2		2e-09
1s8f_A	177	Crystal Structure Of Rab9 Complexed To Gdp Reveals		3e-09
2ocy_C	170	Complex Of The Guanine Exchange Factor Sec2p And Th		3e-09
1wms_A	177	High Resolution Crystal Structure Of Human Rab9 Gtp		3e-09
1g17_A	170	Crystal Structure Of Sec4-Guanosine-5'-(Beta,Gamma)		3e-09
1yzl_A	179	Gppnhp-Bound Rab9 Gtpase Length = 179		3e-09
2f7s_A	217	The Crystal Structure Of Human Rab27b Bound To Gdp		3e-09
3tso_A	178	Structure Of The Cancer Associated Rab25 Protein In		4e-09
2bmd_A	186	High Resolution Structure Of Gdp-Bound Human Rab4a		4e-09
4fmc_F	117	Espg-Rab1 Complex Length = 117		4e-09
2oil_A	193	Crystal Structure Of Human Rab25 In Complex With Gd		4e-09
1yu9_A	175	Gppnhp-Bound Rab4a Length = 175		5e-09
1g16_A	170	Crystal Structure Of Sec4-Gdp Length = 170		6e-09
3gj0_A	221	Crystal Structure Of Human Rangdp Length = 221		8e-09
1x3s_A	195	Crystal Structure Of Human Rab18 In Complex With Gp		1e-08
2iez_A	220	Crystal Structure Of Mouse Rab27b Bound To Gdp In M		1e-08
2a5j_A	191	Crystal Structure Of Human Rab2b Length = 191		1e-08
2if0_A	200	Crystal Structure Of Mouse Rab27b Bound To Gdp In M		2e-08
2iey_A	195	Crystal Structure Of Mouse Rab27b Bound To Gdp In H		2e-08
2zet_A	203	Crystal Structure Of The Small Gtpase Rab27b Comple		2e-08
1z0a_A	174	Gdp-Bound Rab2a Gtpase Length = 174		2e-08
1z0k_A	172	Structure Of Gtp-Bound Rab4q67l Gtpase In Complex W		2e-08
1qg2_A	216	Canine Gdp-Ran R76e Mutant Length = 216		5e-08
1a2k_C	216	Gdpran-Ntf2 Complex Length = 216		5e-08
2ocb_A	180	Crystal Structure Of Human Rab9b In Complex With A		5e-08
3ea5_A	216	Kap95p Binding Induces The Switch Loops Of Rangdp T		5e-08
1qg4_A	216	Canine Gdp-Ran F72y Mutant Length = 216		5e-08
1qbk_C	216	Structure Of The Karyopherin Beta2-ran Gppnhp Nucle		5e-08
1wa5_A	176	Crystal Structure Of The Exportin Cse1p Complexed W		7e-08
2g6b_A	180	Crystal Structure Of Human Rab26 In Complex With A		9e-08
3gj4_A	221	Crystal Structure Of Human Rangdp-Nup153znf3 Comple		1e-07
3bc1_A	195	Crystal Structure Of The Complex Rab27a-slp2a Lengt		1e-07
1byu_A	216	Canine Gdp-Ran Length = 216		1e-07
1z08_A	170	Gppnhp-Bound Rab21 Q53g Mutant Gtpase Length = 170		1e-07
1rrp_A	204	Structure Of The Ran-Gppnhp-Ranbd1 Complex Length =		1e-07
3ran_A	216	Canine Gdp-Ran Q69l Mutant Length = 216		2e-07
2bku_A	177	Kap95p:rangtp Complex Length = 177		2e-07
3nc1_C	182	Crystal Structure Of The Crm1-Rangtp Complex Length		2e-07
3nby_C	176	Crystal Structure Of The Pki Nes-Crm1-Rangtp Nuclea		3e-07
1tu3_A	171	Crystal Structure Of Rab5 Complex With Rabaptin5 C-		3e-07
1n6h_A	170	Crystal Structure Of Human Rab5a Length = 170		3e-07
1huq_A	164	1.8a Crystal Structure Of The Monomeric Gtpase Rab5		3e-07
1tu4_A	171	Crystal Structure Of Rab5-Gdp Complex Length = 171		3e-07
2nty_C	180	Rop4-Gdp-Prone8 Length = 180		4e-07
2hei_A	179	Crystal Structure Of Human Rab5b In Complex With Gd		4e-07
1n6p_A	170	Crystal Structure Of Human Rab5a A30e Mutant Comple		4e-07
1n6r_A	170	Crystal Structure Of Human Rab5a A30l Mutant Comple		4e-07
1n6n_A	170	Crystal Structure Of Human Rab5a A30r Mutant Comple		4e-07
1yvd_A	169	Gppnhp-Bound Rab22 Gtpase Length = 169		4e-07
1n6o_A	170	Crystal Structure Of Human Rab5a A30k Mutant Comple		5e-07
2wbl_C	180	Three-Dimensional Structure Of A Binary Rop-Prone C		6e-07
3m1i_A	219	Crystal Structure Of Yeast Crm1 (Xpo1p) In Complex		6e-07
1n6i_A	170	Crystal Structure Of Human Rab5a A30p Mutant Comple		7e-07
2fg5_A	192	Crystal Structure Of Human Rab31 In Complex With A		7e-07
4djt_A	218	Crystal Structure Of A Nuclear Gtp-Binding Protein		7e-07
1z0d_A	167	Gdp-bound Rab5c Gtpase Length = 167		1e-06
3mjh_A	168	Crystal Structure Of Human Rab5a In Complex With Th		1e-06
3bwd_D	182	Crystal Structure Of The Plant Rho Protein Rop5 Len		1e-06
3icq_B	171	Karyopherin Nuclear State Length = 171		1e-06
1yzt_A	184	Gppnhp-Bound Rab21 Gtpase At 2.05 A Resolution Leng		1e-06
2x19_A	172	Crystal Structure Of Importin13 - Rangtp Complex Le		1e-06
1yzu_A	170	Gppnhp-Bound Rab21 Gtpase At 2.50 A Resolution Leng		1e-06
1ek0_A	170	Gppnhp-Bound Ypt51 At 1.48 A Resolution Length = 17		2e-06
2j0v_A	212	The Crystal Structure Of Arabidopsis Thaliana Rac7-		2e-06
1z07_A	166	Gppnhp-Bound Rab5c G55q Mutant Gtpase Length = 166		3e-06
1z0j_A	170	Structure Of Gtp-Bound Rab22q64l Gtpase In Complex		4e-06
1ds6_A	192	Crystal Structure Of A Rac-Rhogdi Complex Length =		1e-05
1mh1_A	186	Small G-Protein Length = 186		1e-05
1hh4_A	192	Rac1-Rhogdi Complex Involved In Nadph Oxidase Activ		2e-05
2h7v_A	188	Co-crystal Structure Of Ypka-rac1 Length = 188		2e-05
3sbd_A	187	Crystal Structure Of Rac1 P29s Mutant Length = 187		2e-05
1g4u_R	184	Crystal Structure Of The Salmonella Tyrosine Phosph		2e-05
2w2t_A	185	Rac2 (G12v) In Complex With Gdp Length = 185		2e-05
1ryf_A	203	Alternative Splicing Of Rac1 Generates Rac1b, A Sel		2e-05
2vrw_A	184	Critical Structural Role For The Ph And C1 Domains		2e-05
1i4d_D	192	Crystal Structure Analysis Of Rac1-Gdp Complexed Wi		2e-05
2w2v_A	184	Rac2 (G12v) In Complex With Gtpgs Length = 184		2e-05
2g0n_A	179	The Crystal Structure Of The Human Rac3 In Complex		2e-05
2ic5_A	180	Crystal Structure Of Human Rac3 Grown In The Presen		2e-05
1he1_C	176	Crystal Structure Of The Complex Between The Gap Do		2e-05
2fju_A	178	Activated Rac1 Bound To Its Effector Phospholipase		2e-05
2c2h_A	192	Crystal Structure Of The Human Rac3 In Complex With		2e-05
1foe_B	177	Crystal Structure Of Rac1 In Complex With The Guani		2e-05
3th5_A	204	Crystal Structure Of Wild-Type Rac1 Length = 204		2e-05
3sua_A	184	Crystal Structure Of The Intracellular Domain Of Pl		2e-05
2yin_C	196	Structure Of The Complex Between Dock2 And Rac1. Le		2e-05
2wkp_A	332	Structure Of A Photoactivatable Rac1 Containing Lov		3e-05
2efc_B	181	Ara7-GdpATVPS9A Length = 181		3e-05
2wkq_A	332	Structure Of A Photoactivatable Rac1 Containing The		3e-05
2wkr_A	332	Structure Of A Photoactivatable Rac1 Containing The		3e-05
3ryt_C	180	The Plexin A1 Intracellular Region In Complex With		3e-05
2atx_A	194	Crystal Structure Of The Tc10 Gppnhp Complex Length		4e-05
2q3h_A	201	The Crystal Structure Of Rhoua In The Gdp-bound Sta		4e-05
2v55_B	200	Mechanism Of Multi-site Phosphorylation From A Rock		5e-05
1gwn_A	205	The Crystal Structure Of The Core Domain Of RhoeRND		6e-05
1m7b_A	184	Crystal Structure Of Rnd3RHOE: FUNCTIONAL IMPLICATI		6e-05
1e96_A	192	Structure Of The RacP67PHOX COMPLEX Length = 192		7e-05
3b13_B	184	Crystal Structure Of The Dhr-2 Domain Of Dock2 In C		7e-05
1i4t_D	192	Crystal Structure Analysis Of Rac1-Gmppnp In Comple		8e-05
4gzl_A	204	Crystal Structure Of Rac1 Q61l Mutant Length = 204		9e-05
3ref_B	194	Crystal Structure Of Ehrho1 Bound To Gdp And Magnes		1e-04
4gzm_A	204	Crystal Structure Of Rac1 F28l Mutant Length = 204		1e-04
4dvg_A	188	Crystal Structure Of E. Histolytica Formin1 Bound T		1e-04
2j1l_A	214	Crystal Structure Of Human Rho-Related Gtp-Binding		2e-04
4did_A	193	Crystal Structure Of Salmonella Effector N-Terminal		5e-04
2wm9_B	190	Structure Of The Complex Between Dock9 And Cdc42. L		5e-04
2dfk_B	194	Crystal Structure Of The Cdc42-Collybistin Ii Compl		5e-04
2odb_A	192	The Crystal Structure Of Human Cdc42 In Complex Wit		5e-04
1kz7_B	188	Crystal Structure Of The DhPH FRAGMENT OF MURINE DB		5e-04
1doa_A	191	Structure Of The Rho Family Gtp-Binding Protein Cdc		5e-04
1grn_A	191	Crystal Structure Of The Cdc42CDC42GAPALF3 COMPLEX.		5e-04
2qrz_A	189	Cdc42 Bound To Gmp-Pcp: Induced Fit By Effector Is		6e-04
1aje_A	194	Cdc42 From Human, Nmr, 20 Structures Length = 194		6e-04
1cee_A	179	Solution Structure Of Cdc42 In Complex With The Gtp		6e-04
1am4_D	177	Complex Between Cdc42hs.Gmppnp And P50 Rhogap (H. S		6e-04
3gcg_A	182	Crystal Structure Of Map And Cdc42 Complex Length =		6e-04
1a4r_B	191	G12v Mutant Of Human Placental Cdc42 Gtpase In The		7e-04
3eg5_A	178	Crystal Structure Of Mdia1-Tsh Gbd-Fh3 In Complex W		7e-04
1gzs_A	180	Crystal Structure Of The Complex Between The Gef Do		7e-04
1ees_A	178	Solution Structure Of Cdc42hs Complexed With A Pept		7e-04
2cls_A	198	The Crystal Structure Of The Human Rnd1 Gtpase In T		9e-04

>pdb|3DZ8|A Chain A, Crystal Structure Of Human Rab3b Gtpase Bound With Gdp Length = 191

Iteration: 1
 Score = 71.2 bits (173), Expect = 2e-13,   Method: Compositional matrix adjust.
 Identities = 31/68 (45%), Positives = 49/68 (72%), Gaps = 1/68 (1%)
Query: 63  FNAPPEKLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKL 122
           F    + +FK+++IG+ +VGKTSF+ RY  +TF   +  TVG+DF +K V +R ++++KL
Sbjct: 16  FQGNFDYMFKLLIIGNSSVGKTSFLFRYADDTFTPAFVSTVGIDFKVKTV-YRHEKRVKL 74
Query: 123 QLWDIAGQ 130
           Q+WD AGQ
Sbjct: 75  QIWDTAGQ 82

>pdb|3RAB|A Chain A, Gppnhp-bound Rab3a At 2.0 A Resolution Length = 169

Iteration: 1
 Score = 68.6 bits (166), Expect = 1e-12,   Method: Compositional matrix adjust.
 Identities = 29/61 (47%), Positives = 47/61 (77%), Gaps = 1/61 (1%)
Query: 70  LFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAG 129
           +FK+++IG+ +VGKTSF+ RY  ++F   +  TVG+DF +K + +R+ ++IKLQ+WD AG
Sbjct: 5   MFKILIIGNSSVGKTSFLFRYADDSFTPAFVSTVGIDFKVKTI-YRNDKRIKLQIWDTAG 63
Query: 130 Q 130
           Q
Sbjct: 64  Q 64

>pdb|3TW8|B Chain B, Gef Domain Of Dennd 1b In Complex With Rab Gtpase Rab35 Length = 181

Iteration: 1
 Score = 67.8 bits (164), Expect = 1e-12,   Method: Compositional matrix adjust.
 Identities = 30/63 (47%), Positives = 45/63 (71%), Gaps = 1/63 (1%)
Query: 68  EKLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDI 127
           + LFK+++IGD  VGK+S + R+  NTF   Y  T+GVDF ++ V+  + +K+KLQ+WD 
Sbjct: 7   DHLFKLLIIGDSGVGKSSLLLRFADNTFSGSYITTIGVDFKIRTVEI-NGEKVKLQIWDT 65
Query: 128 AGQ 130
           AGQ
Sbjct: 66  AGQ 68

>pdb|2GF9|A Chain A, Crystal Structure Of Human Rab3d In Complex With Gdp Length = 189

Iteration: 1
 Score = 67.0 bits (162), Expect = 3e-12,   Method: Compositional matrix adjust.
 Identities = 30/64 (46%), Positives = 47/64 (73%), Gaps = 1/64 (1%)
Query: 67  PEKLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWD 126
            + +FK+++IG+ +VGKTSF+ RY  ++F   +  TVG+DF +K V +R  ++IKLQ+WD
Sbjct: 19  SDYMFKLLLIGNSSVGKTSFLFRYADDSFTPAFVSTVGIDFKVKTV-YRHDKRIKLQIWD 77
Query: 127 IAGQ 130
            AGQ
Sbjct: 78  TAGQ 81

>pdb|2BCG|Y Chain Y, Structure Of Doubly Prenylated Ypt1:gdi Complex Length = 206

Iteration: 1
 Score = 66.2 bits (160), Expect = 5e-12,   Method: Compositional matrix adjust.
 Identities = 29/68 (42%), Positives = 46/68 (67%), Gaps = 1/68 (1%)
Query: 63  FNAPPEKLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKL 122
            N+  + LFK+++IG+  VGK+  + R+  +T+  DY  T+GVDF +K V+  D + +KL
Sbjct: 1   MNSEYDYLFKLLLIGNSGVGKSCLLLRFSDDTYTNDYISTIGVDFKIKTVEL-DGKTVKL 59
Query: 123 QLWDIAGQ 130
           Q+WD AGQ
Sbjct: 60  QIWDTAGQ 67

>pdb|1UKV|Y Chain Y, Structure Of Rabgdp-Dissociation Inhibitor In Complex With Prenylated Ypt1 Gtpase Length = 206

Iteration: 1
 Score = 66.2 bits (160), Expect = 5e-12,   Method: Compositional matrix adjust.
 Identities = 29/68 (42%), Positives = 46/68 (67%), Gaps = 1/68 (1%)
Query: 63  FNAPPEKLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKL 122
            N+  + LFK+++IG+  VGK+  + R+  +T+  DY  T+GVDF +K V+  D + +KL
Sbjct: 1   MNSEYDYLFKLLLIGNSGVGKSCLLLRFSDDTYTNDYISTIGVDFKIKTVEL-DGKTVKL 59
Query: 123 QLWDIAGQ 130
           Q+WD AGQ
Sbjct: 60  QIWDTAGQ 67

>pdb|1ZBD|A Chain A, Structural Basis Of Rab Effector Specificity: Crystal Structure Of The Small G Protein Rab3a Complexed With The Effector Domain Of Rabphilin-3a Length = 203

Iteration: 1
 Score = 65.5 bits (158), Expect = 8e-12,   Method: Compositional matrix adjust.
 Identities = 28/59 (47%), Positives = 45/59 (76%), Gaps = 1/59 (1%)
Query: 71  FKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAG 129
           FK+++IG+ +VGKTSF+ RY  ++F   +  TVG+DF +K + +R+ ++IKLQ+WD AG
Sbjct: 9   FKILIIGNSSVGKTSFLFRYADDSFTPAFVSTVGIDFKVKTI-YRNDKRIKLQIWDTAG 66

>pdb|3TKL|A Chain A, Crystal Structure Of The Gtp-Bound Rab1a In Complex With The Coiled- Coil Domain Of Lida From Legionella Pneumophila Length = 196

Iteration: 1
 Score = 65.5 bits (158), Expect = 8e-12,   Method: Compositional matrix adjust.
 Identities = 29/69 (42%), Positives = 46/69 (66%), Gaps = 1/69 (1%)
Query: 62  SFNAPPEKLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIK 121
           S N   + LFK+++IGD  VGK+  + R+  +T+ + Y  T+GVDF ++ ++  D + IK
Sbjct: 8   SMNPEYDYLFKLLLIGDSGVGKSCLLLRFADDTYTESYISTIGVDFKIRTIEL-DGKTIK 66
Query: 122 LQLWDIAGQ 130
           LQ+WD AGQ
Sbjct: 67  LQIWDTAGQ 75

>pdb|3CPJ|B Chain B, Crystal Structure Of Ypt31 In Complex With Yeast Rab-Gdi Length = 223

Iteration: 1
 Score = 65.5 bits (158), Expect = 8e-12,   Method: Compositional matrix adjust.
 Identities = 27/61 (44%), Positives = 44/61 (72%), Gaps = 1/61 (1%)
Query: 70  LFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAG 129
           LFK+++IGD  VGK++ + R+ +N F  D K T+GV+FA + ++  + ++IK Q+WD AG
Sbjct: 13  LFKIVLIGDSGVGKSNLLSRFTKNEFNMDSKSTIGVEFATRTLEI-EGKRIKAQIWDTAG 71
Query: 130 Q 130
           Q
Sbjct: 72  Q 72

>pdb|1Z22|A Chain A, Gdp-Bound Rab23 Gtpase Crystallized In C222(1) Space Group Length = 168

Iteration: 1
 Score = 65.1 bits (157), Expect = 9e-12,   Method: Compositional matrix adjust.
 Identities = 29/64 (45%), Positives = 43/64 (67%), Gaps = 1/64 (1%)
Query: 67  PEKLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWD 126
            E   K++V+G+  VGK+S +QRY +  F KDYK T+GVDF  + ++  D+  ++L LWD
Sbjct: 2   SEVAIKMVVVGNGAVGKSSMIQRYCKGIFTKDYKKTIGVDFLERQIQVNDED-VRLMLWD 60
Query: 127 IAGQ 130
            AGQ
Sbjct: 61  TAGQ 64

>pdb|2IL1|A Chain A, Crystal Structure Of A Predicted Human Gtpase In Complex With Gdp Length = 192

Iteration: 1
 Score = 65.1 bits (157), Expect = 1e-11,   Method: Compositional matrix adjust.
 Identities = 32/66 (48%), Positives = 45/66 (68%), Gaps = 1/66 (1%)
Query: 66  PPEKLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLW 125
           P +   +VI+IG   VGKTS ++R+  +TF +  K TVGVDF +K V+ R  +KI+LQ+W
Sbjct: 22  PADFKLQVIIIGSRGVGKTSLMERFTDDTFCEACKSTVGVDFKIKTVELRG-KKIRLQIW 80
Query: 126 DIAGQN 131
           D AGQ 
Sbjct: 81  DTAGQE 86

>pdb|3SFV|A Chain A, Crystal Structure Of The Gdp-Bound Rab1a S25n Mutant In Complex With The Coiled-Coil Domain Of Lida From Legionella Pneumophila Length = 181

Iteration: 1
 Score = 65.1 bits (157), Expect = 1e-11,   Method: Compositional matrix adjust.
 Identities = 29/69 (42%), Positives = 45/69 (65%), Gaps = 1/69 (1%)
Query: 62  SFNAPPEKLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIK 121
           S N   + LFK+++IGD  VGK   + R+  +T+ + Y  T+GVDF ++ ++  D + IK
Sbjct: 8   SMNPEYDYLFKLLLIGDSGVGKNCLLLRFADDTYTESYISTIGVDFKIRTIEL-DGKTIK 66
Query: 122 LQLWDIAGQ 130
           LQ+WD AGQ
Sbjct: 67  LQIWDTAGQ 75

>pdb|3L0I|B Chain B, Complex Structure Of Sidm/drra With The Wild Type Rab1 Length = 199

Iteration: 1
 Score = 64.3 bits (155), Expect = 2e-11,   Method: Compositional matrix adjust.
 Identities = 29/69 (42%), Positives = 46/69 (66%), Gaps = 1/69 (1%)
Query: 62  SFNAPPEKLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIK 121
           S N   + LFK+++IGD  VGK+  + R+  +T+ + Y  T+GVDF ++ ++  D + IK
Sbjct: 25  SXNPEYDYLFKLLLIGDSGVGKSCLLLRFADDTYTESYISTIGVDFKIRTIEL-DGKTIK 83
Query: 122 LQLWDIAGQ 130
           LQ+WD AGQ
Sbjct: 84  LQIWDTAGQ 92

>pdb|3BFK|A Chain A, Crystal Structure Of Plasmodium Falciparum Rab11a In Complex With Gdp Length = 181

Iteration: 1
 Score = 64.3 bits (155), Expect = 2e-11,   Method: Compositional matrix adjust.
 Identities = 26/61 (42%), Positives = 44/61 (72%)
Query: 70  LFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAG 129
           LFK+++IGD  VGK++ + R+ ++ F  + K T+GV+FA K ++ ++ + IK Q+WD AG
Sbjct: 7   LFKIVLIGDSGVGKSNLLSRFTRDEFNLESKSTIGVEFATKSIQLKNNKIIKAQIWDTAG 66
Query: 130 Q 130
           Q
Sbjct: 67  Q 67

>pdb|2WWX|A Chain A, Crystal Structure Of The SidmDRRA(GEFGDF DOMAIN)-Rab1 (Gtpase Domain) Complex Length = 175

Iteration: 1
 Score = 63.9 bits (154), Expect = 2e-11,   Method: Compositional matrix adjust.
 Identities = 28/68 (41%), Positives = 45/68 (66%), Gaps = 1/68 (1%)
Query: 63  FNAPPEKLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKL 122
            N   + LFK+++IGD  VGK+  + R+  +T+ + Y  T+GVDF ++ ++  D + IKL
Sbjct: 1   MNPEYDYLFKLLLIGDSGVGKSCLLLRFADDTYTESYISTIGVDFKIRTIEL-DGKTIKL 59
Query: 123 QLWDIAGQ 130
           Q+WD AGQ
Sbjct: 60  QIWDTAGQ 67

>pdb|2P5S|A Chain A, Rab Domain Of Human Rasef In Complex With Gdp Length = 199

Iteration: 1
 Score = 63.9 bits (154), Expect = 3e-11,   Method: Compositional matrix adjust.
 Identities = 30/70 (42%), Positives = 48/70 (68%), Gaps = 3/70 (4%)
Query: 61  KSFNAPPEKLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKI 120
           KSF++  +K +K+++ GD  VGK+SF+ R  +N F+++   T+GVDF +K +   D ++ 
Sbjct: 21  KSFSS--QKAYKIVLAGDAAVGKSSFLMRLCKNEFRENISATLGVDFQMKTL-IVDGERT 77
Query: 121 KLQLWDIAGQ 130
            LQLWD AGQ
Sbjct: 78  VLQLWDTAGQ 87

>pdb|2EW1|A Chain A, Crystal Structure Of Rab30 In Complex With A Gtp Analogue Length = 201

Iteration: 1
 Score = 63.5 bits (153), Expect = 3e-11,   Method: Compositional matrix adjust.
 Identities = 29/61 (47%), Positives = 42/61 (68%), Gaps = 1/61 (1%)
Query: 70  LFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAG 129
           LFK+++IG+  VGKT  V+R+ Q  F      T+GVDF +K V+  + +K+KLQ+WD AG
Sbjct: 26  LFKIVLIGNAGVGKTCLVRRFTQGLFPPGQGATIGVDFMIKTVEI-NGEKVKLQIWDTAG 84
Query: 130 Q 130
           Q
Sbjct: 85  Q 85

>pdb|1YZQ|A Chain A, Gppnhp-Bound Rab6 Gtpase Length = 170

Iteration: 1
 Score = 63.5 bits (153), Expect = 3e-11,   Method: Compositional matrix adjust.
 Identities = 27/66 (40%), Positives = 44/66 (66%), Gaps = 1/66 (1%)
Query: 65  APPEKLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQL 124
             P + FK++ +G+ +VGKTS + R++ ++F   Y+ T+G+DF  K +   D + I+LQL
Sbjct: 1   GSPLRKFKLVFLGEQSVGKTSLITRFMYDSFDNTYQATIGIDFLSKTMYLED-RTIRLQL 59
Query: 125 WDIAGQ 130
           WD AGQ
Sbjct: 60  WDTAGQ 65

>pdb|4FMB|B Chain B, Vira-Rab1 Complex Structure Length = 171

Iteration: 1
 Score = 63.5 bits (153), Expect = 3e-11,   Method: Compositional matrix adjust.
 Identities = 27/63 (42%), Positives = 44/63 (69%), Gaps = 1/63 (1%)
Query: 68  EKLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDI 127
           + LFK+++IGD  VGK+  + R+  +T+ + Y  T+GVDF ++ ++  D + IKLQ+WD 
Sbjct: 4   DALFKLLLIGDSGVGKSCLLLRFADDTYTESYISTIGVDFKIRTIEL-DGKTIKLQIWDT 62
Query: 128 AGQ 130
           AGQ
Sbjct: 63  AGQ 65

>pdb|1YZN|A Chain A, Gppnhp-Bound Ypt1p Gtpase Length = 185

Iteration: 1
 Score = 63.2 bits (152), Expect = 4e-11,   Method: Compositional matrix adjust.
 Identities = 28/67 (41%), Positives = 45/67 (67%), Gaps = 1/67 (1%)
Query: 64  NAPPEKLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQ 123
            +  + LFK+++IG+  VGK+  + R+  +T+  DY  T+GVDF +K V+  D + +KLQ
Sbjct: 15  GSEYDYLFKLLLIGNSGVGKSCLLLRFSDDTYTNDYISTIGVDFKIKTVEL-DGKTVKLQ 73
Query: 124 LWDIAGQ 130
           +WD AGQ
Sbjct: 74  IWDTAGQ 80

>pdb|3JZA|A Chain A, Crystal Structure Of Human Rab1b In Complex With The Gef Domain Of DrraSIDM FROM LEGIONELLA PNEUMOPHILA Length = 175

Iteration: 1
 Score = 63.2 bits (152), Expect = 4e-11,   Method: Compositional matrix adjust.
 Identities = 27/61 (44%), Positives = 43/61 (70%), Gaps = 1/61 (1%)
Query: 70  LFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAG 129
           LFK+++IGD  VGK+  + R+  +T+ + Y  T+GVDF ++ ++  D + IKLQ+WD AG
Sbjct: 9   LFKLLLIGDSGVGKSCLLLRFADDTYTESYISTIGVDFKIRTIEL-DGKTIKLQIWDTAG 67
Query: 130 Q 130
           Q
Sbjct: 68  Q 68

>pdb|4I1O|A Chain A, Crystal Structure Of The Legionella Pneumophila Gap Domain Of Lepb In Complex With Rab1b Bound To Gdp And Bef3 Length = 181

Iteration: 1
 Score = 63.2 bits (152), Expect = 4e-11,   Method: Compositional matrix adjust.
 Identities = 27/61 (44%), Positives = 43/61 (70%), Gaps = 1/61 (1%)
Query: 70  LFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAG 129
           LFK+++IGD  VGK+  + R+  +T+ + Y  T+GVDF ++ ++  D + IKLQ+WD AG
Sbjct: 9   LFKLLLIGDSGVGKSCLLLRFADDTYTESYISTIGVDFKIRTIEL-DGKTIKLQIWDTAG 67
Query: 130 Q 130
           Q
Sbjct: 68  Q 68

>pdb|4FMC|B Chain B, Espg-Rab1 Complex Length = 171

Iteration: 1
 Score = 63.2 bits (152), Expect = 4e-11,   Method: Compositional matrix adjust.
 Identities = 27/61 (44%), Positives = 43/61 (70%), Gaps = 1/61 (1%)
Query: 70  LFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAG 129
           LFK+++IGD  VGK+  + R+  +T+ + Y  T+GVDF ++ ++  D + IKLQ+WD AG
Sbjct: 6   LFKLLLIGDSGVGKSCLLLRFADDTYTESYISTIGVDFKIRTIEL-DGKTIKLQIWDTAG 64
Query: 130 Q 130
           Q
Sbjct: 65  Q 65

>pdb|2FOL|A Chain A, Crystal Structure Of Human Rab1a In Complex With Gdp Length = 191

Iteration: 1
 Score = 63.2 bits (152), Expect = 4e-11,   Method: Compositional matrix adjust.
 Identities = 27/61 (44%), Positives = 43/61 (70%), Gaps = 1/61 (1%)
Query: 70  LFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAG 129
           LFK+++IGD  VGK+  + R+  +T+ + Y  T+GVDF ++ ++  D + IKLQ+WD AG
Sbjct: 25  LFKLLLIGDSGVGKSCLLLRFADDTYTESYISTIGVDFKIRTIEL-DGKTIKLQIWDTAG 83
Query: 130 Q 130
           Q
Sbjct: 84  Q 84

>pdb|2HUP|A Chain A, Crystal Structure Of Human Rab43 In Complex With Gdp Length = 201

Iteration: 1
 Score = 62.8 bits (151), Expect = 5e-11,   Method: Compositional matrix adjust.
 Identities = 27/62 (43%), Positives = 43/62 (69%), Gaps = 1/62 (1%)
Query: 70  LFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAG 129
           LFK++++GD +VGKT  VQR+    F +    T+GVDF +K ++ +  +++KLQ+WD AG
Sbjct: 29  LFKLVLVGDASVGKTCVVQRFKTGAFSERQGSTIGVDFTMKTLEIQG-KRVKLQIWDTAG 87
Query: 130 QN 131
           Q 
Sbjct: 88  QE 89

>pdb|2G77|B Chain B, Crystal Structure Of Gyp1 Tbc Domain In Complex With Rab33 Gtpase Bound To Gdp And Alf3 Length = 198

Iteration: 1
 Score = 62.8 bits (151), Expect = 5e-11,   Method: Compositional matrix adjust.
 Identities = 31/67 (46%), Positives = 41/67 (61%), Gaps = 3/67 (4%)
Query: 66  PP--EKLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQ 123
           PP   ++FK+IVIGD  VGKT    R+    F    + T+GVDF  + V   D ++IK+Q
Sbjct: 23  PPARSRIFKIIVIGDSNVGKTCLTYRFCAGRFPDRTEATIGVDFRERAVDI-DGERIKIQ 81
Query: 124 LWDIAGQ 130
           LWD AGQ
Sbjct: 82  LWDTAGQ 88

>pdb|2F9L|A Chain A, 3d Structure Of Inactive Human Rab11b Gtpase Length = 199

Iteration: 1
 Score = 62.8 bits (151), Expect = 5e-11,   Method: Compositional matrix adjust.
 Identities = 28/61 (45%), Positives = 43/61 (70%), Gaps = 1/61 (1%)
Query: 70  LFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAG 129
           LFKV++IGD  VGK++ + R+ +N F  + K T+GV+FA + ++  D + IK Q+WD AG
Sbjct: 5   LFKVVLIGDSGVGKSNLLSRFTRNEFNLESKSTIGVEFATRSIQV-DGKTIKAQIWDTAG 63
Query: 130 Q 130
           Q
Sbjct: 64  Q 64

>pdb|2Y8E|A Chain A, Crystal Structure Of D. Melanogaster Rab6 Gtpase Bound To Gmppnp Length = 179

Iteration: 1
 Score = 62.8 bits (151), Expect = 5e-11,   Method: Compositional matrix adjust.
 Identities = 26/66 (39%), Positives = 44/66 (66%), Gaps = 1/66 (1%)
Query: 65  APPEKLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQL 124
             P + FK++ +G+ +VGKTS + R++ ++F   Y+ T+G+DF  K +   D + ++LQL
Sbjct: 9   GNPLRKFKLVFLGEQSVGKTSLITRFMYDSFDNTYQATIGIDFLSKTMYLED-RTVRLQL 67
Query: 125 WDIAGQ 130
           WD AGQ
Sbjct: 68  WDTAGQ 73

>pdb|1OIV|A Chain A, X-Ray Structure Of The Small G Protein Rab11a In Complex With Gdp Length = 191

Iteration: 1
 Score = 62.4 bits (150), Expect = 6e-11,   Method: Compositional matrix adjust.
 Identities = 28/61 (45%), Positives = 43/61 (70%), Gaps = 1/61 (1%)
Query: 70  LFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAG 129
           LFKV++IGD  VGK++ + R+ +N F  + K T+GV+FA + ++  D + IK Q+WD AG
Sbjct: 29  LFKVVLIGDSGVGKSNLLSRFTRNEFNLESKSTIGVEFATRSIQV-DGKTIKAQIWDTAG 87
Query: 130 Q 130
           Q
Sbjct: 88  Q 88

>pdb|1YZK|A Chain A, Gppnhp Bound Rab11 Gtpase Length = 184

Iteration: 1
 Score = 62.4 bits (150), Expect = 6e-11,   Method: Compositional matrix adjust.
 Identities = 28/61 (45%), Positives = 43/61 (70%), Gaps = 1/61 (1%)
Query: 70  LFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAG 129
           LFKV++IGD  VGK++ + R+ +N F  + K T+GV+FA + ++  D + IK Q+WD AG
Sbjct: 20  LFKVVLIGDSGVGKSNLLSRFTRNEFNLESKSTIGVEFATRSIQV-DGKTIKAQIWDTAG 78
Query: 130 Q 130
           Q
Sbjct: 79  Q 79

>pdb|1Z06|A Chain A, Gppnhp-Bound Rab33 Gtpase Length = 189

Iteration: 1
 Score = 62.4 bits (150), Expect = 7e-11,   Method: Compositional matrix adjust.
 Identities = 29/62 (46%), Positives = 39/62 (62%), Gaps = 1/62 (1%)
Query: 69  KLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIA 128
           ++FK+IVIGD  VGKT    R+    F    + T+GVDF  + V   D ++IK+QLWD A
Sbjct: 19  RIFKIIVIGDSNVGKTCLTYRFCAGRFPDRTEATIGVDFRERAVDI-DGERIKIQLWDTA 77
Query: 129 GQ 130
           GQ
Sbjct: 78  GQ 79

>pdb|1KY2|A Chain A, Gppnhp-Bound Ypt7p At 1.6 A Resolution Length = 182

Iteration: 1
 Score = 62.4 bits (150), Expect = 7e-11,   Method: Compositional matrix adjust.
 Identities = 27/61 (44%), Positives = 38/61 (62%)
Query: 70  LFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAG 129
           + KVI++GD  VGKTS + RYV + + + YK T+G DF  K V     +   +Q+WD AG
Sbjct: 8   ILKVIILGDSGVGKTSLMHRYVNDKYSQQYKATIGADFLTKEVTVDGDKVATMQVWDTAG 67
Query: 130 Q 130
           Q
Sbjct: 68  Q 68

>pdb|3QBT|A Chain A, Crystal Structure Of Ocrl1 540-678 In Complex With Rab8a:gppnhp Length = 174

Iteration: 1
 Score = 61.6 bits (148), Expect = 1e-10,   Method: Compositional matrix adjust.
 Identities = 26/66 (39%), Positives = 44/66 (66%), Gaps = 1/66 (1%)
Query: 65  APPEKLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQL 124
              + LFK+++IGD  VGKT  + R+ ++ F   +  T+G+DF ++ ++  D ++IKLQ+
Sbjct: 1   GHMDYLFKLLLIGDSGVGKTCVLFRFSEDAFNSTFISTIGIDFKIRTIEL-DGKRIKLQI 59
Query: 125 WDIAGQ 130
           WD AGQ
Sbjct: 60  WDTAGQ 65

>pdb|2FU5|C Chain C, Structure Of Rab8 In Complex With Mss4 Length = 183

Iteration: 1
 Score = 61.6 bits (148), Expect = 1e-10,   Method: Compositional matrix adjust.
 Identities = 26/61 (42%), Positives = 43/61 (70%), Gaps = 1/61 (1%)
Query: 70  LFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAG 129
           LFK+++IGD  VGKT  + R+ ++ F   +  T+G+DF ++ ++  D ++IKLQ+WD AG
Sbjct: 8   LFKLLLIGDSGVGKTCVLFRFSEDAFNSTFISTIGIDFKIRTIEL-DGKRIKLQIWDTAG 66
Query: 130 Q 130
           Q
Sbjct: 67  Q 67

>pdb|1VG0|B Chain B, The Crystal Structures Of The Rep-1 Protein In Complex With Monoprenylated Rab7 Protein Length = 207

Iteration: 1
 Score = 61.2 bits (147), Expect = 1e-10,   Method: Compositional matrix adjust.
 Identities = 29/61 (47%), Positives = 38/61 (62%), Gaps = 1/61 (1%)
Query: 70  LFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAG 129
           L KVI++GD  VGKTS + +YV   F   YK T+G DF  K V   D + + +Q+WD AG
Sbjct: 8   LLKVIILGDSGVGKTSLMNQYVNKKFSNQYKATIGADFLTKEV-MVDDRLVTMQIWDTAG 66
Query: 130 Q 130
           Q
Sbjct: 67  Q 67

>pdb|4DKX|A Chain A, Crystal Structure Of The Rab 6a'(Q72l) Length = 216

Iteration: 1
 Score = 61.2 bits (147), Expect = 1e-10,   Method: Compositional matrix adjust.
 Identities = 26/63 (41%), Positives = 43/63 (68%), Gaps = 1/63 (1%)
Query: 67  PEKLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWD 126
           P + FK++ +G+ +VGKTS + R++ ++F   Y+ T+G+DF  K +   D + I+LQLWD
Sbjct: 10  PLRKFKLVFLGEQSVGKTSLITRFMYDSFDNTYQATIGIDFLSKTMYLED-RTIRLQLWD 68
Query: 127 IAG 129
            AG
Sbjct: 69  TAG 71

>pdb|2FE4|A Chain A, The Crystal Structure Of Human Neuronal Rab6b In Its Inactive Gdp-Bound Form Length = 171

Iteration: 1
 Score = 61.2 bits (147), Expect = 1e-10,   Method: Compositional matrix adjust.
 Identities = 25/60 (41%), Positives = 42/60 (70%), Gaps = 1/60 (1%)
Query: 71  FKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQ 130
           FK++ +G+ +VGKTS + R++ ++F   Y+ T+G+DF  K +   D + ++LQLWD AGQ
Sbjct: 3   FKLVFLGEQSVGKTSLITRFMYDSFDNTYQATIGIDFLSKTMYLED-RTVRLQLWDTAGQ 61

>pdb|2GIL|A Chain A, Structure Of The Extremely Slow Gtpase Rab6a In The Gtp Bound Form At 1.8 Resolution Length = 162

Iteration: 1
 Score = 61.2 bits (147), Expect = 2e-10,   Method: Compositional matrix adjust.
 Identities = 25/60 (41%), Positives = 42/60 (70%), Gaps = 1/60 (1%)
Query: 71  FKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQ 130
           FK++ +G+ +VGKTS + R++ ++F   Y+ T+G+DF  K +   D + ++LQLWD AGQ
Sbjct: 2   FKLVFLGEQSVGKTSLITRFMYDSFDNTYQATIGIDFLSKTMYLED-RTVRLQLWDTAGQ 60

>pdb|3LAW|A Chain A, Structure Of Gtp-Bound L129f Mutant Rab7 Length = 207

Iteration: 1
 Score = 61.2 bits (147), Expect = 2e-10,   Method: Compositional matrix adjust.
 Identities = 29/61 (47%), Positives = 38/61 (62%), Gaps = 1/61 (1%)
Query: 70  LFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAG 129
           L KVI++GD  VGKTS + +YV   F   YK T+G DF  K V   D + + +Q+WD AG
Sbjct: 8   LLKVIILGDSGVGKTSLMNQYVNKKFSNQYKATIGADFLTKEV-MVDDRLVTMQIWDTAG 66
Query: 130 Q 130
           Q
Sbjct: 67  Q 67

>pdb|2RHD|A Chain A, Crystal Structure Of Cryptosporidium Parvum Small Gtpase Rab1a Length = 175

Iteration: 1
 Score = 60.8 bits (146), Expect = 2e-10,   Method: Compositional matrix adjust.
 Identities = 26/69 (37%), Positives = 43/69 (62%), Gaps = 1/69 (1%)
Query: 62  SFNAPPEKLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIK 121
             N   + LFK+++IGD  VGK+  + R+  +T+   Y  T+GVDF ++ +   + + +K
Sbjct: 1   GMNPEYDYLFKLLLIGDSGVGKSCLLLRFADDTYTDSYISTIGVDFKIRTISL-ENKTVK 59
Query: 122 LQLWDIAGQ 130
           LQ+WD AGQ
Sbjct: 60  LQIWDTAGQ 68

>pdb|1VG1|A Chain A, Gdp-bound Rab7 Length = 185

Iteration: 1
 Score = 60.8 bits (146), Expect = 2e-10,   Method: Compositional matrix adjust.
 Identities = 29/61 (47%), Positives = 38/61 (62%), Gaps = 1/61 (1%)
Query: 70  LFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAG 129
           L KVI++GD  VGKTS + +YV   F   YK T+G DF  K V   D + + +Q+WD AG
Sbjct: 8   LLKVIILGDSGVGKTSLMNQYVNKKFSNQYKATIGADFLTKEV-MVDDRLVTMQIWDTAG 66
Query: 130 Q 130
           Q
Sbjct: 67  Q 67

>pdb|3CWZ|A Chain A, Strucure Of Rab6(Gtp)-R6ip1 Complex Length = 188

Iteration: 1
 Score = 60.5 bits (145), Expect = 2e-10,   Method: Compositional matrix adjust.
 Identities = 25/63 (39%), Positives = 43/63 (68%), Gaps = 1/63 (1%)
Query: 67  PEKLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWD 126
           P + FK++ +G+ +VGKTS + R++ ++F   Y+ T+G+DF  K +   D + ++LQLWD
Sbjct: 3   PLRKFKLVFLGEQSVGKTSLITRFMYDSFDNTYQATIGIDFLSKTMYLED-RTVRLQLWD 61
Query: 127 IAG 129
            AG
Sbjct: 62  TAG 64

>pdb|1OIW|A Chain A, X-ray Structure Of The Small G Protein Rab11a In Complex With Gtpgammas Length = 191

Iteration: 1
 Score = 60.5 bits (145), Expect = 3e-10,   Method: Compositional matrix adjust.
 Identities = 27/60 (45%), Positives = 42/60 (70%), Gaps = 1/60 (1%)
Query: 70  LFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAG 129
           LFKV++IGD  VGK++ + R+ +N F  + K T+GV+FA + ++  D + IK Q+WD AG
Sbjct: 29  LFKVVLIGDSGVGKSNLLSRFTRNEFNLESKSTIGVEFATRSIQV-DGKTIKAQIWDTAG 87

>pdb|2HV8|A Chain A, Crystal Structure Of Gtp-Bound Rab11 In Complex With Fip3 Length = 172

Iteration: 1
 Score = 60.5 bits (145), Expect = 3e-10,   Method: Compositional matrix adjust.
 Identities = 27/60 (45%), Positives = 42/60 (70%), Gaps = 1/60 (1%)
Query: 70  LFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAG 129
           LFKV++IGD  VGK++ + R+ +N F  + K T+GV+FA + ++  D + IK Q+WD AG
Sbjct: 8   LFKVVLIGDSGVGKSNLLSRFTRNEFNLESKSTIGVEFATRSIQV-DGKTIKAQIWDTAG 66

>pdb|2GZD|A Chain A, Crystal Structure Of Rab11 In Complex With Rab11-Fip2 Length = 173

Iteration: 1
 Score = 60.5 bits (145), Expect = 3e-10,   Method: Compositional matrix adjust.
 Identities = 27/60 (45%), Positives = 42/60 (70%), Gaps = 1/60 (1%)
Query: 70  LFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAG 129
           LFKV++IGD  VGK++ + R+ +N F  + K T+GV+FA + ++  D + IK Q+WD AG
Sbjct: 11  LFKVVLIGDSGVGKSNLLSRFTRNEFNLESKSTIGVEFATRSIQV-DGKTIKAQIWDTAG 69

>pdb|2D7C|A Chain A, Crystal Structure Of Human Rab11 In Complex With Fip3 Rab- Binding Domain Length = 167

Iteration: 1
 Score = 60.5 bits (145), Expect = 3e-10,   Method: Compositional matrix adjust.
 Identities = 27/60 (45%), Positives = 42/60 (70%), Gaps = 1/60 (1%)
Query: 70  LFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAG 129
           LFKV++IGD  VGK++ + R+ +N F  + K T+GV+FA + ++  D + IK Q+WD AG
Sbjct: 5   LFKVVLIGDSGVGKSNLLSRFTRNEFNLESKSTIGVEFATRSIQV-DGKTIKAQIWDTAG 63

>pdb|1D5C|A Chain A, Crystal Structure Of Plasmodium Falciparum Rab6 Complexed With Gdp Length = 162

Iteration: 1
 Score = 60.5 bits (145), Expect = 3e-10,   Method: Compositional matrix adjust.
 Identities = 25/60 (41%), Positives = 42/60 (70%), Gaps = 1/60 (1%)
Query: 71  FKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQ 130
           +K++ +G+  VGKTS + R+  +TF  +Y+ T+G+DF  K + + D+  ++LQLWD AGQ
Sbjct: 2   YKLVFLGEQAVGKTSIITRFXYDTFDNNYQSTIGIDFLSKTL-YLDEGPVRLQLWDTAGQ 60

>pdb|3BBP|A Chain A, Rab6-Gtp:gcc185 Rab Binding Domain Complex Length = 211

Iteration: 1
 Score = 60.1 bits (144), Expect = 3e-10,   Method: Compositional matrix adjust.
 Identities = 25/63 (39%), Positives = 43/63 (68%), Gaps = 1/63 (1%)
Query: 67  PEKLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWD 126
           P + FK++ +G+ +VGKTS + R++ ++F   Y+ T+G+DF  K +   D + ++LQLWD
Sbjct: 13  PLRKFKLVFLGEQSVGKTSLITRFMYDSFDNTYQATIGIDFLSKTMYLED-RTVRLQLWD 71
Query: 127 IAG 129
            AG
Sbjct: 72  TAG 74

>pdb|1Z0F|A Chain A, Gdp-Bound Rab14 Gtpase Length = 179

Iteration: 1
 Score = 59.7 bits (143), Expect = 4e-10,   Method: Compositional matrix adjust.
 Identities = 27/61 (44%), Positives = 40/61 (65%), Gaps = 1/61 (1%)
Query: 70  LFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAG 129
           +FK I+IGD  VGK+  + ++ +  F  D   T+GV+F  +I++    QKIKLQ+WD AG
Sbjct: 15  IFKYIIIGDMGVGKSCLLHQFTEKKFMADCPHTIGVEFGTRIIEVSG-QKIKLQIWDTAG 73
Query: 130 Q 130
           Q
Sbjct: 74  Q 74

>pdb|4DRZ|A Chain A, Crystal Structure Of Human Rab14 Length = 196

Iteration: 1
 Score = 59.7 bits (143), Expect = 4e-10,   Method: Compositional matrix adjust.
 Identities = 27/62 (43%), Positives = 40/62 (64%), Gaps = 1/62 (1%)
Query: 70  LFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAG 129
           +FK I+IGD  VGK+  + ++ +  F  D   T+GV+F  +I++    QKIKLQ+WD AG
Sbjct: 30  IFKYIIIGDMGVGKSCLLHQFTEKKFMADCPHTIGVEFGTRIIEVSG-QKIKLQIWDTAG 88
Query: 130 QN 131
           Q 
Sbjct: 89  QG 90

>pdb|2HXS|A Chain A, Crystal Structure Of Rab28a Gtpase In The Inactive (Gdp-3'p- Bound) Form Length = 178

Iteration: 1
 Score = 59.3 bits (142), Expect = 5e-10,   Method: Compositional matrix adjust.
 Identities = 26/60 (43%), Positives = 36/60 (60%)
Query: 71  FKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQ 130
            K++V+GD   GKTS    + Q TF K YK T+G+DF L+ +       + LQ+WDI GQ
Sbjct: 7   LKIVVLGDGASGKTSLTTCFAQETFGKQYKQTIGLDFFLRRITLPGNLNVTLQIWDIGGQ 66

>pdb|1T91|A Chain A, Crystal Structure Of Human Small Gtpase Rab7(Gtp) Length = 207

Iteration: 1
 Score = 59.3 bits (142), Expect = 6e-10,   Method: Compositional matrix adjust.
 Identities = 28/60 (46%), Positives = 37/60 (61%), Gaps = 1/60 (1%)
Query: 70  LFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAG 129
           L KVI++GD  VGKTS + +YV   F   YK T+G DF  K V   D + + +Q+WD AG
Sbjct: 8   LLKVIILGDSGVGKTSLMNQYVNKKFSNQYKATIGADFLTKEV-MVDDRLVTMQIWDTAG 66

>pdb|2O52|A Chain A, Crystal Structure Of Human Rab4b In Complex With Gdp Length = 200

Iteration: 1
 Score = 58.9 bits (141), Expect = 7e-10,   Method: Compositional matrix adjust.
 Identities = 25/61 (40%), Positives = 40/61 (65%), Gaps = 1/61 (1%)
Query: 70  LFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAG 129
           LFK +VIG    GK+  + ++++N FK+D   T+GV+F  ++V     + +KLQ+WD AG
Sbjct: 25  LFKFLVIGSAGTGKSCLLHQFIENKFKQDSNHTIGVEFGSRVVNV-GGKTVKLQIWDTAG 83
Query: 130 Q 130
           Q
Sbjct: 84  Q 84

>pdb|4FMD|F Chain F, Espg-Rab1 Complex Structure At 3.05 A Length = 164

Iteration: 1
 Score = 58.9 bits (141), Expect = 7e-10,   Method: Compositional matrix adjust.
 Identities = 25/59 (42%), Positives = 41/59 (69%), Gaps = 1/59 (1%)
Query: 72  KVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQ 130
           K+++IGD  VGK+  + R+  +T+ + Y  T+GVDF ++ ++  D + IKLQ+WD AGQ
Sbjct: 1   KLLLIGDSGVGKSCLLLRFADDTYTESYISTIGVDFKIRTIEL-DGKTIKLQIWDTAGQ 58

>pdb|3CPH|A Chain A, Crystal Structure Of Sec4 In Complex With Rab-Gdi Length = 213

Iteration: 1
 Score = 58.5 bits (140), Expect = 9e-10,   Method: Compositional matrix adjust.
 Identities = 28/77 (36%), Positives = 46/77 (59%), Gaps = 1/77 (1%)
Query: 54  VRVPSIRKSFNAPPEKLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVK 113
           +R  S         + + K+++IGD  VGK+  + R+V++ F   +  T+G+DF +K V 
Sbjct: 4   LRTVSASSGNGKSYDSIMKILLIGDSGVGKSCLLVRFVEDKFNPSFITTIGIDFKIKTVD 63
Query: 114 WRDQQKIKLQLWDIAGQ 130
             + +K+KLQLWD AGQ
Sbjct: 64  I-NGKKVKLQLWDTAGQ 79

>pdb|3RWM|B Chain B, Crystal Structure Of Ypt32 In Complex With Gppnhp Length = 185

Iteration: 1
 Score = 58.5 bits (140), Expect = 9e-10,   Method: Compositional matrix adjust.
 Identities = 25/60 (41%), Positives = 42/60 (70%), Gaps = 1/60 (1%)
Query: 70  LFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAG 129
           LFK+++IGD  VGK++ + R+  + F  + K T+GV+FA + ++  + +KIK Q+WD AG
Sbjct: 10  LFKIVLIGDSGVGKSNLLSRFTTDEFNIESKSTIGVEFATRTIEV-ENKKIKAQIWDTAG 68

>pdb|2EQB|A Chain A, Crystal Structure Of The Rab Gtpase Sec4p, The Sec2p Gef Domain, And Phosphate Complex Length = 174

Iteration: 1
 Score = 57.8 bits (138), Expect = 2e-09,   Method: Compositional matrix adjust.
 Identities = 26/61 (42%), Positives = 42/61 (68%), Gaps = 1/61 (1%)
Query: 70  LFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAG 129
           + K+++IGD  VGK+  + R+V++ F   +  T+G+DF +K V   + +K+KLQLWD AG
Sbjct: 7   IMKILLIGDSGVGKSCLLVRFVEDKFNPSFITTIGIDFKIKTVDI-NGKKVKLQLWDTAG 65
Query: 130 Q 130
           Q
Sbjct: 66  Q 66

>pdb|1S8F|A Chain A, Crystal Structure Of Rab9 Complexed To Gdp Reveals A Dimer With An Active Conformation Of Switch Ii Length = 177

Iteration: 1
 Score = 57.0 bits (136), Expect = 3e-09,   Method: Compositional matrix adjust.
 Identities = 29/66 (43%), Positives = 40/66 (60%), Gaps = 1/66 (1%)
Query: 65  APPEKLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQL 124
           A    LFKVI++GD  VGK+S + RYV N F      T+GV+F  K ++  D   + +Q+
Sbjct: 4   AGKSSLFKVILLGDGGVGKSSLMNRYVTNKFDTQLFHTIGVEFLNKDLE-VDGHFVTMQI 62
Query: 125 WDIAGQ 130
           WD AGQ
Sbjct: 63  WDTAGQ 68

>pdb|2OCY|C Chain C, Complex Of The Guanine Exchange Factor Sec2p And The Rab Gtpase Sec4p Length = 170

Iteration: 1
 Score = 57.0 bits (136), Expect = 3e-09,   Method: Compositional matrix adjust.
 Identities = 26/63 (41%), Positives = 43/63 (68%), Gaps = 1/63 (1%)
Query: 68  EKLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDI 127
           + + K+++IGD  VGK+  + R+V++ F   +  T+G+DF +K V   + +K+KLQLWD 
Sbjct: 1   DSIXKILLIGDSGVGKSCLLVRFVEDKFNPSFITTIGIDFKIKTVDI-NGKKVKLQLWDT 59
Query: 128 AGQ 130
           AGQ
Sbjct: 60  AGQ 62

>pdb|1WMS|A Chain A, High Resolution Crystal Structure Of Human Rab9 Gtpase: A Novel Antiviral Drug Target Length = 177

Iteration: 1
 Score = 57.0 bits (136), Expect = 3e-09,   Method: Compositional matrix adjust.
 Identities = 29/66 (43%), Positives = 40/66 (60%), Gaps = 1/66 (1%)
Query: 65  APPEKLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQL 124
           A    LFKVI++GD  VGK+S + RYV N F      T+GV+F  K ++  D   + +Q+
Sbjct: 2   AGKSSLFKVILLGDGGVGKSSLMNRYVTNKFDTQLFHTIGVEFLNKDLE-VDGHFVTMQI 60
Query: 125 WDIAGQ 130
           WD AGQ
Sbjct: 61  WDTAGQ 66

>pdb|1G17|A Chain A, Crystal Structure Of Sec4-Guanosine-5'-(Beta,Gamma)- Imidotriphosphate Length = 170

Iteration: 1
 Score = 57.0 bits (136), Expect = 3e-09,   Method: Compositional matrix adjust.
 Identities = 25/63 (39%), Positives = 43/63 (68%), Gaps = 1/63 (1%)
Query: 68  EKLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDI 127
           + + K+++IGD  VGK+  + R+V++ F   +  T+G+DF +K V   + +K+KLQ+WD 
Sbjct: 1   DSIMKILLIGDSGVGKSCLLVRFVEDKFNPSFITTIGIDFKIKTVDI-NGKKVKLQIWDT 59
Query: 128 AGQ 130
           AGQ
Sbjct: 60  AGQ 62

>pdb|1YZL|A Chain A, Gppnhp-Bound Rab9 Gtpase Length = 179

Iteration: 1
 Score = 57.0 bits (136), Expect = 3e-09,   Method: Compositional matrix adjust.
 Identities = 28/67 (41%), Positives = 41/67 (61%), Gaps = 1/67 (1%)
Query: 64  NAPPEKLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQ 123
           +A    LFK+I++GD  VGK+S + RYV N F      T+GV+F  K ++  D   + +Q
Sbjct: 5   SAGKSSLFKIILLGDGGVGKSSLMNRYVTNKFDSQLFHTIGVEFLNKDLE-VDGHFVTMQ 63
Query: 124 LWDIAGQ 130
           +WD AGQ
Sbjct: 64  IWDTAGQ 70

>pdb|2F7S|A Chain A, The Crystal Structure Of Human Rab27b Bound To Gdp Length = 217

Iteration: 1
 Score = 56.6 bits (135), Expect = 3e-09,   Method: Compositional matrix adjust.
 Identities = 30/70 (42%), Positives = 39/70 (55%), Gaps = 9/70 (12%)
Query: 70  LFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQ---------KI 120
           L K++ +GD  VGKT+F+ RY  N F   +  TVG+DF  K V +  Q          K+
Sbjct: 25  LIKLLALGDSGVGKTTFLYRYTDNKFNPKFITTVGIDFREKRVVYNAQGPNGSSGKAFKV 84
Query: 121 KLQLWDIAGQ 130
            LQLWD AGQ
Sbjct: 85  HLQLWDTAGQ 94

>pdb|3TSO|A Chain A, Structure Of The Cancer Associated Rab25 Protein In Complex With Fip2 Length = 178

Iteration: 1
 Score = 56.6 bits (135), Expect = 4e-09,   Method: Compositional matrix adjust.
 Identities = 24/60 (40%), Positives = 39/60 (65%), Gaps = 1/60 (1%)
Query: 70  LFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAG 129
           +FKV++IG+  VGKT+ + R+ +N F  D + T+GV+F+ + V       +K Q+WD AG
Sbjct: 10  VFKVVLIGESGVGKTNLLSRFTRNEFSHDSRTTIGVEFSTRTVML-GTAAVKAQIWDTAG 68

>pdb|2BMD|A Chain A, High Resolution Structure Of Gdp-Bound Human Rab4a Length = 186

Iteration: 1
 Score = 56.6 bits (135), Expect = 4e-09,   Method: Compositional matrix adjust.
 Identities = 25/61 (40%), Positives = 39/61 (63%), Gaps = 1/61 (1%)
Query: 70  LFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAG 129
           LFK +VIG+   GK+  + ++++  FK D   T+GV+F  KI+     + +KLQ+WD AG
Sbjct: 10  LFKFLVIGNAGTGKSCLLHQFIEKKFKDDSNHTIGVEFGSKIINV-GGKYVKLQIWDTAG 68
Query: 130 Q 130
           Q
Sbjct: 69  Q 69

>pdb|4FMC|F Chain F, Espg-Rab1 Complex Length = 117

Iteration: 1
 Score = 56.6 bits (135), Expect = 4e-09,   Method: Compositional matrix adjust.
 Identities = 24/58 (41%), Positives = 40/58 (68%), Gaps = 1/58 (1%)
Query: 73  VIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQ 130
           +++IGD  VGK+  + R+  +T+ + Y  T+GVDF ++ ++  D + IKLQ+WD AGQ
Sbjct: 1   LLLIGDSGVGKSCLLLRFADDTYTESYISTIGVDFKIRTIEL-DGKTIKLQIWDTAGQ 57

>pdb|2OIL|A Chain A, Crystal Structure Of Human Rab25 In Complex With Gdp Length = 193

Iteration: 1
 Score = 56.6 bits (135), Expect = 4e-09,   Method: Compositional matrix adjust.
 Identities = 24/60 (40%), Positives = 39/60 (65%), Gaps = 1/60 (1%)
Query: 70  LFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAG 129
           +FKV++IG+  VGKT+ + R+ +N F  D + T+GV+F+ + V       +K Q+WD AG
Sbjct: 25  VFKVVLIGESGVGKTNLLSRFTRNEFSHDSRTTIGVEFSTRTVML-GTAAVKAQIWDTAG 83

>pdb|1YU9|A Chain A, Gppnhp-Bound Rab4a Length = 175

Iteration: 1
 Score = 56.2 bits (134), Expect = 5e-09,   Method: Compositional matrix adjust.
 Identities = 25/61 (40%), Positives = 39/61 (63%), Gaps = 1/61 (1%)
Query: 70  LFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAG 129
           LFK +VIG+   GK+  + ++++  FK D   T+GV+F  KI+     + +KLQ+WD AG
Sbjct: 11  LFKFLVIGNAGTGKSCLLHQFIEKKFKDDSNHTIGVEFGSKIINV-GGKYVKLQIWDTAG 69
Query: 130 Q 130
           Q
Sbjct: 70  Q 70

>pdb|1G16|A Chain A, Crystal Structure Of Sec4-Gdp Length = 170

Iteration: 1
 Score = 55.8 bits (133), Expect = 6e-09,   Method: Compositional matrix adjust.
 Identities = 25/63 (39%), Positives = 43/63 (68%), Gaps = 1/63 (1%)
Query: 68  EKLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDI 127
           + + K+++IGD  VGK+  + R+V++ F   +  T+G+DF +K V   + +K+KLQ+WD 
Sbjct: 1   DSIXKILLIGDSGVGKSCLLVRFVEDKFNPSFITTIGIDFKIKTVDI-NGKKVKLQIWDT 59
Query: 128 AGQ 130
           AGQ
Sbjct: 60  AGQ 62

>pdb|3GJ0|A Chain A, Crystal Structure Of Human Rangdp Length = 221

Iteration: 1
 Score = 55.5 bits (132), Expect = 8e-09,   Method: Compositional matrix adjust.
 Identities = 26/74 (35%), Positives = 44/74 (59%), Gaps = 1/74 (1%)
Query: 57  PSIRKSFNAPPEKLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRD 116
           P +  +    P+  FK++++GD   GKT+FV+R++   F+K Y  T+GV+    +V   +
Sbjct: 2   PHMASAAQGEPQVQFKLVLVGDGGTGKTTFVKRHLTGEFEKKYVATLGVEVH-PLVFHTN 60
Query: 117 QQKIKLQLWDIAGQ 130
           +  IK  +WD AGQ
Sbjct: 61  RGPIKFNVWDTAGQ 74

>pdb|1X3S|A Chain A, Crystal Structure Of Human Rab18 In Complex With Gppnhp Length = 195

Iteration: 1
 Score = 55.1 bits (131), Expect = 1e-08,   Method: Compositional matrix adjust.
 Identities = 25/60 (41%), Positives = 38/60 (63%), Gaps = 1/60 (1%)
Query: 71  FKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQ 130
            K+++IG+  VGK+S + R+  +TF  +   T+GVDF +K +   D  K KL +WD AGQ
Sbjct: 16  LKILIIGESGVGKSSLLLRFTDDTFDPELAATIGVDFKVKTISV-DGNKAKLAIWDTAGQ 74

>pdb|2IEZ|A Chain A, Crystal Structure Of Mouse Rab27b Bound To Gdp In Monoclinic Space Group Length = 220

Iteration: 1
 Score = 54.7 bits (130), Expect = 1e-08,   Method: Compositional matrix adjust.
 Identities = 29/69 (42%), Positives = 38/69 (55%), Gaps = 9/69 (13%)
Query: 70  LFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQ---------KI 120
           L K++ +GD  VGKT+F+ RY  N F   +  TVG+DF  K V +  Q          K+
Sbjct: 11  LIKLLALGDSGVGKTTFLYRYTDNKFNPKFITTVGIDFREKRVVYDTQGADGASGKAFKV 70
Query: 121 KLQLWDIAG 129
            LQLWD AG
Sbjct: 71  HLQLWDTAG 79

>pdb|2A5J|A Chain A, Crystal Structure Of Human Rab2b Length = 191

Iteration: 1
 Score = 54.7 bits (130), Expect = 1e-08,   Method: Compositional matrix adjust.
 Identities = 26/61 (42%), Positives = 40/61 (65%), Gaps = 1/61 (1%)
Query: 70  LFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAG 129
           LFK I+IGD  VGK+  + ++    F+  +  T+GV+F  ++V   D ++IKLQ+WD AG
Sbjct: 21  LFKYIIIGDTGVGKSCLLLQFTDKRFQPVHDLTIGVEFGARMVNI-DGKQIKLQIWDTAG 79
Query: 130 Q 130
           Q
Sbjct: 80  Q 80

>pdb|2IF0|A Chain A, Crystal Structure Of Mouse Rab27b Bound To Gdp In Monoclinic Space Group Length = 200

Iteration: 1
 Score = 54.7 bits (130), Expect = 2e-08,   Method: Compositional matrix adjust.
 Identities = 29/69 (42%), Positives = 38/69 (55%), Gaps = 9/69 (13%)
Query: 70  LFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQ---------KI 120
           L K++ +GD  VGKT+F+ RY  N F   +  TVG+DF  K V +  Q          K+
Sbjct: 11  LIKLLALGDSGVGKTTFLYRYTDNKFNPKFITTVGIDFREKRVVYDTQGADGASGKAFKV 70
Query: 121 KLQLWDIAG 129
            LQLWD AG
Sbjct: 71  HLQLWDTAG 79

>pdb|2IEY|A Chain A, Crystal Structure Of Mouse Rab27b Bound To Gdp In Hexagonal Space Group Length = 195

Iteration: 1
 Score = 54.3 bits (129), Expect = 2e-08,   Method: Compositional matrix adjust.
 Identities = 29/69 (42%), Positives = 38/69 (55%), Gaps = 9/69 (13%)
Query: 70  LFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQ---------KI 120
           L K++ +GD  VGKT+F+ RY  N F   +  TVG+DF  K V +  Q          K+
Sbjct: 11  LIKLLALGDSGVGKTTFLYRYTDNKFNPKFITTVGIDFREKRVVYDTQGADGASGKAFKV 70
Query: 121 KLQLWDIAG 129
            LQLWD AG
Sbjct: 71  HLQLWDTAG 79

>pdb|2ZET|A Chain A, Crystal Structure Of The Small Gtpase Rab27b Complexed With The Slp Homology Domain Of Slac2-AMELANOPHILIN Length = 203

Iteration: 1
 Score = 54.3 bits (129), Expect = 2e-08,   Method: Compositional matrix adjust.
 Identities = 29/69 (42%), Positives = 38/69 (55%), Gaps = 9/69 (13%)
Query: 70  LFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQ---------KI 120
           L K++ +GD  VGKT+F+ RY  N F   +  TVG+DF  K V +  Q          K+
Sbjct: 11  LIKLLALGDSGVGKTTFLYRYTDNKFNPKFITTVGIDFREKRVVYDTQGADGASGKAFKV 70
Query: 121 KLQLWDIAG 129
            LQLWD AG
Sbjct: 71  HLQLWDTAG 79

>pdb|1Z0A|A Chain A, Gdp-Bound Rab2a Gtpase Length = 174

Iteration: 1
 Score = 54.3 bits (129), Expect = 2e-08,   Method: Compositional matrix adjust.
 Identities = 25/61 (40%), Positives = 40/61 (65%), Gaps = 1/61 (1%)
Query: 70  LFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAG 129
           LFK I+IGD  VGK+  + ++    F+  +  T+GV+F  +++   D ++IKLQ+WD AG
Sbjct: 10  LFKYIIIGDTGVGKSCLLLQFTDKRFQPVHDLTIGVEFGARMITI-DGKQIKLQIWDTAG 68
Query: 130 Q 130
           Q
Sbjct: 69  Q 69

>pdb|1Z0K|A Chain A, Structure Of Gtp-Bound Rab4q67l Gtpase In Complex With The Central Rab Binding Domain Of Rabenosyn-5 Length = 172

Iteration: 1
 Score = 53.9 bits (128), Expect = 2e-08,   Method: Compositional matrix adjust.
 Identities = 24/60 (40%), Positives = 38/60 (63%), Gaps = 1/60 (1%)
Query: 70  LFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAG 129
           LFK +VIG+   GK+  + ++++  FK D   T+GV+F  KI+     + +KLQ+WD AG
Sbjct: 8   LFKFLVIGNAGTGKSCLLHQFIEKKFKDDSNHTIGVEFGSKIINV-GGKYVKLQIWDTAG 66

>pdb|1QG2|A Chain A, Canine Gdp-Ran R76e Mutant Length = 216

Iteration: 1
 Score = 53.1 bits (126), Expect = 5e-08,   Method: Compositional matrix adjust.
 Identities = 25/64 (39%), Positives = 41/64 (64%), Gaps = 1/64 (1%)
Query: 67  PEKLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWD 126
           P+  FK++++GD   GKT+FV+R++   F+K Y  T+GV+    +V   ++  IK  +WD
Sbjct: 7   PQVQFKLVLVGDGGTGKTTFVKRHLTGEFEKKYVATLGVEVH-PLVFHTNRGPIKFNVWD 65
Query: 127 IAGQ 130
            AGQ
Sbjct: 66  TAGQ 69

>pdb|1A2K|C Chain C, Gdpran-Ntf2 Complex Length = 216

Iteration: 1
 Score = 53.1 bits (126), Expect = 5e-08,   Method: Compositional matrix adjust.
 Identities = 25/64 (39%), Positives = 41/64 (64%), Gaps = 1/64 (1%)
Query: 67  PEKLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWD 126
           P+  FK++++GD   GKT+FV+R++   F+K Y  T+GV+    +V   ++  IK  +WD
Sbjct: 7   PQVQFKLVLVGDGGTGKTTFVKRHLTGEFEKKYVATLGVEVH-PLVFHTNRGPIKFNVWD 65
Query: 127 IAGQ 130
            AGQ
Sbjct: 66  TAGQ 69

>pdb|2OCB|A Chain A, Crystal Structure Of Human Rab9b In Complex With A Gtp Analogue Length = 180

Iteration: 1
 Score = 53.1 bits (126), Expect = 5e-08,   Method: Compositional matrix adjust.
 Identities = 27/61 (44%), Positives = 39/61 (63%), Gaps = 1/61 (1%)
Query: 70  LFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAG 129
           L KVI++GD  VGK+S + RYV N F      T+GV+F  + ++  D + + LQ+WD AG
Sbjct: 7   LLKVILLGDGGVGKSSLMNRYVTNKFDSQAFHTIGVEFLNRDLE-VDGRFVTLQIWDTAG 65
Query: 130 Q 130
           Q
Sbjct: 66  Q 66

>pdb|3EA5|A Chain A, Kap95p Binding Induces The Switch Loops Of Rangdp To Adopt The Gtp- Bound Conformation: Implications For Nuclear Import Complex Assembly Dynamics Length = 216

Iteration: 1
 Score = 53.1 bits (126), Expect = 5e-08,   Method: Compositional matrix adjust.
 Identities = 25/64 (39%), Positives = 41/64 (64%), Gaps = 1/64 (1%)
Query: 67  PEKLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWD 126
           P+  FK++++GD   GKT+FV+R++   F+K Y  T+GV+    +V   ++  IK  +WD
Sbjct: 7   PQVQFKLVLVGDGGTGKTTFVKRHLTGEFEKKYVATLGVEVH-PLVFHTNRGPIKFNVWD 65
Query: 127 IAGQ 130
            AGQ
Sbjct: 66  TAGQ 69

>pdb|1QG4|A Chain A, Canine Gdp-Ran F72y Mutant Length = 216

Iteration: 1
 Score = 52.8 bits (125), Expect = 5e-08,   Method: Compositional matrix adjust.
 Identities = 25/64 (39%), Positives = 41/64 (64%), Gaps = 1/64 (1%)
Query: 67  PEKLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWD 126
           P+  FK++++GD   GKT+FV+R++   F+K Y  T+GV+    +V   ++  IK  +WD
Sbjct: 7   PQVQFKLVLVGDGGTGKTTFVKRHLTGEFEKKYVATLGVEVH-PLVFHTNRGPIKFNVWD 65
Query: 127 IAGQ 130
            AGQ
Sbjct: 66  TAGQ 69

>pdb|1QBK|C Chain C, Structure Of The Karyopherin Beta2-ran Gppnhp Nuclear Transport Complex Length = 216

Iteration: 1
 Score = 52.8 bits (125), Expect = 5e-08,   Method: Compositional matrix adjust.
 Identities = 25/64 (39%), Positives = 41/64 (64%), Gaps = 1/64 (1%)
Query: 67  PEKLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWD 126
           P+  FK++++GD   GKT+FV+R++   F+K Y  T+GV+    +V   ++  IK  +WD
Sbjct: 7   PQVQFKLVLVGDGGTGKTTFVKRHLTGEFEKKYVATLGVEVH-PLVFHTNRGPIKFNVWD 65
Query: 127 IAGQ 130
            AGQ
Sbjct: 66  TAGQ 69

>pdb|1WA5|A Chain A, Crystal Structure Of The Exportin Cse1p Complexed With Its Cargo (Kap60p) And Rangtp Length = 176

Iteration: 1
 Score = 52.4 bits (124), Expect = 7e-08,   Method: Compositional matrix adjust.
 Identities = 25/66 (37%), Positives = 41/66 (62%), Gaps = 1/66 (1%)
Query: 65  APPEKLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQL 124
             P+  FK++++GD   GKT+FV+R++   F+K Y  T+GV+    +V   ++  IK  +
Sbjct: 5   GEPQVQFKLVLVGDGGTGKTTFVKRHLTGEFEKKYVATLGVE-VHPLVFHTNRGPIKFNV 63
Query: 125 WDIAGQ 130
           WD AGQ
Sbjct: 64  WDTAGQ 69

>pdb|2G6B|A Chain A, Crystal Structure Of Human Rab26 In Complex With A Gtp Analogue Length = 180

Iteration: 1
 Score = 52.0 bits (123), Expect = 9e-08,   Method: Compositional matrix adjust.
 Identities = 27/61 (44%), Positives = 38/61 (62%), Gaps = 2/61 (3%)
Query: 71  FKVIVIGDPTVGKTSFVQRYVQNTF-KKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAG 129
           FKV+++GD  VGKT  + R+    F    +  TVG+DF  K++   D  K+KLQ+WD AG
Sbjct: 11  FKVMLVGDSGVGKTCLLVRFKDGAFLAGTFISTVGIDFRNKVLDV-DGVKVKLQMWDTAG 69
Query: 130 Q 130
           Q
Sbjct: 70  Q 70

>pdb|3GJ4|A Chain A, Crystal Structure Of Human Rangdp-Nup153znf3 Complex Length = 221

Iteration: 1
 Score = 52.0 bits (123), Expect = 1e-07,   Method: Compositional matrix adjust.
 Identities = 25/74 (33%), Positives = 43/74 (58%), Gaps = 1/74 (1%)
Query: 57  PSIRKSFNAPPEKLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRD 116
           P +  +    P+  FK++++GD   GKT+FV+R++    +K Y  T+GV+    +V   +
Sbjct: 2   PHMASAAQGEPQVQFKLVLVGDGGTGKTTFVKRHLTGESEKKYVATLGVEVH-PLVFHTN 60
Query: 117 QQKIKLQLWDIAGQ 130
           +  IK  +WD AGQ
Sbjct: 61  RGPIKFNVWDTAGQ 74

>pdb|3BC1|A Chain A, Crystal Structure Of The Complex Rab27a-slp2a Length = 195

Iteration: 1
 Score = 51.6 bits (122), Expect = 1e-07,   Method: Compositional matrix adjust.
 Identities = 28/69 (40%), Positives = 36/69 (52%), Gaps = 9/69 (13%)
Query: 70  LFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQ---------QKI 120
           L K + +GD  VGKTS + +Y    F   +  TVG+DF  K V +R           Q+I
Sbjct: 11  LIKFLALGDSGVGKTSVLYQYTDGKFNSKFITTVGIDFREKRVVYRANGPDGAVGRGQRI 70
Query: 121 KLQLWDIAG 129
            LQLWD AG
Sbjct: 71  HLQLWDTAG 79

>pdb|1BYU|A Chain A, Canine Gdp-Ran Length = 216

Iteration: 1
 Score = 51.6 bits (122), Expect = 1e-07,   Method: Compositional matrix adjust.
 Identities = 25/64 (39%), Positives = 41/64 (64%), Gaps = 1/64 (1%)
Query: 67  PEKLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWD 126
           P+  FK++++GD   GKT+FV+R++   F+K Y  T+GV+    +V   ++  IK  +WD
Sbjct: 7   PQVQFKLVLVGDGGTGKTTFVKRHLTGEFEKKYVPTLGVEVH-PLVFHTNRGPIKFNVWD 65
Query: 127 IAGQ 130
            AGQ
Sbjct: 66  TAGQ 69

>pdb|1Z08|A Chain A, Gppnhp-Bound Rab21 Q53g Mutant Gtpase Length = 170

Iteration: 1
 Score = 51.6 bits (122), Expect = 1e-07,   Method: Compositional matrix adjust.
 Identities = 24/60 (40%), Positives = 36/60 (60%), Gaps = 1/60 (1%)
Query: 71  FKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQ 130
           FKV+++G+  VGKTS V RY +N F   +  T+G  F  K +     +++ L +WD AGQ
Sbjct: 7   FKVVLLGEGCVGKTSLVLRYCENKFNDKHITTLGASFLTKKLNI-GGKRVNLAIWDTAGQ 65

>pdb|1RRP|A Chain A, Structure Of The Ran-Gppnhp-Ranbd1 Complex Length = 204

Iteration: 1
 Score = 51.6 bits (122), Expect = 1e-07,   Method: Compositional matrix adjust.
 Identities = 24/60 (40%), Positives = 39/60 (65%), Gaps = 1/60 (1%)
Query: 71  FKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQ 130
           FK++++GD   GKT+FV+R++   F+K Y  T+GV+    +V   ++  IK  +WD AGQ
Sbjct: 4   FKLVLVGDGGTGKTTFVKRHLTGEFEKKYVATLGVEVH-PLVFHTNRGPIKFNVWDTAGQ 62

>pdb|3RAN|A Chain A, Canine Gdp-Ran Q69l Mutant Length = 216

Iteration: 1
 Score = 50.8 bits (120), Expect = 2e-07,   Method: Compositional matrix adjust.
 Identities = 24/63 (38%), Positives = 40/63 (63%), Gaps = 1/63 (1%)
Query: 67  PEKLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWD 126
           P+  FK++++GD   GKT+FV+R++   F+K Y  T+GV+    +V   ++  IK  +WD
Sbjct: 7   PQVQFKLVLVGDGGTGKTTFVKRHLTGEFEKKYVATLGVEVH-PLVFHTNRGPIKFNVWD 65
Query: 127 IAG 129
            AG
Sbjct: 66  TAG 68

>pdb|2BKU|A Chain A, Kap95p:rangtp Complex Length = 177

Iteration: 1
 Score = 50.8 bits (120), Expect = 2e-07,   Method: Compositional matrix adjust.
 Identities = 25/66 (37%), Positives = 41/66 (62%), Gaps = 1/66 (1%)
Query: 65  APPEKLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQL 124
             P+  FK++++GD   GKT+FV+R++   F+K Y  T+GV+    +V   ++  IK  +
Sbjct: 5   GEPQVQFKLVLVGDGGTGKTTFVKRHLTGEFEKKYVPTLGVE-VHPLVFHTNRGPIKFNV 63
Query: 125 WDIAGQ 130
           WD AGQ
Sbjct: 64  WDTAGQ 69

>pdb|3NC1|C Chain C, Crystal Structure Of The Crm1-Rangtp Complex Length = 182

Iteration: 1
 Score = 50.4 bits (119), Expect = 2e-07,   Method: Compositional matrix adjust.
 Identities = 24/65 (36%), Positives = 40/65 (61%), Gaps = 1/65 (1%)
Query: 65  APPEKLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQL 124
             P+  FK++++GD   GKT+FV+R++   F+K Y  T+GV+    +V   ++  IK  +
Sbjct: 7   GEPQVQFKLVLVGDGGTGKTTFVKRHLTGEFEKKYVATLGVE-VHPLVFHTNRGPIKFNV 65
Query: 125 WDIAG 129
           WD AG
Sbjct: 66  WDTAG 70

>pdb|3NBY|C Chain C, Crystal Structure Of The Pki Nes-Crm1-Rangtp Nuclear Export Complex Length = 176

Iteration: 1
 Score = 50.4 bits (119), Expect = 3e-07,   Method: Compositional matrix adjust.
 Identities = 24/65 (36%), Positives = 40/65 (61%), Gaps = 1/65 (1%)
Query: 65  APPEKLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQL 124
             P+  FK++++GD   GKT+FV+R++   F+K Y  T+GV+    +V   ++  IK  +
Sbjct: 1   GEPQVQFKLVLVGDGGTGKTTFVKRHLTGEFEKKYVATLGVE-VHPLVFHTNRGPIKFNV 59
Query: 125 WDIAG 129
           WD AG
Sbjct: 60  WDTAG 64

>pdb|1TU3|A Chain A, Crystal Structure Of Rab5 Complex With Rabaptin5 C-Terminal Domain Length = 171

Iteration: 1
 Score = 50.4 bits (119), Expect = 3e-07,   Method: Compositional matrix adjust.
 Identities = 22/60 (36%), Positives = 37/60 (61%), Gaps = 1/60 (1%)
Query: 71  FKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQ 130
           FK++++G+  VGK+S V R+V+  F +  + T+G  F  + V   D   +K ++WD AGQ
Sbjct: 8   FKLVLLGESAVGKSSLVLRFVKGQFHEFQESTIGAAFLTQTV-CLDDTTVKFEIWDTAGQ 66

>pdb|1N6H|A Chain A, Crystal Structure Of Human Rab5a Length = 170

Iteration: 1
 Score = 50.4 bits (119), Expect = 3e-07,   Method: Compositional matrix adjust.
 Identities = 22/60 (36%), Positives = 37/60 (61%), Gaps = 1/60 (1%)
Query: 71  FKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQ 130
           FK++++G+  VGK+S V R+V+  F +  + T+G  F  + V   D   +K ++WD AGQ
Sbjct: 7   FKLVLLGESAVGKSSLVLRFVKGQFHEFQESTIGAAFLTQTV-CLDDTTVKFEIWDTAGQ 65

>pdb|1HUQ|A Chain A, 1.8a Crystal Structure Of The Monomeric Gtpase Rab5c (Mouse) Length = 164

Iteration: 1
 Score = 50.4 bits (119), Expect = 3e-07,   Method: Compositional matrix adjust.
 Identities = 22/60 (36%), Positives = 37/60 (61%), Gaps = 1/60 (1%)
Query: 71  FKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQ 130
           FK++++G+  VGK+S V R+V+  F +  + T+G  F  + V   D   +K ++WD AGQ
Sbjct: 4   FKLVLLGESAVGKSSLVLRFVKGQFHEYQESTIGAAFLTQTV-CLDDTTVKFEIWDTAGQ 62

>pdb|1TU4|A Chain A, Crystal Structure Of Rab5-Gdp Complex Length = 171

Iteration: 1
 Score = 50.1 bits (118), Expect = 3e-07,   Method: Compositional matrix adjust.
 Identities = 22/60 (36%), Positives = 37/60 (61%), Gaps = 1/60 (1%)
Query: 71  FKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQ 130
           FK++++G+  VGK+S V R+V+  F +  + T+G  F  + V   D   +K ++WD AGQ
Sbjct: 8   FKLVLLGESAVGKSSLVLRFVKGQFHEFQESTIGAAFLTQTV-CLDDTTVKFEIWDTAGQ 66

>pdb|2NTY|C Chain C, Rop4-Gdp-Prone8 Length = 180

Iteration: 1
 Score = 50.1 bits (118), Expect = 4e-07,   Method: Compositional matrix adjust.
 Identities = 25/63 (39%), Positives = 33/63 (52%), Gaps = 2/63 (3%)
Query: 68  EKLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDI 127
            +  K + +GD  VGKT  +  Y  NTF  DY  TV  +F+  +V   D   + L LWD 
Sbjct: 4   SRFIKCVTVGDGAVGKTCMLISYTSNTFPTDYVPTVFDNFSANVVV--DGNTVNLGLWDT 61
Query: 128 AGQ 130
           AGQ
Sbjct: 62  AGQ 64

>pdb|2HEI|A Chain A, Crystal Structure Of Human Rab5b In Complex With Gdp Length = 179

Iteration: 1
 Score = 50.1 bits (118), Expect = 4e-07,   Method: Compositional matrix adjust.
 Identities = 22/60 (36%), Positives = 37/60 (61%), Gaps = 1/60 (1%)
Query: 71  FKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQ 130
           FK++++G+  VGK+S V R+V+  F +  + T+G  F  + V   D   +K ++WD AGQ
Sbjct: 9   FKLVLLGESAVGKSSLVLRFVKGQFHEYQESTIGAAFLTQSV-CLDDTTVKFEIWDTAGQ 67

>pdb|1N6P|A Chain A, Crystal Structure Of Human Rab5a A30e Mutant Complex With Gppnhp Length = 170

Iteration: 1
 Score = 50.1 bits (118), Expect = 4e-07,   Method: Compositional matrix adjust.
 Identities = 22/60 (36%), Positives = 37/60 (61%), Gaps = 1/60 (1%)
Query: 71  FKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQ 130
           FK++++G+  VGK+S V R+V+  F +  + T+G  F  + V   D   +K ++WD AGQ
Sbjct: 7   FKLVLLGESEVGKSSLVLRFVKGQFHEFQESTIGAAFLTQTV-CLDDTTVKFEIWDTAGQ 65

>pdb|1N6R|A Chain A, Crystal Structure Of Human Rab5a A30l Mutant Complex With Gppnhp Length = 170

Iteration: 1
 Score = 49.7 bits (117), Expect = 4e-07,   Method: Compositional matrix adjust.
 Identities = 22/60 (36%), Positives = 37/60 (61%), Gaps = 1/60 (1%)
Query: 71  FKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQ 130
           FK++++G+  VGK+S V R+V+  F +  + T+G  F  + V   D   +K ++WD AGQ
Sbjct: 7   FKLVLLGESLVGKSSLVLRFVKGQFHEFQESTIGAAFLTQTV-CLDDTTVKFEIWDTAGQ 65

>pdb|1N6N|A Chain A, Crystal Structure Of Human Rab5a A30r Mutant Complex With Gppnhp Length = 170

Iteration: 1
 Score = 49.7 bits (117), Expect = 4e-07,   Method: Compositional matrix adjust.
 Identities = 22/60 (36%), Positives = 37/60 (61%), Gaps = 1/60 (1%)
Query: 71  FKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQ 130
           FK++++G+  VGK+S V R+V+  F +  + T+G  F  + V   D   +K ++WD AGQ
Sbjct: 7   FKLVLLGESRVGKSSLVLRFVKGQFHEFQESTIGAAFLTQTV-CLDDTTVKFEIWDTAGQ 65

>pdb|1YVD|A Chain A, Gppnhp-Bound Rab22 Gtpase Length = 169

Iteration: 1
 Score = 49.7 bits (117), Expect = 4e-07,   Method: Compositional matrix adjust.
 Identities = 23/60 (38%), Positives = 38/60 (63%), Gaps = 1/60 (1%)
Query: 71  FKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQ 130
            KV ++GD  VGK+S V R+V+++F  +   T+G  F  K V+++++   K  +WD AGQ
Sbjct: 6   LKVCLLGDTGVGKSSIVWRFVEDSFDPNINPTIGASFMTKTVQYQNELH-KFLIWDTAGQ 64

>pdb|1N6O|A Chain A, Crystal Structure Of Human Rab5a A30k Mutant Complex With Gppnhp Length = 170

Iteration: 1
 Score = 49.7 bits (117), Expect = 5e-07,   Method: Compositional matrix adjust.
 Identities = 22/60 (36%), Positives = 37/60 (61%), Gaps = 1/60 (1%)
Query: 71  FKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQ 130
           FK++++G+  VGK+S V R+V+  F +  + T+G  F  + V   D   +K ++WD AGQ
Sbjct: 7   FKLVLLGESKVGKSSLVLRFVKGQFHEFQESTIGAAFLTQTV-CLDDTTVKFEIWDTAGQ 65

>pdb|2WBL|C Chain C, Three-Dimensional Structure Of A Binary Rop-Prone Complex Length = 180

Iteration: 1
 Score = 49.3 bits (116), Expect = 6e-07,   Method: Compositional matrix adjust.
 Identities = 25/62 (40%), Positives = 33/62 (53%), Gaps = 2/62 (3%)
Query: 69  KLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIA 128
           +  K + +GD  VGKT  +  Y  NTF  DY  TV  +F+  +V   D   + L LWD A
Sbjct: 5   RFIKCVTVGDGAVGKTCMLISYTGNTFPTDYVPTVFDNFSANVVV--DGSTVNLGLWDTA 62
Query: 129 GQ 130
           GQ
Sbjct: 63  GQ 64

>pdb|3M1I|A Chain A, Crystal Structure Of Yeast Crm1 (Xpo1p) In Complex With Yeas (Yrb1p) And Yeast Rangtp (Gsp1pgtp) Length = 219

Iteration: 1
 Score = 49.3 bits (116), Expect = 6e-07,   Method: Compositional matrix adjust.
 Identities = 22/59 (37%), Positives = 38/59 (64%), Gaps = 1/59 (1%)
Query: 71  FKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAG 129
           FK++++GD   GKT+FV+R++   F+K Y  T+GV+    +  + +  +IK  +WD AG
Sbjct: 13  FKLVLVGDGGTGKTTFVKRHLTGEFEKKYIATIGVEVH-PLSFYTNFGEIKFDVWDTAG 70

>pdb|1N6I|A Chain A, Crystal Structure Of Human Rab5a A30p Mutant Complex With Gdp Length = 170

Iteration: 1
 Score = 48.9 bits (115), Expect = 7e-07,   Method: Compositional matrix adjust.
 Identities = 22/60 (36%), Positives = 37/60 (61%), Gaps = 1/60 (1%)
Query: 71  FKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQ 130
           FK++++G+  VGK+S V R+V+  F +  + T+G  F  + V   D   +K ++WD AGQ
Sbjct: 7   FKLVLLGESPVGKSSLVLRFVKGQFHEFQESTIGAAFLTQTV-CLDDTTVKFEIWDTAGQ 65

>pdb|2FG5|A Chain A, Crystal Structure Of Human Rab31 In Complex With A Gtp Analogue Length = 192

Iteration: 1
 Score = 48.9 bits (115), Expect = 7e-07,   Method: Compositional matrix adjust.
 Identities = 24/60 (40%), Positives = 34/60 (56%), Gaps = 1/60 (1%)
Query: 71  FKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQ 130
            KV ++GD  VGK+S V R+VQ+ F  +   T+G  F  K V   ++   K  +WD AGQ
Sbjct: 24  LKVCLLGDTGVGKSSIVCRFVQDHFDHNISPTIGASFMTKTVPCGNELH-KFLIWDTAGQ 82

>pdb|4DJT|A Chain A, Crystal Structure Of A Nuclear Gtp-Binding Protein From Encephalitozoon Cuniculi Bound To Gdp-Mg2+ Length = 218

Iteration: 1
 Score = 48.9 bits (115), Expect = 7e-07,   Method: Compositional matrix adjust.
 Identities = 26/65 (40%), Positives = 37/65 (56%), Gaps = 4/65 (6%)
Query: 68  EKLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQK--IKLQLW 125
           E  +K+ +IGD  VGKT+++ R +   F+K+Y  TVG       V + D Q   IK  +W
Sbjct: 9   ELTYKICLIGDGGVGKTTYINRVLDGRFEKNYNATVGA--VNHPVTFLDDQGNVIKFNVW 66
Query: 126 DIAGQ 130
           D AGQ
Sbjct: 67  DTAGQ 71

>pdb|1Z0D|A Chain A, Gdp-bound Rab5c Gtpase Length = 167

Iteration: 1
 Score = 48.5 bits (114), Expect = 1e-06,   Method: Compositional matrix adjust.
 Identities = 21/59 (35%), Positives = 36/59 (61%), Gaps = 1/59 (1%)
Query: 71  FKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAG 129
           FK++++G+  VGK+S V R+V+  F +  + T+G  F  + V   D   +K ++WD AG
Sbjct: 6   FKLVLLGESAVGKSSLVLRFVKGQFHEYQESTIGAAFLTQTV-CLDDTTVKFEIWDTAG 63

>pdb|3MJH|A Chain A, Crystal Structure Of Human Rab5a In Complex With The C2h2 Zinc Finger Of Eea1 Length = 168

Iteration: 1
 Score = 48.5 bits (114), Expect = 1e-06,   Method: Compositional matrix adjust.
 Identities = 21/59 (35%), Positives = 36/59 (61%), Gaps = 1/59 (1%)
Query: 71  FKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAG 129
           FK++++G+  VGK+S V R+V+  F +  + T+G  F  + V   D   +K ++WD AG
Sbjct: 6   FKLVLLGESAVGKSSLVLRFVKGQFHEFQESTIGAAFLTQTV-CLDDTTVKFEIWDTAG 63

>pdb|3BWD|D Chain D, Crystal Structure Of The Plant Rho Protein Rop5 Length = 182

Iteration: 1
 Score = 48.1 bits (113), Expect = 1e-06,   Method: Compositional matrix adjust.
 Identities = 24/63 (38%), Positives = 33/63 (52%), Gaps = 2/63 (3%)
Query: 68  EKLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDI 127
            +  K + +GD  VGKT  +  Y  NTF  DY  TV  +F+  +V   +   + L LWD 
Sbjct: 6   SRFIKCVTVGDGAVGKTCLLISYTSNTFPTDYVPTVFDNFSANVV--VNGATVNLGLWDT 63
Query: 128 AGQ 130
           AGQ
Sbjct: 64  AGQ 66

>pdb|3ICQ|B Chain B, Karyopherin Nuclear State Length = 171

Iteration: 1
 Score = 48.1 bits (113), Expect = 1e-06,   Method: Compositional matrix adjust.
 Identities = 22/59 (37%), Positives = 38/59 (64%), Gaps = 1/59 (1%)
Query: 71  FKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAG 129
           FK++++GD   GKT+FV+R++   F+K Y  T+GV+    +  + +  +IK  +WD AG
Sbjct: 5   FKLVLVGDGGTGKTTFVKRHLTGEFEKKYIATIGVE-VHPLSFYTNFGEIKFDVWDTAG 62

>pdb|1YZT|A Chain A, Gppnhp-Bound Rab21 Gtpase At 2.05 A Resolution Length = 184

Iteration: 1
 Score = 48.1 bits (113), Expect = 1e-06,   Method: Compositional matrix adjust.
 Identities = 23/60 (38%), Positives = 35/60 (58%), Gaps = 1/60 (1%)
Query: 71  FKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQ 130
           FKV+++G+  VGKTS V RY +N F   +  T+   F  K +     +++ L +WD AGQ
Sbjct: 21  FKVVLLGEGCVGKTSLVLRYCENKFNDKHITTLQASFLTKKLNI-GGKRVNLAIWDTAGQ 79

>pdb|2X19|A Chain A, Crystal Structure Of Importin13 - Rangtp Complex Length = 172

Iteration: 1
 Score = 48.1 bits (113), Expect = 1e-06,   Method: Compositional matrix adjust.
 Identities = 22/59 (37%), Positives = 38/59 (64%), Gaps = 1/59 (1%)
Query: 71  FKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAG 129
           FK++++GD   GKT+FV+R++   F+K Y  T+GV+    +  + +  +IK  +WD AG
Sbjct: 6   FKLVLVGDGGTGKTTFVKRHLTGEFEKKYIATIGVE-VHPLSFYTNFGEIKFDVWDTAG 63

>pdb|1YZU|A Chain A, Gppnhp-Bound Rab21 Gtpase At 2.50 A Resolution Length = 170

Iteration: 1
 Score = 48.1 bits (113), Expect = 1e-06,   Method: Compositional matrix adjust.
 Identities = 23/60 (38%), Positives = 35/60 (58%), Gaps = 1/60 (1%)
Query: 71  FKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQ 130
           FKV+++G+  VGKTS V RY +N F   +  T+   F  K +     +++ L +WD AGQ
Sbjct: 7   FKVVLLGEGCVGKTSLVLRYCENKFNDKHITTLQASFLTKKLNI-GGKRVNLAIWDTAGQ 65

>pdb|1EK0|A Chain A, Gppnhp-Bound Ypt51 At 1.48 A Resolution Length = 170

Iteration: 1
 Score = 47.4 bits (111), Expect = 2e-06,   Method: Compositional matrix adjust.
 Identities = 21/59 (35%), Positives = 38/59 (64%), Gaps = 1/59 (1%)
Query: 72  KVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQ 130
           K++++G+  VGK+S V R+V N F ++ + T+G  F  + V   ++  +K ++WD AGQ
Sbjct: 5   KLVLLGEAAVGKSSIVLRFVSNDFAENKEPTIGAAFLTQRVTI-NEHTVKFEIWDTAGQ 62

>pdb|2J0V|A Chain A, The Crystal Structure Of Arabidopsis Thaliana Rac7-Rop9: The First Ras Superfamily Gtpase From The Plant Kingdom Length = 212

Iteration: 1
 Score = 47.4 bits (111), Expect = 2e-06,   Method: Compositional matrix adjust.
 Identities = 25/63 (39%), Positives = 32/63 (50%), Gaps = 2/63 (3%)
Query: 68  EKLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDI 127
            K  K + +GD  VGKT  +  Y  N F  DY  TV  +F+  +    D Q + L LWD 
Sbjct: 7   SKFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVAV--DGQIVNLGLWDT 64
Query: 128 AGQ 130
           AGQ
Sbjct: 65  AGQ 67

>pdb|1Z07|A Chain A, Gppnhp-Bound Rab5c G55q Mutant Gtpase Length = 166

Iteration: 1
 Score = 47.0 bits (110), Expect = 3e-06,   Method: Compositional matrix adjust.
 Identities = 21/60 (35%), Positives = 36/60 (60%), Gaps = 1/60 (1%)
Query: 71  FKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQ 130
           FK++++G+  VGK+S V R+V+  F +  + T+   F  + V   D   +K ++WD AGQ
Sbjct: 6   FKLVLLGESAVGKSSLVLRFVKGQFHEYQESTIQAAFLTQTV-CLDDTTVKFEIWDTAGQ 64

>pdb|1Z0J|A Chain A, Structure Of Gtp-Bound Rab22q64l Gtpase In Complex With The Minimal Rab Binding Domain Of Rabenosyn-5 Length = 170

Iteration: 1
 Score = 46.6 bits (109), Expect = 4e-06,   Method: Compositional matrix adjust.
 Identities = 21/59 (35%), Positives = 37/59 (62%), Gaps = 1/59 (1%)
Query: 71  FKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAG 129
            KV ++GD  VGK+S + R+V+++F  +   T+G  F  K V+++++   K  +WD AG
Sbjct: 7   LKVCLLGDTGVGKSSIMWRFVEDSFDPNINPTIGASFMTKTVQYQNELH-KFLIWDTAG 64

>pdb|1DS6|A Chain A, Crystal Structure Of A Rac-Rhogdi Complex Length = 192

Iteration: 1
 Score = 45.1 bits (105), Expect = 1e-05,   Method: Compositional matrix adjust.
 Identities = 22/61 (36%), Positives = 33/61 (54%), Gaps = 2/61 (3%)
Query: 71  FKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQ 130
            K +V+GD  VGKT  +  Y  N F  +Y  TV  +++  ++   D + + L LWD AGQ
Sbjct: 4   IKCVVVGDGAVGKTCLLISYTTNAFPGEYIPTVFDNYSANVMV--DSKPVNLGLWDTAGQ 61
Query: 131 N 131
Sbjct: 62  E 62

>pdb|1MH1|A Chain A, Small G-Protein Length = 186

Iteration: 1
 Score = 44.7 bits (104), Expect = 1e-05,   Method: Compositional matrix adjust.
 Identities = 22/60 (36%), Positives = 33/60 (55%), Gaps = 2/60 (3%)
Query: 71  FKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQ 130
            K +V+GD  VGKT  +  Y  N F  +Y  TV  +++  ++   D + + L LWD AGQ
Sbjct: 6   IKCVVVGDGAVGKTCLLISYTTNAFPGEYIPTVFDNYSANVM--VDGKPVNLGLWDTAGQ 63

>pdb|1HH4|A Chain A, Rac1-Rhogdi Complex Involved In Nadph Oxidase Activation Length = 192

Iteration: 1
 Score = 44.7 bits (104), Expect = 2e-05,   Method: Compositional matrix adjust.
 Identities = 22/60 (36%), Positives = 33/60 (55%), Gaps = 2/60 (3%)
Query: 71  FKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQ 130
            K +V+GD  VGKT  +  Y  N F  +Y  TV  +++  ++   D + + L LWD AGQ
Sbjct: 4   IKCVVVGDGAVGKTCLLISYTTNAFPGEYIPTVFDNYSANVMV--DGKPVNLGLWDTAGQ 61

>pdb|2H7V|A Chain A, Co-crystal Structure Of Ypka-rac1 Length = 188

Iteration: 1
 Score = 44.7 bits (104), Expect = 2e-05,   Method: Compositional matrix adjust.
 Identities = 22/60 (36%), Positives = 33/60 (55%), Gaps = 2/60 (3%)
Query: 71  FKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQ 130
            K +V+GD  VGKT  +  Y  N F  +Y  TV  +++  ++   D + + L LWD AGQ
Sbjct: 8   IKCVVVGDGAVGKTCLLISYTTNAFPGEYIPTVFDNYSANVM--VDGKPVNLGLWDTAGQ 65

>pdb|3SBD|A Chain A, Crystal Structure Of Rac1 P29s Mutant Length = 187

Iteration: 1
 Score = 44.7 bits (104), Expect = 2e-05,   Method: Compositional matrix adjust.
 Identities = 22/59 (37%), Positives = 33/59 (55%), Gaps = 2/59 (3%)
Query: 72  KVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQ 130
           K +V+GD  VGKT  +  Y  N F  +Y  TV  +++  ++   D + + L LWD AGQ
Sbjct: 15  KCVVVGDGAVGKTCLLISYTTNAFSGEYIPTVFDNYSANVMV--DGKPVNLGLWDTAGQ 71

>pdb|1G4U|R Chain R, Crystal Structure Of The Salmonella Tyrosine Phosphatase And Gtpase Activating Protein Sptp Bound To Rac1 Length = 184

Iteration: 1
 Score = 44.7 bits (104), Expect = 2e-05,   Method: Compositional matrix adjust.
 Identities = 22/60 (36%), Positives = 33/60 (55%), Gaps = 2/60 (3%)
Query: 71  FKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQ 130
            K +V+GD  VGKT  +  Y  N F  +Y  TV  +++  ++   D + + L LWD AGQ
Sbjct: 4   IKCVVVGDGAVGKTCLLISYTTNAFPGEYIPTVFDNYSANVM--VDGKPVNLGLWDTAGQ 61

>pdb|2W2T|A Chain A, Rac2 (G12v) In Complex With Gdp Length = 185

Iteration: 1
 Score = 44.3 bits (103), Expect = 2e-05,   Method: Compositional matrix adjust.
 Identities = 22/60 (36%), Positives = 33/60 (55%), Gaps = 2/60 (3%)
Query: 71  FKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQ 130
            K +V+GD  VGKT  +  Y  N F  +Y  TV  +++  ++   D + + L LWD AGQ
Sbjct: 10  IKCVVVGDVAVGKTCLLISYTTNAFPGEYIPTVFDNYSANVMV--DSKPVNLGLWDTAGQ 67

>pdb|1RYF|A Chain A, Alternative Splicing Of Rac1 Generates Rac1b, A Self-Activating Gtpase Length = 203

Iteration: 1
 Score = 44.3 bits (103), Expect = 2e-05,   Method: Compositional matrix adjust.
 Identities = 22/60 (36%), Positives = 33/60 (55%), Gaps = 2/60 (3%)
Query: 71  FKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQ 130
            K +V+GD  VGKT  +  Y  N F  +Y  TV  +++  ++   D + + L LWD AGQ
Sbjct: 6   IKCVVVGDGAVGKTCLLISYTTNAFPGEYIPTVFDNYSANVMV--DGKPVNLGLWDTAGQ 63

>pdb|2VRW|A Chain A, Critical Structural Role For The Ph And C1 Domains Of The Vav1 Exchange Factor Length = 184

Iteration: 1
 Score = 44.3 bits (103), Expect = 2e-05,   Method: Compositional matrix adjust.
 Identities = 22/60 (36%), Positives = 33/60 (55%), Gaps = 2/60 (3%)
Query: 71  FKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQ 130
            K +V+GD  VGKT  +  Y  N F  +Y  TV  +++  ++   D + + L LWD AGQ
Sbjct: 4   IKCVVVGDGAVGKTCLLISYTTNAFPGEYIPTVFDNYSANVM--VDGKPVNLGLWDTAGQ 61

>pdb|1I4D|D Chain D, Crystal Structure Analysis Of Rac1-Gdp Complexed With Arfaptin (P21) Length = 192

Iteration: 1
 Score = 44.3 bits (103), Expect = 2e-05,   Method: Compositional matrix adjust.
 Identities = 22/61 (36%), Positives = 33/61 (54%), Gaps = 2/61 (3%)
Query: 71  FKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQ 130
            K +V+GD  VGKT  +  Y  N F  +Y  TV  +++  ++   D + + L LWD AGQ
Sbjct: 4   IKCVVVGDGAVGKTCLLISYTTNAFPGEYIPTVFDNYSANVMV--DGKPVNLGLWDTAGQ 61
Query: 131 N 131
Sbjct: 62  E 62

>pdb|2W2V|A Chain A, Rac2 (G12v) In Complex With Gtpgs Length = 184

Iteration: 1
 Score = 44.3 bits (103), Expect = 2e-05,   Method: Compositional matrix adjust.
 Identities = 22/60 (36%), Positives = 33/60 (55%), Gaps = 2/60 (3%)
Query: 71  FKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQ 130
            K +V+GD  VGKT  +  Y  N F  +Y  TV  +++  ++   D + + L LWD AGQ
Sbjct: 11  IKCVVVGDVAVGKTCLLISYTTNAFPGEYIPTVFDNYSANVMV--DSKPVNLGLWDTAGQ 68

>pdb|2G0N|A Chain A, The Crystal Structure Of The Human Rac3 In Complex With Gdp And Chloride Length = 179

Iteration: 1
 Score = 44.3 bits (103), Expect = 2e-05,   Method: Compositional matrix adjust.
 Identities = 22/59 (37%), Positives = 33/59 (55%), Gaps = 2/59 (3%)
Query: 72  KVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQ 130
           K +V+GD  VGKT  +  Y  N F  +Y  TV  +++  ++   D + + L LWD AGQ
Sbjct: 6   KCVVVGDGAVGKTCLLISYTTNAFPGEYIPTVFDNYSANVMV--DGKPVNLGLWDTAGQ 62

>pdb|2IC5|A Chain A, Crystal Structure Of Human Rac3 Grown In The Presence Of Gpp(Nh)p. Length = 180

Iteration: 1
 Score = 44.3 bits (103), Expect = 2e-05,   Method: Compositional matrix adjust.
 Identities = 22/59 (37%), Positives = 33/59 (55%), Gaps = 2/59 (3%)
Query: 72  KVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQ 130
           K +V+GD  VGKT  +  Y  N F  +Y  TV  +++  ++   D + + L LWD AGQ
Sbjct: 6   KCVVVGDGAVGKTCLLISYTTNAFPGEYIPTVFDNYSANVMV--DGKPVNLGLWDTAGQ 62

>pdb|1HE1|C Chain C, Crystal Structure Of The Complex Between The Gap Domain Of The Pseudomonas Aeruginosa Exos Toxin And Human Rac Length = 176

Iteration: 1
 Score = 44.3 bits (103), Expect = 2e-05,   Method: Compositional matrix adjust.
 Identities = 22/60 (36%), Positives = 33/60 (55%), Gaps = 2/60 (3%)
Query: 71  FKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQ 130
            K +V+GD  VGKT  +  Y  N F  +Y  TV  +++  ++   D + + L LWD AGQ
Sbjct: 4   IKCVVVGDGAVGKTCLLISYTTNAFPGEYIPTVFDNYSANVMV--DGKPVNLGLWDTAGQ 61

>pdb|2FJU|A Chain A, Activated Rac1 Bound To Its Effector Phospholipase C Beta 2 Length = 178

Iteration: 1
 Score = 44.3 bits (103), Expect = 2e-05,   Method: Compositional matrix adjust.
 Identities = 22/60 (36%), Positives = 33/60 (55%), Gaps = 2/60 (3%)
Query: 71  FKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQ 130
            K +V+GD  VGKT  +  Y  N F  +Y  TV  +++  ++   D + + L LWD AGQ
Sbjct: 4   IKCVVVGDGAVGKTCLLISYTTNAFPGEYIPTVFDNYSANVMV--DGKPVNLGLWDTAGQ 61

>pdb|2C2H|A Chain A, Crystal Structure Of The Human Rac3 In Complex With Gdp Length = 192

Iteration: 1
 Score = 43.9 bits (102), Expect = 2e-05,   Method: Compositional matrix adjust.
 Identities = 22/59 (37%), Positives = 33/59 (55%), Gaps = 2/59 (3%)
Query: 72  KVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQ 130
           K +V+GD  VGKT  +  Y  N F  +Y  TV  +++  ++   D + + L LWD AGQ
Sbjct: 5   KCVVVGDGAVGKTCLLISYTTNAFPGEYIPTVFDNYSANVMV--DGKPVNLGLWDTAGQ 61

>pdb|1FOE|B Chain B, Crystal Structure Of Rac1 In Complex With The Guanine Nucleotide Exchange Region Of Tiam1 Length = 177

Iteration: 1
 Score = 43.9 bits (102), Expect = 2e-05,   Method: Compositional matrix adjust.
 Identities = 22/60 (36%), Positives = 33/60 (55%), Gaps = 2/60 (3%)
Query: 71  FKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQ 130
            K +V+GD  VGKT  +  Y  N F  +Y  TV  +++  ++   D + + L LWD AGQ
Sbjct: 4   IKCVVVGDGAVGKTCLLISYTTNAFPGEYIPTVFDNYSANVMV--DGKPVNLGLWDTAGQ 61

>pdb|3TH5|A Chain A, Crystal Structure Of Wild-Type Rac1 Length = 204

Iteration: 1
 Score = 43.9 bits (102), Expect = 2e-05,   Method: Compositional matrix adjust.
 Identities = 22/59 (37%), Positives = 33/59 (55%), Gaps = 2/59 (3%)
Query: 72  KVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQ 130
           K +V+GD  VGKT  +  Y  N F  +Y  TV  +++  ++   D + + L LWD AGQ
Sbjct: 32  KCVVVGDGAVGKTCLLISYTTNAFPGEYIPTVFDNYSANVMV--DGKPVNLGLWDTAGQ 88

>pdb|3SUA|A Chain A, Crystal Structure Of The Intracellular Domain Of Plexin-B1 In Complex With Rac1 Length = 184

Iteration: 1
 Score = 43.9 bits (102), Expect = 2e-05,   Method: Compositional matrix adjust.
 Identities = 22/60 (36%), Positives = 33/60 (55%), Gaps = 2/60 (3%)
Query: 71  FKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQ 130
            K +V+GD  VGKT  +  Y  N F  +Y  TV  +++  ++   D + + L LWD AGQ
Sbjct: 4   IKCVVVGDGAVGKTCLLISYTTNAFPGEYIPTVFDNYSANVMV--DGKPVNLGLWDTAGQ 61

>pdb|2YIN|C Chain C, Structure Of The Complex Between Dock2 And Rac1. Length = 196

Iteration: 1
 Score = 43.9 bits (102), Expect = 2e-05,   Method: Compositional matrix adjust.
 Identities = 22/59 (37%), Positives = 33/59 (55%), Gaps = 2/59 (3%)
Query: 72  KVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQ 130
           K +V+GD  VGKT  +  Y  N F  +Y  TV  +++  ++   D + + L LWD AGQ
Sbjct: 24  KCVVVGDGAVGKTCLLISYTTNAFPGEYIPTVFDNYSANVMV--DGKPVNLGLWDTAGQ 80

>pdb|2WKP|A Chain A, Structure Of A Photoactivatable Rac1 Containing Lov2 Wildtype Length = 332

Iteration: 1
 Score = 43.9 bits (102), Expect = 3e-05,   Method: Compositional matrix adjust.
 Identities = 22/69 (31%), Positives = 38/69 (55%), Gaps = 2/69 (2%)
Query: 61  KSFNAPPEKLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKI 120
           ++ +   ++L K +V+GD  VGKT  +  Y  N F  +Y  TV  +++  ++   D + +
Sbjct: 146 ENIDEAAKELIKCVVVGDGAVGKTCLLISYTTNAFPGEYIPTVFDNYSANVMV--DGKPV 203
Query: 121 KLQLWDIAG 129
            L LWD AG
Sbjct: 204 NLGLWDTAG 212

>pdb|2EFC|B Chain B, Ara7-GdpATVPS9A Length = 181

Iteration: 1
 Score = 43.9 bits (102), Expect = 3e-05,   Method: Compositional matrix adjust.
 Identities = 24/70 (34%), Positives = 40/70 (57%), Gaps = 7/70 (10%)
Query: 61  KSFNAPPEKLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKI 120
           KS NA      K++++GD   GK+S V R+V++ F +  + T+G  F  + +   D   +
Sbjct: 9   KSINA------KLVLLGDVGAGKSSLVLRFVKDQFVEFQESTIGAAFFSQTLAVND-ATV 61
Query: 121 KLQLWDIAGQ 130
           K ++WD AGQ
Sbjct: 62  KFEIWDTAGQ 71

>pdb|2WKQ|A Chain A, Structure Of A Photoactivatable Rac1 Containing The Lov2 C450a Mutant Length = 332

Iteration: 1
 Score = 43.9 bits (102), Expect = 3e-05,   Method: Compositional matrix adjust.
 Identities = 22/69 (31%), Positives = 38/69 (55%), Gaps = 2/69 (2%)
Query: 61  KSFNAPPEKLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKI 120
           ++ +   ++L K +V+GD  VGKT  +  Y  N F  +Y  TV  +++  ++   D + +
Sbjct: 146 ENIDEAAKELIKCVVVGDGAVGKTCLLISYTTNAFPGEYIPTVFDNYSANVMV--DGKPV 203
Query: 121 KLQLWDIAG 129
            L LWD AG
Sbjct: 204 NLGLWDTAG 212

>pdb|2WKR|A Chain A, Structure Of A Photoactivatable Rac1 Containing The Lov2 C450m Mutant Length = 332

Iteration: 1
 Score = 43.9 bits (102), Expect = 3e-05,   Method: Compositional matrix adjust.
 Identities = 22/69 (31%), Positives = 38/69 (55%), Gaps = 2/69 (2%)
Query: 61  KSFNAPPEKLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKI 120
           ++ +   ++L K +V+GD  VGKT  +  Y  N F  +Y  TV  +++  ++   D + +
Sbjct: 146 ENIDEAAKELIKCVVVGDGAVGKTCLLISYTTNAFPGEYIPTVFDNYSANVMV--DGKPV 203
Query: 121 KLQLWDIAG 129
            L LWD AG
Sbjct: 204 NLGLWDTAG 212

>pdb|3RYT|C Chain C, The Plexin A1 Intracellular Region In Complex With Rac1 Length = 180

Iteration: 1
 Score = 43.5 bits (101), Expect = 3e-05,   Method: Compositional matrix adjust.
 Identities = 22/65 (33%), Positives = 34/65 (52%), Gaps = 2/65 (3%)
Query: 65  APPEKLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQL 124
            P  +  K +V+GD  VGKT  +  Y  N F  +Y  TV  +++  ++   D + + L L
Sbjct: 1   GPHMQAIKCVVVGDGAVGKTCLLISYTTNAFPGEYIPTVFDNYSANVMV--DGKPVNLGL 58
Query: 125 WDIAG 129
           WD AG
Sbjct: 59  WDTAG 63

>pdb|2ATX|A Chain A, Crystal Structure Of The Tc10 Gppnhp Complex Length = 194

Iteration: 1
 Score = 43.1 bits (100), Expect = 4e-05,   Method: Compositional matrix adjust.
 Identities = 22/68 (32%), Positives = 34/68 (50%), Gaps = 2/68 (2%)
Query: 64  NAPPEKLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQ 123
           + P   + K +V+GD  VGKT  +  Y  + F ++Y  TV   +A+ +     Q    L 
Sbjct: 12  HGPGALMLKCVVVGDGAVGKTCLLMSYANDAFPEEYVPTVFDHYAVSVTVGGKQY--LLG 69
Query: 124 LWDIAGQN 131
           L+D AGQ 
Sbjct: 70  LYDTAGQE 77

>pdb|2Q3H|A Chain A, The Crystal Structure Of Rhoua In The Gdp-bound State Length = 201

Iteration: 1
 Score = 43.1 bits (100), Expect = 4e-05,   Method: Compositional matrix adjust.
 Identities = 23/60 (38%), Positives = 34/60 (56%), Gaps = 2/60 (3%)
Query: 72  KVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQN 131
           K +++GD  VGKTS V  Y  N +  +Y  T   +F+   V   D + ++LQL D AGQ+
Sbjct: 22  KCVLVGDGAVGKTSLVVSYTTNGYPTEYIPTAFDNFS--AVVSVDGRPVRLQLCDTAGQD 79

>pdb|2V55|B Chain B, Mechanism Of Multi-site Phosphorylation From A Rock-i:rhoe Complex Structure Length = 200

Iteration: 1
 Score = 42.7 bits (99), Expect = 5e-05,   Method: Compositional matrix adjust.
 Identities = 19/58 (32%), Positives = 34/58 (58%), Gaps = 2/58 (3%)
Query: 72  KVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAG 129
           K++V+GD   GKT+ +  + ++ F ++Y  TV  ++        D Q+I+L LWD +G
Sbjct: 25  KIVVVGDSQCGKTALLHVFAKDCFPENYVPTVFENYTASF--EIDTQRIELSLWDTSG 80

>pdb|1GWN|A Chain A, The Crystal Structure Of The Core Domain Of RhoeRND3 - A Constitutively Activated Small G Protein Length = 205

Iteration: 1
 Score = 42.7 bits (99), Expect = 6e-05,   Method: Compositional matrix adjust.
 Identities = 19/58 (32%), Positives = 34/58 (58%), Gaps = 2/58 (3%)
Query: 72  KVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAG 129
           K++V+GD   GKT+ +  + ++ F ++Y  TV  ++        D Q+I+L LWD +G
Sbjct: 30  KIVVVGDSQCGKTALLHVFAKDCFPENYVPTVFENYTASF--EIDTQRIELSLWDTSG 85

>pdb|1M7B|A Chain A, Crystal Structure Of Rnd3RHOE: FUNCTIONAL IMPLICATIONS Length = 184

Iteration: 1
 Score = 42.7 bits (99), Expect = 6e-05,   Method: Compositional matrix adjust.
 Identities = 19/58 (32%), Positives = 34/58 (58%), Gaps = 2/58 (3%)
Query: 72  KVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAG 129
           K++V+GD   GKT+ +  + ++ F ++Y  TV  ++        D Q+I+L LWD +G
Sbjct: 9   KIVVVGDSQCGKTALLHVFAKDCFPENYVPTVFENYTASF--EIDTQRIELSLWDTSG 64

>pdb|1E96|A Chain A, Structure Of The RacP67PHOX COMPLEX Length = 192

Iteration: 1
 Score = 42.4 bits (98), Expect = 7e-05,   Method: Compositional matrix adjust.
 Identities = 21/59 (35%), Positives = 32/59 (54%), Gaps = 2/59 (3%)
Query: 71  FKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAG 129
            K +V+GD  VGKT  +  Y  N F  +Y  TV  +++  ++   D + + L LWD AG
Sbjct: 4   IKCVVVGDGAVGKTCLLISYTTNAFPGEYIPTVFDNYSANVMV--DGKPVNLGLWDTAG 60

>pdb|3B13|B Chain B, Crystal Structure Of The Dhr-2 Domain Of Dock2 In Complex With Rac1 (T17n Mutant) Length = 184

Iteration: 1
 Score = 42.4 bits (98), Expect = 7e-05,   Method: Compositional matrix adjust.
 Identities = 21/60 (35%), Positives = 32/60 (53%), Gaps = 2/60 (3%)
Query: 71  FKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQ 130
            K +V+GD  VGK   +  Y  N F  +Y  TV  +++  ++   D + + L LWD AGQ
Sbjct: 11  IKCVVVGDGAVGKNCLLISYTTNAFPGEYIPTVFDNYSANVMV--DGKPVNLGLWDTAGQ 68

>pdb|1I4T|D Chain D, Crystal Structure Analysis Of Rac1-Gmppnp In Complex With Arfaptin Length = 192

Iteration: 1
 Score = 42.4 bits (98), Expect = 8e-05,   Method: Compositional matrix adjust.
 Identities = 21/59 (35%), Positives = 32/59 (54%), Gaps = 2/59 (3%)
Query: 71  FKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAG 129
            K +V+GD  VGKT  +  Y  N F  +Y  TV  +++  ++   D + + L LWD AG
Sbjct: 4   IKCVVVGDGAVGKTCLLISYTTNAFPGEYIPTVFDNYSANVMV--DGKPVNLGLWDTAG 60

>pdb|4GZL|A Chain A, Crystal Structure Of Rac1 Q61l Mutant Length = 204

Iteration: 1
 Score = 42.0 bits (97), Expect = 9e-05,   Method: Compositional matrix adjust.
 Identities = 21/58 (36%), Positives = 32/58 (55%), Gaps = 2/58 (3%)
Query: 72  KVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAG 129
           K +V+GD  VGKT  +  Y  N F  +Y  TV  +++  ++   D + + L LWD AG
Sbjct: 32  KCVVVGDGAVGKTCLLISYTTNAFPGEYIPTVFDNYSANVMV--DGKPVNLGLWDTAG 87

>pdb|3REF|B Chain B, Crystal Structure Of Ehrho1 Bound To Gdp And Magnesium Length = 194

Iteration: 1
 Score = 42.0 bits (97), Expect = 1e-04,   Method: Compositional matrix adjust.
 Identities = 22/62 (35%), Positives = 37/62 (59%), Gaps = 2/62 (3%)
Query: 69  KLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIA 128
           K  K++V+GD  VGKT  +  + +      Y  TV  +F+  ++K+++++ I L LWD A
Sbjct: 22  KALKIVVVGDGAVGKTCLLLAFSKGEIPTAYVPTVFENFS-HVMKYKNEEFI-LHLWDTA 79
Query: 129 GQ 130
           GQ
Sbjct: 80  GQ 81

>pdb|4GZM|A Chain A, Crystal Structure Of Rac1 F28l Mutant Length = 204

Iteration: 1
 Score = 42.0 bits (97), Expect = 1e-04,   Method: Compositional matrix adjust.
 Identities = 21/60 (35%), Positives = 32/60 (53%), Gaps = 2/60 (3%)
Query: 71  FKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQ 130
            K +V+GD  VGKT  +  Y  N    +Y  TV  +++  ++   D + + L LWD AGQ
Sbjct: 31  IKCVVVGDGAVGKTCLLISYTTNALPGEYIPTVFDNYSANVMV--DGKPVNLGLWDTAGQ 88

>pdb|4DVG|A Chain A, Crystal Structure Of E. Histolytica Formin1 Bound To Ehrho1-Gtpgammas Length = 188

Iteration: 1
 Score = 41.6 bits (96), Expect = 1e-04,   Method: Compositional matrix adjust.
 Identities = 22/62 (35%), Positives = 37/62 (59%), Gaps = 2/62 (3%)
Query: 69  KLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIA 128
           K  K++V+GD  VGKT  +  + +      Y  TV  +F+  ++K+++++ I L LWD A
Sbjct: 21  KALKIVVVGDGAVGKTCLLLAFSKGEIPTAYVPTVFENFS-HVMKYKNEEFI-LHLWDTA 78
Query: 129 GQ 130
           GQ
Sbjct: 79  GQ 80

>pdb|2J1L|A Chain A, Crystal Structure Of Human Rho-Related Gtp-Binding Protein Rhod Length = 214

Iteration: 1
 Score = 40.4 bits (93), Expect = 2e-04,   Method: Compositional matrix adjust.
 Identities = 24/69 (34%), Positives = 37/69 (53%), Gaps = 5/69 (7%)
Query: 65  APPE-KLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQK-IKL 122
           APP  +  KV+++GD   GKTS +  +    F + Y  TV   F   +V  + + K + L
Sbjct: 28  APPGVRSVKVVLVGDGGCGKTSLLMVFADGAFPESYTPTV---FERYMVNLQVKGKPVHL 84
Query: 123 QLWDIAGQN 131
            +WD AGQ+
Sbjct: 85  HIWDTAGQD 93

>pdb|4DID|A Chain A, Crystal Structure Of Salmonella Effector N-Terminal Domain Sopb In Complex With Cdc42 Length = 193

Iteration: 1
 Score = 39.7 bits (91), Expect = 5e-04,   Method: Compositional matrix adjust.
 Identities = 21/60 (35%), Positives = 32/60 (53%), Gaps = 2/60 (3%)
Query: 72  KVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQN 131
           K +V+GD  VGKT  +  Y  N F  +Y  TV  ++A+ ++     +   L L+D AGQ 
Sbjct: 15  KCVVVGDGAVGKTCLLISYTTNKFPSEYVPTVFDNYAVTVMIG--GEPYTLGLFDTAGQE 72

>pdb|2WM9|B Chain B, Structure Of The Complex Between Dock9 And Cdc42. Length = 190

Iteration: 1
 Score = 39.7 bits (91), Expect = 5e-04,   Method: Compositional matrix adjust.
 Identities = 21/60 (35%), Positives = 32/60 (53%), Gaps = 2/60 (3%)
Query: 72  KVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQN 131
           K +V+GD  VGKT  +  Y  N F  +Y  TV  ++A+ ++     +   L L+D AGQ 
Sbjct: 7   KCVVVGDGAVGKTCLLISYTTNKFPSEYVPTVFDNYAVTVMIG--GEPYTLGLFDTAGQE 64

>pdb|2DFK|B Chain B, Crystal Structure Of The Cdc42-Collybistin Ii Complex Length = 194

Iteration: 1
 Score = 39.7 bits (91), Expect = 5e-04,   Method: Compositional matrix adjust.
 Identities = 21/60 (35%), Positives = 32/60 (53%), Gaps = 2/60 (3%)
Query: 72  KVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQN 131
           K +V+GD  VGKT  +  Y  N F  +Y  TV  ++A+ ++     +   L L+D AGQ 
Sbjct: 8   KCVVVGDGAVGKTCLLISYTTNKFPSEYVPTVFDNYAVTVMIG--GEPYTLGLFDTAGQE 65

>pdb|2ODB|A Chain A, The Crystal Structure Of Human Cdc42 In Complex With The Crib Domain Of Human P21-Activated Kinase 6 (Pak6) Length = 192

Iteration: 1
 Score = 39.7 bits (91), Expect = 5e-04,   Method: Compositional matrix adjust.
 Identities = 21/60 (35%), Positives = 32/60 (53%), Gaps = 2/60 (3%)
Query: 72  KVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQN 131
           K +V+GD  VGKT  +  Y  N F  +Y  TV  ++A+ ++     +   L L+D AGQ 
Sbjct: 6   KCVVVGDGAVGKTCLLISYTTNKFPSEYVPTVFDNYAVTVMIG--GEPYTLGLFDTAGQE 63

>pdb|1KZ7|B Chain B, Crystal Structure Of The DhPH FRAGMENT OF MURINE DBS IN Complex With The Placental Isoform Of Human Cdc42 Length = 188

Iteration: 1
 Score = 39.7 bits (91), Expect = 5e-04,   Method: Compositional matrix adjust.
 Identities = 21/60 (35%), Positives = 32/60 (53%), Gaps = 2/60 (3%)
Query: 72  KVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQN 131
           K +V+GD  VGKT  +  Y  N F  +Y  TV  ++A+ ++     +   L L+D AGQ 
Sbjct: 5   KCVVVGDGAVGKTCLLISYTTNKFPSEYVPTVFDNYAVTVMIG--GEPYTLGLFDTAGQE 62

>pdb|1DOA|A Chain A, Structure Of The Rho Family Gtp-Binding Protein Cdc42 In Complex With The Multifunctional Regulator Rhogdi Length = 191

Iteration: 1
 Score = 39.7 bits (91), Expect = 5e-04,   Method: Compositional matrix adjust.
 Identities = 21/60 (35%), Positives = 32/60 (53%), Gaps = 2/60 (3%)
Query: 72  KVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQN 131
           K +V+GD  VGKT  +  Y  N F  +Y  TV  ++A+ ++     +   L L+D AGQ 
Sbjct: 8   KCVVVGDGAVGKTCLLISYTTNKFPSEYVPTVFDNYAVTVMIG--GEPYTLGLFDTAGQE 65

>pdb|1GRN|A Chain A, Crystal Structure Of The Cdc42CDC42GAPALF3 COMPLEX. Length = 191

Iteration: 1
 Score = 39.3 bits (90), Expect = 5e-04,   Method: Compositional matrix adjust.
 Identities = 21/60 (35%), Positives = 32/60 (53%), Gaps = 2/60 (3%)
Query: 72  KVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQN 131
           K +V+GD  VGKT  +  Y  N F  +Y  TV  ++A+ ++     +   L L+D AGQ 
Sbjct: 5   KCVVVGDGAVGKTCLLISYTTNKFPSEYVPTVFDNYAVTVMIG--GEPYTLGLFDTAGQE 62

>pdb|2QRZ|A Chain A, Cdc42 Bound To Gmp-Pcp: Induced Fit By Effector Is Required Length = 189

Iteration: 1
 Score = 39.3 bits (90), Expect = 6e-04,   Method: Compositional matrix adjust.
 Identities = 21/60 (35%), Positives = 32/60 (53%), Gaps = 2/60 (3%)
Query: 72  KVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQN 131
           K +V+GD  VGKT  +  Y  N F  +Y  TV  ++A+ ++     +   L L+D AGQ 
Sbjct: 5   KCVVVGDGAVGKTCLLISYTTNKFPSEYVPTVFDNYAVTVMIG--GEPYTLGLFDTAGQE 62

>pdb|1AJE|A Chain A, Cdc42 From Human, Nmr, 20 Structures Length = 194

Iteration: 1
 Score = 39.3 bits (90), Expect = 6e-04,   Method: Compositional matrix adjust.
 Identities = 21/60 (35%), Positives = 32/60 (53%), Gaps = 2/60 (3%)
Query: 72  KVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQN 131
           K +V+GD  VGKT  +  Y  N F  +Y  TV  ++A+ ++     +   L L+D AGQ 
Sbjct: 12  KCVVVGDGAVGKTCLLISYTTNKFPSEYVPTVFDNYAVTVMIG--GEPYTLGLFDTAGQE 69

>pdb|1CEE|A Chain A, Solution Structure Of Cdc42 In Complex With The Gtpase Binding Domain Of Wasp Length = 179

Iteration: 1
 Score = 39.3 bits (90), Expect = 6e-04,   Method: Compositional matrix adjust.
 Identities = 21/60 (35%), Positives = 32/60 (53%), Gaps = 2/60 (3%)
Query: 72  KVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQN 131
           K +V+GD  VGKT  +  Y  N F  +Y  TV  ++A+ ++     +   L L+D AGQ 
Sbjct: 5   KCVVVGDGAVGKTCLLISYTTNKFPSEYVPTVFDNYAVTVMIG--GEPYTLGLFDTAGQE 62

>pdb|1AM4|D Chain D, Complex Between Cdc42hs.Gmppnp And P50 Rhogap (H. Sapiens) Length = 177

Iteration: 1
 Score = 39.3 bits (90), Expect = 6e-04,   Method: Compositional matrix adjust.
 Identities = 21/60 (35%), Positives = 32/60 (53%), Gaps = 2/60 (3%)
Query: 72  KVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQN 131
           K +V+GD  VGKT  +  Y  N F  +Y  TV  ++A+ ++     +   L L+D AGQ 
Sbjct: 5   KCVVVGDGAVGKTCLLISYTTNKFPSEYVPTVFDNYAVTVMIG--GEPYTLGLFDTAGQE 62

>pdb|3GCG|A Chain A, Crystal Structure Of Map And Cdc42 Complex Length = 182

Iteration: 1
 Score = 39.3 bits (90), Expect = 6e-04,   Method: Compositional matrix adjust.
 Identities = 21/60 (35%), Positives = 32/60 (53%), Gaps = 2/60 (3%)
Query: 72  KVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQN 131
           K +V+GD  VGKT  +  Y  N F  +Y  TV  ++A+ ++     +   L L+D AGQ 
Sbjct: 9   KCVVVGDGAVGKTCLLISYTTNKFPSEYVPTVFDNYAVTVMIG--GEPYTLGLFDTAGQE 66

>pdb|1A4R|B Chain B, G12v Mutant Of Human Placental Cdc42 Gtpase In The Gdp Form Length = 191

Iteration: 1
 Score = 39.3 bits (90), Expect = 7e-04,   Method: Compositional matrix adjust.
 Identities = 21/60 (35%), Positives = 32/60 (53%), Gaps = 2/60 (3%)
Query: 72  KVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQN 131
           K +V+GD  VGKT  +  Y  N F  +Y  TV  ++A+ ++     +   L L+D AGQ 
Sbjct: 5   KCVVVGDVAVGKTCLLISYTTNKFPSEYVPTVFDNYAVTVMIG--GEPYTLGLFDTAGQE 62

>pdb|3EG5|A Chain A, Crystal Structure Of Mdia1-Tsh Gbd-Fh3 In Complex With Cdc42-Gmppnp Length = 178

Iteration: 1
 Score = 39.3 bits (90), Expect = 7e-04,   Method: Compositional matrix adjust.
 Identities = 21/60 (35%), Positives = 32/60 (53%), Gaps = 2/60 (3%)
Query: 72  KVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQN 131
           K +V+GD  VGKT  +  Y  N F  +Y  TV  ++A+ ++     +   L L+D AGQ 
Sbjct: 5   KCVVVGDGAVGKTCLLISYTTNKFPSEYVPTVFDNYAVTVMIG--GEPYTLGLFDTAGQE 62

>pdb|1GZS|A Chain A, Crystal Structure Of The Complex Between The Gef Domain Of The Salmonella Typhimurium Sope Toxin And Human Cdc42 Length = 180

Iteration: 1
 Score = 39.3 bits (90), Expect = 7e-04,   Method: Compositional matrix adjust.
 Identities = 21/60 (35%), Positives = 32/60 (53%), Gaps = 2/60 (3%)
Query: 72  KVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQN 131
           K +V+GD  VGKT  +  Y  N F  +Y  TV  ++A+ ++     +   L L+D AGQ 
Sbjct: 7   KCVVVGDGAVGKTCLLISYTTNKFPSEYVPTVFDNYAVTVMIG--GEPYTLGLFDTAGQE 64

>pdb|1EES|A Chain A, Solution Structure Of Cdc42hs Complexed With A Peptide Derived From P-21 Activated Kinase, Nmr, 20 Structures Length = 178

Iteration: 1
 Score = 38.9 bits (89), Expect = 7e-04,   Method: Compositional matrix adjust.
 Identities = 21/60 (35%), Positives = 32/60 (53%), Gaps = 2/60 (3%)
Query: 72  KVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQN 131
           K +V+GD  VGKT  +  Y  N F  +Y  TV  ++A+ ++     +   L L+D AGQ 
Sbjct: 5   KCVVVGDGAVGKTCLLISYTTNKFPSEYVPTVFDNYAVTVMIG--GEPYTLGLFDTAGQE 62

>pdb|2CLS|A Chain A, The Crystal Structure Of The Human Rnd1 Gtpase In The Active Gtp Bound State Length = 198

Iteration: 1
 Score = 38.9 bits (89), Expect = 9e-04,   Method: Compositional matrix adjust.
 Identities = 16/58 (27%), Positives = 35/58 (60%), Gaps = 2/58 (3%)
Query: 72  KVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAG 129
           K++++GD   GKT+ +Q   ++ + + Y  TV  ++   +    ++Q+++L LWD +G
Sbjct: 13  KLVLVGDVQCGKTAMLQVLAKDCYPETYVPTVFENYTACL--ETEEQRVELSLWDTSG 68

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	131
2hxs_A	178	RAB-26, RAS-related protein RAB-28; GTPase, signal	3e-27
1ky3_A	182	GTP-binding protein YPT7P; vesicular traffic, GTP	7e-27
1vg8_A	207	RAS-related protein RAB-7; GTP-binding protein, pr	7e-26
1wms_A	177	RAB-9, RAB9, RAS-related protein RAB-9A; GTPase, p	2e-25
2p5s_A	199	RAS and EF-hand domain containing; G-protein, RAB,	3e-25
2hup_A	201	RAS-related protein RAB-43; G-protein, GDP, struct	9e-25
1z2a_A	168	RAS-related protein RAB-23; RAB GTPase, vesicular	9e-25
2bme_A	186	RAB4A, RAS-related protein RAB4A; GTP-binding prot	1e-24
2o52_A	200	RAS-related protein RAB-4B; G-protein, GDP, struct	1e-24
1oix_A	191	RAS-related protein RAB-11A; small G protein, intr	1e-24
1z0f_A	179	RAB14, member RAS oncogene family; RAB GTPase, ves	1e-24
2bcg_Y	206	Protein YP2, GTP-binding protein YPT1; RABGTPase,	2e-24
1z06_A	189	RAS-related protein RAB-33B; RAB GTPase, RAB33B GT	2e-24
3tw8_B	181	RAS-related protein RAB-35; longin domain, RAB GTP	2e-24
2gf9_A	189	RAS-related protein RAB-3D; G-protein, structural	3e-24
2fu5_C	183	RAS-related protein RAB-8A; MSS4:RAB8 protein comp	3e-24
2ew1_A	201	RAS-related protein RAB-30; G-protein, GTP analogu	3e-24
3l0i_B	199	RAS-related protein RAB-1A; GEF-GDF-RAB complex, G	3e-24
2oil_A	193	CATX-8, RAS-related protein RAB-25; G-protein, GDP	3e-24
3cpj_B	223	GTP-binding protein YPT31/YPT8; RAB GTPase, prenyl	3e-24
2il1_A	192	RAB12; G-protein, GDP, GTPase, predicted, structur	4e-24
2f9l_A	199	RAB11B, member RAS oncogene family; RAB11B GTPase,	4e-24
2a5j_A	191	RAS-related protein RAB-2B; GTPase, signal transdu	4e-24
1x3s_A	195	RAS-related protein RAB-18; GTPase, GNP, structura	5e-24
2f7s_A	217	C25KG, RAS-related protein RAB-27B; G-protein, str	6e-24
3dz8_A	191	RAS-related protein RAB-3B; GDP, GTPase, structura	7e-24
1g16_A	170	RAS-related protein SEC4; G protein RAB, signaling	7e-24
3tkl_A	196	RAS-related protein RAB-1A; vesicle trafficking, p	1e-23
1zbd_A	203	Rabphilin-3A; G protein, effector, RABCDR, synapti	1e-23
1z08_A	170	RAS-related protein RAB-21; RAB GTPase, vesicular	1e-23
2y8e_A	179	RAB-protein 6, GH09086P, RAB6; hydrolase, nucleoti	2e-23
3cph_A	213	RAS-related protein SEC4; RAB GTPase, prenylation,	3e-23
3gj0_A	221	GTP-binding nuclear protein RAN; G protein, GDP, a	5e-23
3bc1_A	195	RAS-related protein RAB-27A; RAB27, GTPase, RAB, s	6e-23
3bbp_A	211	RAB-6, RAS-related protein RAB-6A; golgi complex,	6e-23
2fg5_A	192	RAB-22B, RAS-related protein RAB-31; G-protein, GT	7e-23
2g6b_A	180	RAS-related protein RAB-26; G-protein, GTP analogu	2e-22
2efe_B	181	Small GTP-binding protein-like; GEF, GTPase, VPS9,	3e-22
1z0j_A	170	RAB-22, RAS-related protein RAB-22A; RAB GTPase, R	3e-22
1r2q_A	170	RAS-related protein RAB-5A; GTPase, GNP, atomic re	6e-22
1ek0_A	170	Protein (GTP-binding protein YPT51); vesicular tra	1e-21
4djt_A	218	GTP-binding nuclear protein GSP1; structural genom	2e-21
2yc2_C	208	IFT27, small RAB-related GTPase; transport protein	6e-21
3cbq_A	195	GTP-binding protein REM 2; FLJ38964A, structural g	2e-20
3q85_A	169	GTP-binding protein REM 2; G-domain, CAV2 beta, si	2e-19
2zej_A	184	Dardarin, leucine-rich repeat kinase 2; parkinson'	2e-19
3oes_A	201	GTPase rhebl1; small GTPase, structural genomics,	9e-17
2fn4_A	181	P23, RAS-related protein R-RAS; GDP/GTP binding, G	1e-16
2gf0_A	199	GTP-binding protein DI-RAS1; GDP/GTP binding, GTP	1e-16
3t5g_A	181	GTP-binding protein RHEB; immunoglobulin-like beta	1e-16
2a9k_A	187	RAS-related protein RAL-A; bacterial ADP-ribosyltr	2e-16
2bov_A	206	RAla, RAS-related protein RAL-A; C3BOT, exoenzyme,	2e-16
1u8z_A	168	RAS-related protein RAL-A; GNP, GTP, GMPPNP, GPPNH	3e-16
3con_A	190	GTPase NRAS; structural genomics consortium, SGC,	5e-16
2atv_A	196	RERG, RAS-like estrogen-regulated growth inhibitor	2e-15
3reg_A	194	RHO-like small GTPase; cytoskeleton, nucleotide-bi	2e-15
3c5c_A	187	RAS-like protein 12; GDP, GTPase, structural genom	2e-15
2nzj_A	175	GTP-binding protein REM 1; GDP/GTP binding, GTP hy	3e-15
2erx_A	172	GTP-binding protein DI-RAS2; GTP hydrolysis, trans	3e-15
3clv_A	208	RAB5 protein, putative; malaria, GTPase, structura	3e-15
2ce2_X	166	GTPase HRAS; signaling protein, guanine nucleotide	4e-15
3dpu_A	535	RAB family protein; roccor, G-domain, COR, GTP-bin	4e-15
3kkq_A	183	RAS-related protein M-RAS; GTP-binding, GTPase, si	5e-15
2j1l_A	214	RHO-related GTP-binding protein RHOD; GTPase, memb	7e-15
3q3j_B	214	RHO-related GTP-binding protein RHO6; RAS-binding	8e-15
1c1y_A	167	RAS-related protein RAP-1A; GTP-binding proteins,	9e-15
4dsu_A	189	GTPase KRAS, isoform 2B; small G-protein, signalin	2e-14
1kao_A	167	RAP2A; GTP-binding protein, small G protein, GDP,	2e-14
3th5_A	204	RAS-related C3 botulinum toxin substrate 1; rossma	3e-14
2iwr_A	178	Centaurin gamma 1; ANK repeat, zinc-finger, GTP-bi	8e-14
3bwd_D	182	RAC-like GTP-binding protein ARAC6; G domain, cyto	1e-13
3ihw_A	184	Centg3; RAS, centaurin, GTPase, structural genomic	2e-13
1gwn_A	205	RHO-related GTP-binding protein RHOE; GTPase, inac	3e-13
2fv8_A	207	H6, RHO-related GTP-binding protein RHOB; GDP/GTP	3e-13
2q3h_A	201	RAS homolog gene family, member U; GTPase, structu	7e-13
3q72_A	166	GTP-binding protein RAD; G-domain, CAV2 beta, sign	1e-12
2j0v_A	212	RAC-like GTP-binding protein ARAC7; nucleotide-bin	1e-12
1m7b_A	184	RND3/RHOE small GTP-binding protein; small GTPase,	2e-12
2g3y_A	211	GTP-binding protein GEM; small GTPase, GDP, inacti	3e-12
2atx_A	194	Small GTP binding protein TC10; GTPase, P-loop, al	4e-12
2gco_A	201	H9, RHO-related GTP-binding protein RHOC; GTPase,s	5e-12
2cjw_A	192	GTP-binding protein GEM; nucleotide-binding, small	8e-12
1mh1_A	186	RAC1; GTP-binding, GTPase, small G-protein, RHO fa	2e-11
3t1o_A	198	Gliding protein MGLA; G domain containing protein,	3e-08
3r7w_A	307	Gtpase1, GTP-binding protein GTR1; RAG gtpases, GT	3e-04

>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 = 98.4 bits (246), Expect = 3e-27
 Identities = 26/64 (40%), Positives = 37/64 (57%)

Query: 67  PEKLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWD 126
             +  K++V+GD   GKTS    + Q TF K YK T+G+DF L+ +       + LQ+WD
Sbjct: 3   HMRQLKIVVLGDGASGKTSLTTCFAQETFGKQYKQTIGLDFFLRRITLPGNLNVTLQIWD 62

Query: 127 IAGQ 130
           I GQ
Sbjct: 63  IGGQ 66

>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 = 97.7 bits (244), Expect = 7e-27
 Identities = 27/61 (44%), Positives = 38/61 (62%)

Query: 70  LFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAG 129
           + KVI++GD  VGKTS + RYV + + + YK T+G DF  K V     +   +Q+WD AG
Sbjct: 8   ILKVIILGDSGVGKTSLMHRYVNDKYSQQYKATIGADFLTKEVTVDGDKVATMQVWDTAG 67

Query: 130 Q 130
           Q
Sbjct: 68  Q 68

>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 = 95.4 bits (238), Expect = 7e-26
 Identities = 29/61 (47%), Positives = 38/61 (62%), Gaps = 1/61 (1%)

Query: 70  LFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAG 129
           L KVI++GD  VGKTS + +YV   F   YK T+G DF  K V   D + + +Q+WD AG
Sbjct: 8   LLKVIILGDSGVGKTSLMNQYVNKKFSNQYKATIGADFLTKEVMV-DDRLVTMQIWDTAG 66

Query: 130 Q 130
           Q
Sbjct: 67  Q 67

>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 = 93.7 bits (234), Expect = 2e-25
 Identities = 29/66 (43%), Positives = 40/66 (60%), Gaps = 1/66 (1%)

Query: 65  APPEKLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQL 124
           A    LFKVI++GD  VGK+S + RYV N F      T+GV+F  K ++  D   + +Q+
Sbjct: 2   AGKSSLFKVILLGDGGVGKSSLMNRYVTNKFDTQLFHTIGVEFLNKDLE-VDGHFVTMQI 60

Query: 125 WDIAGQ 130
           WD AGQ
Sbjct: 61  WDTAGQ 66

>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 = 93.5 bits (233), Expect = 3e-25
 Identities = 27/67 (40%), Positives = 44/67 (65%), Gaps = 1/67 (1%)

Query: 64  NAPPEKLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQ 123
           +   +K +K+++ GD  VGK+SF+ R  +N F+++   T+GVDF +K +   D ++  LQ
Sbjct: 22  SFSSQKAYKIVLAGDAAVGKSSFLMRLCKNEFRENISATLGVDFQMKTLI-VDGERTVLQ 80

Query: 124 LWDIAGQ 130
           LWD AGQ
Sbjct: 81  LWDTAGQ 87

>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 = 92.7 bits (231), Expect = 9e-25
 Identities = 29/76 (38%), Positives = 46/76 (60%), Gaps = 1/76 (1%)

Query: 55  RVPSIRKSFNAPPEKLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKW 114
            VP      +   + LFK++++GD +VGKT  VQR+    F +    T+GVDF +K ++ 
Sbjct: 14  LVPRGSGDPDEQYDFLFKLVLVGDASVGKTCVVQRFKTGAFSERQGSTIGVDFTMKTLE- 72

Query: 115 RDQQKIKLQLWDIAGQ 130
              +++KLQ+WD AGQ
Sbjct: 73  IQGKRVKLQIWDTAGQ 88

>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 = 91.8 bits (229), Expect = 9e-25
 Identities = 27/61 (44%), Positives = 42/61 (68%), Gaps = 1/61 (1%)

Query: 70  LFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAG 129
             K++V+G+  VGK+S +QRY +  F KDYK T+GVDF  + ++  + + ++L LWD AG
Sbjct: 5   AIKMVVVGNGAVGKSSMIQRYCKGIFTKDYKKTIGVDFLERQIQ-VNDEDVRLMLWDTAG 63

Query: 130 Q 130
           Q
Sbjct: 64  Q 64

>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 = 91.9 bits (229), Expect = 1e-24
 Identities = 25/61 (40%), Positives = 39/61 (63%), Gaps = 1/61 (1%)

Query: 70  LFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAG 129
           LFK +VIG+   GK+  + ++++  FK D   T+GV+F  KI+     + +KLQ+WD AG
Sbjct: 10  LFKFLVIGNAGTGKSCLLHQFIEKKFKDDSNHTIGVEFGSKIIN-VGGKYVKLQIWDTAG 68

Query: 130 Q 130
           Q
Sbjct: 69  Q 69

>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 = 92.3 bits (230), Expect = 1e-24
 Identities = 25/61 (40%), Positives = 40/61 (65%), Gaps = 1/61 (1%)

Query: 70  LFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAG 129
           LFK +VIG    GK+  + ++++N FK+D   T+GV+F  ++V     + +KLQ+WD AG
Sbjct: 25  LFKFLVIGSAGTGKSCLLHQFIENKFKQDSNHTIGVEFGSRVVN-VGGKTVKLQIWDTAG 83

Query: 130 Q 130
           Q
Sbjct: 84  Q 84

>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 = 91.9 bits (229), Expect = 1e-24
 Identities = 27/61 (44%), Positives = 42/61 (68%), Gaps = 1/61 (1%)

Query: 70  LFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAG 129
           LFKV++IGD  VGK++ + R+ +N F  + K T+GV+FA + ++  D + IK Q+WD AG
Sbjct: 29  LFKVVLIGDSGVGKSNLLSRFTRNEFNLESKSTIGVEFATRSIQ-VDGKTIKAQIWDTAG 87

Query: 130 Q 130
            
Sbjct: 88  L 88

>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 = 91.5 bits (228), Expect = 1e-24
 Identities = 27/61 (44%), Positives = 40/61 (65%), Gaps = 1/61 (1%)

Query: 70  LFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAG 129
           +FK I+IGD  VGK+  + ++ +  F  D   T+GV+F  +I++    QKIKLQ+WD AG
Sbjct: 15  IFKYIIIGDMGVGKSCLLHQFTEKKFMADCPHTIGVEFGTRIIE-VSGQKIKLQIWDTAG 73

Query: 130 Q 130
           Q
Sbjct: 74  Q 74

>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 = 91.6 bits (228), Expect = 2e-24
 Identities = 28/61 (45%), Positives = 43/61 (70%), Gaps = 1/61 (1%)

Query: 70  LFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAG 129
           LFK+++IG+  VGK+  + R+  +T+  DY  T+GVDF +K V+  D + +KLQ+WD AG
Sbjct: 8   LFKLLLIGNSGVGKSCLLLRFSDDTYTNDYISTIGVDFKIKTVE-LDGKTVKLQIWDTAG 66

Query: 130 Q 130
           Q
Sbjct: 67  Q 67

>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 = 91.1 bits (227), Expect = 2e-24
 Identities = 29/61 (47%), Positives = 38/61 (62%), Gaps = 1/61 (1%)

Query: 70  LFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAG 129
           +FK+IVIGD  VGKT    R+    F    + T+GVDF  + V   D ++IK+QLWD AG
Sbjct: 20  IFKIIVIGDSNVGKTCLTYRFCAGRFPDRTEATIGVDFRERAVD-IDGERIKIQLWDTAG 78

Query: 130 Q 130
           Q
Sbjct: 79  Q 79

>3tw8_B RAS-related protein RAB-35; longin domain, RAB GTPase, guanine exchange factor; 2.10A {Homo sapiens} Length = 181

 Score = 91.1 bits (227), Expect = 2e-24
 Identities = 30/61 (49%), Positives = 44/61 (72%), Gaps = 1/61 (1%)

Query: 70  LFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAG 129
           LFK+++IGD  VGK+S + R+  NTF   Y  T+GVDF ++ V+  + +K+KLQ+WD AG
Sbjct: 9   LFKLLIIGDSGVGKSSLLLRFADNTFSGSYITTIGVDFKIRTVE-INGEKVKLQIWDTAG 67

Query: 130 Q 130
           Q
Sbjct: 68  Q 68

>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 = 91.1 bits (227), Expect = 3e-24
 Identities = 30/61 (49%), Positives = 45/61 (73%), Gaps = 1/61 (1%)

Query: 70  LFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAG 129
           +FK+++IG+ +VGKTSF+ RY  ++F   +  TVG+DF +K V  R  ++IKLQ+WD AG
Sbjct: 22  MFKLLLIGNSSVGKTSFLFRYADDSFTPAFVSTVGIDFKVKTVY-RHDKRIKLQIWDTAG 80

Query: 130 Q 130
           Q
Sbjct: 81  Q 81

>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 = 90.7 bits (226), Expect = 3e-24
 Identities = 26/61 (42%), Positives = 43/61 (70%), Gaps = 1/61 (1%)

Query: 70  LFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAG 129
           LFK+++IGD  VGKT  + R+ ++ F   +  T+G+DF ++ ++  D ++IKLQ+WD AG
Sbjct: 8   LFKLLLIGDSGVGKTCVLFRFSEDAFNSTFISTIGIDFKIRTIE-LDGKRIKLQIWDTAG 66

Query: 130 Q 130
           Q
Sbjct: 67  Q 67

>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 = 91.2 bits (227), Expect = 3e-24
 Identities = 29/61 (47%), Positives = 42/61 (68%), Gaps = 1/61 (1%)

Query: 70  LFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAG 129
           LFK+++IG+  VGKT  V+R+ Q  F      T+GVDF +K V+  + +K+KLQ+WD AG
Sbjct: 26  LFKIVLIGNAGVGKTCLVRRFTQGLFPPGQGATIGVDFMIKTVE-INGEKVKLQIWDTAG 84

Query: 130 Q 130
           Q
Sbjct: 85  Q 85

>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 = 91.2 bits (227), Expect = 3e-24
 Identities = 27/61 (44%), Positives = 43/61 (70%), Gaps = 1/61 (1%)

Query: 70  LFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAG 129
           LFK+++IGD  VGK+  + R+  +T+ + Y  T+GVDF ++ ++  D + IKLQ+WD AG
Sbjct: 33  LFKLLLIGDSGVGKSCLLLRFADDTYTESYISTIGVDFKIRTIE-LDGKTIKLQIWDTAG 91

Query: 130 Q 130
           Q
Sbjct: 92  Q 92

>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 = 90.7 bits (226), Expect = 3e-24
 Identities = 24/61 (39%), Positives = 39/61 (63%), Gaps = 1/61 (1%)

Query: 70  LFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAG 129
           +FKV++IG+  VGKT+ + R+ +N F  D + T+GV+F+ + V       +K Q+WD AG
Sbjct: 25  VFKVVLIGESGVGKTNLLSRFTRNEFSHDSRTTIGVEFSTRTVM-LGTAAVKAQIWDTAG 83

Query: 130 Q 130
            
Sbjct: 84  L 84

>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 = 91.7 bits (228), Expect = 3e-24
 Identities = 27/61 (44%), Positives = 44/61 (72%), Gaps = 1/61 (1%)

Query: 70  LFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAG 129
           LFK+++IGD  VGK++ + R+ +N F  D K T+GV+FA + ++  + ++IK Q+WD AG
Sbjct: 13  LFKIVLIGDSGVGKSNLLSRFTKNEFNMDSKSTIGVEFATRTLE-IEGKRIKAQIWDTAG 71

Query: 130 Q 130
           Q
Sbjct: 72  Q 72

>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 = 90.8 bits (226), Expect = 4e-24
 Identities = 30/61 (49%), Positives = 42/61 (68%), Gaps = 1/61 (1%)

Query: 70  LFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAG 129
             +VI+IG   VGKTS ++R+  +TF +  K TVGVDF +K V+    +KI+LQ+WD AG
Sbjct: 26  KLQVIIIGSRGVGKTSLMERFTDDTFCEACKSTVGVDFKIKTVE-LRGKKIRLQIWDTAG 84

Query: 130 Q 130
           Q
Sbjct: 85  Q 85

>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 = 90.8 bits (226), Expect = 4e-24
 Identities = 28/61 (45%), Positives = 43/61 (70%), Gaps = 1/61 (1%)

Query: 70  LFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAG 129
           LFKV++IGD  VGK++ + R+ +N F  + K T+GV+FA + ++  D + IK Q+WD AG
Sbjct: 5   LFKVVLIGDSGVGKSNLLSRFTRNEFNLESKSTIGVEFATRSIQ-VDGKTIKAQIWDTAG 63

Query: 130 Q 130
           Q
Sbjct: 64  Q 64

>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 = 90.3 bits (225), Expect = 4e-24
 Identities = 26/61 (42%), Positives = 40/61 (65%), Gaps = 1/61 (1%)

Query: 70  LFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAG 129
           LFK I+IGD  VGK+  + ++    F+  +  T+GV+F  ++V   D ++IKLQ+WD AG
Sbjct: 21  LFKYIIIGDTGVGKSCLLLQFTDKRFQPVHDLTIGVEFGARMVN-IDGKQIKLQIWDTAG 79

Query: 130 Q 130
           Q
Sbjct: 80  Q 80

>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 = 90.4 bits (225), Expect = 5e-24
 Identities = 25/61 (40%), Positives = 38/61 (62%), Gaps = 1/61 (1%)

Query: 70  LFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAG 129
             K+++IG+  VGK+S + R+  +TF  +   T+GVDF +K +   D  K KL +WD AG
Sbjct: 15  TLKILIIGESGVGKSSLLLRFTDDTFDPELAATIGVDFKVKTIS-VDGNKAKLAIWDTAG 73

Query: 130 Q 130
           Q
Sbjct: 74  Q 74

>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 = 90.9 bits (226), Expect = 6e-24
 Identities = 29/70 (41%), Positives = 37/70 (52%), Gaps = 9/70 (12%)

Query: 70  LFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVK---------WRDQQKI 120
           L K++ +GD  VGKT+F+ RY  N F   +  TVG+DF  K V               K+
Sbjct: 25  LIKLLALGDSGVGKTTFLYRYTDNKFNPKFITTVGIDFREKRVVYNAQGPNGSSGKAFKV 84

Query: 121 KLQLWDIAGQ 130
            LQLWD AGQ
Sbjct: 85  HLQLWDTAGQ 94

>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 = 90.0 bits (224), Expect = 7e-24
 Identities = 30/61 (49%), Positives = 46/61 (75%), Gaps = 1/61 (1%)

Query: 70  LFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAG 129
           +FK+++IG+ +VGKTSF+ RY  +TF   +  TVG+DF +K V  R ++++KLQ+WD AG
Sbjct: 23  MFKLLIIGNSSVGKTSFLFRYADDTFTPAFVSTVGIDFKVKTVY-RHEKRVKLQIWDTAG 81

Query: 130 Q 130
           Q
Sbjct: 82  Q 82

>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 = 89.5 bits (223), Expect = 7e-24
 Identities = 25/61 (40%), Positives = 42/61 (68%), Gaps = 1/61 (1%)

Query: 70  LFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAG 129
           + K+++IGD  VGK+  + R+V++ F   +  T+G+DF +K V   + +K+KLQ+WD AG
Sbjct: 3   IMKILLIGDSGVGKSCLLVRFVEDKFNPSFITTIGIDFKIKTVD-INGKKVKLQIWDTAG 61

Query: 130 Q 130
           Q
Sbjct: 62  Q 62

>3tkl_A RAS-related protein RAB-1A; vesicle trafficking, protein transport-protein binding compl; HET: GTP; 2.18A {Homo sapiens} Length = 196

 Score = 89.6 bits (223), Expect = 1e-23
 Identities = 27/61 (44%), Positives = 43/61 (70%), Gaps = 1/61 (1%)

Query: 70  LFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAG 129
           LFK+++IGD  VGK+  + R+  +T+ + Y  T+GVDF ++ ++  D + IKLQ+WD AG
Sbjct: 16  LFKLLLIGDSGVGKSCLLLRFADDTYTESYISTIGVDFKIRTIE-LDGKTIKLQIWDTAG 74

Query: 130 Q 130
           Q
Sbjct: 75  Q 75

>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 = 89.6 bits (223), Expect = 1e-23
 Identities = 28/61 (45%), Positives = 45/61 (73%), Gaps = 1/61 (1%)

Query: 70  LFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAG 129
           +FK+++IG+ +VGKTSF+ RY  ++F   +  TVG+DF +K +  R+ ++IKLQ+WD AG
Sbjct: 8   MFKILIIGNSSVGKTSFLFRYADDSFTPAFVSTVGIDFKVKTIY-RNDKRIKLQIWDTAG 66

Query: 130 Q 130
            
Sbjct: 67  L 67

>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 = 88.7 bits (221), Expect = 1e-23
 Identities = 24/61 (39%), Positives = 36/61 (59%), Gaps = 1/61 (1%)

Query: 70  LFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAG 129
            FKV+++G+  VGKTS V RY +N F   +  T+G  F  K +     +++ L +WD AG
Sbjct: 6   SFKVVLLGEGCVGKTSLVLRYCENKFNDKHITTLGASFLTKKLN-IGGKRVNLAIWDTAG 64

Query: 130 Q 130
           Q
Sbjct: 65  Q 65

>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 = 88.8 bits (221), Expect = 2e-23
 Identities = 25/65 (38%), Positives = 44/65 (67%), Gaps = 1/65 (1%)

Query: 66  PPEKLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLW 125
            P + FK++ +G+ +VGKTS + R++ ++F   Y+ T+G+DF  K +   + + ++LQLW
Sbjct: 10  NPLRKFKLVFLGEQSVGKTSLITRFMYDSFDNTYQATIGIDFLSKTMY-LEDRTVRLQLW 68

Query: 126 DIAGQ 130
           D AGQ
Sbjct: 69  DTAGQ 73

>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 = 88.9 bits (221), Expect = 3e-23
 Identities = 26/61 (42%), Positives = 42/61 (68%), Gaps = 1/61 (1%)

Query: 70  LFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAG 129
           + K+++IGD  VGK+  + R+V++ F   +  T+G+DF +K V   + +K+KLQLWD AG
Sbjct: 20  IMKILLIGDSGVGKSCLLVRFVEDKFNPSFITTIGIDFKIKTVD-INGKKVKLQLWDTAG 78

Query: 130 Q 130
           Q
Sbjct: 79  Q 79

>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 = 88.5 bits (220), Expect = 5e-23
 Identities = 25/74 (33%), Positives = 43/74 (58%), Gaps = 1/74 (1%)

Query: 57  PSIRKSFNAPPEKLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRD 116
           P +  +    P+  FK++++GD   GKT+FV+R++   F+K Y  T+GV+    +    +
Sbjct: 2   PHMASAAQGEPQVQFKLVLVGDGGTGKTTFVKRHLTGEFEKKYVATLGVEVHPLVFH-TN 60

Query: 117 QQKIKLQLWDIAGQ 130
           +  IK  +WD AGQ
Sbjct: 61  RGPIKFNVWDTAGQ 74

>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 = 87.7 bits (218), Expect = 6e-23
 Identities = 27/70 (38%), Positives = 34/70 (48%), Gaps = 9/70 (12%)

Query: 70  LFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVK---------WRDQQKI 120
           L K + +GD  VGKTS + +Y    F   +  TVG+DF  K V              Q+I
Sbjct: 11  LIKFLALGDSGVGKTSVLYQYTDGKFNSKFITTVGIDFREKRVVYRANGPDGAVGRGQRI 70

Query: 121 KLQLWDIAGQ 130
            LQLWD AG 
Sbjct: 71  HLQLWDTAGL 80

>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 = 88.1 bits (219), Expect = 6e-23
 Identities = 24/66 (36%), Positives = 43/66 (65%), Gaps = 1/66 (1%)

Query: 65  APPEKLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQL 124
             P + FK++ +G+ +VGKTS + R++ ++F   Y+ T+G+DF  K +   + + ++LQL
Sbjct: 11  GNPLRKFKLVFLGEQSVGKTSLITRFMYDSFDNTYQATIGIDFLSKTMY-LEDRTVRLQL 69

Query: 125 WDIAGQ 130
           WD AG 
Sbjct: 70  WDTAGL 75

>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 = 87.3 bits (217), Expect = 7e-23
 Identities = 24/67 (35%), Positives = 34/67 (50%), Gaps = 1/67 (1%)

Query: 64  NAPPEKLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQ 123
                +  KV ++GD  VGK+S V R+VQ+ F  +   T+G  F  K V     +  K  
Sbjct: 17  RGSAIRELKVCLLGDTGVGKSSIVCRFVQDHFDHNISPTIGASFMTKTVP-CGNELHKFL 75

Query: 124 LWDIAGQ 130
           +WD AGQ
Sbjct: 76  IWDTAGQ 82

>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 = 86.1 bits (214), Expect = 2e-22
 Identities = 27/62 (43%), Positives = 38/62 (61%), Gaps = 2/62 (3%)

Query: 70  LFKVIVIGDPTVGKTSFVQRYVQNTFKKD-YKGTVGVDFALKIVKWRDQQKIKLQLWDIA 128
            FKV+++GD  VGKT  + R+    F    +  TVG+DF  K++   D  K+KLQ+WD A
Sbjct: 10  AFKVMLVGDSGVGKTCLLVRFKDGAFLAGTFISTVGIDFRNKVLD-VDGVKVKLQMWDTA 68

Query: 129 GQ 130
           GQ
Sbjct: 69  GQ 70

>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 = 85.7 bits (213), Expect = 3e-22
 Identities = 22/71 (30%), Positives = 39/71 (54%), Gaps = 3/71 (4%)

Query: 62  SFNAPPEK--LFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQK 119
           S  A   K    K++++GD   GK+S V R+V++ F +  + T+G  F  + +   +   
Sbjct: 2   SMAAAGNKSINAKLVLLGDVGAGKSSLVLRFVKDQFVEFQESTIGAAFFSQTLA-VNDAT 60

Query: 120 IKLQLWDIAGQ 130
           +K ++WD AGQ
Sbjct: 61  VKFEIWDTAGQ 71

>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 = 85.2 bits (212), Expect = 3e-22
 Identities = 21/60 (35%), Positives = 34/60 (56%), Gaps = 1/60 (1%)

Query: 71  FKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQ 130
            KV ++GD  VGK+S + R+V+++F  +   T+G  F  K V+    +  K  +WD AG 
Sbjct: 7   LKVCLLGDTGVGKSSIMWRFVEDSFDPNINPTIGASFMTKTVQ-YQNELHKFLIWDTAGL 65

>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 = 84.5 bits (210), Expect = 6e-22
 Identities = 22/60 (36%), Positives = 37/60 (61%), Gaps = 1/60 (1%)

Query: 71  FKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQ 130
           FK++++G+  VGK+S V R+V+  F +  + T+G  F  + V   D   +K ++WD AGQ
Sbjct: 7   FKLVLLGESAVGKSSLVLRFVKGQFHEFQESTIGAAFLTQTVC-LDDTTVKFEIWDTAGQ 65

>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 = 84.1 bits (208), Expect = 1e-21
 Identities = 21/60 (35%), Positives = 38/60 (63%), Gaps = 1/60 (1%)

Query: 71  FKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQ 130
            K++++G+  VGK+S V R+V N F ++ + T+G  F  + V   ++  +K ++WD AGQ
Sbjct: 4   IKLVLLGEAAVGKSSIVLRFVSNDFAENKEPTIGAAFLTQRVT-INEHTVKFEIWDTAGQ 62

>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 = 83.9 bits (208), Expect = 2e-21
 Identities = 22/62 (35%), Positives = 35/62 (56%), Gaps = 2/62 (3%)

Query: 70  LFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGV-DFALKIVKWRDQQKIKLQLWDIA 128
            +K+ +IGD  VGKT+++ R +   F+K+Y  TVG  +  +  +       IK  +WD A
Sbjct: 11  TYKICLIGDGGVGKTTYINRVLDGRFEKNYNATVGAVNHPVTFLD-DQGNVIKFNVWDTA 69

Query: 129 GQ 130
           GQ
Sbjct: 70  GQ 71

>2yc2_C IFT27, small RAB-related GTPase; transport protein, cilium, IFT complex; 2.59A {Chlamydomonas reinhardtii} PDB: 2yc4_C Length = 208

 Score = 82.7 bits (205), Expect = 6e-21
 Identities = 20/65 (30%), Positives = 33/65 (50%), Gaps = 5/65 (7%)

Query: 70  LFKVIVIGDPTVGKTSFVQRYV--QNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLW-- 125
             KV V+G+ TVGK++ +  +    + F KDY  T GV+  +  V       + ++L+  
Sbjct: 20  RCKVAVVGEATVGKSALISMFTSKGSKFLKDYAMTSGVEVVVAPVT-IPDTTVSVELFLL 78

Query: 126 DIAGQ 130
           D AG 
Sbjct: 79  DTAGS 83

>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 = 81.1 bits (201), Expect = 2e-20
 Identities = 14/69 (20%), Positives = 33/69 (47%), Gaps = 1/69 (1%)

Query: 62  SFNAPPEKLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIK 121
            F    + +FKV+++G+  VGK++    +        ++     D   + +   D++++ 
Sbjct: 15  YFQGQKDGIFKVMLVGESGVGKSTLAGTFGGLQGDSAHEPENPEDTYERRIM-VDKEEVT 73

Query: 122 LQLWDIAGQ 130
           L ++DI  Q
Sbjct: 74  LVVYDIWEQ 82

>3q85_A GTP-binding protein REM 2; G-domain, CAV2 beta, signaling protein; HET: GNP; 1.76A {Mus musculus} Length = 169

 Score = 78.3 bits (194), Expect = 2e-19
 Identities = 13/61 (21%), Positives = 31/61 (50%), Gaps = 1/61 (1%)

Query: 70  LFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAG 129
           +FKV+++G+  VGK++    +        ++     D   + +   D++++ L ++DI  
Sbjct: 2   VFKVMLVGESGVGKSTLAGTFGGLQGDHAHEMENSEDTYERRIM-VDKEEVTLIVYDIWE 60

Query: 130 Q 130
           Q
Sbjct: 61  Q 61

>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 = 78.6 bits (194), Expect = 2e-19
 Identities = 18/64 (28%), Positives = 36/64 (56%), Gaps = 4/64 (6%)

Query: 71  FKVIVIGDPTVGKTSFVQRYVQNTF--KKDYKGTVGVDFALKIVKWRDQQK--IKLQLWD 126
            K++++G+   GKT+ +Q+ ++           TVG+D     ++ RD++K  + L +WD
Sbjct: 3   MKLMIVGNTGSGKTTLLQQLMKTKKSDLGMQSATVGIDVKDWPIQIRDKRKRDLVLNVWD 62

Query: 127 IAGQ 130
            AG+
Sbjct: 63  FAGR 66

>3oes_A GTPase rhebl1; small GTPase, structural genomics, structural genomics conso SGC, hydrolase; HET: GNP; 2.30A {Homo sapiens} Length = 201

 Score = 71.9 bits (177), Expect = 9e-17
 Identities = 20/67 (29%), Positives = 33/67 (49%), Gaps = 2/67 (2%)

Query: 64  NAPPEKLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQ 123
             P  +  KV+++G   VGKTS   ++V+  F + Y  TV   ++  +     + +  L 
Sbjct: 18  GMPLVRYRKVVILGYRCVGKTSLAHQFVEGEFSEGYDPTVENTYSKIVT--LGKDEFHLH 75

Query: 124 LWDIAGQ 130
           L D AGQ
Sbjct: 76  LVDTAGQ 82

>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 = 71.0 bits (175), Expect = 1e-16
 Identities = 23/69 (33%), Positives = 37/69 (53%), Gaps = 2/69 (2%)

Query: 62  SFNAPPEKLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIK 121
           S + PP +  K++V+G   VGK++   +++Q+ F  DY  T+  D   KI    D    +
Sbjct: 1   SMDPPPSETHKLVVVGGGGVGKSALTIQFIQSYFVSDYDPTIE-DSYTKICSV-DGIPAR 58

Query: 122 LQLWDIAGQ 130
           L + D AGQ
Sbjct: 59  LDILDTAGQ 67

>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 = 71.1 bits (175), Expect = 1e-16
 Identities = 20/66 (30%), Positives = 31/66 (46%), Gaps = 2/66 (3%)

Query: 65  APPEKLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQL 124
                 ++V+V G   VGK+S V R+V+ TF+  Y  T+   +   I    D+    LQ+
Sbjct: 3   PEQSNDYRVVVFGAGGVGKSSLVLRFVKGTFRDTYIPTIEDTYRQVIS--CDKSVCTLQI 60

Query: 125 WDIAGQ 130
            D  G 
Sbjct: 61  TDTTGS 66

>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 = 70.6 bits (174), Expect = 1e-16
 Identities = 22/65 (33%), Positives = 33/65 (50%), Gaps = 2/65 (3%)

Query: 66  PPEKLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLW 125
           P  K  K+ ++G  +VGK+S   ++V+  F   Y  T+   F   I    + Q+  LQL 
Sbjct: 2   PQSKSRKIAILGYRSVGKSSLTIQFVEGQFVDSYDPTIENTFTKLIT--VNGQEYHLQLV 59

Query: 126 DIAGQ 130
           D AGQ
Sbjct: 60  DTAGQ 64

>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 = 70.3 bits (173), Expect = 2e-16
 Identities = 20/73 (27%), Positives = 39/73 (53%), Gaps = 2/73 (2%)

Query: 58  SIRKSFNAPPEKLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQ 117
           S     +     L KVI++G   VGK++   +++ + F +DY+ T    +  K+V   D 
Sbjct: 6   SGGGGGSQNSLALHKVIMVGSGGVGKSALTLQFMYDEFVEDYEPTKADSYRKKVV--LDG 63

Query: 118 QKIKLQLWDIAGQ 130
           +++++ + D AGQ
Sbjct: 64  EEVQIDILDTAGQ 76

>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 = 70.7 bits (174), Expect = 2e-16
 Identities = 20/73 (27%), Positives = 39/73 (53%), Gaps = 2/73 (2%)

Query: 58  SIRKSFNAPPEKLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQ 117
           +  K        L KVI++G   VGK++   +++ + F +DY+ T    +  K+V   D 
Sbjct: 2   AANKPKGQNSLALHKVIMVGSGGVGKSALTLQFMYDEFVEDYEPTKADSYRKKVV--LDG 59

Query: 118 QKIKLQLWDIAGQ 130
           +++++ + D AGQ
Sbjct: 60  EEVQIDILDTAGQ 72

>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 = 69.4 bits (171), Expect = 3e-16
 Identities = 19/62 (30%), Positives = 37/62 (59%), Gaps = 2/62 (3%)

Query: 69  KLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIA 128
            L KVI++G   VGK++   +++ + F +DY+ T    +  K+V   D +++++ + D A
Sbjct: 3   ALHKVIMVGSGGVGKSALTLQFMYDEFVEDYEPTKADSYRKKVVL--DGEEVQIDILDTA 60

Query: 129 GQ 130
           GQ
Sbjct: 61  GQ 62

>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 = 69.5 bits (171), Expect = 5e-16
 Identities = 20/73 (27%), Positives = 37/73 (50%), Gaps = 2/73 (2%)

Query: 58  SIRKSFNAPPEKLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQ 117
           S R++        +K++V+G   VGK++   + +QN F  +Y  T+   +  ++V   D 
Sbjct: 9   SGRENLYFQGMTEYKLVVVGAGGVGKSALTIQLIQNHFVDEYDPTIEDSYRKQVV--IDG 66

Query: 118 QKIKLQLWDIAGQ 130
           +   L + D AGQ
Sbjct: 67  ETCLLDILDTAGQ 79

>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 = 68.4 bits (168), Expect = 2e-15
 Identities = 15/65 (23%), Positives = 30/65 (46%), Gaps = 2/65 (3%)

Query: 66  PPEKLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLW 125
                 K+ + G   VGK++ V R++   F  +Y  T+   +  +     D + + +++ 
Sbjct: 24  AKSAEVKLAIFGRAGVGKSALVVRFLTKRFIWEYDPTLESTYRHQAT--IDDEVVSMEIL 81

Query: 126 DIAGQ 130
           D AGQ
Sbjct: 82  DTAGQ 86

>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 = 68.1 bits (167), Expect = 2e-15
 Identities = 20/67 (29%), Positives = 32/67 (47%), Gaps = 2/67 (2%)

Query: 64  NAPPEKLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQ 123
               +K  K++V+GD  VGKT  +  + +      Y  TV  +F+  +      ++  L 
Sbjct: 17  IENGKKALKIVVVGDGAVGKTCLLLAFSKGEIPTAYVPTVFENFSHVMK--YKNEEFILH 74

Query: 124 LWDIAGQ 130
           LWD AGQ
Sbjct: 75  LWDTAGQ 81

>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 = 68.0 bits (167), Expect = 2e-15
 Identities = 12/73 (16%), Positives = 30/73 (41%), Gaps = 2/73 (2%)

Query: 58  SIRKSFNAPPEKLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQ 117
           S R++          + ++G    GK++   +++   F  +Y   +   ++ +     D 
Sbjct: 9   SGRENLYFQGPLEVNLAILGRRGAGKSALTVKFLTKRFISEYDPNLEDTYSSEET--VDH 66

Query: 118 QKIKLQLWDIAGQ 130
           Q + L++ D A  
Sbjct: 67  QPVHLRVMDTADL 79

>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 = 67.2 bits (165), Expect = 3e-15
 Identities = 15/62 (24%), Positives = 29/62 (46%), Gaps = 2/62 (3%)

Query: 69  KLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIA 128
            L++V+++GDP VGKTS    +     +  ++  +G D   + +   D +   L + D  
Sbjct: 3   ALYRVVLLGDPGVGKTSLASLFAGKQERDLHE-QLGEDVYERTLTV-DGEDTTLVVVDTW 60

Query: 129 GQ 130
             
Sbjct: 61  EA 62

>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 = 67.2 bits (165), Expect = 3e-15
 Identities = 21/60 (35%), Positives = 31/60 (51%), Gaps = 2/60 (3%)

Query: 71  FKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQ 130
           ++V V G   VGK+S V R+V+ TF++ Y  TV   +   I    D+    LQ+ D  G 
Sbjct: 4   YRVAVFGAGGVGKSSLVLRFVKGTFRESYIPTVEDTYRQVISC--DKSICTLQITDTTGS 61

>3clv_A RAB5 protein, putative; malaria, GTPase, structural genomics, GTP-binding, nucleotide-binding, signaling protein; HET: GDP; 1.89A {Plasmodium falciparum} Length = 208

 Score = 67.9 bits (166), Expect = 3e-15
 Identities = 21/97 (21%), Positives = 36/97 (37%), Gaps = 36/97 (37%)

Query: 70  LFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVK---------------- 113
            +K +++G+ +VGK+S V R  ++TF ++   T+G  F   +V                 
Sbjct: 7   SYKTVLLGESSVGKSSIVLRLTKDTFHENTNTTIGASFCTYVVNLNDINIKNNSNNEKNN 66

Query: 114 --------------------WRDQQKIKLQLWDIAGQ 130
                                 +   IK  +WD AGQ
Sbjct: 67  NINSINDDNNVIITNQHNNYNENLCNIKFDIWDTAGQ 103

>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 = 66.7 bits (164), Expect = 4e-15
 Identities = 17/62 (27%), Positives = 32/62 (51%), Gaps = 2/62 (3%)

Query: 69  KLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIA 128
             +K++V+G   VGK++   + +QN F  +   T+   +  ++V   D +   L + D A
Sbjct: 2   TEYKLVVVGAGGVGKSALTIQLIQNHFVDECDPTIEDSYRKQVV--IDGETCLLDILDTA 59

Query: 129 GQ 130
           GQ
Sbjct: 60  GQ 61

>3dpu_A RAB family protein; roccor, G-domain, COR, GTP-binding, nucleotide-binding, SIGN protein; 2.90A {Chlorobaculum tepidum} Length = 535

 Score = 69.2 bits (169), Expect = 4e-15
 Identities = 23/110 (20%), Positives = 41/110 (37%), Gaps = 12/110 (10%)

Query: 28  WENVTPIVSEQGDGEIIEIIDPSLKLVRVPSIRKSFNAPPEKLFKVIVIGDPTVGKTSFV 87
            E+  P + +QG   + +      +     +  K       +  KV +IGD   GKTS +
Sbjct: 4   LESPPPEIVKQGKEAVRQYFQSIEE-----ARSKGEALVHLQEIKVHLIGDGMAGKTSLL 58

Query: 88  QRYVQNTFKKDYKGTVGVDFALKIV-------KWRDQQKIKLQLWDIAGQ 130
           ++ +  TF      T G++   K            + ++     WD  GQ
Sbjct: 59  KQLIGETFDPKESQTHGLNVVTKQAPNIKGLENDDELKECLFHFWDFGGQ 108

>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 = 66.8 bits (164), Expect = 5e-15
 Identities = 22/67 (32%), Positives = 34/67 (50%), Gaps = 2/67 (2%)

Query: 64  NAPPEKLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQ 123
            +     +K++V+GD  VGK++   ++ Q  F  DY  T+  D  LK  +  D Q   L 
Sbjct: 12  PSENLPTYKLVVVGDGGVGKSALTIQFFQKIFVDDYDPTIE-DSYLKHTE-IDNQWAILD 69

Query: 124 LWDIAGQ 130
           + D AGQ
Sbjct: 70  VLDTAGQ 76

>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 = 67.1 bits (164), Expect = 7e-15
 Identities = 20/73 (27%), Positives = 34/73 (46%), Gaps = 2/73 (2%)

Query: 58  SIRKSFNAPPEKLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQ 117
           S+      P  +  KV+++GD   GKTS +  +    F + Y  TV   + + +      
Sbjct: 22  SMAGEEAPPGVRSVKVVLVGDGGCGKTSLLMVFADGAFPESYTPTVFERYMVNLQV--KG 79

Query: 118 QKIKLQLWDIAGQ 130
           + + L +WD AGQ
Sbjct: 80  KPVHLHIWDTAGQ 92

>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 = 66.8 bits (163), Expect = 8e-15
 Identities = 17/73 (23%), Positives = 37/73 (50%), Gaps = 2/73 (2%)

Query: 58  SIRKSFNAPPEKLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQ 117
             +     P     K++++GD   GKT+ +Q   ++ + + Y  TV  ++   +    ++
Sbjct: 15  YFQGRAPQPVVARCKLVLVGDVQCGKTAMLQVLAKDCYPETYVPTVFENYTACLE--TEE 72

Query: 118 QKIKLQLWDIAGQ 130
           Q+++L LWD +G 
Sbjct: 73  QRVELSLWDTSGS 85

>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 = 65.6 bits (161), Expect = 9e-15
 Identities = 19/62 (30%), Positives = 35/62 (56%), Gaps = 2/62 (3%)

Query: 69  KLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIA 128
           + +K++V+G   VGK++   ++VQ  F + Y  T+   +  K V+  D Q+  L++ D A
Sbjct: 2   REYKLVVLGSGGVGKSALTVQFVQGIFVEKYDPTIEDSYR-KQVE-VDCQQCMLEILDTA 59

Query: 129 GQ 130
           G 
Sbjct: 60  GT 61

>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 = 65.7 bits (161), Expect = 2e-14
 Identities = 18/62 (29%), Positives = 33/62 (53%), Gaps = 2/62 (3%)

Query: 69  KLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIA 128
             +K++V+G   VGK++   + +QN F  +Y  T+   +  ++V   D +   L + D A
Sbjct: 3   TEYKLVVVGADGVGKSALTIQLIQNHFVDEYDPTIEDSYRKQVV--IDGETCLLDILDTA 60

Query: 129 GQ 130
           GQ
Sbjct: 61  GQ 62

>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 = 64.8 bits (159), Expect = 2e-14
 Identities = 20/62 (32%), Positives = 34/62 (54%), Gaps = 2/62 (3%)

Query: 69  KLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIA 128
           + +KV+V+G   VGK++   ++V  TF + Y  T+  DF  K ++  D     L++ D A
Sbjct: 2   REYKVVVLGSGGVGKSALTVQFVTGTFIEKYDPTIE-DFYRKEIEV-DSSPSVLEILDTA 59

Query: 129 GQ 130
           G 
Sbjct: 60  GT 61

>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 = 65.2 bits (159), Expect = 3e-14
 Identities = 22/67 (32%), Positives = 34/67 (50%), Gaps = 2/67 (2%)

Query: 64  NAPPEKLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQ 123
                +  K +V+GD  VGKT  +  Y  N F  +Y  TV  +++  ++   D + + L 
Sbjct: 24  LYFQGQAIKCVVVGDGAVGKTCLLISYTTNAFPGEYIPTVFDNYSANVM--VDGKPVNLG 81

Query: 124 LWDIAGQ 130
           LWD AGQ
Sbjct: 82  LWDTAGQ 88

>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 = 63.4 bits (155), Expect = 8e-14
 Identities = 12/62 (19%), Positives = 30/62 (48%), Gaps = 3/62 (4%)

Query: 69  KLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIA 128
              ++ V+GD   GK+S + R++  ++ +  + T    +  +++   D Q   + + + A
Sbjct: 6   PELRLGVLGDARSGKSSLIHRFLTGSY-QVLEKTESEQYKKEMLV--DGQTHLVLIREEA 62

Query: 129 GQ 130
           G 
Sbjct: 63  GA 64

>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 = 63.2 bits (154), Expect = 1e-13
 Identities = 24/65 (36%), Positives = 33/65 (50%), Gaps = 2/65 (3%)

Query: 66  PPEKLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLW 125
              +  K + +GD  VGKT  +  Y  NTF  DY  TV  +F+  +V   +   + L LW
Sbjct: 4   SASRFIKCVTVGDGAVGKTCLLISYTSNTFPTDYVPTVFDNFSANVV--VNGATVNLGLW 61

Query: 126 DIAGQ 130
           D AGQ
Sbjct: 62  DTAGQ 66

>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 = 62.6 bits (153), Expect = 2e-13
 Identities = 20/65 (30%), Positives = 32/65 (49%), Gaps = 5/65 (7%)

Query: 66  PPEKLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLW 125
            PE   KV ++G+ + GK++ V RY+  T+ ++     G  F  +IV   D Q   L + 
Sbjct: 18  GPE--LKVGIVGNLSSGKSALVHRYLTGTYVQEES-PEGGRFKKEIV--VDGQSYLLLIR 72

Query: 126 DIAGQ 130
           D  G 
Sbjct: 73  DEGGP 77

>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 = 62.5 bits (152), Expect = 3e-13
 Identities = 19/70 (27%), Positives = 35/70 (50%), Gaps = 2/70 (2%)

Query: 61  KSFNAPPEKLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKI 120
              +       K++V+GD   GKT+ +  + ++ F ++Y  TV  ++        D Q+I
Sbjct: 19  SHMDPNQNVKCKIVVVGDSQCGKTALLHVFAKDCFPENYVPTVFENYTASFEI--DTQRI 76

Query: 121 KLQLWDIAGQ 130
           +L LWD +G 
Sbjct: 77  ELSLWDTSGS 86

>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 = 62.5 bits (152), Expect = 3e-13
 Identities = 20/73 (27%), Positives = 36/73 (49%), Gaps = 2/73 (2%)

Query: 58  SIRKSFNAPPEKLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQ 117
              ++         K++V+GD   GKT  +  + ++ F + Y  TV  ++   I    D 
Sbjct: 13  LGTENLYFQSMIRKKLVVVGDGACGKTCLLIVFSKDEFPEVYVPTVFENYVADIE--VDG 70

Query: 118 QKIKLQLWDIAGQ 130
           ++++L LWD AGQ
Sbjct: 71  KQVELALWDTAGQ 83

>2q3h_A RAS homolog gene family, member U; GTPase, structural genomics, structural genomics consortium,; HET: GDP; 1.73A {Homo sapiens} Length = 201

 Score = 61.7 bits (150), Expect = 7e-13
 Identities = 24/74 (32%), Positives = 36/74 (48%), Gaps = 2/74 (2%)

Query: 57  PSIRKSFNAPPEKLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRD 116
           P  R        +  K +++GD  VGKTS V  Y  N +  +Y  T   +F+  +    D
Sbjct: 7   PGGRGRAGGAEGRGVKCVLVGDGAVGKTSLVVSYTTNGYPTEYIPTAFDNFSAVVS--VD 64

Query: 117 QQKIKLQLWDIAGQ 130
            + ++LQL D AGQ
Sbjct: 65  GRPVRLQLCDTAGQ 78

>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 = 60.2 bits (147), Expect = 1e-12
 Identities = 15/61 (24%), Positives = 29/61 (47%), Gaps = 3/61 (4%)

Query: 70  LFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAG 129
           ++KV+++G P VGK++  + +             G  +   IV   D ++  L ++DI  
Sbjct: 2   VYKVLLLGAPGVGKSALARIF-GGVEDGPEAEAAGHTYDRSIVV--DGEEASLMVYDIWE 58

Query: 130 Q 130
           Q
Sbjct: 59  Q 59

>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 = 60.8 bits (148), Expect = 1e-12
 Identities = 25/67 (37%), Positives = 33/67 (49%), Gaps = 2/67 (2%)

Query: 64  NAPPEKLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQ 123
           +    K  K + +GD  VGKT  +  Y  N F  DY  TV  +F+  +    D Q + L 
Sbjct: 3   HMSVSKFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANVA--VDGQIVNLG 60

Query: 124 LWDIAGQ 130
           LWD AGQ
Sbjct: 61  LWDTAGQ 67

>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 = 60.1 bits (146), Expect = 2e-12
 Identities = 19/66 (28%), Positives = 35/66 (53%), Gaps = 2/66 (3%)

Query: 65  APPEKLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQL 124
           +      K++V+GD   GKT+ +  + ++ F ++Y  TV  ++        D Q+I+L L
Sbjct: 2   SNQNVKCKIVVVGDSQCGKTALLHVFAKDCFPENYVPTVFENYTASFE--IDTQRIELSL 59

Query: 125 WDIAGQ 130
           WD +G 
Sbjct: 60  WDTSGS 65

>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 Length = 211

 Score = 60.0 bits (146), Expect = 3e-12
 Identities = 15/91 (16%), Positives = 39/91 (42%), Gaps = 5/91 (5%)

Query: 44  IEIIDPSLKLVRVPSIRKSFNAPPEKLFKVIVIGDPTVGKTSFVQRY--VQNTFKKDYKG 101
           +++   +L    + +     +      ++V++IG+  VGK++    +  V ++   D + 
Sbjct: 11  VDLGTENLYFQSMSTDSVISSESGNTYYRVVLIGEQGVGKSTLANIFAGVHDSMDSDCEV 70

Query: 102 TVGVDFALKIVKWRDQQ--KIKLQLWDIAGQ 130
             G D   + +    +    I L +W+  G+
Sbjct: 71  L-GEDTYERTLMVDGESATIILLDMWENKGE 100

>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 = 59.4 bits (144), Expect = 4e-12
 Identities = 22/67 (32%), Positives = 33/67 (49%), Gaps = 2/67 (2%)

Query: 64  NAPPEKLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQ 123
           + P   + K +V+GD  VGKT  +  Y  + F ++Y  TV  D     V     ++  L 
Sbjct: 12  HGPGALMLKCVVVGDGAVGKTCLLMSYANDAFPEEYVPTV-FDHYAVSVTV-GGKQYLLG 69

Query: 124 LWDIAGQ 130
           L+D AGQ
Sbjct: 70  LYDTAGQ 76

>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 = 59.0 bits (143), Expect = 5e-12
 Identities = 19/70 (27%), Positives = 35/70 (50%), Gaps = 2/70 (2%)

Query: 61  KSFNAPPEKLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKI 120
              +       K++++GD   GKT  +  + ++ F + Y  TV  ++   I    D +++
Sbjct: 16  PRGSHMAAIRKKLVIVGDGACGKTCLLIVFSKDQFPEVYVPTVFENYIADIE--VDGKQV 73

Query: 121 KLQLWDIAGQ 130
           +L LWD AGQ
Sbjct: 74  ELALWDTAGQ 83

>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 = 58.5 bits (142), Expect = 8e-12
 Identities = 13/65 (20%), Positives = 28/65 (43%), Gaps = 3/65 (4%)

Query: 69  KLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKG-TVGVDFALKIVKWRDQQ--KIKLQLW 125
             ++V++IG+  VGK++    +       D     +G D   + +    +    I L +W
Sbjct: 5   TYYRVVLIGEQGVGKSTLANIFAGVHDSMDSDXEVLGEDTYERTLMVDGESATIILLDMW 64

Query: 126 DIAGQ 130
           +  G+
Sbjct: 65  ENKGE 69

>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 = 57.5 bits (139), Expect = 2e-11
 Identities = 22/64 (34%), Positives = 34/64 (53%), Gaps = 2/64 (3%)

Query: 67  PEKLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWD 126
             +  K +V+GD  VGKT  +  Y  N F  +Y  TV  +++  ++   D + + L LWD
Sbjct: 2   SPQAIKCVVVGDGAVGKTCLLISYTTNAFPGEYIPTVFDNYSANVM--VDGKPVNLGLWD 59

Query: 127 IAGQ 130
            AGQ
Sbjct: 60  TAGQ 63

>3t1o_A Gliding protein MGLA; G domain containing protein, bacterial GTPase, bacterial POL motility, POLE localisation, alpha/beta protein; HET: GDP; 1.90A {Thermus thermophilus} PDB: 3t12_A* 3t1q_A* 3t1t_A* 3t1v_A* Length = 198

 Score = 49.0 bits (117), Expect = 3e-08
 Identities = 16/74 (21%), Positives = 29/74 (39%), Gaps = 12/74 (16%)

Query: 68  EKLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKG-----------TVGVDFALKIVKWRD 116
           E  FK++  G    GKT+ ++  + +   +  KG           T+  DF    +    
Sbjct: 12  EINFKIVYYGPGLSGKTTNLKW-IYSKVPEGRKGEMVSLATEDERTLFFDFLPLDIGEVK 70

Query: 117 QQKIKLQLWDIAGQ 130
             K +  L+ + GQ
Sbjct: 71  GFKTRFHLYTVPGQ 84

>3r7w_A Gtpase1, GTP-binding protein GTR1; RAG gtpases, GTR1P, GTR2P, MTOR, protein transport; HET: GNP; 2.77A {Saccharomyces cerevisiae} Length = 307

 Score = 38.1 bits (88), Expect = 3e-04
 Identities = 13/59 (22%), Positives = 27/59 (45%), Gaps = 1/59 (1%)

Query: 72  KVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQ 130
           K++++G    GK+S ++  + + +       +G    ++    R    + L LWD  GQ
Sbjct: 5   KLLLMGRSGSGKSS-MRSIIFSNYSAFDTRRLGATIDVEHSHLRFLGNMTLNLWDCGGQ 62

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	131
2hjg_A	436	GTP-binding protein ENGA; GTPase ENGA KH-domain, h	99.85
4dcu_A	456	GTP-binding protein ENGA; GTPase, GDP, protein bin	99.82
1mky_A	439	Probable GTP-binding protein ENGA; GTPase, DER, KH	99.81
4dkx_A	216	RAS-related protein RAB-6A; GTP binding fold, memb	99.8
1puj_A	282	YLQF, conserved hypothetical protein YLQF; structu	99.67
3cnl_A	262	YLQF, putative uncharacterized protein; circular p	99.66
1z08_A	170	RAS-related protein RAB-21; RAB GTPase, vesicular	99.65
2gf9_A	189	RAS-related protein RAB-3D; G-protein, structural	99.65
2ew1_A	201	RAS-related protein RAB-30; G-protein, GTP analogu	99.64
3c5c_A	187	RAS-like protein 12; GDP, GTPase, structural genom	99.64
3ihw_A	184	Centg3; RAS, centaurin, GTPase, structural genomic	99.64
1wms_A	177	RAB-9, RAB9, RAS-related protein RAB-9A; GTPase, p	99.64
2oil_A	193	CATX-8, RAS-related protein RAB-25; G-protein, GDP	99.64
2iwr_A	178	Centaurin gamma 1; ANK repeat, zinc-finger, GTP-bi	99.63
2bme_A	186	RAB4A, RAS-related protein RAB4A; GTP-binding prot	99.63
2fu5_C	183	RAS-related protein RAB-8A; MSS4:RAB8 protein comp	99.63
2a5j_A	191	RAS-related protein RAB-2B; GTPase, signal transdu	99.63
2hxs_A	178	RAB-26, RAS-related protein RAB-28; GTPase, signal	99.63
1z0f_A	179	RAB14, member RAS oncogene family; RAB GTPase, ves	99.63
2bcg_Y	206	Protein YP2, GTP-binding protein YPT1; RABGTPase,	99.63
2hup_A	201	RAS-related protein RAB-43; G-protein, GDP, struct	99.63
3tw8_B	181	RAS-related protein RAB-35; longin domain, RAB GTP	99.63
1gwn_A	205	RHO-related GTP-binding protein RHOE; GTPase, inac	99.62
1r2q_A	170	RAS-related protein RAB-5A; GTPase, GNP, atomic re	99.62
1z2a_A	168	RAS-related protein RAB-23; RAB GTPase, vesicular	99.62
2fn4_A	181	P23, RAS-related protein R-RAS; GDP/GTP binding, G	99.62
3t5g_A	181	GTP-binding protein RHEB; immunoglobulin-like beta	99.62
1ek0_A	170	Protein (GTP-binding protein YPT51); vesicular tra	99.62
1z06_A	189	RAS-related protein RAB-33B; RAB GTPase, RAB33B GT	99.62
1x3s_A	195	RAS-related protein RAB-18; GTPase, GNP, structura	99.62
3tkl_A	196	RAS-related protein RAB-1A; vesicle trafficking, p	99.61
2y8e_A	179	RAB-protein 6, GH09086P, RAB6; hydrolase, nucleoti	99.61
1z0j_A	170	RAB-22, RAS-related protein RAB-22A; RAB GTPase, R	99.61
3kkq_A	183	RAS-related protein M-RAS; GTP-binding, GTPase, si	99.61
2p5s_A	199	RAS and EF-hand domain containing; G-protein, RAB,	99.61
2il1_A	192	RAB12; G-protein, GDP, GTPase, predicted, structur	99.6
1g16_A	170	RAS-related protein SEC4; G protein RAB, signaling	99.6
2efe_B	181	Small GTP-binding protein-like; GEF, GTPase, VPS9,	99.6
2gco_A	201	H9, RHO-related GTP-binding protein RHOC; GTPase,s	99.6
1zbd_A	203	Rabphilin-3A; G protein, effector, RABCDR, synapti	99.6
2fg5_A	192	RAB-22B, RAS-related protein RAB-31; G-protein, GT	99.6
3q3j_B	214	RHO-related GTP-binding protein RHO6; RAS-binding	99.6
1m7b_A	184	RND3/RHOE small GTP-binding protein; small GTPase,	99.6
1vg8_A	207	RAS-related protein RAB-7; GTP-binding protein, pr	99.6
2g6b_A	180	RAS-related protein RAB-26; G-protein, GTP analogu	99.6
3reg_A	194	RHO-like small GTPase; cytoskeleton, nucleotide-bi	99.6
2q3h_A	201	RAS homolog gene family, member U; GTPase, structu	99.59
3cpj_B	223	GTP-binding protein YPT31/YPT8; RAB GTPase, prenyl	99.59
3clv_A	208	RAB5 protein, putative; malaria, GTPase, structura	99.58
3gj0_A	221	GTP-binding nuclear protein RAN; G protein, GDP, a	99.58
3cbq_A	195	GTP-binding protein REM 2; FLJ38964A, structural g	99.58
1c1y_A	167	RAS-related protein RAP-1A; GTP-binding proteins,	99.58
1kao_A	167	RAP2A; GTP-binding protein, small G protein, GDP,	99.58
1mh1_A	186	RAC1; GTP-binding, GTPase, small G-protein, RHO fa	99.58
3l0i_B	199	RAS-related protein RAB-1A; GEF-GDF-RAB complex, G	99.58
2j0v_A	212	RAC-like GTP-binding protein ARAC7; nucleotide-bin	99.58
2f9l_A	199	RAB11B, member RAS oncogene family; RAB11B GTPase,	99.58
2o52_A	200	RAS-related protein RAB-4B; G-protein, GDP, struct	99.58
3bc1_A	195	RAS-related protein RAB-27A; RAB27, GTPase, RAB, s	99.58
1ky3_A	182	GTP-binding protein YPT7P; vesicular traffic, GTP	99.57
3cph_A	213	RAS-related protein SEC4; RAB GTPase, prenylation,	99.57
2j1l_A	214	RHO-related GTP-binding protein RHOD; GTPase, memb	99.57
2atv_A	196	RERG, RAS-like estrogen-regulated growth inhibitor	99.57
1oix_A	191	RAS-related protein RAB-11A; small G protein, intr	99.57
2atx_A	194	Small GTP binding protein TC10; GTPase, P-loop, al	99.56
4dsu_A	189	GTPase KRAS, isoform 2B; small G-protein, signalin	99.56
2f7s_A	217	C25KG, RAS-related protein RAB-27B; G-protein, str	99.56
3oes_A	201	GTPase rhebl1; small GTPase, structural genomics,	99.56
2bov_A	206	RAla, RAS-related protein RAL-A; C3BOT, exoenzyme,	99.55
1u8z_A	168	RAS-related protein RAL-A; GNP, GTP, GMPPNP, GPPNH	99.55
2erx_A	172	GTP-binding protein DI-RAS2; GTP hydrolysis, trans	99.55
2fv8_A	207	H6, RHO-related GTP-binding protein RHOB; GDP/GTP	99.55
3con_A	190	GTPase NRAS; structural genomics consortium, SGC,	99.55
2nzj_A	175	GTP-binding protein REM 1; GDP/GTP binding, GTP hy	99.55
2a9k_A	187	RAS-related protein RAL-A; bacterial ADP-ribosyltr	99.54
3q85_A	169	GTP-binding protein REM 2; G-domain, CAV2 beta, si	99.54
3dz8_A	191	RAS-related protein RAB-3B; GDP, GTPase, structura	99.53
2yc2_C	208	IFT27, small RAB-related GTPase; transport protein	99.53
4gzl_A	204	RAS-related C3 botulinum toxin substrate 1; rossma	99.53
2gf0_A	199	GTP-binding protein DI-RAS1; GDP/GTP binding, GTP	99.52
2ce2_X	166	GTPase HRAS; signaling protein, guanine nucleotide	99.52
3bwd_D	182	RAC-like GTP-binding protein ARAC6; G domain, cyto	99.51
3h2y_A	368	GTPase family protein; GTP-binding protein YQEH, p	99.5
3t1o_A	198	Gliding protein MGLA; G domain containing protein,	99.5
3ec1_A	369	YQEH GTPase; atnos1, atnoa1, trap, PVHL, hydrolase	99.5
2g3y_A	211	GTP-binding protein GEM; small GTPase, GDP, inacti	99.49
4djt_A	218	GTP-binding nuclear protein GSP1; structural genom	99.49
4bas_A	199	ADP-ribosylation factor, putative (small GTPase, p	99.49
2zej_A	184	Dardarin, leucine-rich repeat kinase 2; parkinson'	99.48
2wjg_A	188	FEOB, ferrous iron transport protein B homolog; me	99.48
2wji_A	165	Ferrous iron transport protein B homolog; membrane	99.48
2cjw_A	192	GTP-binding protein GEM; nucleotide-binding, small	99.47
2h57_A	190	ADP-ribosylation factor-like protein 6; GTP, GTPas	99.46
1zd9_A	188	ADP-ribosylation factor-like 10B; transport protei	99.46
3q72_A	166	GTP-binding protein RAD; G-domain, CAV2 beta, sign	99.45
2lkc_A	178	Translation initiation factor IF-2; NMR {Geobacill	99.44
2fh5_B	214	SR-beta, signal recognition particle receptor beta	99.43
3th5_A	204	RAS-related C3 botulinum toxin substrate 1; rossma	99.14
1zj6_A	187	ADP-ribosylation factor-like protein 5; ARL, GTP-b	99.42
1r8s_A	164	ADP-ribosylation factor 1; protein transport/excha	99.42
2h17_A	181	ADP-ribosylation factor-like protein 5A; GDP, GTPa	99.41
2wkq_A	332	NPH1-1, RAS-related C3 botulinum toxin substrate 1	99.41
1ksh_A	186	ARF-like protein 2; small GTPase, small GTP-bindin	99.4
1upt_A	171	ARL1, ADP-ribosylation factor-like protein 1; hydr	99.4
1fzq_A	181	ADP-ribosylation factor-like protein 3; protein-GD	99.4
1m2o_B	190	GTP-binding protein SAR1, GTP binding protein; zin	99.4
1f6b_A	198	SAR1; gtpases, N-terminal helix, Mg-containing com	99.39
2b6h_A	192	ADP-ribosylation factor 5; membrane trafficking, G	99.39
1moz_A	183	ARL1, ADP-ribosylation factor-like protein 1; GTP-	99.36
2gj8_A	172	MNME, tRNA modification GTPase TRME; G-domain dime	99.36
3llu_A	196	RAS-related GTP-binding protein C; structural geno	99.36
3r7w_B	331	Gtpase2, GTP-binding protein GTR2; RAG gtpases, GT	99.35
3a1s_A	258	Iron(II) transport protein B; FEOB, iron transport	99.35
2x77_A	189	ADP-ribosylation factor; GTP-binding protein, smal	99.34
3r7w_A	307	Gtpase1, GTP-binding protein GTR1; RAG gtpases, GT	99.33
3t5d_A	274	Septin-7; GTP-binding protein, cytoskeleton, signa	99.33
2qu8_A	228	Putative nucleolar GTP-binding protein 1; GTPase,	99.32
2dyk_A	161	GTP-binding protein; GTPase, ribosome-binding prot	99.32
3k53_A	271	Ferrous iron transport protein B; GTPase fold, hel	99.29
3iby_A	256	Ferrous iron transport protein B; G protein, G dom	99.28
3i8s_A	274	Ferrous iron transport protein B; GTPase, GPCR, ir	99.26
1svi_A	195	GTP-binding protein YSXC; ENGB, GTPase, GDP, hydro	99.25
3b1v_A	272	Ferrous iron uptake transporter protein B; G prote	99.25
3dpu_A	535	RAB family protein; roccor, G-domain, COR, GTP-bin	99.24
3lxx_A	239	GTPase IMAP family member 4; structural genomics c	99.23
3def_A	262	T7I23.11 protein; chloroplast, TOC33, GTPase, hydr	99.23
3lxw_A	247	GTPase IMAP family member 1; immunity, structural	99.22
1mky_A	439	Probable GTP-binding protein ENGA; GTPase, DER, KH	99.22
3o47_A	329	ADP-ribosylation factor GTPase-activating protein	99.21
3lvq_E	497	ARF-GAP with SH3 domain, ANK repeat and PH domain	99.19
3c5h_A	255	Glucocorticoid receptor DNA-binding factor 1; RAS,	99.18
2yv5_A	302	YJEQ protein; hydrolase, GTPase, permutation, stru	99.18
2xtp_A	260	GTPase IMAP family member 2; immune system, G prot	99.18
1h65_A	270	Chloroplast outer envelope protein OEP34; GTPase,	99.18
2cxx_A	190	Probable GTP-binding protein ENGB; structural geno	99.18
1nrj_B	218	SR-beta, signal recognition particle receptor beta	99.17
1t9h_A	307	YLOQ, probable GTPase ENGC; N-terminal beta-barrel	99.17
2rcn_A	358	Probable GTPase ENGC; YJEQ, circularly permuted, G	99.16
2ged_A	193	SR-beta, signal recognition particle receptor beta	99.15
1wf3_A	301	GTP-binding protein; GTPase, riken structural geno	99.15
3pqc_A	195	Probable GTP-binding protein ENGB; rossmann fold,	99.14
1u0l_A	301	Probable GTPase ENGC; permutation, OB-fold, zinc-f	99.12
4dhe_A	223	Probable GTP-binding protein ENGB; melioidosis, RA	99.1
3gee_A	476	MNME, tRNA modification GTPase MNME; G protein, cy	99.08
1pui_A	210	ENGB, probable GTP-binding protein ENGB; structura	99.07
2qag_A	361	Septin-2, protein NEDD5; cell cycle, cell division	99.07
3iev_A	308	GTP-binding protein ERA; ERA, GTPase, KH domain, a	99.06
3qq5_A	423	Small GTP-binding protein; hydrogenase, H-cluster,	99.02
2hjg_A	436	GTP-binding protein ENGA; GTPase ENGA KH-domain, h	99.01
1xzp_A	482	Probable tRNA modification GTPase TRME; GTP-bindin	99.0
1jal_A	363	YCHF protein; nucleotide-binding fold, structural	98.99
2aka_B	299	Dynamin-1; fusion protein, GTPase domain, myosin,	98.94
3j2k_7	439	ERF3, eukaryotic polypeptide chain release factor	98.93
3geh_A	462	MNME, tRNA modification GTPase MNME; G protein, U3	98.92
2ohf_A	396	Protein OLA1, GTP-binding protein 9; ATPase, GTPas	98.9
1wxq_A	397	GTP-binding protein; structural genomics, riken st	98.89
2qnr_A	301	Septin-2, protein NEDD5; structural genomics conso	98.88
2e87_A	357	Hypothetical protein PH1320; GTP-binding, GTPase,	98.86
1ega_A	301	Protein (GTP-binding protein ERA); GTPase, RNA-bin	98.86
2qtf_A	364	Protein HFLX, GTP-binding protein; beta-alpha-barr	98.86
4dcu_A	456	GTP-binding protein ENGA; GTPase, GDP, protein bin	98.86
2qag_C	418	Septin-7; cell cycle, cell division, GTP-binding,	98.84
3izy_P	537	Translation initiation factor IF-2, mitochondrial;	98.79
3p26_A	483	Elongation factor 1 alpha-like protein; GTP/GDP bi	98.78
2x2e_A	353	Dynamin-1; nitration, hydrolase, membrane fission,	98.72
1wb1_A	482	Translation elongation factor SELB; selenocysteine	98.72
3izq_1	611	HBS1P, elongation factor 1 alpha-like protein; NO-	98.7
2dby_A	368	GTP-binding protein; GDP, structural genomics, NPP	98.68
1s0u_A	408	EIF-2-gamma, translation initiation factor 2 gamma	98.68
3mca_A	592	HBS1, elongation factor 1 alpha-like protein; prot	98.66
1jwy_B	315	Dynamin A GTPase domain; dynamin, GTPase, GDP, myo	98.66
1kk1_A	410	EIF2gamma; initiation of translation; HET: GNP; 1.	98.64
1jny_A	435	EF-1-alpha, elongation factor 1-alpha, EF-TU, TUF-	98.64
1zo1_I	501	IF2, translation initiation factor 2; E. coli, rib	98.63
1zun_B	434	Sulfate adenylate transferase, subunit 1/adenylyls	98.63
4a9a_A	376	Ribosome-interacting GTPase 1; DRG-DFRP complex, r	98.62
1f60_A	458	Elongation factor EEF1A; protein-protein complex,	98.61
2c78_A	405	Elongation factor TU-A; hydrolase, GTPase, transla	98.61
3t34_A	360	Dynamin-related protein 1A, linker, dynamin-relat	98.61
1lnz_A	342	SPO0B-associated GTP-binding protein; GTPase, OBG,	98.58
3sjy_A	403	Translation initiation factor 2 subunit gamma; zin	98.58
3cb4_D	599	GTP-binding protein LEPA; GTPase, OB-fold, membran	98.58
3tr5_A	528	RF-3, peptide chain release factor 3; protein synt	98.54
1d2e_A	397	Elongation factor TU (EF-TU); G-protein, beta-barr	98.54
2elf_A	370	Protein translation elongation factor 1A; tRNA, py	98.52
2h5e_A	529	Peptide chain release factor RF-3; beta barrel, tr	98.52
1n0u_A	842	EF-2, elongation factor 2; G-protein, CIS-proline,	98.52
1ni3_A	392	YCHF GTPase, YCHF GTP-binding protein; structural	98.51
1r5b_A	467	Eukaryotic peptide chain release factor GTP-bindi	98.48
2hf9_A	226	Probable hydrogenase nickel incorporation protein	98.48
2j69_A	695	Bacterial dynamin-like protein; FZO, FZL, GTPase,	98.46
2ywe_A	600	GTP-binding protein LEPA; G domain, beta-barrel, f	98.46
2dy1_A	665	Elongation factor G; translocation, GTP complex, s	98.44
1dar_A	691	EF-G, elongation factor G; ribosomal translocase,	98.42
1g7s_A	594	Translation initiation factor IF2/EIF5B; translati	98.41
2qpt_A	550	EH domain-containing protein-2; protein-nucleotide	98.39
2xex_A	693	Elongation factor G; GTPase, translation, biosynth	98.33
3avx_A	1289	Elongation factor TS, elongation factor TU, linke	98.33
2rdo_7	704	EF-G, elongation factor G; elongation factor G, EF	98.32
1f5n_A	592	Interferon-induced guanylate-binding protein 1; GB	98.16
1udx_A	416	The GTP-binding protein OBG; TGS domain, riken str	98.14
2wsm_A	221	Hydrogenase expression/formation protein (HYPB); m	98.1
1x3s_A	195	RAS-related protein RAB-18; GTPase, GNP, structura	98.07
4fid_A	340	G protein alpha subunit; RAS-like domain, all-heli	97.98
3sop_A	270	Neuronal-specific septin-3; hydrolase; HET: GDP; 2	97.84
3t5g_A	181	GTP-binding protein RHEB; immunoglobulin-like beta	97.78
3zvr_A	772	Dynamin-1; hydrolase, DRP1, DRP, endocytosis, mito	97.78
2qag_B	427	Septin-6, protein NEDD5; cell cycle, cell division	97.74
2dyk_A	161	GTP-binding protein; GTPase, ribosome-binding prot	97.62
3q5d_A	447	Atlastin-1; G protein, GTPase, GDP/GTP binding, hy	97.46
3q72_A	166	GTP-binding protein RAD; G-domain, CAV2 beta, sign	97.4
3iev_A	308	GTP-binding protein ERA; ERA, GTPase, KH domain, a	97.34
4dsu_A	189	GTPase KRAS, isoform 2B; small G-protein, signalin	97.34
2gj8_A	172	MNME, tRNA modification GTPase TRME; G-domain dime	97.33
3q85_A	169	GTP-binding protein REM 2; G-domain, CAV2 beta, si	97.32
2nzj_A	175	GTP-binding protein REM 1; GDP/GTP binding, GTP hy	97.25
3l0i_B	199	RAS-related protein RAB-1A; GEF-GDF-RAB complex, G	97.24
3cb4_D	599	GTP-binding protein LEPA; GTPase, OB-fold, membran	97.24
3cph_A	213	RAS-related protein SEC4; RAB GTPase, prenylation,	97.23
1wms_A	177	RAB-9, RAB9, RAS-related protein RAB-9A; GTPase, p	97.23
2erx_A	172	GTP-binding protein DI-RAS2; GTP hydrolysis, trans	97.22
1c1y_A	167	RAS-related protein RAP-1A; GTP-binding proteins,	97.21
3tw8_B	181	RAS-related protein RAB-35; longin domain, RAB GTP	97.18
4djt_A	218	GTP-binding nuclear protein GSP1; structural genom	97.17
1kao_A	167	RAP2A; GTP-binding protein, small G protein, GDP,	97.16
1g16_A	170	RAS-related protein SEC4; G protein RAB, signaling	97.14
2g6b_A	180	RAS-related protein RAB-26; G-protein, GTP analogu	97.14
2gf0_A	199	GTP-binding protein DI-RAS1; GDP/GTP binding, GTP	97.13
3kkq_A	183	RAS-related protein M-RAS; GTP-binding, GTPase, si	97.13
2j0v_A	212	RAC-like GTP-binding protein ARAC7; nucleotide-bin	97.12
2ce2_X	166	GTPase HRAS; signaling protein, guanine nucleotide	97.11
1z0f_A	179	RAB14, member RAS oncogene family; RAB GTPase, ves	97.11
1u8z_A	168	RAS-related protein RAL-A; GNP, GTP, GMPPNP, GPPNH	97.11
2www_A	349	Methylmalonic aciduria type A protein, mitochondri	97.1
2gf9_A	189	RAS-related protein RAB-3D; G-protein, structural	97.1
2g3y_A	211	GTP-binding protein GEM; small GTPase, GDP, inacti	97.09
3dz8_A	191	RAS-related protein RAB-3B; GDP, GTPase, structura	97.09
2fn4_A	181	P23, RAS-related protein R-RAS; GDP/GTP binding, G	97.09
2efe_B	181	Small GTP-binding protein-like; GEF, GTPase, VPS9,	97.08
3gj0_A	221	GTP-binding nuclear protein RAN; G protein, GDP, a	97.08
3tkl_A	196	RAS-related protein RAB-1A; vesicle trafficking, p	97.07
1vg8_A	207	RAS-related protein RAB-7; GTP-binding protein, pr	97.06
1tq4_A	413	IIGP1, interferon-inducible GTPase; interferon gam	97.06
1z0j_A	170	RAB-22, RAS-related protein RAB-22A; RAB GTPase, R	97.05
3bc1_A	195	RAS-related protein RAB-27A; RAB27, GTPase, RAB, s	97.05
2y8e_A	179	RAB-protein 6, GH09086P, RAB6; hydrolase, nucleoti	97.04
1ye8_A	178	Protein THEP1, hypothetical UPF0334 kinase-like pr	97.04
1ky3_A	182	GTP-binding protein YPT7P; vesicular traffic, GTP	97.03
3con_A	190	GTPase NRAS; structural genomics consortium, SGC,	97.01
2bov_A	206	RAla, RAS-related protein RAL-A; C3BOT, exoenzyme,	97.01
3pqc_A	195	Probable GTP-binding protein ENGB; rossmann fold,	97.0
2a9k_A	187	RAS-related protein RAL-A; bacterial ADP-ribosyltr	97.0
1lnz_A	342	SPO0B-associated GTP-binding protein; GTPase, OBG,	96.99
1z06_A	189	RAS-related protein RAB-33B; RAB GTPase, RAB33B GT	96.99
1zbd_A	203	Rabphilin-3A; G protein, effector, RABCDR, synapti	96.98
3t1o_A	198	Gliding protein MGLA; G domain containing protein,	96.98
1z08_A	170	RAS-related protein RAB-21; RAB GTPase, vesicular	96.97
1ek0_A	170	Protein (GTP-binding protein YPT51); vesicular tra	96.97
1kgd_A	180	CASK, peripheral plasma membrane CASK; maguk, guan	96.96
2fg5_A	192	RAB-22B, RAS-related protein RAB-31; G-protein, GT	96.95
1r2q_A	170	RAS-related protein RAB-5A; GTPase, GNP, atomic re	96.95
1r8s_A	164	ADP-ribosylation factor 1; protein transport/excha	96.94
2wji_A	165	Ferrous iron transport protein B homolog; membrane	96.94
2f7s_A	217	C25KG, RAS-related protein RAB-27B; G-protein, str	96.92
1z2a_A	168	RAS-related protein RAB-23; RAB GTPase, vesicular	96.92
2a5j_A	191	RAS-related protein RAB-2B; GTPase, signal transdu	96.92
2fu5_C	183	RAS-related protein RAB-8A; MSS4:RAB8 protein comp	96.9
3iby_A	256	Ferrous iron transport protein B; G protein, G dom	96.89
1ega_A	301	Protein (GTP-binding protein ERA); GTPase, RNA-bin	96.89
4bas_A	199	ADP-ribosylation factor, putative (small GTPase, p	96.88
3oes_A	201	GTPase rhebl1; small GTPase, structural genomics,	96.87
2x77_A	189	ADP-ribosylation factor; GTP-binding protein, smal	96.87
3cbq_A	195	GTP-binding protein REM 2; FLJ38964A, structural g	96.86
1zd9_A	188	ADP-ribosylation factor-like 10B; transport protei	96.86
2bcg_Y	206	Protein YP2, GTP-binding protein YPT1; RABGTPase,	96.85
2ew1_A	201	RAS-related protein RAB-30; G-protein, GTP analogu	96.84
4dkx_A	216	RAS-related protein RAB-6A; GTP binding fold, memb	96.84
2il1_A	192	RAB12; G-protein, GDP, GTPase, predicted, structur	96.84
2oil_A	193	CATX-8, RAS-related protein RAB-25; G-protein, GDP	96.83
1lvg_A	198	Guanylate kinase, GMP kinase; transferase; HET: AD	96.82
1m2o_B	190	GTP-binding protein SAR1, GTP binding protein; zin	96.81
1zj6_A	187	ADP-ribosylation factor-like protein 5; ARL, GTP-b	96.8
3reg_A	194	RHO-like small GTPase; cytoskeleton, nucleotide-bi	96.79
1moz_A	183	ARL1, ADP-ribosylation factor-like protein 1; GTP-	96.77
2atv_A	196	RERG, RAS-like estrogen-regulated growth inhibitor	96.76
3th5_A	204	RAS-related C3 botulinum toxin substrate 1; rossma	95.8
3vqt_A	548	RF-3, peptide chain release factor 3; translation,	96.76
2b6h_A	192	ADP-ribosylation factor 5; membrane trafficking, G	96.76
1fzq_A	181	ADP-ribosylation factor-like protein 3; protein-GD	96.76
2hup_A	201	RAS-related protein RAB-43; G-protein, GDP, struct	96.76
1upt_A	171	ARL1, ADP-ribosylation factor-like protein 1; hydr	96.75
1f6b_A	198	SAR1; gtpases, N-terminal helix, Mg-containing com	96.74
2bme_A	186	RAB4A, RAS-related protein RAB4A; GTP-binding prot	96.73
2h17_A	181	ADP-ribosylation factor-like protein 5A; GDP, GTPa	96.71
1svi_A	195	GTP-binding protein YSXC; ENGB, GTPase, GDP, hydro	96.71
3izy_P	537	Translation initiation factor IF-2, mitochondrial;	96.7
3ney_A	197	55 kDa erythrocyte membrane protein; structural ge	96.7
4dhe_A	223	Probable GTP-binding protein ENGB; melioidosis, RA	96.69
1zp6_A	191	Hypothetical protein ATU3015; alpha-beta protein.,	96.69
2cjw_A	192	GTP-binding protein GEM; nucleotide-binding, small	96.68
2cxx_A	190	Probable GTP-binding protein ENGB; structural geno	96.67
3tr0_A	205	Guanylate kinase, GMP kinase; purines, pyrimidines	96.67
3sjy_A	403	Translation initiation factor 2 subunit gamma; zin	96.65
3clv_A	208	RAB5 protein, putative; malaria, GTPase, structura	96.65
4gzl_A	204	RAS-related C3 botulinum toxin substrate 1; rossma	96.65
3a00_A	186	Guanylate kinase, GMP kinase; domain movement, dim	96.64
2o52_A	200	RAS-related protein RAB-4B; G-protein, GDP, struct	96.63
1s96_A	219	Guanylate kinase, GMP kinase; E.coli, dimer, SAD,	96.63
2hxs_A	178	RAB-26, RAS-related protein RAB-28; GTPase, signal	96.63
4gp7_A	171	Metallophosphoesterase; polynucleotide kinase phos	96.62
3qq5_A	423	Small GTP-binding protein; hydrogenase, H-cluster,	96.62
1znw_A	207	Guanylate kinase, GMP kinase; ATP:GMP-phosphotrans	96.6
2h57_A	190	ADP-ribosylation factor-like protein 6; GTP, GTPas	96.6
1ex7_A	186	Guanylate kinase; substrate-induced FIT, domain mo	96.58
3a1s_A	258	Iron(II) transport protein B; FEOB, iron transport	96.58
1z6g_A	218	Guanylate kinase; structural genomics, SGC, struct	96.58
3cpj_B	223	GTP-binding protein YPT31/YPT8; RAB GTPase, prenyl	96.57
3tau_A	208	Guanylate kinase, GMP kinase; structural genomics,	96.57
1wf3_A	301	GTP-binding protein; GTPase, riken structural geno	96.54
3c8u_A	208	Fructokinase; YP_612366.1, putative fructose trans	96.53
1ksh_A	186	ARF-like protein 2; small GTPase, small GTP-bindin	96.53
2qor_A	204	Guanylate kinase; phosphotransferase, purine metab	96.51
2atx_A	194	Small GTP binding protein TC10; GTPase, P-loop, al	96.5
3ohm_A	327	Guanine nucleotide-binding protein G(Q) subunit A;	96.5
2yc2_C	208	IFT27, small RAB-related GTPase; transport protein	96.5
2wjg_A	188	FEOB, ferrous iron transport protein B homolog; me	96.49
3i8s_A	274	Ferrous iron transport protein B; GTPase, GPCR, ir	96.48
1knq_A	175	Gluconate kinase; ALFA/beta structure, transferase	96.48
1mh1_A	186	RAC1; GTP-binding, GTPase, small G-protein, RHO fa	96.46
2qu8_A	228	Putative nucleolar GTP-binding protein 1; GTPase,	96.45
1s0u_A	408	EIF-2-gamma, translation initiation factor 2 gamma	96.45
1kag_A	173	SKI, shikimate kinase I; transferase, structural g	96.45
2wwf_A	212	Thymidilate kinase, putative; transferase, malaria	96.45
3fb4_A	216	Adenylate kinase; psychrophIle, phosphotransferase	96.45
3kb2_A	173	SPBC2 prophage-derived uncharacterized protein YOR	96.44
3p32_A	355	Probable GTPase RV1496/MT1543; structural genomics	96.44
2bbw_A	246	Adenylate kinase 4, AK4; nucleotide kinase, nucleo	96.43
3o47_A	329	ADP-ribosylation factor GTPase-activating protein	96.42
2lkc_A	178	Translation initiation factor IF-2; NMR {Geobacill	96.42
3dl0_A	216	Adenylate kinase; phosphotransferase, zinc coordin	96.41
2p5s_A	199	RAS and EF-hand domain containing; G-protein, RAB,	96.41
3c5c_A	187	RAS-like protein 12; GDP, GTPase, structural genom	96.4
2iwr_A	178	Centaurin gamma 1; ANK repeat, zinc-finger, GTP-bi	96.39
1ly1_A	181	Polynucleotide kinase; PNK, phosphatase, transfera	96.39
3lw7_A	179	Adenylate kinase related protein (ADKA-like); AMP,	96.38
3bwd_D	182	RAC-like GTP-binding protein ARAC6; G domain, cyto	96.38
3b1v_A	272	Ferrous iron uptake transporter protein B; G prote	96.37
3ihw_A	184	Centg3; RAS, centaurin, GTPase, structural genomic	96.36
2j41_A	207	Guanylate kinase; GMP, GMK, transferase, ATP-bindi	96.36
2gco_A	201	H9, RHO-related GTP-binding protein RHOC; GTPase,s	96.35
2jaq_A	205	Deoxyguanosine kinase; transferase, deoxyribonucle	96.35
2j1l_A	214	RHO-related GTP-binding protein RHOD; GTPase, memb	96.34
2bdt_A	189	BH3686; alpha-beta protein, structural genomics, P	96.31
2qm8_A	337	GTPase/ATPase; G protein, G3E, metallochaperone, c	96.3
2q3h_A	201	RAS homolog gene family, member U; GTPase, structu	96.3
1qhx_A	178	CPT, protein (chloramphenicol phosphotransferase);	96.3
2fv8_A	207	H6, RHO-related GTP-binding protein RHOB; GDP/GTP	96.3
4eun_A	200	Thermoresistant glucokinase; putative sugar kinase	96.29
1uf9_A	203	TT1252 protein; P-loop, nucleotide binding domain,	96.29
3vaa_A	199	Shikimate kinase, SK; structural genomics, center	96.29
1nks_A	194	Adenylate kinase; thermophilic, transferase; HET:	96.28
3lvq_E	497	ARF-GAP with SH3 domain, ANK repeat and PH domain	96.27
3ec2_A	180	DNA replication protein DNAC; helicase loader, rep	96.26
1htw_A	158	HI0065; nucleotide-binding fold, structural genomi	96.26
2cdn_A	201	Adenylate kinase; phosphoryl transfer, associative	96.26
1jbk_A	195	CLPB protein; beta barrel, chaperone; 1.80A {Esche	96.24
3t61_A	202	Gluconokinase; PSI-biology, structural genomics, p	96.23
1yrb_A	262	ATP(GTP)binding protein; GTPase, P-loop, rossman f	96.22
3cm0_A	186	Adenylate kinase; ATP-binding, cytoplasm, nucleoti	96.22
3tif_A	235	Uncharacterized ABC transporter ATP-binding prote;	96.21
2if2_A	204	Dephospho-COA kinase; alpha-beta protein, structur	96.2
1np6_A	174	Molybdopterin-guanine dinucleotide biosynthesis pr	96.19
3asz_A	211	Uridine kinase; cytidine phosphorylation, transfer	96.16
2i3b_A	189	HCR-ntpase, human cancer-related ntpase; AAA, ross	96.14
1kht_A	192	Adenylate kinase; phosphotransferase, signaling pr	96.14
3lnc_A	231	Guanylate kinase, GMP kinase; ALS collaborative cr	96.14
1e4v_A	214	Adenylate kinase; transferase(phosphotransferase);	96.14
2pcj_A	224	ABC transporter, lipoprotein-releasing system ATP-	96.13
3uie_A	200	Adenylyl-sulfate kinase 1, chloroplastic; rossmann	96.13
3sr0_A	206	Adenylate kinase; phosphoryl transfer analogue, AL	96.13
4a74_A	231	DNA repair and recombination protein RADA; hydrola	96.13
1cke_A	227	CK, MSSA, protein (cytidine monophosphate kinase);	96.12
2rhm_A	193	Putative kinase; P-loop containing nucleoside trip	96.12
2aka_B	299	Dynamin-1; fusion protein, GTPase domain, myosin,	96.12
2ehv_A	251	Hypothetical protein PH0186; KAIC, RECA ATPase, un	96.11
3trf_A	185	Shikimate kinase, SK; amino acid biosynthesis, tra	96.09
2pt5_A	168	Shikimate kinase, SK; aromatic amino acid biosynth	96.08
3b85_A	208	Phosphate starvation-inducible protein; PHOH2, ATP	96.06
3gee_A	476	MNME, tRNA modification GTPase MNME; G protein, cy	96.06
3dpu_A	535	RAB family protein; roccor, G-domain, COR, GTP-bin	96.06
2onk_A	240	Molybdate/tungstate ABC transporter, ATP-binding p	96.05
1b0u_A	262	Histidine permease; ABC transporter, transport pro	96.03
2eyu_A	261	Twitching motility protein PILT; pilus retraction	96.02
1ukz_A	203	Uridylate kinase; transferase; HET: ADP AMP; 1.90A	96.02
1y63_A	184	LMAJ004144AAA protein; structural genomics, protei	96.01
2kjq_A	149	DNAA-related protein; solution structure, NESG, st	96.0
2e87_A	357	Hypothetical protein PH1320; GTP-binding, GTPase,	95.99
2cbz_A	237	Multidrug resistance-associated protein 1; ABC pro	95.97
3tr5_A	528	RF-3, peptide chain release factor 3; protein synt	95.97
2ff7_A	247	Alpha-hemolysin translocation ATP-binding protein	95.96
3gfo_A	275	Cobalt import ATP-binding protein CBIO 1; structur	95.96
2f6r_A	281	COA synthase, bifunctional coenzyme A synthase; 18	95.96
1mv5_A	243	LMRA, multidrug resistance ABC transporter ATP-bin	95.95
2v9p_A	305	Replication protein E1; AAA+ molecular motor, DNA	95.95
2fh5_B	214	SR-beta, signal recognition particle receptor beta	95.95
2ywe_A	600	GTP-binding protein LEPA; G domain, beta-barrel, f	95.94
1sgw_A	214	Putative ABC transporter; structural genomics, P p	95.94
1jjv_A	206	Dephospho-COA kinase; P-loop nucleotide-binding fo	95.93
1g6h_A	257	High-affinity branched-chain amino acid transport	95.93
1lw7_A	365	Transcriptional regulator NADR; NMN, NMN adenylyl	95.93
1aky_A	220	Adenylate kinase; ATP:AMP phosphotransferase, myok	95.92
2plr_A	213	DTMP kinase, probable thymidylate kinase; TMP-bind	95.91
4fn5_A	709	EF-G 1, elongation factor G 1; translation, transl	95.91
1zd8_A	227	GTP:AMP phosphotransferase mitochondrial; ATP:AMP	95.91
4g1u_C	266	Hemin import ATP-binding protein HMUV; membrane tr	95.91
3k53_A	271	Ferrous iron transport protein B; GTPase fold, hel	95.9
3tlx_A	243	Adenylate kinase 2; structural genomics, structura	95.9
1tev_A	196	UMP-CMP kinase; ploop, NMP binding region, LID reg	95.89
2d2e_A	250	SUFC protein; ABC-ATPase, SUF protein, 310-helix,	95.89
2zu0_C	267	Probable ATP-dependent transporter SUFC; iron-sulf	95.88
2olj_A	263	Amino acid ABC transporter; ABC domain, ATPase, hy	95.88
2qt1_A	207	Nicotinamide riboside kinase 1; non-protein kinase	95.87
2pze_A	229	Cystic fibrosis transmembrane conductance regulat;	95.87
2vli_A	183	Antibiotic resistance protein; transferase, tunica	95.86
1gvn_B	287	Zeta; postsegregational killing system, plasmid; 1	95.86
2xb4_A	223	Adenylate kinase; ATP-binding, nucleotide-binding,	95.86
3c5h_A	255	Glucocorticoid receptor DNA-binding factor 1; RAS,	95.86
1xzp_A	482	Probable tRNA modification GTPase TRME; GTP-bindin	95.86
1ji0_A	240	ABC transporter; ATP binding protein, structural g	95.86
1ixz_A	254	ATP-dependent metalloprotease FTSH; AAA domain fol	95.85
2qi9_C	249	Vitamin B12 import ATP-binding protein BTUD; inner	95.84
1kk1_A	410	EIF2gamma; initiation of translation; HET: GNP; 1.	95.83
2ixe_A	271	Antigen peptide transporter 1; ABC ATPase, hydrola	95.83
2p65_A	187	Hypothetical protein PF08_0063; CLPB, malaria, str	95.82
2p67_A	341	LAO/AO transport system kinase; ARGK, structural G	95.82
2ghi_A	260	Transport protein; multidrug resistance protein, M	95.82
1via_A	175	Shikimate kinase; structural genomics, transferase	95.81
2w0m_A	235	SSO2452; RECA, SSPF, unknown FUN; 2.0A {Sulfolobus	95.79
3be4_A	217	Adenylate kinase; malaria, cryptosporidium parvum	95.79
1vpl_A	256	ABC transporter, ATP-binding protein; TM0544, stru	95.79
2v54_A	204	DTMP kinase, thymidylate kinase; nucleotide biosyn	95.78
4ido_A	457	Atlastin-1; GTPase, GTP/GDP binding, hydrolase; HE	95.77
2yvu_A	186	Probable adenylyl-sulfate kinase; transferase, str	95.77
2ihy_A	279	ABC transporter, ATP-binding protein; ATPase, ABC	95.77
3iij_A	180	Coilin-interacting nuclear ATPase protein; alpha a	95.74
2x8a_A	274	Nuclear valosin-containing protein-like; nuclear p	95.73
2f1r_A	171	Molybdopterin-guanine dinucleotide biosynthesis pr	95.73
3aez_A	312	Pantothenate kinase; transferase, homodimer, COA b	95.73
2pbr_A	195	DTMP kinase, thymidylate kinase; transferase, nucl	95.71
3bos_A	242	Putative DNA replication factor; P-loop containing	95.71
2nq2_C	253	Hypothetical ABC transporter ATP-binding protein H	95.7
1rj9_A	304	FTSY, signal recognition protein; SRP-GTPase domai	95.68
2yz2_A	266	Putative ABC transporter ATP-binding protein TM_0;	95.68
3zvr_A	772	Dynamin-1; hydrolase, DRP1, DRP, endocytosis, mito	95.68
1zak_A	222	Adenylate kinase; ATP:AMP-phosphotransferase, tran	95.67
2ze6_A	253	Isopentenyl transferase; crown GALL tumor, cytokin	95.66
2z0h_A	197	DTMP kinase, thymidylate kinase; ATP-binding, nucl	95.63
2c95_A	196	Adenylate kinase 1; transferase, AP4A, nucleotide	95.62
1bif_A	469	6-phosphofructo-2-kinase/ fructose-2,6-bisphospha;	95.61
1qf9_A	194	UMP/CMP kinase, protein (uridylmonophosphate/cytid	95.61
2pjz_A	263	Hypothetical protein ST1066; ATP binding protein,	95.6
1zcb_A	362	G alpha I/13; GTP-binding, lipoprotein, membrane,	95.6
1nn5_A	215	Similar to deoxythymidylate kinase (thymidylate K;	95.59
1ak2_A	233	Adenylate kinase isoenzyme-2; nucleoside monophosp	95.59
1in4_A	334	RUVB, holliday junction DNA helicase RUVB; AAA+-cl	95.58
2cvh_A	220	DNA repair and recombination protein RADB; filamen	95.57
1zo1_I	501	IF2, translation initiation factor 2; E. coli, rib	95.57
3geh_A	462	MNME, tRNA modification GTPase MNME; G protein, U3	95.57
2xtz_A	354	Guanine nucleotide-binding protein alpha-1 subuni;	95.55
1iy2_A	278	ATP-dependent metalloprotease FTSH; AAA domain fol	95.55
2bwj_A	199	Adenylate kinase 5; phosphoryl transfer reaction,	95.54
1njg_A	250	DNA polymerase III subunit gamma; rossman-like fol	95.54
3b9q_A	302	Chloroplast SRP receptor homolog, alpha subunit CP	95.54
1odf_A	290	YGR205W, hypothetical 33.3 kDa protein in ADE3-Ser	95.54
2jeo_A	245	Uridine-cytidine kinase 1; UCK, transferase, ATP-b	95.5
2chg_A	226	Replication factor C small subunit; DNA-binding pr	95.5
1cr0_A	296	DNA primase/helicase; RECA-type protein fold, tran	95.5
3fvq_A	359	Fe(3+) IONS import ATP-binding protein FBPC; nucle	95.5
2w58_A	202	DNAI, primosome component (helicase loader); ATP-b	95.5
3e70_C	328	DPA, signal recognition particle receptor; FTSY, S	95.5
1e6c_A	173	Shikimate kinase; phosphoryl transfer, ADP, shikim	95.5
1lv7_A	257	FTSH; alpha/beta domain, four helix bundle, hydrol	95.5
1rz3_A	201	Hypothetical protein rbstp0775; MCSG, structural g	95.48
1n0w_A	243	DNA repair protein RAD51 homolog 1; DNA repair, ho	95.48
3p32_A	355	Probable GTPase RV1496/MT1543; structural genomics	95.48
2p5t_B	253	PEZT; postsegregational killing system, phosphoryl	95.48
3j2k_7	439	ERF3, eukaryotic polypeptide chain release factor	95.47
3jvv_A	356	Twitching mobility protein; hexameric P-loop ATPas	95.46
3a4m_A	260	L-seryl-tRNA(SEC) kinase; P-loop motif, walker A m	95.45
1z47_A	355	CYSA, putative ABC-transporter ATP-binding protein	95.43
2bbs_A	290	Cystic fibrosis transmembrane conductance regulato	95.43
1xjc_A	169	MOBB protein homolog; structural genomics, midwest	95.41
2j37_W	504	Signal recognition particle 54 kDa protein (SRP54)	95.4
3rlf_A	381	Maltose/maltodextrin import ATP-binding protein M;	95.4
2iyv_A	184	Shikimate kinase, SK; transferase, aromatic amino	95.39
2yyz_A	359	Sugar ABC transporter, ATP-binding protein; sugar	95.39
2it1_A	362	362AA long hypothetical maltose/maltodextrin trans	95.39
2hf9_A	226	Probable hydrogenase nickel incorporation protein	95.39
2pez_A	179	Bifunctional 3'-phosphoadenosine 5'- phosphosulfat	95.36
1g29_1	372	MALK, maltose transport protein MALK; ATPase, acti	95.34

>2hjg_A GTP-binding protein ENGA; GTPase ENGA KH-domain, hydrolase; HET: GDP; 2.50A {Bacillus subtilis}

Probab=99.85  E-value=1.6e-22  Score=153.32  Aligned_cols=121  Identities=22%  Similarity=0.320  Sum_probs=83.1

Q ss_pred             CccCCCcEEeeccCCCccccccccccc-----CCCCccccccCCcccccccccccccccCCCcccCCCCCCceeeEEEEE
Q psy10878          2 SYKAKKPILLPSASEDPSIDNWDKASW-----ENVTPIVSEQGDGEIIEIIDPSLKLVRVPSIRKSFNAPPEKLFKVIVI   76 (131)
Q Consensus         2 ~~~~~kp~vlv~NK~Dl~~~~~~~~~~-----~~~~~is~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ki~vv   76 (131)
                      +++.++|+++|+||+|+........+|     ++++++||.++.| +.++++.+.+.+  +....  .......+|++++
T Consensus       107 l~~~~~pvilv~NK~D~~~~~~~~~~~~~lg~~~~~~iSA~~g~g-v~~L~~~i~~~l--~~~~~--~~~~~~~~ki~lv  181 (436)
T 2hjg_A          107 LYRTKKPVVLAVNKLDNTEMRANIYDFYSLGFGEPYPISGTHGLG-LGDLLDAVAEHF--KNIPE--TKYNEEVIQFCLI  181 (436)
T ss_dssp             HTTCCSCEEEEEECCCC-----CCCSSGGGSSCCCEECBTTTTBT-HHHHHHHHHHTG--GGCCS--SCCCTTCEEEEEE
T ss_pred             HHHcCCCEEEEEECccCccchhhHHHHHHcCCCCeEEEeCcCCCC-hHHHHHHHHHhc--Ccccc--ccccccCcEEEEE
Confidence            466789999999999997543333333     6899999999999 999999988877  22111  1123456899999


Q ss_pred             cCCCCCchhhhhhhhhCcCC-CCccCCceeEeEEEEEEecCCeEEEEEEEeCCCC
Q psy10878         77 GDPTVGKTSFVQRYVQNTFK-KDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQ  130 (131)
Q Consensus        77 G~~~vGKSsli~~~~~~~~~-~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gq  130 (131)
                      |.+|||||||+|++++..+. ....++++.+.....+.+ ++.  .++||||||+
T Consensus       182 G~~nvGKSSLin~l~~~~~~~~~~~~gtT~d~~~~~~~~-~~~--~~~l~DT~G~  233 (436)
T 2hjg_A          182 GRPNVGKSSLVNAMLGEERVIVSNVAGTTRDAVDTSFTY-NQQ--EFVIVDTAGM  233 (436)
T ss_dssp             CSTTSSHHHHHHHHHTSTTEEEC---------CCEEEEE-TTE--EEEETTHHHH
T ss_pred             cCCCCCHHHHHHHHhCCCceeecCCCCceeeeeEEEEEE-CCe--EEEEEECCCc
Confidence            99999999999999987663 333455555655666776 665  4789999997

>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=99.82  E-value=3.9e-21  Score=146.39  Aligned_cols=120  Identities=23%  Similarity=0.334  Sum_probs=80.6

Q ss_pred             CccCCCcEEeeccCCCccccccccccc-----CCCCccccccCCcccccccccccccccCCCcccCCCCCCceeeEEEEE
Q psy10878          2 SYKAKKPILLPSASEDPSIDNWDKASW-----ENVTPIVSEQGDGEIIEIIDPSLKLVRVPSIRKSFNAPPEKLFKVIVI   76 (131)
Q Consensus         2 ~~~~~kp~vlv~NK~Dl~~~~~~~~~~-----~~~~~is~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ki~vv   76 (131)
                      +++.++|+++|+||+|+.+......++     ++++++||.++.| +.++++.+.+.+..  ...  .......+|++++
T Consensus       127 l~~~~~pvilV~NK~D~~~~~~~~~e~~~lg~~~~~~iSA~~g~g-v~~L~~~i~~~l~~--~~~--~~~~~~~~ki~iv  201 (456)
T 4dcu_A          127 LYRTKKPVVLAVNKLDNTEMRANIYDFYSLGFGEPYPISGTHGLG-LGDLLDAVAEHFKN--IPE--TKYNEEVIQFCLI  201 (456)
T ss_dssp             HTTCCSCEEEEEECC---------CCSGGGSSSSEEECCTTTCTT-HHHHHHHHHTTGGG--SCS--SCCCTTCEEEEEE
T ss_pred             HHHcCCCEEEEEECccchhhhhhHHHHHHcCCCceEEeecccccc-hHHHHHHHHhhccc--ccc--cccccccceeEEe
Confidence            456799999999999997654333333     6789999999999 99999988877632  111  1224457899999


Q ss_pred             cCCCCCchhhhhhhhhCc-CCCCccCCceeEeEEEEEEecCCeEEEEEEEeCCC
Q psy10878         77 GDPTVGKTSFVQRYVQNT-FKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAG  129 (131)
Q Consensus        77 G~~~vGKSsli~~~~~~~-~~~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~G  129 (131)
                      |.+|||||||++++++.. +.....++++.+.....+.+ ++.  .++||||||
T Consensus       202 G~~~vGKSslin~l~~~~~~~~~~~~gtt~~~~~~~~~~-~~~--~~~l~DT~G  252 (456)
T 4dcu_A          202 GRPNVGKSSLVNAMLGEERVIVSNVAGTTRDAVDTSFTY-NQQ--EFVIVDTAG  252 (456)
T ss_dssp             CSTTSSHHHHHHHHHTSTTEEECC------CTTSEEEEE-TTE--EEEETTGGG
T ss_pred             cCCCCCHHHHHHHHhCCCccccCCCCCeEEEEEEEEEEE-CCc--eEEEEECCC
Confidence            999999999999999664 33344455555555566666 665  688999999

>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=99.81  E-value=5.4e-21  Score=145.00  Aligned_cols=125  Identities=15%  Similarity=0.166  Sum_probs=83.6

Q ss_pred             CccCCCcEEeeccCCCcccc-cccc-ccc-----CCCCccccccCCcccccccccccccccCCCcccCCCCCCceeeEEE
Q psy10878          2 SYKAKKPILLPSASEDPSID-NWDK-ASW-----ENVTPIVSEQGDGEIIEIIDPSLKLVRVPSIRKSFNAPPEKLFKVI   74 (131)
Q Consensus         2 ~~~~~kp~vlv~NK~Dl~~~-~~~~-~~~-----~~~~~is~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ki~   74 (131)
                      +++.++|+++|+||+|+.+. .... .+|     ++++++||+++.| +.++++.+.+.+................+|++
T Consensus       106 l~~~~~p~ilv~NK~D~~~~~~~~~~~~~~~lg~~~~~~iSA~~g~g-v~~L~~~i~~~l~~~~~~~~~~~~~~~~~kva  184 (439)
T 1mky_A          106 LRKSTVDTILVANKAENLREFEREVKPELYSLGFGEPIPVSAEHNIN-LDTMLETIIKKLEEKGLDLESKPEITDAIKVA  184 (439)
T ss_dssp             HHHHTCCEEEEEESCCSHHHHHHHTHHHHGGGSSCSCEECBTTTTBS-HHHHHHHHHHHHHHTTCCSSSCCCCCSCEEEE
T ss_pred             HHHcCCCEEEEEeCCCCccccHHHHHHHHHhcCCCCEEEEeccCCCC-HHHHHHHHHHhcccccccchhccccccCceEE
Confidence            34568999999999998543 2112 222     5789999999999 99999998776621110000001123568999


Q ss_pred             EEcCCCCCchhhhhhhhhCcCC-CCccCCceeEeEEEEEEecCCeEEEEEEEeCCCC
Q psy10878         75 VIGDPTVGKTSFVQRYVQNTFK-KDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQ  130 (131)
Q Consensus        75 vvG~~~vGKSsli~~~~~~~~~-~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gq  130 (131)
                      ++|.+|||||||+|++++..+. ....|+++.+.....+.+ +|.  .+.+|||+|+
T Consensus       185 ivG~~gvGKSTLln~l~g~~~~~v~~~~gtT~d~~~~~i~~-~g~--~~~l~Dt~G~  238 (439)
T 1mky_A          185 IVGRPNVGKSTLFNAILNKERALVSPIPGTTRDPVDDEVFI-DGR--KYVFVDTAGL  238 (439)
T ss_dssp             EECSTTSSHHHHHHHHHTSTTEEECCCC------CCEEEEE-TTE--EEEESSCSCC
T ss_pred             EECCCCCCHHHHHHHHhCCcccccCCCCCCcCCceEEEEEE-CCE--EEEEEECCCC
Confidence            9999999999999999987642 233344444554556666 776  4689999997

>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=99.80  E-value=5.4e-20  Score=127.93  Aligned_cols=64  Identities=39%  Similarity=0.848  Sum_probs=48.6

Q ss_pred             CceeeEEEEEcCCCCCchhhhhhhhhCcCCCCccCCceeEeEEEEEEecCCeEEEEEEEeCCCCC
Q psy10878         67 PEKLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQN  131 (131)
Q Consensus        67 ~~~~~ki~vvG~~~vGKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gqe  131 (131)
                      +.+.+||+++|++|||||||++||+.+.|...|.||++.++..+.+.+ ++..+.++||||||||
T Consensus        10 P~k~~KivlvGd~~VGKTsLi~r~~~~~f~~~~~~Tig~d~~~k~~~~-~~~~v~l~iwDtaGqe   73 (216)
T 4dkx_A           10 PLRKFKLVFLGEQSVGKTSLITRFMYDSFDNTYQATIGIDFLSKTMYL-EDRTIRLQLWDTAGLE   73 (216)
T ss_dssp             ---CEEEEEECSTTSSHHHHHHHHHHSCCC----------CEEEEEEC-SSCEEEEEEECCSCTT
T ss_pred             CCCcEEEEEECcCCcCHHHHHHHHHhCCCCCCcCCccceEEEEEEEEe-cceEEEEEEEECCCch
Confidence            556799999999999999999999999999999999999998888887 8889999999999997

>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=99.67  E-value=7.8e-18  Score=121.30  Aligned_cols=120  Identities=20%  Similarity=0.321  Sum_probs=73.1

Q ss_pred             CCCcEEeeccCCCcccccccc---ccc----CCCCccccccCCcccccccccccccccCCCcccCCCCCCceeeEEEEEc
Q psy10878          5 AKKPILLPSASEDPSIDNWDK---ASW----ENVTPIVSEQGDGEIIEIIDPSLKLVRVPSIRKSFNAPPEKLFKVIVIG   77 (131)
Q Consensus         5 ~~kp~vlv~NK~Dl~~~~~~~---~~~----~~~~~is~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ki~vvG   77 (131)
                      .++|+++|+||+|+.+.....   ..+    .+++++|+.++.| +.++++.+.+.+.....+..........++++++|
T Consensus        49 ~~kp~ilVlNK~DL~~~~~~~~~~~~~~~~g~~~i~iSA~~~~g-i~~L~~~i~~~l~~~~~~~~~~~~~~~~~~v~~vG  127 (282)
T 1puj_A           49 KNKPRIMLLNKADKADAAVTQQWKEHFENQGIRSLSINSVNGQG-LNQIVPASKEILQEKFDRMRAKGVKPRAIRALIIG  127 (282)
T ss_dssp             SSSCEEEEEECGGGSCHHHHHHHHHHHHTTTCCEEECCTTTCTT-GGGHHHHHHHHHHHHHHHHHHTTCCCCCEEEEEEE
T ss_pred             CCCCEEEEEECcccCCHHHHHHHHHHHHhcCCcEEEEECCCccc-HHHHHHHHHHHHHHHHHHHHhcCCCCCCceEEEEe
Confidence            479999999999997643211   111    3567899999999 99998877665421000000011234568999999


Q ss_pred             CCCCCchhhhhhhhhCcCCCCccCCceeEeEEEEEEecCCeEEEEEEEeCCCC
Q psy10878         78 DPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQ  130 (131)
Q Consensus        78 ~~~vGKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gq  130 (131)
                      .+|||||||+|++.+.... ...++.+.+.....+.+ +.   .+.+|||||-
T Consensus       128 ~~nvGKSsliN~l~~~~~~-~~~~~~g~T~~~~~~~~-~~---~~~l~DtpG~  175 (282)
T 1puj_A          128 IPNVGKSTLINRLAKKNIA-KTGDRPGITTSQQWVKV-GK---ELELLDTPGI  175 (282)
T ss_dssp             STTSSHHHHHHHHHTSCCC-------------CCEEE-TT---TEEEEECCCC
T ss_pred             cCCCchHHHHHHHhcCcee-ecCCCCCeeeeeEEEEe-CC---CEEEEECcCc
Confidence            9999999999999876532 12222222222223333 33   3789999994

>3cnl_A YLQF, putative uncharacterized protein; circular permutation, GNP, signaling protein; HET: GNP; 2.00A {Thermotoga maritima} PDB: 3cnn_A* 3cno_A*

Probab=99.66  E-value=9.9e-18  Score=119.60  Aligned_cols=102  Identities=13%  Similarity=0.234  Sum_probs=67.7

Q ss_pred             CCcEEeeccCCCcccccccc---ccc----CCCCccccccCCcccccccccccccccCCCcccCCCCCCceeeEEEEEcC
Q psy10878          6 KKPILLPSASEDPSIDNWDK---ASW----ENVTPIVSEQGDGEIIEIIDPSLKLVRVPSIRKSFNAPPEKLFKVIVIGD   78 (131)
Q Consensus         6 ~kp~vlv~NK~Dl~~~~~~~---~~~----~~~~~is~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ki~vvG~   78 (131)
                      ++|+++|+||+|+.+.....   ..+    ..+ ++|+.++.| +.++++.+...+                ++++++|.
T Consensus        46 ~k~~iivlNK~DL~~~~~~~~~~~~~~~~g~~v-~iSa~~~~g-i~~L~~~l~~~~----------------~~v~~vG~  107 (262)
T 3cnl_A           46 RKETIILLNKVDIADEKTTKKWVEFFKKQGKRV-ITTHKGEPR-KVLLKKLSFDRL----------------ARVLIVGV  107 (262)
T ss_dssp             TSEEEEEEECGGGSCHHHHHHHHHHHHHTTCCE-EECCTTSCH-HHHHHHHCCCTT----------------CEEEEEES
T ss_pred             CCCcEEEEECccCCCHHHHHHHHHHHHHcCCeE-EEECCCCcC-HHHHHHHHHHhh----------------hheEEeCC
Confidence            79999999999998653211   112    234 999999999 888876655442                58999999


Q ss_pred             CCCCchhhhhhhhhCcCCCCccCCceeEeEEEEEEecCCeEEEEEEEeCCCC
Q psy10878         79 PTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQ  130 (131)
Q Consensus        79 ~~vGKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gq  130 (131)
                      +|||||||+|++.+.... ...++.|.+.....+.. +.   .+++|||||.
T Consensus       108 ~~vGKSslin~l~~~~~~-~~~~~~g~T~~~~~~~~-~~---~~~l~DtpG~  154 (262)
T 3cnl_A          108 PNTGKSTIINKLKGKRAS-SVGAQPGITKGIQWFSL-EN---GVKILDTPGI  154 (262)
T ss_dssp             TTSSHHHHHHHHHTTCC-----------CCSCEEEC-TT---SCEEESSCEE
T ss_pred             CCCCHHHHHHHHhccccc-ccCCCCCCccceEEEEe-CC---CEEEEECCCc
Confidence            999999999999976553 22344444333333333 32   3789999995

>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=99.65  E-value=6e-16  Score=102.00  Aligned_cols=64  Identities=38%  Similarity=0.673  Sum_probs=56.9

Q ss_pred             CceeeEEEEEcCCCCCchhhhhhhhhCcCCCCccCCceeEeEEEEEEecCCeEEEEEEEeCCCCC
Q psy10878         67 PEKLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQN  131 (131)
Q Consensus        67 ~~~~~ki~vvG~~~vGKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gqe  131 (131)
                      ....+||+++|++|||||||+++++++.+...+.+|++.++....+.+ ++..+.+.+|||+|++
T Consensus         3 ~~~~~~i~v~G~~~~GKssli~~l~~~~~~~~~~~t~~~~~~~~~~~~-~~~~~~l~i~Dt~G~~   66 (170)
T 1z08_A            3 RAYSFKVVLLGEGCVGKTSLVLRYCENKFNDKHITTLGASFLTKKLNI-GGKRVNLAIWDTAGQE   66 (170)
T ss_dssp             -CEEEEEEEECCTTSCHHHHHHHHHHCCCCSSCCCCCSCEEEEEEEES-SSCEEEEEEEECCCC-
T ss_pred             CCcceEEEEECcCCCCHHHHHHHHHcCCCCcCCCCccceEEEEEEEEE-CCEEEEEEEEECCCcH
Confidence            356789999999999999999999999998888899999988888887 8888999999999985

>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=1.1e-15  Score=102.98  Aligned_cols=67  Identities=43%  Similarity=0.833  Sum_probs=59.5

Q ss_pred             CCCCceeeEEEEEcCCCCCchhhhhhhhhCcCCCCccCCceeEeEEEEEEecCCeEEEEEEEeCCCCC
Q psy10878         64 NAPPEKLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQN  131 (131)
Q Consensus        64 ~~~~~~~~ki~vvG~~~vGKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gqe  131 (131)
                      +...+..+||+++|.+|||||||+++|+++.+...+.++++.++....+.+ ++..+.+.||||+|++
T Consensus        16 ~~~~~~~~ki~vvG~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~-~~~~~~~~l~Dt~G~~   82 (189)
T 2gf9_A           16 PRGSDYMFKLLLIGNSSVGKTSFLFRYADDSFTPAFVSTVGIDFKVKTVYR-HDKRIKLQIWDTAGQE   82 (189)
T ss_dssp             CTTCSEEEEEEEECSTTSSHHHHHHHHHHSCCCCSCCCCCCCEEEEEEEEE-TTEEEEEEEEECCSCC
T ss_pred             CcccCceeEEEEECCCCCCHHHHHHHHHcCCCCCCcCCceeEEEEEEEEEE-CCeEEEEEEEeCCCcH
Confidence            445667899999999999999999999999998888899998888788877 7888999999999985

>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=99.64  E-value=6.5e-16  Score=105.78  Aligned_cols=65  Identities=45%  Similarity=0.796  Sum_probs=59.2

Q ss_pred             CCceeeEEEEEcCCCCCchhhhhhhhhCcCCCCccCCceeEeEEEEEEecCCeEEEEEEEeCCCCC
Q psy10878         66 PPEKLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQN  131 (131)
Q Consensus        66 ~~~~~~ki~vvG~~~vGKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gqe  131 (131)
                      .....+||+++|++|||||||+++|+++.+...+.+|++.++....+.+ ++..+.++||||+|++
T Consensus        22 ~~~~~~ki~lvG~~~vGKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~-~~~~~~l~l~Dt~G~~   86 (201)
T 2ew1_A           22 DYDFLFKIVLIGNAGVGKTCLVRRFTQGLFPPGQGATIGVDFMIKTVEI-NGEKVKLQIWDTAGQE   86 (201)
T ss_dssp             CCSEEEEEEEEESTTSSHHHHHHHHHHSSCCTTCCCCCSEEEEEEEEEE-TTEEEEEEEEEECCSG
T ss_pred             ccccceEEEEECcCCCCHHHHHHHHHhCCCCCCCCCccceeEEEEEEEE-CCEEEEEEEEECCCcH
Confidence            3567899999999999999999999999998888899999998888888 8888999999999985

>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=99.64  E-value=7.6e-16  Score=103.93  Aligned_cols=64  Identities=16%  Similarity=0.326  Sum_probs=53.4

Q ss_pred             CCceeeEEEEEcCCCCCchhhhhhhhhCcCCCCccCCceeEeEEEEEEecCCeEEEEEEEeCCCCC
Q psy10878         66 PPEKLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQN  131 (131)
Q Consensus        66 ~~~~~~ki~vvG~~~vGKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gqe  131 (131)
                      .....+||+++|++|||||||+++|+++.|...+.+|++..+ ...+.+ ++..+.++||||+||+
T Consensus        17 ~~~~~~ki~vvG~~~vGKTsLi~~l~~~~~~~~~~~t~~~~~-~~~~~~-~~~~~~l~i~Dt~G~~   80 (187)
T 3c5c_A           17 QGPLEVNLAILGRRGAGKSALTVKFLTKRFISEYDPNLEDTY-SSEETV-DHQPVHLRVMDTADLD   80 (187)
T ss_dssp             ---CEEEEEEECCTTSSHHHHHHHHHHSSCCSCCCTTCCEEE-EEEEEE-TTEEEEEEEEECCC--
T ss_pred             CCCceEEEEEECCCCCcHHHHHHHHHhCCCCcccCCCcccee-eEEEEE-CCEEEEEEEEECCCCC
Confidence            356779999999999999999999999999888999999887 455666 8888999999999985

>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=99.64  E-value=1e-15  Score=103.19  Aligned_cols=64  Identities=27%  Similarity=0.360  Sum_probs=54.9

Q ss_pred             CCCceeeEEEEEcCCCCCchhhhhhhhhCcCCCCccCCceeEeEEEEEEecCCeEEEEEEEeCCCCC
Q psy10878         65 APPEKLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQN  131 (131)
Q Consensus        65 ~~~~~~~ki~vvG~~~vGKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gqe  131 (131)
                      ......+||+++|++|||||||+++|+++.|...+.|| +..+ .+.+.+ ++..+.++||||+|||
T Consensus        15 ~~~~~~~ki~ivG~~~vGKSsL~~~~~~~~~~~~~~~t-~~~~-~~~~~~-~~~~~~l~i~Dt~G~~   78 (184)
T 3ihw_A           15 YFQGPELKVGIVGNLSSGKSALVHRYLTGTYVQEESPE-GGRF-KKEIVV-DGQSYLLLIRDEGGPP   78 (184)
T ss_dssp             -CCCCEEEEEEECCTTSCHHHHHHHHHHSSCCCCCCTT-CEEE-EEEEEE-TTEEEEEEEEECSSSC
T ss_pred             CCCCCeeEEEEECCCCCCHHHHHHHHhcCCCCCCcCCC-cceE-EEEEEE-CCEEEEEEEEECCCCh
Confidence            34667899999999999999999999999998888887 4455 477777 8899999999999986

>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=99.64  E-value=1.1e-15  Score=101.45  Aligned_cols=64  Identities=44%  Similarity=0.751  Sum_probs=54.6

Q ss_pred             CceeeEEEEEcCCCCCchhhhhhhhhCcCCCCccCCceeEeEEEEEEecCCeEEEEEEEeCCCCC
Q psy10878         67 PEKLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQN  131 (131)
Q Consensus        67 ~~~~~ki~vvG~~~vGKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gqe  131 (131)
                      ....+||+++|.+|||||||+++++++.+...+.++++.++....+.+ ++..+.+.+|||+|++
T Consensus         4 ~~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~i~Dt~G~~   67 (177)
T 1wms_A            4 KSSLFKVILLGDGGVGKSSLMNRYVTNKFDTQLFHTIGVEFLNKDLEV-DGHFVTMQIWDTAGQE   67 (177)
T ss_dssp             CEEEEEEEEECCTTSSHHHHHHHHHHSCCCC----CCSEEEEEEEEEE-TTEEEEEEEEECCCCG
T ss_pred             ccceeEEEEECCCCCCHHHHHHHHHcCCCCCCCCCceeeeEEEEEEEE-CCEEEEEEEEeCCCch
Confidence            456789999999999999999999999998888899999988888888 8888999999999985

>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=99.64  E-value=1.3e-15  Score=102.87  Aligned_cols=66  Identities=36%  Similarity=0.705  Sum_probs=59.1

Q ss_pred             CCCceeeEEEEEcCCCCCchhhhhhhhhCcCCCCccCCceeEeEEEEEEecCCeEEEEEEEeCCCCC
Q psy10878         65 APPEKLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQN  131 (131)
Q Consensus        65 ~~~~~~~ki~vvG~~~vGKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gqe  131 (131)
                      ......+||+++|.+|||||||+++|+++.+...+.++++.++....+.+ ++..+.+.||||+|++
T Consensus        20 ~~~~~~~ki~v~G~~~~GKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~-~~~~~~~~i~Dt~G~~   85 (193)
T 2oil_A           20 EDYNFVFKVVLIGESGVGKTNLLSRFTRNEFSHDSRTTIGVEFSTRTVML-GTAAVKAQIWDTAGLE   85 (193)
T ss_dssp             CCCSEEEEEEEESSTTSSHHHHHHHHHHSCCCSSCCCCSSEEEEEEEEEE-TTEEEEEEEEEESCCC
T ss_pred             cccCcceEEEEECcCCCCHHHHHHHHhcCCCCCCCCCccceeEEEEEEEE-CCEEEEEEEEeCCCch
Confidence            34667899999999999999999999999998888899999888888877 7888999999999985

>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=99.63  E-value=7e-16  Score=102.70  Aligned_cols=61  Identities=21%  Similarity=0.344  Sum_probs=53.6

Q ss_pred             ceeeEEEEEcCCCCCchhhhhhhhhCcCCCCccCCceeEeEEEEEEecCCeEEEEEEEeCCCCC
Q psy10878         68 EKLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQN  131 (131)
Q Consensus        68 ~~~~ki~vvG~~~vGKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gqe  131 (131)
                      ...+||+++|++|||||||+++|+++.+.. +.||++..+ .+.+.+ ++..+.+++|||+||+
T Consensus         5 ~~~~ki~~vG~~~vGKTsli~~l~~~~~~~-~~~t~~~~~-~~~~~~-~~~~~~l~i~Dt~G~~   65 (178)
T 2iwr_A            5 IPELRLGVLGDARSGKSSLIHRFLTGSYQV-LEKTESEQY-KKEMLV-DGQTHLVLIREEAGAP   65 (178)
T ss_dssp             CCEEEEEEECCGGGCHHHHHHHHHHSCCCC-CSSCSSSEE-EEEEEE-TTEEEEEEEEECSSSC
T ss_pred             CCceEEEEECCCCCCHHHHHHHHHhCCCCC-cCCCcceeE-EEEEEE-CCEEEEEEEEECCCCc
Confidence            356899999999999999999999999886 788988666 577777 8888999999999986

>2bme_A RAB4A, RAS-related protein RAB4A; GTP-binding protein, vesicular transport, endocytosis, prenylation, protein transport, transport; HET: GNP; 1.57A {Homo sapiens} SCOP: c.37.1.8 PDB: 2bmd_A* 1yu9_A* 1z0k_A*

Probab=99.63  E-value=1.3e-15  Score=101.90  Aligned_cols=64  Identities=39%  Similarity=0.770  Sum_probs=58.1

Q ss_pred             CceeeEEEEEcCCCCCchhhhhhhhhCcCCCCccCCceeEeEEEEEEecCCeEEEEEEEeCCCCC
Q psy10878         67 PEKLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQN  131 (131)
Q Consensus        67 ~~~~~ki~vvG~~~vGKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gqe  131 (131)
                      ....+||+++|++|||||||+++|+++.+...+.++++.++....+.+ ++..+.+++|||+|++
T Consensus         7 ~~~~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~l~Dt~G~~   70 (186)
T 2bme_A            7 YDFLFKFLVIGNAGTGKSCLLHQFIEKKFKDDSNHTIGVEFGSKIINV-GGKYVKLQIWDTAGQE   70 (186)
T ss_dssp             CSEEEEEEEEESTTSSHHHHHHHHHHSSCCTTCCCCSEEEEEEEEEEE-TTEEEEEEEEEECCSG
T ss_pred             cccceEEEEECCCCCCHHHHHHHHHcCCCCCCCCCccceEEEEEEEEE-CCEEEEEEEEeCCCcH
Confidence            456799999999999999999999999998888899998888888887 8888999999999985

>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=99.63  E-value=3.8e-16  Score=104.44  Aligned_cols=64  Identities=41%  Similarity=0.849  Sum_probs=39.5

Q ss_pred             CceeeEEEEEcCCCCCchhhhhhhhhCcCCCCccCCceeEeEEEEEEecCCeEEEEEEEeCCCCC
Q psy10878         67 PEKLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQN  131 (131)
Q Consensus        67 ~~~~~ki~vvG~~~vGKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gqe  131 (131)
                      ....+||+++|++|||||||+++|.++.+...+.||++.++....+.+ ++..+.++||||+|++
T Consensus         5 ~~~~~ki~v~G~~~~GKssl~~~l~~~~~~~~~~~t~~~~~~~~~~~~-~~~~~~~~l~Dt~G~~   68 (183)
T 2fu5_C            5 YDYLFKLLLIGDSGVGKTCVLFRFSEDAFNSTFISTIGIDFKIRTIEL-DGKRIKLQIWDTAGQE   68 (183)
T ss_dssp             CSEEEEEEEECCCCC----------------CHHHHHCEEEEEEEEEE-TTEEEEEEEEEC----
T ss_pred             cCCceEEEEECCCCCCHHHHHHHHHhCCCCCCCCCcccceeEEEEEEE-CCEEEEEEEEcCCCCh
Confidence            356799999999999999999999998888888899999998888888 8888999999999985

>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=99.63  E-value=9.5e-16  Score=103.52  Aligned_cols=67  Identities=39%  Similarity=0.690  Sum_probs=55.3

Q ss_pred             CCCCceeeEEEEEcCCCCCchhhhhhhhhCcCCCCccCCceeEeEEEEEEecCCeEEEEEEEeCCCCC
Q psy10878         64 NAPPEKLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQN  131 (131)
Q Consensus        64 ~~~~~~~~ki~vvG~~~vGKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gqe  131 (131)
                      +......+||+++|++|||||||+++|.++.+...+.++++.++....+.+ ++..+.++||||+|++
T Consensus        15 ~~~~~~~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~-~~~~~~~~i~Dt~G~~   81 (191)
T 2a5j_A           15 VPRGSYLFKYIIIGDTGVGKSCLLLQFTDKRFQPVHDLTIGVEFGARMVNI-DGKQIKLQIWDTAGQE   81 (191)
T ss_dssp             CCTTCEEEEEEEESSTTSSHHHHHHHHHHSCCCC-----CCSSEEEEEEEE-TTEEEEEEEECCTTGG
T ss_pred             ccccCcceEEEEECcCCCCHHHHHHHHhcCCCCCCCCCcccceeEEEEEEE-CCEEEEEEEEECCCch
Confidence            345678899999999999999999999999998888899998888888887 8888999999999975

>2hxs_A RAB-26, RAS-related protein RAB-28; GTPase, signaling protein; HET: G3D; 1.10A {Homo sapiens} PDB: 2hy4_A* 3e5h_A*

Probab=99.63  E-value=4.1e-16  Score=103.59  Aligned_cols=65  Identities=40%  Similarity=0.747  Sum_probs=56.4

Q ss_pred             CceeeEEEEEcCCCCCchhhhhhhhhCcCCCCccCCceeEeEEEEEEecCCeEEEEEEEeCCCCC
Q psy10878         67 PEKLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQN  131 (131)
Q Consensus        67 ~~~~~ki~vvG~~~vGKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gqe  131 (131)
                      ....+||+++|++|||||||+++|.++.+...+.||++.++....+.+.++..+.+++|||+||+
T Consensus         3 ~~~~~ki~v~G~~~~GKssl~~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~~~Dt~G~~   67 (178)
T 2hxs_A            3 HMRQLKIVVLGDGASGKTSLTTCFAQETFGKQYKQTIGLDFFLRRITLPGNLNVTLQIWDIGGQT   67 (178)
T ss_dssp             CCCEEEEEEECCTTSSHHHHHHHHHGGGTTHHHHHTTTSSEEEEEEEETTTEEEEEEEEECTTCC
T ss_pred             CCceEEEEEECcCCCCHHHHHHHHHhCcCCCCCCCceeEEEEEEEEEeCCCCEEEEEEEECCCCc
Confidence            34578999999999999999999999888878889998888888888733467999999999986

>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=99.63  E-value=1.2e-15  Score=101.17  Aligned_cols=65  Identities=42%  Similarity=0.755  Sum_probs=58.4

Q ss_pred             CCceeeEEEEEcCCCCCchhhhhhhhhCcCCCCccCCceeEeEEEEEEecCCeEEEEEEEeCCCCC
Q psy10878         66 PPEKLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQN  131 (131)
Q Consensus        66 ~~~~~~ki~vvG~~~vGKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gqe  131 (131)
                      .....+||+++|.+|||||||++++.++.+...+.+|.+.++....+.+ ++..+.+.+|||+|++
T Consensus        11 ~~~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~-~~~~~~~~l~Dt~G~~   75 (179)
T 1z0f_A           11 NYSYIFKYIIIGDMGVGKSCLLHQFTEKKFMADCPHTIGVEFGTRIIEV-SGQKIKLQIWDTAGQE   75 (179)
T ss_dssp             CCSEEEEEEEECSTTSSHHHHHHHHHHSCCCSSCTTSCCCCEEEEEEEE-TTEEEEEEEEECTTGG
T ss_pred             ccccceEEEEECCCCCCHHHHHHHHHcCCCCCCCCCccceEEEEEEEEE-CCeEEEEEEEECCCCh
Confidence            3567899999999999999999999999998888899998888888887 8888999999999975

>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=99.63  E-value=1.3e-15  Score=103.86  Aligned_cols=64  Identities=44%  Similarity=0.867  Sum_probs=58.4

Q ss_pred             CceeeEEEEEcCCCCCchhhhhhhhhCcCCCCccCCceeEeEEEEEEecCCeEEEEEEEeCCCCC
Q psy10878         67 PEKLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQN  131 (131)
Q Consensus        67 ~~~~~ki~vvG~~~vGKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gqe  131 (131)
                      ....+||+++|++|||||||+++|.++.+...+.++++.++....+.+ ++..+.+.||||+|++
T Consensus         5 ~~~~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~-~~~~~~~~l~Dt~G~~   68 (206)
T 2bcg_Y            5 YDYLFKLLLIGNSGVGKSCLLLRFSDDTYTNDYISTIGVDFKIKTVEL-DGKTVKLQIWDTAGQE   68 (206)
T ss_dssp             CSEEEEEEEEESTTSSHHHHHHHHHHCCCCTTCCCSSCCCEEEEEEEE-TTEEEEEEEECCTTTT
T ss_pred             cCcceEEEEECCCCCCHHHHHHHHhcCCCCCCCCCcccceeEEEEEEE-CCEEEEEEEEeCCChH
Confidence            456799999999999999999999999998888999999998888888 8888999999999985

>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=99.63  E-value=7.8e-16  Score=105.05  Aligned_cols=65  Identities=42%  Similarity=0.796  Sum_probs=49.4

Q ss_pred             CCceeeEEEEEcCCCCCchhhhhhhhhCcCCCCccCCceeEeEEEEEEecCCeEEEEEEEeCCCCC
Q psy10878         66 PPEKLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQN  131 (131)
Q Consensus        66 ~~~~~~ki~vvG~~~vGKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gqe  131 (131)
                      .....+||+++|++|||||||+++|.++.+...+.+|++.++....+.+ ++..+.++||||+|++
T Consensus        25 ~~~~~~ki~vvG~~~vGKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~-~~~~~~l~i~Dt~G~~   89 (201)
T 2hup_A           25 QYDFLFKLVLVGDASVGKTCVVQRFKTGAFSERQGSTIGVDFTMKTLEI-QGKRVKLQIWDTAGQE   89 (201)
T ss_dssp             -CCEEEEEEEEECTTSSHHHHHHHHHHSCC----------CEEEEEEEE-TTEEEEEEEECCTTCG
T ss_pred             ccccceEEEEECcCCCCHHHHHHHHhhCCCCCCCCCCcceEEEEEEEEE-CCEEEEEEEEECCCcH
Confidence            3567899999999999999999999999998888899998888888888 8888999999999985

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

Probab=99.63  E-value=9e-16  Score=101.96  Aligned_cols=65  Identities=46%  Similarity=0.875  Sum_probs=55.8

Q ss_pred             CCceeeEEEEEcCCCCCchhhhhhhhhCcCCCCccCCceeEeEEEEEEecCCeEEEEEEEeCCCCC
Q psy10878         66 PPEKLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQN  131 (131)
Q Consensus        66 ~~~~~~ki~vvG~~~vGKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gqe  131 (131)
                      .....+||+++|.+|||||||+++++++.+...+.++++.++....+.+ ++..+.+.+|||+|++
T Consensus         5 ~~~~~~~i~v~G~~~~GKssl~~~l~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~i~Dt~G~~   69 (181)
T 3tw8_B            5 DYDHLFKLLIIGDSGVGKSSLLLRFADNTFSGSYITTIGVDFKIRTVEI-NGEKVKLQIWDTAGQE   69 (181)
T ss_dssp             -CCEEEEEEEECCTTSCHHHHHHHHCSCC---CCTTTBSEEEEEEEEEE-TTEEEEEEEEEETTGG
T ss_pred             ccCcceEEEEECCCCCCHHHHHHHHhcCCCCCccCCCceeEEEEEEEEE-CCEEEEEEEEcCCCch
Confidence            3567899999999999999999999999888888899999998888888 8888999999999974

>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=99.62  E-value=8.5e-16  Score=105.45  Aligned_cols=67  Identities=28%  Similarity=0.582  Sum_probs=54.8

Q ss_pred             CCCCCceeeEEEEEcCCCCCchhhhhhhhhCcCCCCccCCceeEeEEEEEEecCCeEEEEEEEeCCCCC
Q psy10878         63 FNAPPEKLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQN  131 (131)
Q Consensus        63 ~~~~~~~~~ki~vvG~~~vGKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gqe  131 (131)
                      +.......+||+++|++|||||||+++|.++.+...+.||++.++ ...+.+ ++..+.++||||+||+
T Consensus        21 m~~~~~~~~ki~vvG~~~vGKSsLi~~l~~~~~~~~~~~t~~~~~-~~~~~~-~~~~~~l~i~Dt~G~~   87 (205)
T 1gwn_A           21 MDPNQNVKCKIVVVGDSQCGKTALLHVFAKDCFPENYVPTVFENY-TASFEI-DTQRIELSLWDTSGSP   87 (205)
T ss_dssp             ------CEEEEEEEESTTSSHHHHHHHHHHSCCCSSCCCCSEEEE-EEEEES-SSSEEEEEEEEECCSG
T ss_pred             CCcccceeeEEEEECCCCCCHHHHHHHHhcCCCCCCcCCccceeE-EEEEEE-CCEEEEEEEEeCCCcH
Confidence            334456789999999999999999999999999888899999877 456666 7888999999999985

>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=99.62  E-value=1.4e-15  Score=100.03  Aligned_cols=64  Identities=34%  Similarity=0.672  Sum_probs=57.6

Q ss_pred             CceeeEEEEEcCCCCCchhhhhhhhhCcCCCCccCCceeEeEEEEEEecCCeEEEEEEEeCCCCC
Q psy10878         67 PEKLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQN  131 (131)
Q Consensus        67 ~~~~~ki~vvG~~~vGKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gqe  131 (131)
                      +...+||+++|.+|||||||+++++++.+...+.++.+.++....+.+ ++..+.+++|||+|++
T Consensus         3 ~~~~~~i~v~G~~~~GKssli~~l~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~D~~G~~   66 (170)
T 1r2q_A            3 KICQFKLVLLGESAVGKSSLVLRFVKGQFHEFQESTIGAAFLTQTVCL-DDTTVKFEIWDTAGQE   66 (170)
T ss_dssp             EEEEEEEEEECSTTSSHHHHHHHHHHSCCCTTCCCCSSEEEEEEEEEE-TTEEEEEEEEEECCSG
T ss_pred             CCceEEEEEECCCCCCHHHHHHHHHcCCCCCCCCCccceEEEEEEEEE-CCEEEEEEEEeCCCcH
Confidence            346789999999999999999999999998888899999888888887 7888999999999985

>1z2a_A RAS-related protein RAB-23; RAB GTPase, vesicular trafficking, protein transport; HET: GDP; 1.90A {Mus musculus} SCOP: c.37.1.8 PDB: 1z22_A*

Probab=99.62  E-value=9e-16  Score=100.84  Aligned_cols=63  Identities=44%  Similarity=0.857  Sum_probs=56.6

Q ss_pred             ceeeEEEEEcCCCCCchhhhhhhhhCcCCCCccCCceeEeEEEEEEecCCeEEEEEEEeCCCCC
Q psy10878         68 EKLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQN  131 (131)
Q Consensus        68 ~~~~ki~vvG~~~vGKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gqe  131 (131)
                      ...+||+++|.+|||||||++++.++.+...+.+|++.++....+.+ ++..+.+.+|||+|++
T Consensus         3 ~~~~~i~v~G~~~~GKssl~~~l~~~~~~~~~~~t~~~~~~~~~~~~-~~~~~~~~l~Dt~G~~   65 (168)
T 1z2a_A            3 EVAIKMVVVGNGAVGKSSMIQRYCKGIFTKDYKKTIGVDFLERQIQV-NDEDVRLMLWDTAGQE   65 (168)
T ss_dssp             -CEEEEEEECSTTSSHHHHHHHHHHCCCCCCSSCCCSSSEEEEEEEE-TTEEEEEEEECCTTGG
T ss_pred             ceeEEEEEECcCCCCHHHHHHHHHcCCCCCCCCCceEEEEEEEEEEE-CCEEEEEEEEcCCCcH
Confidence            35789999999999999999999999998888899998888888887 8888999999999974

>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=99.62  E-value=2.3e-15  Score=100.00  Aligned_cols=63  Identities=32%  Similarity=0.582  Sum_probs=55.8

Q ss_pred             CceeeEEEEEcCCCCCchhhhhhhhhCcCCCCccCCceeEeEEEEEEecCCeEEEEEEEeCCCCC
Q psy10878         67 PEKLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQN  131 (131)
Q Consensus        67 ~~~~~ki~vvG~~~vGKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gqe  131 (131)
                      +...+||+++|.+|||||||+++|+++.+...+.+|++..+. ..+.+ ++..+.+++|||+|++
T Consensus         6 ~~~~~~i~v~G~~~~GKssli~~l~~~~~~~~~~~t~~~~~~-~~~~~-~~~~~~~~~~Dt~G~~   68 (181)
T 2fn4_A            6 PSETHKLVVVGGGGVGKSALTIQFIQSYFVSDYDPTIEDSYT-KICSV-DGIPARLDILDTAGQE   68 (181)
T ss_dssp             SSCEEEEEEEECTTSSHHHHHHHHHHSSCCSSCCTTCCEEEE-EEEEE-TTEEEEEEEEECCCTT
T ss_pred             CCCceEEEEECCCCCCHHHHHHHHHhCcCccccCCCcCceEE-EEEEE-CCEEEEEEEEECCCch
Confidence            456789999999999999999999999998889999998875 66666 8888999999999985

>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=99.62  E-value=2.3e-15  Score=100.45  Aligned_cols=62  Identities=34%  Similarity=0.549  Sum_probs=55.9

Q ss_pred             ceeeEEEEEcCCCCCchhhhhhhhhCcCCCCccCCceeEeEEEEEEecCCeEEEEEEEeCCCCC
Q psy10878         68 EKLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQN  131 (131)
Q Consensus        68 ~~~~ki~vvG~~~vGKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gqe  131 (131)
                      ...+||+++|++|||||||+++|+++.+...+.+|++..+ ...+.+ ++..+.+++|||+|++
T Consensus         4 ~~~~ki~~~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~-~~~~~~-~~~~~~~~l~Dt~G~~   65 (181)
T 3t5g_A            4 SKSRKIAILGYRSVGKSSLTIQFVEGQFVDSYDPTIENTF-TKLITV-NGQEYHLQLVDTAGQD   65 (181)
T ss_dssp             EEEEEEEEEESTTSSHHHHHHHHHHSSCCSCCCTTCCEEE-EEEEEE-TTEEEEEEEEECCCCC
T ss_pred             CceEEEEEECcCCCCHHHHHHHHHcCCCCCCCCCCccccE-EEEEEE-CCEEEEEEEEeCCCch
Confidence            4678999999999999999999999999889999999887 667777 8889999999999986

>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=99.62  E-value=1.7e-15  Score=99.61  Aligned_cols=62  Identities=34%  Similarity=0.712  Sum_probs=56.5

Q ss_pred             eeeEEEEEcCCCCCchhhhhhhhhCcCCCCccCCceeEeEEEEEEecCCeEEEEEEEeCCCCC
Q psy10878         69 KLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQN  131 (131)
Q Consensus        69 ~~~ki~vvG~~~vGKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gqe  131 (131)
                      ..+||+++|.+|||||||+++++++.+...+.|+++.++....+.+ ++..+.+.+|||+|++
T Consensus         2 ~~~~i~v~G~~~~GKssli~~l~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~D~~G~~   63 (170)
T 1ek0_A            2 TSIKLVLLGEAAVGKSSIVLRFVSNDFAENKEPTIGAAFLTQRVTI-NEHTVKFEIWDTAGQE   63 (170)
T ss_dssp             EEEEEEEECSTTSSHHHHHHHHHHSCCCTTCCCCSSEEEEEEEEEE-TTEEEEEEEEEECCSG
T ss_pred             ceEEEEEECCCCCCHHHHHHHHhcCCCCCCCCCccceeEEEEEEEE-CCEEEEEEEEECCCCh
Confidence            3689999999999999999999999988888899999988888887 8888999999999985

>1z06_A RAS-related protein RAB-33B; RAB GTPase, RAB33B GTPase, vesicular trafficking, protein transport; HET: GNP; 1.81A {Mus musculus} SCOP: c.37.1.8 PDB: 2g77_B*

Probab=99.62  E-value=1.3e-15  Score=102.66  Aligned_cols=65  Identities=45%  Similarity=0.810  Sum_probs=57.1

Q ss_pred             CCceeeEEEEEcCCCCCchhhhhhhhhCcCCCCccCCceeEeEEEEEEecCCeEEEEEEEeCCCCC
Q psy10878         66 PPEKLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQN  131 (131)
Q Consensus        66 ~~~~~~ki~vvG~~~vGKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gqe  131 (131)
                      .....+||+++|.+|||||||+++|+++.+...+.++++.++....+.+ ++..+.+.||||+|++
T Consensus        16 ~~~~~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~-~~~~~~~~l~Dt~G~~   80 (189)
T 1z06_A           16 SRSRIFKIIVIGDSNVGKTCLTYRFCAGRFPDRTEATIGVDFRERAVDI-DGERIKIQLWDTAGQE   80 (189)
T ss_dssp             ---CEEEEEEECCTTSSHHHHHHHHHHSSCCSSCCCCCSCCEEEEEEEE-TTEEEEEEEEECCCSH
T ss_pred             CCCceEEEEEECCCCCCHHHHHHHHHcCCCCCCCCCCcceEEEEEEEEE-CCEEEEEEEEECCCch
Confidence            3556799999999999999999999999998888899998888888888 8888999999999984

>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=99.62  E-value=1.7e-15  Score=101.90  Aligned_cols=65  Identities=38%  Similarity=0.738  Sum_probs=58.5

Q ss_pred             CCceeeEEEEEcCCCCCchhhhhhhhhCcCCCCccCCceeEeEEEEEEecCCeEEEEEEEeCCCCC
Q psy10878         66 PPEKLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQN  131 (131)
Q Consensus        66 ~~~~~~ki~vvG~~~vGKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gqe  131 (131)
                      .....+||+++|.+|||||||++++.++.+...+.++++.++....+.+ ++..+.+.||||+|++
T Consensus        11 ~~~~~~~i~v~G~~~~GKssli~~l~~~~~~~~~~~t~~~~~~~~~~~~-~~~~~~~~i~Dt~G~~   75 (195)
T 1x3s_A           11 DVLTTLKILIIGESGVGKSSLLLRFTDDTFDPELAATIGVDFKVKTISV-DGNKAKLAIWDTAGQE   75 (195)
T ss_dssp             TEEEEEEEEEECSTTSSHHHHHHHHHHSCCCTTCCCCCSEEEEEEEEEE-TTEEEEEEEEEECSSG
T ss_pred             CCCCceEEEEECCCCCCHHHHHHHHHcCCCCccCCCccceEEEEEEEEE-CCeEEEEEEEeCCCch
Confidence            3456789999999999999999999999998888999999988888887 8888999999999985

>3tkl_A RAS-related protein RAB-1A; vesicle trafficking, protein transport-protein binding compl; HET: GTP; 2.18A {Homo sapiens}

Probab=99.61  E-value=2.6e-15  Score=101.24  Aligned_cols=64  Identities=42%  Similarity=0.867  Sum_probs=58.8

Q ss_pred             CceeeEEEEEcCCCCCchhhhhhhhhCcCCCCccCCceeEeEEEEEEecCCeEEEEEEEeCCCCC
Q psy10878         67 PEKLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQN  131 (131)
Q Consensus        67 ~~~~~ki~vvG~~~vGKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gqe  131 (131)
                      ....+||+++|.+|||||||+++|+++.+...+.++++.++....+.+ ++..+.+.||||+|++
T Consensus        13 ~~~~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~i~Dt~G~~   76 (196)
T 3tkl_A           13 YDYLFKLLLIGDSGVGKSCLLLRFADDTYTESYISTIGVDFKIRTIEL-DGKTIKLQIWDTAGQE   76 (196)
T ss_dssp             CSEEEEEEEECSTTSSHHHHHHHHHHSCCCSCCCCCSSEEEEEEEEEE-TTEEEEEEEEEECCSG
T ss_pred             cccceEEEEECcCCCCHHHHHHHHHcCCCCCCCCCcccceEEEEEEEE-CCEEEEEEEEECCCcH
Confidence            457899999999999999999999999998889999999998888888 8888999999999975

>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=99.61  E-value=2.2e-15  Score=99.91  Aligned_cols=64  Identities=39%  Similarity=0.865  Sum_probs=57.5

Q ss_pred             CceeeEEEEEcCCCCCchhhhhhhhhCcCCCCccCCceeEeEEEEEEecCCeEEEEEEEeCCCCC
Q psy10878         67 PEKLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQN  131 (131)
Q Consensus        67 ~~~~~ki~vvG~~~vGKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gqe  131 (131)
                      +...+||+++|.+|||||||+++++++.+...+.++++.++....+.+ ++..+.+.+|||+|++
T Consensus        11 ~~~~~~i~v~G~~~~GKssli~~l~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~Dt~G~~   74 (179)
T 2y8e_A           11 PLRKFKLVFLGEQSVGKTSLITRFMYDSFDNTYQATIGIDFLSKTMYL-EDRTVRLQLWDTAGQE   74 (179)
T ss_dssp             -CEEEEEEEEESTTSSHHHHHHHHHHSCCCSSCCCCCSEEEEEEEEEE-TTEEEEEEEEEECCSG
T ss_pred             CCcceEEEEECCCCCCHHHHHHHHHcCCCCCCCCCceeeEEEEEEEEE-CCeEEEEEEEECCCcH
Confidence            446799999999999999999999999998888899999888888888 8888999999999975

>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=99.61  E-value=2.9e-15  Score=98.58  Aligned_cols=63  Identities=33%  Similarity=0.656  Sum_probs=57.2

Q ss_pred             ceeeEEEEEcCCCCCchhhhhhhhhCcCCCCccCCceeEeEEEEEEecCCeEEEEEEEeCCCCC
Q psy10878         68 EKLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQN  131 (131)
Q Consensus        68 ~~~~ki~vvG~~~vGKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gqe  131 (131)
                      ...+||+++|.+|||||||++++.++.+...+.++.+.++....+.+ ++..+.+.+|||+|++
T Consensus         4 ~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~Dt~G~~   66 (170)
T 1z0j_A            4 LRELKVCLLGDTGVGKSSIMWRFVEDSFDPNINPTIGASFMTKTVQY-QNELHKFLIWDTAGLE   66 (170)
T ss_dssp             EEEEEEEEECCTTSSHHHHHHHHHHSCCCTTCCCCCSEEEEEEEEEE-TTEEEEEEEEEECCSG
T ss_pred             CcceEEEEECcCCCCHHHHHHHHHcCCCCCCCCCceeEEEEEEEEEE-CCeEEEEEEEcCCCch
Confidence            45789999999999999999999999988888899999888888887 7888999999999974

>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=99.61  E-value=3.3e-15  Score=99.83  Aligned_cols=64  Identities=33%  Similarity=0.528  Sum_probs=56.8

Q ss_pred             CCceeeEEEEEcCCCCCchhhhhhhhhCcCCCCccCCceeEeEEEEEEecCCeEEEEEEEeCCCCC
Q psy10878         66 PPEKLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQN  131 (131)
Q Consensus        66 ~~~~~~ki~vvG~~~vGKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gqe  131 (131)
                      .....+||+++|++|||||||+++|.++.+...+.+|++..+ ...+.+ ++..+.+++|||+|++
T Consensus        14 ~~~~~~ki~v~G~~~~GKSsl~~~l~~~~~~~~~~~t~~~~~-~~~~~~-~~~~~~l~i~Dt~G~~   77 (183)
T 3kkq_A           14 ENLPTYKLVVVGDGGVGKSALTIQFFQKIFVDDYDPTIEDSY-LKHTEI-DNQWAILDVLDTAGQE   77 (183)
T ss_dssp             CCCCEEEEEEECSTTSSHHHHHHHHHHSCCCSCCCTTCCEEE-EEEEEE-TTEEEEEEEEECCSCG
T ss_pred             cCCCceEEEEECCCCCCHHHHHHHHHhCCCCCCCCCCcccee-EEEEEe-CCcEEEEEEEECCCch
Confidence            355689999999999999999999999999889999999887 666776 8889999999999985

>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=99.61  E-value=1.7e-15  Score=102.98  Aligned_cols=64  Identities=42%  Similarity=0.808  Sum_probs=47.4

Q ss_pred             CceeeEEEEEcCCCCCchhhhhhhhhCcCCCCccCCceeEeEEEEEEecCCeEEEEEEEeCCCCC
Q psy10878         67 PEKLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQN  131 (131)
Q Consensus        67 ~~~~~ki~vvG~~~vGKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gqe  131 (131)
                      ....+||+++|++|||||||+++++++.+...+.++++.++....+.+ ++..+.++||||+|++
T Consensus        25 ~~~~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~-~~~~~~l~i~Dt~G~~   88 (199)
T 2p5s_A           25 SQKAYKIVLAGDAAVGKSSFLMRLCKNEFRENISATLGVDFQMKTLIV-DGERTVLQLWDTAGQE   88 (199)
T ss_dssp             ---CEEEEEESSTTSSHHHHHHHHHHCCCC----------CEEEEEEE-TTEEEEEEEEECTTCT
T ss_pred             cCCCeEEEEECcCCCCHHHHHHHHHhCCCCccCCCCccceeEEEEEEE-CCEEEEEEEEECCCCc
Confidence            456799999999999999999999999988888899998888888888 8888999999999985

>2il1_A RAB12; G-protein, GDP, GTPase, predicted, structural genomics, structural genomics consortium, SGC, protein transport; HET: GDP; 2.10A {Homo sapiens}

Probab=99.60  E-value=1.6e-15  Score=102.70  Aligned_cols=65  Identities=48%  Similarity=0.831  Sum_probs=51.9

Q ss_pred             CCceeeEEEEEcCCCCCchhhhhhhhhCcCCCCccCCceeEeEEEEEEecCCeEEEEEEEeCCCCC
Q psy10878         66 PPEKLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQN  131 (131)
Q Consensus        66 ~~~~~~ki~vvG~~~vGKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gqe  131 (131)
                      .....+||+++|.+|||||||+++|.++.+...+.++++.++....+.+ ++..+.++||||+|++
T Consensus        22 ~~~~~~ki~vvG~~~~GKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~-~~~~~~l~l~Dt~G~~   86 (192)
T 2il1_A           22 PADFKLQVIIIGSRGVGKTSLMERFTDDTFCEACKSTVGVDFKIKTVEL-RGKKIRLQIWDTAGQE   86 (192)
T ss_dssp             CCSEEEEEEEECSTTSSHHHHHHHHCC--------CCTTEEEEEEEEEE-TTEEEEEEEEEECCSG
T ss_pred             ccCCceEEEEECCCCCCHHHHHHHHhcCCCCcCCCCccceeEEEEEEEE-CCeEEEEEEEeCCCcH
Confidence            4567899999999999999999999998888888899999998888888 8888999999999985

>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=99.60  E-value=1.2e-15  Score=100.48  Aligned_cols=62  Identities=40%  Similarity=0.863  Sum_probs=49.7

Q ss_pred             eeeEEEEEcCCCCCchhhhhhhhhCcCCCCccCCceeEeEEEEEEecCCeEEEEEEEeCCCCC
Q psy10878         69 KLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQN  131 (131)
Q Consensus        69 ~~~ki~vvG~~~vGKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gqe  131 (131)
                      ..+||+++|++|+|||||++++.++.+...+.++++.++....+.+ ++..+.+.+|||+|++
T Consensus         2 ~~~~i~v~G~~~~GKssli~~l~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~l~D~~G~~   63 (170)
T 1g16_A            2 SIMKILLIGDSGVGKSCLLVRFVEDKFNPSFITTIGIDFKIKTVDI-NGKKVKLQIWDTAGQE   63 (170)
T ss_dssp             CEEEEEEEESTTSSHHHHHHHHHHCCCCC-------CCEEEEEEES-SSCEEEEEEECCTTGG
T ss_pred             CceEEEEECcCCCCHHHHHHHHHhCCCCCCCCCccceeEEEEEEEE-CCEEEEEEEEeCCCCh
Confidence            4689999999999999999999999998888899998888888887 7888999999999975

>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=99.60  E-value=2.8e-15  Score=99.79  Aligned_cols=65  Identities=29%  Similarity=0.563  Sum_probs=57.3

Q ss_pred             CCceeeEEEEEcCCCCCchhhhhhhhhCcCCCCccCCceeEeEEEEEEecCCeEEEEEEEeCCCCC
Q psy10878         66 PPEKLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQN  131 (131)
Q Consensus        66 ~~~~~~ki~vvG~~~vGKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gqe  131 (131)
                      .+...+||+++|.+|+|||||+++++++.+...+.++++.++....+.+ ++..+.++||||+|++
T Consensus         8 ~~~~~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~i~Dt~G~~   72 (181)
T 2efe_B            8 NKSINAKLVLLGDVGAGKSSLVLRFVKDQFVEFQESTIGAAFFSQTLAV-NDATVKFEIWDTAGQE   72 (181)
T ss_dssp             --CEEEEEEEECCTTSCHHHHHHHHHHCCCTTTSCCCSCCSEEEEEEEE-TTEEEEEEEEECCCSG
T ss_pred             CCccceEEEEECcCCCCHHHHHHHHHcCCCCCcCCCCceeEEEEEEEEE-CCEEEEEEEEeCCCCh
Confidence            3556799999999999999999999999998888899998888888887 7888999999999985

>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=99.60  E-value=2.6e-15  Score=102.25  Aligned_cols=66  Identities=27%  Similarity=0.490  Sum_probs=56.0

Q ss_pred             CCCCceeeEEEEEcCCCCCchhhhhhhhhCcCCCCccCCceeEeEEEEEEecCCeEEEEEEEeCCCCC
Q psy10878         64 NAPPEKLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQN  131 (131)
Q Consensus        64 ~~~~~~~~ki~vvG~~~vGKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gqe  131 (131)
                      .......+||+++|.+|||||||+++|.++.+...+.||++.++. ..+.+ ++..+.+.||||+|++
T Consensus        19 ~~m~~~~~ki~vvG~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~-~~~~~-~~~~~~l~i~Dt~G~~   84 (201)
T 2gco_A           19 SHMAAIRKKLVIVGDGACGKTCLLIVFSKDQFPEVYVPTVFENYI-ADIEV-DGKQVELALWDTAGQE   84 (201)
T ss_dssp             ---CCEEEEEEEEESTTSSHHHHHHHHHHSSCCSSCCCSSCCCCE-EEEEE-TTEEEEEEEECCCCSG
T ss_pred             CCCcccceEEEEECCCCCCHHHHHHHHHhCcCCcccCCcccceEE-EEEEE-CCEEEEEEEEECCCch
Confidence            445678899999999999999999999999998888899988875 44666 8888999999999985

>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=99.60  E-value=3.7e-15  Score=101.31  Aligned_cols=64  Identities=42%  Similarity=0.865  Sum_probs=57.7

Q ss_pred             CceeeEEEEEcCCCCCchhhhhhhhhCcCCCCccCCceeEeEEEEEEecCCeEEEEEEEeCCCCC
Q psy10878         67 PEKLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQN  131 (131)
Q Consensus        67 ~~~~~ki~vvG~~~vGKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gqe  131 (131)
                      ....+||+++|.+|||||||+++|+++.+...+.++++.++....+.+ ++..+.++||||+|++
T Consensus         5 ~~~~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~-~~~~~~~~l~Dt~G~~   68 (203)
T 1zbd_A            5 FDYMFKILIIGNSSVGKTSFLFRYADDSFTPAFVSTVGIDFKVKTIYR-NDKRIKLQIWDTAGLE   68 (203)
T ss_dssp             CSEEEEEEEECSTTSSHHHHHHHHHTCCCCSCCCCCCSEEEEEEEEEE-TTEEEEEEEEEECCSG
T ss_pred             cceeeEEEEECCCCCCHHHHHHHHhcCCCCCCcCCccceeEEEEEEEE-CCeEEEEEEEECCCch
Confidence            456789999999999999999999999998888899999888888877 8888999999999985

>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=99.60  E-value=2.3e-15  Score=101.81  Aligned_cols=64  Identities=38%  Similarity=0.638  Sum_probs=57.3

Q ss_pred             CceeeEEEEEcCCCCCchhhhhhhhhCcCCCCccCCceeEeEEEEEEecCCeEEEEEEEeCCCCC
Q psy10878         67 PEKLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQN  131 (131)
Q Consensus        67 ~~~~~ki~vvG~~~vGKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gqe  131 (131)
                      ....+||+++|++|||||||+++|+++.+...+.++++.++....+.+ ++..+.+.||||+|++
T Consensus        20 ~~~~~ki~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~i~Dt~G~~   83 (192)
T 2fg5_A           20 AIRELKVCLLGDTGVGKSSIVCRFVQDHFDHNISPTIGASFMTKTVPC-GNELHKFLIWDTAGQE   83 (192)
T ss_dssp             -CEEEEEEEEECTTSSHHHHHHHHHHCCCCTTCCCCSSEEEEEEEEEC-SSSEEEEEEEEECCSG
T ss_pred             cCCceEEEEECcCCCCHHHHHHHHhcCCCCCCcCCCcceeEEEEEEEe-CCEEEEEEEEcCCCch
Confidence            467899999999999999999999999988888899999988888877 7788999999999985

>3q3j_B RHO-related GTP-binding protein RHO6; RAS-binding domain, plexin, small GTPase, structural genomic consortium, SGC; HET: GNP; 1.97A {Homo sapiens} PDB: 2rex_B* 2cls_A*

Probab=99.60  E-value=1.8e-15  Score=104.31  Aligned_cols=64  Identities=27%  Similarity=0.544  Sum_probs=52.7

Q ss_pred             CCceeeEEEEEcCCCCCchhhhhhhhhCcCCCCccCCceeEeEEEEEEecCCeEEEEEEEeCCCCC
Q psy10878         66 PPEKLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQN  131 (131)
Q Consensus        66 ~~~~~~ki~vvG~~~vGKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gqe  131 (131)
                      .....+||+++|++|||||||+++|+++.+...+.||++.++ ...+.+ ++..+.++||||+|||
T Consensus        23 ~~~~~~ki~vvG~~~vGKSsL~~~l~~~~~~~~~~~t~~~~~-~~~~~~-~~~~~~l~i~Dt~G~~   86 (214)
T 3q3j_B           23 PVVARCKLVLVGDVQCGKTAMLQVLAKDCYPETYVPTVFENY-TACLET-EEQRVELSLWDTSGSP   86 (214)
T ss_dssp             ----CEEEEEECSTTSSHHHHHHHHHHSCCCSSCCCCSEEEE-EEEEEC---CEEEEEEEEECCSG
T ss_pred             CccceEEEEEECcCCCCHHHHHHHHhcCCCCCCcCCeeeeeE-EEEEEE-CCEEEEEEEEECCCCH
Confidence            345679999999999999999999999999989999999887 456666 7888999999999985

>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=99.60  E-value=2.2e-15  Score=101.17  Aligned_cols=63  Identities=30%  Similarity=0.602  Sum_probs=54.3

Q ss_pred             CceeeEEEEEcCCCCCchhhhhhhhhCcCCCCccCCceeEeEEEEEEecCCeEEEEEEEeCCCCC
Q psy10878         67 PEKLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQN  131 (131)
Q Consensus        67 ~~~~~ki~vvG~~~vGKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gqe  131 (131)
                      +...+||+++|++|||||||+++|.++.+...+.||++..+ ...+.+ ++..+.++||||+||+
T Consensus         4 ~~~~~ki~v~G~~~vGKSsli~~l~~~~~~~~~~~t~~~~~-~~~~~~-~~~~~~~~i~Dt~G~~   66 (184)
T 1m7b_A            4 QNVKCKIVVVGDSQCGKTALLHVFAKDCFPENYVPTVFENY-TASFEI-DTQRIELSLWDTSGSP   66 (184)
T ss_dssp             --CEEEEEEEESTTSSHHHHHHHHHHSCCCSSCCCCSEEEE-EEEEEC-SSCEEEEEEEEECCSG
T ss_pred             CceEEEEEEECCCCCCHHHHHHHHhcCCCCCCCCCccceeE-EEEEEE-CCEEEEEEEEECCCCh
Confidence            45678999999999999999999999999888899998877 456666 7888999999999985

>1vg8_A RAS-related protein RAB-7; GTP-binding protein, protein transport; HET: GNP; 1.70A {Rattus norvegicus} SCOP: c.37.1.8 PDB: 1vg0_B* 3law_A* 1t91_A* 1yhn_A* 1vg1_A* 1vg9_B*

Probab=99.60  E-value=2.3e-15  Score=102.40  Aligned_cols=64  Identities=45%  Similarity=0.821  Sum_probs=56.9

Q ss_pred             CceeeEEEEEcCCCCCchhhhhhhhhCcCCCCccCCceeEeEEEEEEecCCeEEEEEEEeCCCCC
Q psy10878         67 PEKLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQN  131 (131)
Q Consensus        67 ~~~~~ki~vvG~~~vGKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gqe  131 (131)
                      ....+||+++|.+|||||||+++++++.+...+.+|++.++....+.+ ++..+.+.||||+|++
T Consensus         5 ~~~~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~-~~~~~~~~l~Dt~G~~   68 (207)
T 1vg8_A            5 KKVLLKVIILGDSGVGKTSLMNQYVNKKFSNQYKATIGADFLTKEVMV-DDRLVTMQIWDTAGQE   68 (207)
T ss_dssp             --CEEEEEEECCTTSSHHHHHHHHHHSCCCSSCCCCCSEEEEEEEEES-SSCEEEEEEEEECSSG
T ss_pred             cCcceEEEEECcCCCCHHHHHHHHHcCCCCCCCCCcccceEEEEEEEE-CCEEEEEEEEeCCCcH
Confidence            446789999999999999999999999998888999999988888887 7888999999999985

>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=99.60  E-value=5.6e-15  Score=98.25  Aligned_cols=64  Identities=42%  Similarity=0.757  Sum_probs=55.9

Q ss_pred             CceeeEEEEEcCCCCCchhhhhhhhhCcCC-CCccCCceeEeEEEEEEecCCeEEEEEEEeCCCCC
Q psy10878         67 PEKLFKVIVIGDPTVGKTSFVQRYVQNTFK-KDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQN  131 (131)
Q Consensus        67 ~~~~~ki~vvG~~~vGKSsli~~~~~~~~~-~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gqe  131 (131)
                      ....+||+++|.+|||||||+++|.++.+. ..+.+|++.++....+.+ ++..+.+++|||+|++
T Consensus         7 ~~~~~~i~v~G~~~~GKssli~~l~~~~~~~~~~~~t~~~~~~~~~~~~-~~~~~~~~~~Dt~G~~   71 (180)
T 2g6b_A            7 YDVAFKVMLVGDSGVGKTCLLVRFKDGAFLAGTFISTVGIDFRNKVLDV-DGVKVKLQMWDTAGQE   71 (180)
T ss_dssp             CSEEEEEEEECSTTSSHHHHHHHHHHSCCCCCCCCCCCSCEEEEEEEEE-TTEEEEEEEEECCCC-
T ss_pred             CCcceEEEEECcCCCCHHHHHHHHHhCCCCCCCcCCceeeEEEEEEEEE-CCEEEEEEEEeCCCcH
Confidence            456899999999999999999999998884 467899999988777777 8888999999999985

>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=99.60  E-value=3.8e-15  Score=100.64  Aligned_cols=63  Identities=33%  Similarity=0.649  Sum_probs=55.5

Q ss_pred             CceeeEEEEEcCCCCCchhhhhhhhhCcCCCCccCCceeEeEEEEEEecCCeEEEEEEEeCCCCC
Q psy10878         67 PEKLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQN  131 (131)
Q Consensus        67 ~~~~~ki~vvG~~~vGKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gqe  131 (131)
                      ....+||+++|++|||||||+++|.++.+...+.+|++..+. ..+.+ ++..+.++||||+|||
T Consensus        20 ~~~~~ki~~vG~~~~GKSsl~~~l~~~~~~~~~~~t~~~~~~-~~~~~-~~~~~~~~i~Dt~G~~   82 (194)
T 3reg_A           20 GKKALKIVVVGDGAVGKTCLLLAFSKGEIPTAYVPTVFENFS-HVMKY-KNEEFILHLWDTAGQE   82 (194)
T ss_dssp             -CEEEEEEEECSTTSSHHHHHHHHHHSCCCSSCCCCSEEEEE-EEEEE-TTEEEEEEEEEECCSG
T ss_pred             cceeeEEEEECcCCCCHHHHHHHHhcCCCCCccCCeeeeeeE-EEEEE-CCEEEEEEEEECCCcH
Confidence            457899999999999999999999999998889999998875 45666 8889999999999985

>2q3h_A RAS homolog gene family, member U; GTPase, structural genomics, structural genomics consortium,; HET: GDP; 1.73A {Homo sapiens}

Probab=99.59  E-value=2.9e-15  Score=101.68  Aligned_cols=64  Identities=36%  Similarity=0.551  Sum_probs=46.5

Q ss_pred             CCceeeEEEEEcCCCCCchhhhhhhhhCcCCCCccCCceeEeEEEEEEecCCeEEEEEEEeCCCCC
Q psy10878         66 PPEKLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQN  131 (131)
Q Consensus        66 ~~~~~~ki~vvG~~~vGKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gqe  131 (131)
                      .....+||+++|++|||||||+++|+++.+...+.+|++..+ ...+.+ ++..+.+++|||+|++
T Consensus        16 ~~~~~~ki~~~G~~~~GKssl~~~l~~~~~~~~~~~t~~~~~-~~~~~~-~~~~~~~~i~Dt~G~~   79 (201)
T 2q3h_A           16 AEGRGVKCVLVGDGAVGKTSLVVSYTTNGYPTEYIPTAFDNF-SAVVSV-DGRPVRLQLCDTAGQD   79 (201)
T ss_dssp             ----CEEEEEECSTTSSHHHHHHHHHC--------CCSSEEE-EEEEEE-TTEEEEEEEEECCCST
T ss_pred             CCCcceEEEEECCCCCCHHHHHHHHHhCCCCCCCCCccccee-EEEEEE-CCEEEEEEEEECCCCH
Confidence            456789999999999999999999998888888889998766 456666 8888999999999985

>3cpj_B GTP-binding protein YPT31/YPT8; RAB GTPase, prenylation, vesicular transport, acetylation, golgi apparatus, lipoprotein, membrane; HET: GDP; 2.35A {Saccharomyces cerevisiae}

Probab=99.59  E-value=3.5e-15  Score=103.21  Aligned_cols=64  Identities=42%  Similarity=0.831  Sum_probs=52.8

Q ss_pred             CceeeEEEEEcCCCCCchhhhhhhhhCcCCCCccCCceeEeEEEEEEecCCeEEEEEEEeCCCCC
Q psy10878         67 PEKLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQN  131 (131)
Q Consensus        67 ~~~~~ki~vvG~~~vGKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gqe  131 (131)
                      ....+||+++|++|||||||+++|.++.+...+.+|++.++....+.+ ++..+.++||||+|++
T Consensus        10 ~~~~~ki~v~G~~~vGKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~-~~~~~~~~i~Dt~G~~   73 (223)
T 3cpj_B           10 YDLLFKIVLIGDSGVGKSNLLSRFTKNEFNMDSKSTIGVEFATRTLEI-EGKRIKAQIWDTAGQE   73 (223)
T ss_dssp             CCEEEEEEEESCTTSSHHHHHHHHHHCCCCC------CCSEEEEEEEE-TTEEEEEEEECCTTTT
T ss_pred             CCeeeEEEEECcCCCCHHHHHHHHhcCCCCCCCCCcccceeEEEEEEE-CCEEEEEEEEECCCcc
Confidence            456799999999999999999999999998888899999888888888 8888999999999985

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

Probab=99.58  E-value=3.6e-15  Score=100.53  Aligned_cols=63  Identities=33%  Similarity=0.715  Sum_probs=54.8

Q ss_pred             ceeeEEEEEcCCCCCchhhhhhhhhCcCCCCccCCceeEeEEEEEEecCCeE----------------------------
Q psy10878         68 EKLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQK----------------------------  119 (131)
Q Consensus        68 ~~~~ki~vvG~~~vGKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~----------------------------  119 (131)
                      ...+||+++|.+|||||||+++|++..+...+.+|++.++....+.+ ++..                            
T Consensus         5 ~~~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   83 (208)
T 3clv_A            5 KSSYKTVLLGESSVGKSSIVLRLTKDTFHENTNTTIGASFCTYVVNL-NDINIKNNSNNEKNNNINSINDDNNVIITNQH   83 (208)
T ss_dssp             CSSEEEEEECCTTSSHHHHHHHHHHSCCCSSCCCCCSCEEEEEEEET-TC------------------------------
T ss_pred             CcceEEEEECCCCCCHHHHHHHHHhCcCCCCcCccccceeEEEEEEe-cCcccccccccccccccccccccccccccccc
Confidence            45789999999999999999999999998889999999988888877 6655                            


Q ss_pred             ---------EEEEEEeCCCCC
Q psy10878        120 ---------IKLQLWDIAGQN  131 (131)
Q Consensus       120 ---------~~l~i~Dt~Gqe  131 (131)
                               +.+.||||||++
T Consensus        84 ~~~~~~~~~~~~~i~Dt~G~~  104 (208)
T 3clv_A           84 NNYNENLCNIKFDIWDTAGQE  104 (208)
T ss_dssp             -CCCTTTCEEEEEEEECTTGG
T ss_pred             ccccCccceeEEEEEECCCcH
Confidence                     889999999974

>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=99.58  E-value=2.1e-15  Score=104.07  Aligned_cols=65  Identities=37%  Similarity=0.717  Sum_probs=58.2

Q ss_pred             CCceeeEEEEEcCCCCCchhhhhhhhhCcCCCCccCCceeEeEEEEEEecCCeEEEEEEEeCCCCC
Q psy10878         66 PPEKLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQN  131 (131)
Q Consensus        66 ~~~~~~ki~vvG~~~vGKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gqe  131 (131)
                      .....+||+++|.+|||||||+++|+.+.+...+.++++.++....+.+ ++..+.++||||+|++
T Consensus        11 ~~~~~~ki~v~G~~~~GKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~-~~~~~~~~i~Dt~G~~   75 (221)
T 3gj0_A           11 EPQVQFKLVLVGDGGTGKTTFVKRHLTGEFEKKYVATLGVEVHPLVFHT-NRGPIKFNVWDTAGQE   75 (221)
T ss_dssp             CCCCEEEEEEEECTTSSHHHHHTTBHHHHHTCEEETTTTEEEEEEEEEE-TTEEEEEEEEEECSGG
T ss_pred             CcccceEEEEECCCCCCHHHHHHHHHcCCCCCCCCCccceeEEEEEEEE-CCEEEEEEEEeCCChH
Confidence            4567899999999999999999999988888888899998888888877 8888999999999975

>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=99.58  E-value=2.2e-15  Score=102.51  Aligned_cols=64  Identities=20%  Similarity=0.314  Sum_probs=52.0

Q ss_pred             CceeeEEEEEcCCCCCchhhhhhhhhCcCCCCccCCceeEeEEEEEEecCCeEEEEEEEeCCCCC
Q psy10878         67 PEKLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQN  131 (131)
Q Consensus        67 ~~~~~ki~vvG~~~vGKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gqe  131 (131)
                      ....+||+++|++|||||||+++|.+..+...+.++++.++....+.+ ++..+.+.+|||+||+
T Consensus        20 ~~~~~ki~vvG~~~vGKSsLi~~l~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~l~i~Dt~g~~   83 (195)
T 3cbq_A           20 KDGIFKVMLVGESGVGKSTLAGTFGGLQGDSAHEPENPEDTYERRIMV-DKEEVTLVVYDIWEQG   83 (195)
T ss_dssp             --CEEEEEEECSTTSSHHHHHHHTCCEECCGGGTTTSCTTEEEEEEEE-TTEEEEEEEECCCCCS
T ss_pred             CCcEEEEEEECCCCCCHHHHHHHHHhccCCccCCCCcccceEEEEEEE-CCEEEEEEEEecCCCc
Confidence            456799999999999999999999865554445567777777777777 8889999999999985

>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=99.58  E-value=5.9e-15  Score=96.81  Aligned_cols=60  Identities=32%  Similarity=0.553  Sum_probs=53.0

Q ss_pred             eeEEEEEcCCCCCchhhhhhhhhCcCCCCccCCceeEeEEEEEEecCCeEEEEEEEeCCCCC
Q psy10878         70 LFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQN  131 (131)
Q Consensus        70 ~~ki~vvG~~~vGKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gqe  131 (131)
                      .+||+++|.+|||||||++++.++.+...+.+|++..+. ..+.+ ++..+.+++|||+|++
T Consensus         3 ~~ki~v~G~~~~GKssli~~l~~~~~~~~~~~t~~~~~~-~~~~~-~~~~~~~~l~D~~G~~   62 (167)
T 1c1y_A            3 EYKLVVLGSGGVGKSALTVQFVQGIFVEKYDPTIEDSYR-KQVEV-DCQQCMLEILDTAGTE   62 (167)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHCCCCCSCCCCSEEEEE-EEEES-SSCEEEEEEEEECSSC
T ss_pred             eeEEEEECCCCCCHHHHHHHHHcCCCCCCCCCCccceEE-EEEEE-CCEEEEEEEEECCChH
Confidence            589999999999999999999999998888899987764 55666 7788999999999985

>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=99.58  E-value=9.8e-15  Score=95.50  Aligned_cols=60  Identities=30%  Similarity=0.503  Sum_probs=52.9

Q ss_pred             eeEEEEEcCCCCCchhhhhhhhhCcCCCCccCCceeEeEEEEEEecCCeEEEEEEEeCCCCC
Q psy10878         70 LFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQN  131 (131)
Q Consensus        70 ~~ki~vvG~~~vGKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gqe  131 (131)
                      .+||+++|++|||||||++++.++.+...+.++++..+ ...+.+ ++..+.+++|||+|++
T Consensus         3 ~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~-~~~~~~-~~~~~~~~l~D~~G~~   62 (167)
T 1kao_A            3 EYKVVVLGSGGVGKSALTVQFVTGTFIEKYDPTIEDFY-RKEIEV-DSSPSVLEILDTAGTE   62 (167)
T ss_dssp             EEEEEEECCTTSSHHHHHHHHHHSCCCSCCCTTCCEEE-EEEEEE-TTEEEEEEEEECCCTT
T ss_pred             EEEEEEECCCCCCHHHHHHHHHcCCCcccCCCCcceeE-EEEEEE-CCEEEEEEEEECCCch
Confidence            58999999999999999999999999888888888655 566777 8888999999999985

>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=99.58  E-value=7.8e-15  Score=97.90  Aligned_cols=61  Identities=38%  Similarity=0.611  Sum_probs=53.8

Q ss_pred             eeeEEEEEcCCCCCchhhhhhhhhCcCCCCccCCceeEeEEEEEEecCCeEEEEEEEeCCCCC
Q psy10878         69 KLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQN  131 (131)
Q Consensus        69 ~~~ki~vvG~~~vGKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gqe  131 (131)
                      ..+||+++|.+|||||||+++|.++.+...+.+|++..+ ...+.+ ++..+.+++|||+|++
T Consensus         4 ~~~~i~~~G~~~~GKssl~~~l~~~~~~~~~~~t~~~~~-~~~~~~-~~~~~~~~i~Dt~G~~   64 (186)
T 1mh1_A            4 QAIKCVVVGDGAVGKTCLLISYTTNAFPGEYIPTVFDNY-SANVMV-DGKPVNLGLWDTAGQE   64 (186)
T ss_dssp             EEEEEEEECSTTSSHHHHHHHHHHSSCCSSCCCCSCCEE-EEEEEE-TTEEEEEEEECCCCSG
T ss_pred             cEEEEEEECCCCCCHHHHHHHHHcCCCCCCcCCccccee-EEEEEE-CCEEEEEEEEECCCCH
Confidence            578999999999999999999999999888889988766 455666 8889999999999985

>3l0i_B RAS-related protein RAB-1A; GEF-GDF-RAB complex, GTP-binding, guanine-nucleotide exchang GDI-displacement factor; 2.85A {Homo sapiens}

Probab=99.58  E-value=2.2e-15  Score=102.41  Aligned_cols=64  Identities=42%  Similarity=0.867  Sum_probs=58.2

Q ss_pred             CceeeEEEEEcCCCCCchhhhhhhhhCcCCCCccCCceeEeEEEEEEecCCeEEEEEEEeCCCCC
Q psy10878         67 PEKLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQN  131 (131)
Q Consensus        67 ~~~~~ki~vvG~~~vGKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gqe  131 (131)
                      ....+||+++|.+|||||||+++|+++.+...+.++++.++....+.+ ++..+.+.||||+|++
T Consensus        30 ~~~~~ki~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~i~Dt~G~~   93 (199)
T 3l0i_B           30 YDYLFKLLLIGDSGVGKSCLLLRFADDTYTESYISTIGVDFKIRTIEL-DGKTIKLQIWDTAGQE   93 (199)
T ss_dssp             CSEEEEEEEECCTTSCCTTTTTSSBCCCCCCHHHHHHCCSEEEEEEEE-TTEEEEEEEECCTTCT
T ss_pred             cCcceEEEEECCCCCCHHHHHHHHhcCCCCCCcCCcccceEEEEEEEE-CCEEEEEEEEECCCcH
Confidence            467899999999999999999999999988888899998888888888 8888999999999985

>2j0v_A RAC-like GTP-binding protein ARAC7; nucleotide-binding protein, ROP9, atrac7, membrane, palmitate, RHO GTPase; HET: GDP; 1.78A {Arabidopsis thaliana}

Probab=99.58  E-value=5.2e-15  Score=101.26  Aligned_cols=62  Identities=42%  Similarity=0.627  Sum_probs=54.6

Q ss_pred             ceeeEEEEEcCCCCCchhhhhhhhhCcCCCCccCCceeEeEEEEEEecCCeEEEEEEEeCCCCC
Q psy10878         68 EKLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQN  131 (131)
Q Consensus        68 ~~~~ki~vvG~~~vGKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gqe  131 (131)
                      ...+||+++|++|||||||+++|.++.+...+.||++..+ ...+.+ ++..+.++||||+|||
T Consensus         7 ~~~~ki~i~G~~~~GKTsli~~l~~~~~~~~~~~t~~~~~-~~~~~~-~~~~~~~~i~Dt~G~~   68 (212)
T 2j0v_A            7 SKFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNF-SANVAV-DGQIVNLGLWDTAGQE   68 (212)
T ss_dssp             CCEEEEEEEESTTSSHHHHHHHHHHSCCCSSCCCSSCCCE-EEEEEC-SSCEEEEEEECCCCCC
T ss_pred             CceEEEEEECCCCCCHHHHHHHHhcCCCCccCCCccceeE-EEEEEE-CCEEEEEEEEECCCcH
Confidence            3578999999999999999999999999888889998776 456666 7888999999999986

>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=99.58  E-value=6.6e-15  Score=100.09  Aligned_cols=63  Identities=44%  Similarity=0.843  Sum_probs=54.6

Q ss_pred             ceeeEEEEEcCCCCCchhhhhhhhhCcCCCCccCCceeEeEEEEEEecCCeEEEEEEEeCCCCC
Q psy10878         68 EKLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQN  131 (131)
Q Consensus        68 ~~~~ki~vvG~~~vGKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gqe  131 (131)
                      ...+|++++|++|||||||++++++..+...+.||++.++....+.+ +|..+.+++|||+|++
T Consensus         3 ~~~~kv~lvG~~g~GKSTLl~~l~~~~~~~~~~~t~~~~~~~~~i~~-~g~~~~~~i~Dt~g~~   65 (199)
T 2f9l_A            3 DYLFKVVLIGDSGVGKSNLLSRFTRNEFNLESKSTIGVEFATRSIQV-DGKTIKAQIWDTAGQE   65 (199)
T ss_dssp             SEEEEEEEESSTTSSHHHHHHHHHHSCCCC---CCCSCEEEEEEEEE-TTEEEEEEEEECSSGG
T ss_pred             cceEEEEEECcCCCCHHHHHHHHhcCCCCCCCCCccceeEEEEEEEE-CCEEEEEEEEECCCch
Confidence            45789999999999999999999999998888899998888888888 8989999999999975

>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=99.58  E-value=2.1e-15  Score=102.75  Aligned_cols=64  Identities=39%  Similarity=0.806  Sum_probs=47.0

Q ss_pred             CceeeEEEEEcCCCCCchhhhhhhhhCcCCCCccCCceeEeEEEEEEecCCeEEEEEEEeCCCCC
Q psy10878         67 PEKLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQN  131 (131)
Q Consensus        67 ~~~~~ki~vvG~~~vGKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gqe  131 (131)
                      ....+||+++|++|||||||+++|+++.+...+.+|++.++....+.+ ++..+.++||||+|++
T Consensus        22 ~~~~~ki~v~G~~~~GKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~-~~~~~~l~l~Dt~G~~   85 (200)
T 2o52_A           22 SDFLFKFLVIGSAGTGKSCLLHQFIENKFKQDSNHTIGVEFGSRVVNV-GGKTVKLQIWDTAGQE   85 (200)
T ss_dssp             CCEEEEEEEEESTTSSHHHHHHHHHC------------CCEEEEEEEE-TTEEEEEEEECCTTHH
T ss_pred             cCcceEEEEECcCCCCHHHHHHHHHhCCCCccCCCcccceeEEEEEEE-CCeeeEEEEEcCCCcH
Confidence            467899999999999999999999999888888899998888888887 8888999999999974

>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=99.58  E-value=7.8e-15  Score=98.33  Aligned_cols=64  Identities=39%  Similarity=0.705  Sum_probs=55.8

Q ss_pred             CceeeEEEEEcCCCCCchhhhhhhhhCcCCCCccCCceeEeE-EEEEEecCCe---------EEEEEEEeCCCCC
Q psy10878         67 PEKLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFA-LKIVKWRDQQ---------KIKLQLWDIAGQN  131 (131)
Q Consensus        67 ~~~~~ki~vvG~~~vGKSsli~~~~~~~~~~~~~~t~~~~~~-~~~~~~~~~~---------~~~l~i~Dt~Gqe  131 (131)
                      ....+||+++|.+|||||||+++|.++.+...+.+|++.++. .+.+.+ ++.         .+.+++|||+|++
T Consensus         8 ~~~~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~l~Dt~G~~   81 (195)
T 3bc1_A            8 YDYLIKFLALGDSGVGKTSVLYQYTDGKFNSKFITTVGIDFREKRVVYR-ANGPDGAVGRGQRIHLQLWDTAGLE   81 (195)
T ss_dssp             CSEEEEEEEECSTTSSHHHHHHHHHHSCCCCSCCCCCSEEEEEEEEEEC-TTSCCCSSCCCEEEEEEEEEECCSG
T ss_pred             cceeEEEEEECCCCCCHHHHHHHHhcCCCCcCcccccceeeeeEEEEEe-cCCcccccccCcEEEEEEEeCCCcH
Confidence            456899999999999999999999999998888899998887 566666 655         7899999999985

>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=99.57  E-value=2.5e-15  Score=99.90  Aligned_cols=65  Identities=42%  Similarity=0.794  Sum_probs=50.5

Q ss_pred             CceeeEEEEEcCCCCCchhhhhhhhhCcCCCCccCCceeEeEEEEEEecCCeEEEEEEEeCCCCC
Q psy10878         67 PEKLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQN  131 (131)
Q Consensus        67 ~~~~~ki~vvG~~~vGKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gqe  131 (131)
                      ....+||+++|.+|+|||||+++++++.+...+.++++.++....+.+.++..+.+.+|||+|++
T Consensus         5 ~~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~   69 (182)
T 1ky3_A            5 KKNILKVIILGDSGVGKTSLMHRYVNDKYSQQYKATIGADFLTKEVTVDGDKVATMQVWDTAGQE   69 (182)
T ss_dssp             --CEEEEEEECCTTSSHHHHHHHHHHSCCCTTC---CCCSCEEEEECCSSSCCEEEEEECCC---
T ss_pred             cCceEEEEEECCCCCCHHHHHHHHHhCcCCcccCCccceEEEEEEEEEcCCcEEEEEEEECCCCh
Confidence            44578999999999999999999999999888889999888888887733667899999999975

>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=99.57  E-value=5.1e-15  Score=101.06  Aligned_cols=64  Identities=41%  Similarity=0.840  Sum_probs=56.1

Q ss_pred             CceeeEEEEEcCCCCCchhhhhhhhhCcCCCCccCCceeEeEEEEEEecCCeEEEEEEEeCCCCC
Q psy10878         67 PEKLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQN  131 (131)
Q Consensus        67 ~~~~~ki~vvG~~~vGKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gqe  131 (131)
                      ....+||+++|++|||||||+++|++..+...+.++++.++....+.+ ++..+.+.||||+|++
T Consensus        17 ~~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~l~Dt~G~~   80 (213)
T 3cph_A           17 YDSIMKILLIGDSGVGKSCLLVRFVEDKFNPSFITTIGIDFKIKTVDI-NGKKVKLQLWDTAGQE   80 (213)
T ss_dssp             ---CEEEEEECSTTSSHHHHHHHHHHCCCCCSSSCCCSCCEEEEEEEE-TTEEEEEEEECCTTGG
T ss_pred             CCcceEEEEECCCCCCHHHHHHHHHhCCCCcccCCcccceEEEEEEEE-CCEEEEEEEEeCCCcH
Confidence            445789999999999999999999999988888899998888888887 8888999999999974

>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=99.57  E-value=5.7e-15  Score=101.62  Aligned_cols=63  Identities=29%  Similarity=0.551  Sum_probs=44.8

Q ss_pred             CceeeEEEEEcCCCCCchhhhhhhhhCcCCCCccCCceeEeEEEEEEecCCeEEEEEEEeCCCCC
Q psy10878         67 PEKLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQN  131 (131)
Q Consensus        67 ~~~~~ki~vvG~~~vGKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gqe  131 (131)
                      ....+||+++|++|||||||+++|+++.+...+.+|++..+ ...+.+ ++..+.++||||+||+
T Consensus        31 ~~~~~ki~vvG~~~vGKSsli~~l~~~~~~~~~~~t~~~~~-~~~~~~-~~~~~~l~l~Dt~G~~   93 (214)
T 2j1l_A           31 GVRSVKVVLVGDGGCGKTSLLMVFADGAFPESYTPTVFERY-MVNLQV-KGKPVHLHIWDTAGQD   93 (214)
T ss_dssp             -CCEEEEEEEECTTSSHHHHHHHHHC-------CCCCCEEE-EEEEEE-TTEEEEEEEEEC----
T ss_pred             CcceEEEEEECcCCCCHHHHHHHHHcCCCCCCCCCccceeE-EEEEEE-CCEEEEEEEEECCCch
Confidence            34579999999999999999999999888888889988766 456666 8888999999999985

>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=99.57  E-value=1.2e-14  Score=98.40  Aligned_cols=62  Identities=24%  Similarity=0.475  Sum_probs=54.1

Q ss_pred             ceeeEEEEEcCCCCCchhhhhhhhhCcCCCCccCCceeEeEEEEEEecCCeEEEEEEEeCCCCC
Q psy10878         68 EKLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQN  131 (131)
Q Consensus        68 ~~~~ki~vvG~~~vGKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gqe  131 (131)
                      ...+||+++|++|||||||+++|+++.+...+.+|++..+ ...+.+ ++..+.+++|||+|++
T Consensus        26 ~~~~ki~v~G~~~vGKSsli~~l~~~~~~~~~~~t~~~~~-~~~~~~-~~~~~~~~l~Dt~G~~   87 (196)
T 2atv_A           26 SAEVKLAIFGRAGVGKSALVVRFLTKRFIWEYDPTLESTY-RHQATI-DDEVVSMEILDTAGQE   87 (196)
T ss_dssp             -CCEEEEEECCTTSSHHHHHHHHHHSCCCSCCCTTCCEEE-EEEEEE-TTEEEEEEEEECCCCC
T ss_pred             CCceEEEEECCCCCCHHHHHHHHHhCCCCcccCCCCCceE-EEEEEE-CCEEEEEEEEECCCCC
Confidence            3568999999999999999999999999888889998776 455666 8888999999999986

>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=99.57  E-value=1.5e-14  Score=98.01  Aligned_cols=64  Identities=42%  Similarity=0.792  Sum_probs=58.4

Q ss_pred             CceeeEEEEEcCCCCCchhhhhhhhhCcCCCCccCCceeEeEEEEEEecCCeEEEEEEEeCCCCC
Q psy10878         67 PEKLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQN  131 (131)
Q Consensus        67 ~~~~~ki~vvG~~~vGKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gqe  131 (131)
                      ....++++++|++|||||||++++++..+...+.||++.++....+.+ +|..+.+++|||+|++
T Consensus        26 ~~~~~kv~lvG~~g~GKSTLl~~l~~~~~~~~~~~t~~~~~~~~~i~~-~g~~~~~~i~Dt~g~~   89 (191)
T 1oix_A           26 YDYLFKVVLIGDSGVGKSNLLSRFTRNEFNLESKSTIGVEFATRSIQV-DGKTIKAQIWDTAGLE   89 (191)
T ss_dssp             CSEEEEEEEEECTTSSHHHHHHHHHHSCCCCSCCCCCSEEEEEEEEEE-TTEEEEEEEEEECSCC
T ss_pred             cCcceEEEEECcCCCCHHHHHHHHhcCCCCCCCCCccceEEEEEEEEE-CCEEEEEEEEECCCCc
Confidence            456799999999999999999999999998888999999998888888 8888999999999975

>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=99.56  E-value=8.5e-15  Score=98.84  Aligned_cols=63  Identities=32%  Similarity=0.506  Sum_probs=55.4

Q ss_pred             CceeeEEEEEcCCCCCchhhhhhhhhCcCCCCccCCceeEeEEEEEEecCCeEEEEEEEeCCCCC
Q psy10878         67 PEKLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQN  131 (131)
Q Consensus        67 ~~~~~ki~vvG~~~vGKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gqe  131 (131)
                      +...+||+++|++|||||||+++|.++.+...+.+|++..+ ...+.+ ++..+.++||||+|++
T Consensus        15 ~~~~~ki~v~G~~~~GKssli~~l~~~~~~~~~~~t~~~~~-~~~~~~-~~~~~~~~i~D~~G~~   77 (194)
T 2atx_A           15 GALMLKCVVVGDGAVGKTCLLMSYANDAFPEEYVPTVFDHY-AVSVTV-GGKQYLLGLYDTAGQE   77 (194)
T ss_dssp             EEEEEEEEEEECTTSSHHHHHHHHHHSSCCCSCCCSSCCCE-EEEEES-SSCEEEEEEECCCCSS
T ss_pred             CCceEEEEEECCCCCCHHHHHHHHhcCCCCCCCCCccccee-EEEEEE-CCEEEEEEEEECCCCc
Confidence            45779999999999999999999999999888899998776 456666 7888999999999985

>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=99.56  E-value=1.7e-14  Score=96.52  Aligned_cols=61  Identities=31%  Similarity=0.525  Sum_probs=52.4

Q ss_pred             eeeEEEEEcCCCCCchhhhhhhhhCcCCCCccCCceeEeEEEEEEecCCeEEEEEEEeCCCCC
Q psy10878         69 KLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQN  131 (131)
Q Consensus        69 ~~~ki~vvG~~~vGKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gqe  131 (131)
                      ..+||+++|.+|||||||++++.++.+...+.+|++..+ ...+.+ ++..+.+++|||+|++
T Consensus         3 ~~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~-~~~~~~-~~~~~~~~i~Dt~G~~   63 (189)
T 4dsu_A            3 TEYKLVVVGADGVGKSALTIQLIQNHFVDEYDPTIEDSY-RKQVVI-DGETCLLDILDTAGQE   63 (189)
T ss_dssp             EEEEEEEECCTTSSHHHHHHHHHHSSCCCCCCTTCCEEE-EEEEEE-TTEEEEEEEEECCCC-
T ss_pred             cEEEEEEECCCCCCHHHHHHHHHhCCCCCCCCCCchheE-EEEEEE-CCcEEEEEEEECCCcH
Confidence            578999999999999999999999998888888886554 466666 8889999999999985

>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=99.56  E-value=2.7e-15  Score=103.01  Aligned_cols=65  Identities=46%  Similarity=0.810  Sum_probs=56.4

Q ss_pred             CCceeeEEEEEcCCCCCchhhhhhhhhCcCCCCccCCceeEeEEEEEEecCCe----------EEEEEEEeCCCCC
Q psy10878         66 PPEKLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQ----------KIKLQLWDIAGQN  131 (131)
Q Consensus        66 ~~~~~~ki~vvG~~~vGKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~----------~~~l~i~Dt~Gqe  131 (131)
                      ..+..+||+++|++|||||||+++|+++.+...+.+|++.++..+.+.+ ++.          .+.++||||+|++
T Consensus        21 ~~~~~~ki~vvG~~~~GKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~-~~~~~~~~~~~~~~~~l~l~Dt~G~~   95 (217)
T 2f7s_A           21 DYDYLIKLLALGDSGVGKTTFLYRYTDNKFNPKFITTVGIDFREKRVVY-NAQGPNGSSGKAFKVHLQLWDTAGQE   95 (217)
T ss_dssp             CCSEEEEEEEESCTTSSHHHHHHHHHCSCCCCEEEEEEEEEEEEEEEEE-EC-------CCEEEEEEEEEEEESHH
T ss_pred             CcceeEEEEEECcCCCCHHHHHHHHhcCCCCcCCCCceeEEEEEEEEEE-CCccccccccCceeEEEEEEECCCcH
Confidence            3567899999999999999999999999898888899999888777777 555          7899999999974

>3oes_A GTPase rhebl1; small GTPase, structural genomics, structural genomics conso SGC, hydrolase; HET: GNP; 2.30A {Homo sapiens}

Probab=99.56  E-value=5.6e-15  Score=100.51  Aligned_cols=63  Identities=35%  Similarity=0.569  Sum_probs=51.4

Q ss_pred             CceeeEEEEEcCCCCCchhhhhhhhhCcCCCCccCCceeEeEEEEEEecCCeEEEEEEEeCCCCC
Q psy10878         67 PEKLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQN  131 (131)
Q Consensus        67 ~~~~~ki~vvG~~~vGKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gqe  131 (131)
                      ....+||+++|.+|||||||+++|.++.+...+.+|++..+ ...+.+ ++..+.++||||+|++
T Consensus        21 ~~~~~ki~vvG~~~~GKSsli~~l~~~~~~~~~~~t~~~~~-~~~~~~-~~~~~~~~l~Dt~G~~   83 (201)
T 3oes_A           21 LVRYRKVVILGYRCVGKTSLAHQFVEGEFSEGYDPTVENTY-SKIVTL-GKDEFHLHLVDTAGQD   83 (201)
T ss_dssp             --CEEEEEEEESTTSSHHHHHHHHHHSCCCSCCCCCSEEEE-EEEEC-----CEEEEEEEECCCC
T ss_pred             CCCcEEEEEECCCCcCHHHHHHHHHhCCCCCCCCCccceEE-EEEEEE-CCEEEEEEEEECCCcc
Confidence            45689999999999999999999999999988989999877 555655 6777899999999985

>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=99.55  E-value=2e-14  Score=97.52  Aligned_cols=63  Identities=30%  Similarity=0.539  Sum_probs=54.8

Q ss_pred             CceeeEEEEEcCCCCCchhhhhhhhhCcCCCCccCCceeEeEEEEEEecCCeEEEEEEEeCCCCC
Q psy10878         67 PEKLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQN  131 (131)
Q Consensus        67 ~~~~~ki~vvG~~~vGKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gqe  131 (131)
                      ....+||+++|.+|||||||++++.++.+...+.+|++..+ ...+.+ ++..+.+.||||+|++
T Consensus        11 ~~~~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~-~~~~~~-~~~~~~~~l~Dt~G~~   73 (206)
T 2bov_A           11 SLALHKVIMVGSGGVGKSALTLQFMYDEFVEDYEPTKADSY-RKKVVL-DGEEVQIDILDTAGQE   73 (206)
T ss_dssp             CCCEEEEEEECSTTSSHHHHHHHHHHSCCCTTCCTTCCEEE-EEEEEE-TTEEEEEEEEECCCTT
T ss_pred             CCceEEEEEECCCCCCHHHHHHHHHhCCCCCCCCCccceEE-EEEEEE-CCEEEEEEEEcCCChh
Confidence            44578999999999999999999999999888889988776 456666 8888999999999985

>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=99.55  E-value=2e-14  Score=94.05  Aligned_cols=60  Identities=32%  Similarity=0.582  Sum_probs=51.2

Q ss_pred             eeEEEEEcCCCCCchhhhhhhhhCcCCCCccCCceeEeEEEEEEecCCeEEEEEEEeCCCCC
Q psy10878         70 LFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQN  131 (131)
Q Consensus        70 ~~ki~vvG~~~vGKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gqe  131 (131)
                      .+||+++|.+|+|||||++++.++.+...+.+|.+..+ ...+.+ ++..+.+.+|||+|++
T Consensus         4 ~~~i~v~G~~~~GKssl~~~l~~~~~~~~~~~t~~~~~-~~~~~~-~~~~~~~~l~D~~G~~   63 (168)
T 1u8z_A            4 LHKVIMVGSGGVGKSALTLQFMYDEFVEDYEPTKADSY-RKKVVL-DGEEVQIDILDTAGQE   63 (168)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHSCCCSCCCTTCCEEE-EEEEEE-TTEEEEEEEEECCC--
T ss_pred             eEEEEEECCCCCCHHHHHHHHHhCccCCCCCCCcceEE-EEEEEE-CCEEEEEEEEECCCcc
Confidence            58999999999999999999999988888888888776 455566 8888999999999985

>2erx_A GTP-binding protein DI-RAS2; GTP hydrolysis, transport protein; HET: GDP; 1.65A {Homo sapiens} SCOP: c.37.1.8

Probab=99.55  E-value=2.2e-14  Score=94.30  Aligned_cols=61  Identities=33%  Similarity=0.572  Sum_probs=52.4

Q ss_pred             eeeEEEEEcCCCCCchhhhhhhhhCcCCCCccCCceeEeEEEEEEecCCeEEEEEEEeCCCCC
Q psy10878         69 KLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQN  131 (131)
Q Consensus        69 ~~~ki~vvG~~~vGKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gqe  131 (131)
                      ..+||+++|.+|||||||+++++++.+...+.++++..+. ..+.. ++..+.+.+|||+|++
T Consensus         2 ~~~~i~v~G~~~~GKssli~~l~~~~~~~~~~~t~~~~~~-~~~~~-~~~~~~~~~~Dt~G~~   62 (172)
T 2erx_A            2 NDYRVAVFGAGGVGKSSLVLRFVKGTFRESYIPTVEDTYR-QVISC-DKSICTLQITDTTGSH   62 (172)
T ss_dssp             CEEEEEEECCTTSSHHHHHHHHHTCCCCSSCCCCSCEEEE-EEEEE-TTEEEEEEEEECCSCS
T ss_pred             CceEEEEECCCCCCHHHHHHHHHcCCCCCCCCCCccccEE-EEEEE-CCEEEEEEEEECCCch
Confidence            3689999999999999999999998888788888887663 44555 7788999999999985

>2fv8_A H6, RHO-related GTP-binding protein RHOB; GDP/GTP binding, GTP hydrolysis, structural genomics, structural genomics consortium, SGC; HET: GDP; 1.90A {Homo sapiens} SCOP: c.37.1.8

Probab=99.55  E-value=1.1e-14  Score=99.50  Aligned_cols=63  Identities=30%  Similarity=0.521  Sum_probs=48.7

Q ss_pred             CceeeEEEEEcCCCCCchhhhhhhhhCcCCCCccCCceeEeEEEEEEecCCeEEEEEEEeCCCCC
Q psy10878         67 PEKLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQN  131 (131)
Q Consensus        67 ~~~~~ki~vvG~~~vGKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gqe  131 (131)
                      ....+||+++|.+|||||||++++.++.+...+.||++..+. ..+.+ ++..+.+.||||+|++
T Consensus        22 ~~~~~ki~vvG~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~-~~~~~-~~~~~~~~i~Dt~G~~   84 (207)
T 2fv8_A           22 SMIRKKLVVVGDGACGKTCLLIVFSKDEFPEVYVPTVFENYV-ADIEV-DGKQVELALWDTAGQE   84 (207)
T ss_dssp             GSEEEEEEEEECTTSSHHHHHHHHHHSSCC-------CCEEE-EEEEE-TTEEEEEEEEECTTCT
T ss_pred             cccCcEEEEECcCCCCHHHHHHHHhcCCCCCcCCCcccceEE-EEEEE-CCEEEEEEEEECCCcH
Confidence            456789999999999999999999999998888899887774 44666 8888999999999985

>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=99.55  E-value=2.3e-14  Score=96.27  Aligned_cols=64  Identities=30%  Similarity=0.476  Sum_probs=52.6

Q ss_pred             CCceeeEEEEEcCCCCCchhhhhhhhhCcCCCCccCCceeEeEEEEEEecCCeEEEEEEEeCCCCC
Q psy10878         66 PPEKLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQN  131 (131)
Q Consensus        66 ~~~~~~ki~vvG~~~vGKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gqe  131 (131)
                      +....+||+++|.+|||||||+++++++.+...+.+|++..+ ...+.+ ++..+.+.||||+|++
T Consensus        17 ~~~~~~ki~vvG~~~~GKSsli~~l~~~~~~~~~~~t~~~~~-~~~~~~-~~~~~~~~l~Dt~G~~   80 (190)
T 3con_A           17 QGMTEYKLVVVGAGGVGKSALTIQLIQNHFVDEYDPTIEDSY-RKQVVI-DGETCLLDILDTAGQE   80 (190)
T ss_dssp             --CEEEEEEEECSTTSSHHHHHHHHHHSSCCSCCCTTCCEEE-EEEEEE-TTEEEEEEEEECCC--
T ss_pred             cccceeEEEEECcCCCCHHHHHHHHHcCCCccccCCccceEE-EEEEEE-CCEEEEEEEEECCChH
Confidence            345679999999999999999999999888888888887666 456666 7888999999999985

>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=99.55  E-value=1e-14  Score=96.39  Aligned_cols=61  Identities=25%  Similarity=0.388  Sum_probs=46.3

Q ss_pred             eeeEEEEEcCCCCCchhhhhhhhhCcCCCCccCCceeEeEEEEEEecCCeEEEEEEEeCCCCC
Q psy10878         69 KLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQN  131 (131)
Q Consensus        69 ~~~ki~vvG~~~vGKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gqe  131 (131)
                      ..+||+++|++|||||||+++|.++.+...+ ++.+.++....+.+ ++..+.+.+|||+|++
T Consensus         3 ~~~ki~i~G~~~vGKSsl~~~l~~~~~~~~~-~~~~~~~~~~~~~~-~~~~~~~~~~D~~g~~   63 (175)
T 2nzj_A            3 ALYRVVLLGDPGVGKTSLASLFAGKQERDLH-EQLGEDVYERTLTV-DGEDTTLVVVDTWEAE   63 (175)
T ss_dssp             CEEEEEEECCTTSSHHHHHHHHHCC-----C-CCSSSSEEEEEEEE-TTEEEEEEEECCC---
T ss_pred             eEEEEEEECCCCccHHHHHHHHhcCCCcccc-CccccceeEEEEEE-CCEEEEEEEEecCCCC
Confidence            4689999999999999999999988776443 56777777777777 8888999999999985

>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=99.54  E-value=3.1e-14  Score=94.89  Aligned_cols=63  Identities=30%  Similarity=0.539  Sum_probs=53.5

Q ss_pred             CceeeEEEEEcCCCCCchhhhhhhhhCcCCCCccCCceeEeEEEEEEecCCeEEEEEEEeCCCCC
Q psy10878         67 PEKLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQN  131 (131)
Q Consensus        67 ~~~~~ki~vvG~~~vGKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gqe  131 (131)
                      ....+||+++|.+|||||||+++++++.+...+.+|++..+ ...+.+ ++..+.+.||||+|++
T Consensus        15 ~~~~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~-~~~~~~-~~~~~~~~l~Dt~G~~   77 (187)
T 2a9k_A           15 SLALHKVIMVGSGGVGKSALTLQFMYDEFVEDYEPTKADSY-RKKVVL-DGEEVQIDILDTAGQE   77 (187)
T ss_dssp             --CEEEEEEECSTTSSHHHHHHHHHHSCCCCSCCTTCCEEE-EEEEEE-TTEEEEEEEEECCCTT
T ss_pred             CCCceEEEEECCCCCCHHHHHHHHhhCCCCCcCCCccceEE-EEEEEE-CCEEEEEEEEECCCCc
Confidence            34578999999999999999999999999888888888776 455666 7888999999999985

>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=99.54  E-value=1.5e-14  Score=95.23  Aligned_cols=61  Identities=21%  Similarity=0.319  Sum_probs=43.8

Q ss_pred             eeEEEEEcCCCCCchhhhhhhhhCcCCCCccCCceeEeEEEEEEecCCeEEEEEEEeCCCCC
Q psy10878         70 LFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQN  131 (131)
Q Consensus        70 ~~ki~vvG~~~vGKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gqe  131 (131)
                      .+||+++|++|||||||+++|.+..+...+.++.+.++....+.+ ++..+.+.+|||+|++
T Consensus         2 ~~ki~ivG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~i~D~~g~~   62 (169)
T 3q85_A            2 VFKVMLVGESGVGKSTLAGTFGGLQGDHAHEMENSEDTYERRIMV-DKEEVTLIVYDIWEQG   62 (169)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHCC------------CEEEEEEEE-TTEEEEEEEECCCCC-
T ss_pred             cEEEEEECCCCCCHHHHHHHHHhccCcccccCCCcCCeeeEEEEE-CCeEEEEEEEECCCcc
Confidence            479999999999999999999977776666666667777788887 8889999999999985

>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=99.53  E-value=6.4e-16  Score=104.37  Aligned_cols=65  Identities=45%  Similarity=0.859  Sum_probs=57.4

Q ss_pred             CCceeeEEEEEcCCCCCchhhhhhhhhCcCCCCccCCceeEeEEEEEEecCCeEEEEEEEeCCCCC
Q psy10878         66 PPEKLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQN  131 (131)
Q Consensus        66 ~~~~~~ki~vvG~~~vGKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gqe  131 (131)
                      .....+||+++|.+|||||||+++|.++.+...+.++.+.++....+.+ ++..+.++||||+|++
T Consensus        19 ~~~~~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~-~~~~~~~~i~Dt~G~~   83 (191)
T 3dz8_A           19 NFDYMFKLLIIGNSSVGKTSFLFRYADDTFTPAFVSTVGIDFKVKTVYR-HEKRVKLQIWDTAGQE   83 (191)
T ss_dssp             EEEECEEEEEEESTTSSHHHHHHHHHHHTTCCCEEEEETTTEEEEEEEE-TTTTEEEEEECHHHHH
T ss_pred             ccCeeeEEEEECCCCcCHHHHHHHHhcCCCCcccCCCeeeEEEEEEEEE-CCEEEEEEEEeCCChH
Confidence            3567899999999999999999999999988888899888888888877 7777899999999964

>2yc2_C IFT27, small RAB-related GTPase; transport protein, cilium, IFT complex; 2.59A {Chlamydomonas reinhardtii} PDB: 2yc4_C

Probab=99.53  E-value=3.7e-15  Score=101.25  Aligned_cols=63  Identities=33%  Similarity=0.536  Sum_probs=26.6

Q ss_pred             ceeeEEEEEcCCCCCchhhhhhhhhC--cCCCCccCCceeEeEEEEEEecCCe--EEEEEEEeCCCCC
Q psy10878         68 EKLFKVIVIGDPTVGKTSFVQRYVQN--TFKKDYKGTVGVDFALKIVKWRDQQ--KIKLQLWDIAGQN  131 (131)
Q Consensus        68 ~~~~ki~vvG~~~vGKSsli~~~~~~--~~~~~~~~t~~~~~~~~~~~~~~~~--~~~l~i~Dt~Gqe  131 (131)
                      ...+||+++|.+|||||||+++|+++  .+...+.+|++.++....+.+ ++.  .+.++||||+|++
T Consensus        18 ~~~~~i~v~G~~~~GKssli~~l~~~~~~~~~~~~~t~~~~~~~~~~~~-~~~~~~~~~~l~Dt~G~~   84 (208)
T 2yc2_C           18 TLRCKVAVVGEATVGKSALISMFTSKGSKFLKDYAMTSGVEVVVAPVTI-PDTTVSVELFLLDTAGSD   84 (208)
T ss_dssp             EEEEEEEEC----------------------------------CEEEEC-TTSSEEEEEEEEETTTTH
T ss_pred             ccceEEEEECCCCCCHHHHHHHHHhCCCcccCCCCCccceEEEEEEEEE-CCcccEEEEEEEECCCcH
Confidence            46789999999999999999999988  788788899998888888887 776  8999999999984

>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=99.53  E-value=2.1e-14  Score=98.12  Aligned_cols=63  Identities=35%  Similarity=0.564  Sum_probs=51.3

Q ss_pred             CceeeEEEEEcCCCCCchhhhhhhhhCcCCCCccCCceeEeEEEEEEecCCeEEEEEEEeCCCCC
Q psy10878         67 PEKLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQN  131 (131)
Q Consensus        67 ~~~~~ki~vvG~~~vGKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gqe  131 (131)
                      ....+||+++|.+|||||||+++|+++.+...+.+|++..+ ...+.+ ++..+.++||||+|+|
T Consensus        27 ~~~~~ki~vvG~~~~GKSsLi~~l~~~~~~~~~~~t~~~~~-~~~~~~-~~~~~~l~i~Dt~G~~   89 (204)
T 4gzl_A           27 QGQAIKCVVVGDGAVGKTCLLISYTTNAFPGEYIPTVFDNY-SANVMV-DGKPVNLGLWDTAGLE   89 (204)
T ss_dssp             ---CEEEEEEESTTSSHHHHHHHHHHSCCCC-CCCCSEEEE-EEEEEC-C-CEEEEEEEEECCSG
T ss_pred             cCCeEEEEEECcCCCCHHHHHHHHHhCCCCCCcCCeeccee-EEEEEE-CCEEEEEEEEECCCch
Confidence            34678999999999999999999999999888888887655 566666 8888999999999985

>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=99.52  E-value=3.2e-14  Score=96.03  Aligned_cols=62  Identities=31%  Similarity=0.578  Sum_probs=53.2

Q ss_pred             ceeeEEEEEcCCCCCchhhhhhhhhCcCCCCccCCceeEeEEEEEEecCCeEEEEEEEeCCCCC
Q psy10878         68 EKLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQN  131 (131)
Q Consensus        68 ~~~~ki~vvG~~~vGKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gqe  131 (131)
                      ...+||+++|.+|||||||+++|.++.+...+.+|++..+. ..+.+ ++..+.+.||||+|++
T Consensus         6 ~~~~ki~vvG~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~-~~~~~-~~~~~~~~l~Dt~G~~   67 (199)
T 2gf0_A            6 SNDYRVVVFGAGGVGKSSLVLRFVKGTFRDTYIPTIEDTYR-QVISC-DKSVCTLQITDTTGSH   67 (199)
T ss_dssp             CCCEEEEEEECTTSSHHHHHHHHHHSCCCCTTSCCCCEEEE-EEEEE-TTEEEEEEEEECCGGG
T ss_pred             CCeeEEEEECCCCCcHHHHHHHHHcCCCCCcccCcccccee-EEEEE-CCEEEEEEEEeCCChH
Confidence            35689999999999999999999999998888899887664 45555 7888999999999974

>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=99.52  E-value=5.9e-14  Score=91.53  Aligned_cols=60  Identities=30%  Similarity=0.482  Sum_probs=52.0

Q ss_pred             eeEEEEEcCCCCCchhhhhhhhhCcCCCCccCCceeEeEEEEEEecCCeEEEEEEEeCCCCC
Q psy10878         70 LFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQN  131 (131)
Q Consensus        70 ~~ki~vvG~~~vGKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gqe  131 (131)
                      .+||+++|.+|+|||||++++.++.+...+.++++..+ ...+.+ ++..+.+.+|||+|++
T Consensus         3 ~~~i~v~G~~~~GKssl~~~l~~~~~~~~~~~~~~~~~-~~~~~~-~~~~~~~~~~D~~G~~   62 (166)
T 2ce2_X            3 EYKLVVVGAGGVGKSALTIQLIQNHFVDECDPTIEDSY-RKQVVI-DGETCLLDILDTAGQE   62 (166)
T ss_dssp             EEEEEEEESTTSSHHHHHHHHHHSSCCSCCCTTCCEEE-EEEEEE-TTEEEEEEEEECCCCS
T ss_pred             eeEEEEECCCCCCHHHHHHHHHhCcCccccCCccceEE-EEEEEE-CCEEEEEEEEECCCch
Confidence            57999999999999999999999988888888887665 456666 7888999999999985

>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=99.51  E-value=3.7e-15  Score=99.28  Aligned_cols=62  Identities=39%  Similarity=0.645  Sum_probs=37.4

Q ss_pred             ceeeEEEEEcCCCCCchhhhhhhhhCcCCCCccCCceeEeEEEEEEecCCeEEEEEEEeCCCCC
Q psy10878         68 EKLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQN  131 (131)
Q Consensus        68 ~~~~ki~vvG~~~vGKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gqe  131 (131)
                      ...+||+++|++|||||||+++|..+.+...+.||++..+. ..+.+ ++..+.+++|||+||+
T Consensus         6 ~~~~ki~v~G~~~~GKssl~~~~~~~~~~~~~~~t~~~~~~-~~~~~-~~~~~~~~i~Dt~G~~   67 (182)
T 3bwd_D            6 SRFIKCVTVGDGAVGKTCLLISYTSNTFPTDYVPTVFDNFS-ANVVV-NGATVNLGLWDTAGQE   67 (182)
T ss_dssp             -CCCEEEEECSTTSSHHHHHHHHHHSCCC----------CB-CCCC--------CEEECCCC-C
T ss_pred             CceEEEEEECCCCCCHHHHHHHHhcCCCCCCCCCeeeeeEE-EEEEE-CCEEEEEEEEECCCCh
Confidence            34689999999999999999999999888888899886663 33444 6778889999999986

>3h2y_A GTPase family protein; GTP-binding protein YQEH, possibly involved in replication initiation, csgid, IDP90222; HET: DGI; 1.80A {Bacillus anthracis str}

Probab=99.50  E-value=4.6e-15  Score=110.37  Aligned_cols=107  Identities=24%  Similarity=0.334  Sum_probs=70.0

Q ss_pred             CCCcEEeeccCCCccccccc---cccc------------CCCCccccccCCcccccccccccccccCCCcccCCCCCCce
Q psy10878          5 AKKPILLPSASEDPSIDNWD---KASW------------ENVTPIVSEQGDGEIIEIIDPSLKLVRVPSIRKSFNAPPEK   69 (131)
Q Consensus         5 ~~kp~vlv~NK~Dl~~~~~~---~~~~------------~~~~~is~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   69 (131)
                      .++|+++|+||+|+.+....   ..+|            .+++++||+++.| +.++++.+.+..  +            
T Consensus        95 ~~~p~ilV~NK~DL~~~~~~~~~~~~~l~~~~~~~g~~~~~v~~iSA~~g~g-i~~L~~~l~~~~--~------------  159 (368)
T 3h2y_A           95 GNNKVLLVGNKADLIPKSVKHDKVKHWMRYSAKQLGLKPEDVFLISAAKGQG-IAELADAIEYYR--G------------  159 (368)
T ss_dssp             SSSCEEEEEECGGGSCTTSCHHHHHHHHHHHHHHTTCCCSEEEECCTTTCTT-HHHHHHHHHHHH--T------------
T ss_pred             CCCcEEEEEEChhcCCcccCHHHHHHHHHHHHHHcCCCcccEEEEeCCCCcC-HHHHHhhhhhhc--c------------
Confidence            37999999999999654311   1111            2578999999999 999988776544  1            


Q ss_pred             eeEEEEEcCCCCCchhhhhhhhhCcC-----CCCccCCceeEeEEEEEEecCCeEEEEEEEeCCCC
Q psy10878         70 LFKVIVIGDPTVGKTSFVQRYVQNTF-----KKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQ  130 (131)
Q Consensus        70 ~~ki~vvG~~~vGKSsli~~~~~~~~-----~~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gq  130 (131)
                      ..+++++|.+|+|||||+|++++...     .....+..+.......+.+ +..   +.++||||-
T Consensus       160 ~~~i~~vG~~nvGKStliN~L~~~~~~~~~~~~~~~~~~gtT~~~~~~~~-~~~---~~liDtPG~  221 (368)
T 3h2y_A          160 GKDVYVVGCTNVGKSTFINRMIKEFSDETENVITTSHFPGTTLDLIDIPL-DEE---SSLYDTPGI  221 (368)
T ss_dssp             TSCEEEEEBTTSSHHHHHHHHHHHHTTSCSSCCEEECCC----CEEEEES-SSS---CEEEECCCB
T ss_pred             cceEEEecCCCCChhHHHHHHHhhhccccccceecCCCCCeecceEEEEe-cCC---eEEEeCCCc
Confidence            13699999999999999999986421     1111122222222333444 322   689999994

>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=99.50  E-value=1e-14  Score=98.09  Aligned_cols=63  Identities=22%  Similarity=0.325  Sum_probs=49.2

Q ss_pred             CceeeEEEEEcCCCCCchhhhhhhhhCcCCCCc-----------cCCceeEeEEEEE-EecCCeEEEEEEEeCCCCC
Q psy10878         67 PEKLFKVIVIGDPTVGKTSFVQRYVQNTFKKDY-----------KGTVGVDFALKIV-KWRDQQKIKLQLWDIAGQN  131 (131)
Q Consensus        67 ~~~~~ki~vvG~~~vGKSsli~~~~~~~~~~~~-----------~~t~~~~~~~~~~-~~~~~~~~~l~i~Dt~Gqe  131 (131)
                      ....+||+++|++|||||||++ ++.+.+...+           .||++.++....+ .+ ++..+.++||||+||+
T Consensus        11 ~~~~~ki~vvG~~~~GKssL~~-~l~~~~~~~~~~~~~~~~~~~~~t~~~~~~~~~~~~~-~~~~~~~~i~Dt~G~~   85 (198)
T 3t1o_A           11 REINFKIVYYGPGLSGKTTNLK-WIYSKVPEGRKGEMVSLATEDERTLFFDFLPLDIGEV-KGFKTRFHLYTVPGQV   85 (198)
T ss_dssp             TEEEEEEEEECSTTSSHHHHHH-HHHHTSCGGGBCCCEEEECSSCEEEEEEECCSSCCCS-SSCEEEEEEEECCSCC
T ss_pred             cccccEEEEECCCCCCHHHHHH-HHHhhccccccccccccccccccceeeeecccccccc-cCCceEEEEEeCCChH
Confidence            5678999999999999999994 5656666553           4577777655544 44 7788999999999986

>3ec1_A YQEH GTPase; atnos1, atnoa1, trap, PVHL, hydrolase, signaling protein; HET: GDP; 2.36A {Geobacillus stearothermophilus}

Probab=99.50  E-value=5.5e-15  Score=109.97  Aligned_cols=104  Identities=21%  Similarity=0.374  Sum_probs=71.5

Q ss_pred             CCcEEeeccCCCccccccc---cccc------------CCCCccccccCCcccccccccccccccCCCcccCCCCCCcee
Q psy10878          6 KKPILLPSASEDPSIDNWD---KASW------------ENVTPIVSEQGDGEIIEIIDPSLKLVRVPSIRKSFNAPPEKL   70 (131)
Q Consensus         6 ~kp~vlv~NK~Dl~~~~~~---~~~~------------~~~~~is~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   70 (131)
                      ++|+++|+||+|+.+.+..   ..+|            .+++++||+++.| +.++++.+.+...              .
T Consensus        98 ~~piilV~NK~DLl~~~~~~~~~~~~l~~~~~~~g~~~~~v~~iSA~~g~g-i~~L~~~I~~~~~--------------~  162 (369)
T 3ec1_A           98 DNPILLVGNKADLLPRSVKYPKLLRWMRRMAEELGLCPVDVCLVSAAKGIG-MAKVMEAINRYRE--------------G  162 (369)
T ss_dssp             TSCEEEEEECGGGSCTTCCHHHHHHHHHHHHHTTTCCCSEEEECBTTTTBT-HHHHHHHHHHHHT--------------T
T ss_pred             CCCEEEEEEChhcCCCccCHHHHHHHHHHHHHHcCCCcccEEEEECCCCCC-HHHHHHHHHhhcc--------------c
Confidence            7899999999999654211   1111            2578999999999 9999888766541              1


Q ss_pred             eEEEEEcCCCCCchhhhhhhhhC------cCCCCccCCceeEeEEEEEEecCCeEEEEEEEeCCCC
Q psy10878         71 FKVIVIGDPTVGKTSFVQRYVQN------TFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQ  130 (131)
Q Consensus        71 ~ki~vvG~~~vGKSsli~~~~~~------~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gq  130 (131)
                      .+++++|.+|+|||||+|++.+.      .......|.+..+  ...+.+ +..   +.++||||-
T Consensus       163 ~~i~~vG~~nvGKStliN~L~~~~~~~~~~~~~~~~~gtT~~--~~~~~~-~~~---~~liDtPG~  222 (369)
T 3ec1_A          163 GDVYVVGCTNVGKSTFINRIIEEATGKGNVITTSYFPGTTLD--MIEIPL-ESG---ATLYDTPGI  222 (369)
T ss_dssp             SCEEEECCTTSSHHHHHHHHHHHHHHTTCCCEEEECTTSSCE--EEEEEC-STT---CEEEECCSC
T ss_pred             CcEEEEcCCCCchHHHHHHHHhhccCCccceeecCCCCeEEe--eEEEEe-CCC---eEEEeCCCc
Confidence            36999999999999999999864      2222223333222  233444 322   689999994

>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=99.49  E-value=5.5e-14  Score=97.19  Aligned_cols=63  Identities=19%  Similarity=0.364  Sum_probs=49.5

Q ss_pred             CceeeEEEEEcCCCCCchhhhhhhhhCc--CCCCccCCceeEeEEEEEEecCCeEEEEEEEeCCCCC
Q psy10878         67 PEKLFKVIVIGDPTVGKTSFVQRYVQNT--FKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQN  131 (131)
Q Consensus        67 ~~~~~ki~vvG~~~vGKSsli~~~~~~~--~~~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gqe  131 (131)
                      ....+||+++|++|||||||+++|++..  |...+ ++++.++..+.+.+ ++..+.+.+|||+|++
T Consensus        34 ~~~~~kVvlvG~~~vGKSSLl~r~~~~~~~~~~~~-~~~g~d~~~~~i~~-~~~~~~l~~~Dt~g~~   98 (211)
T 2g3y_A           34 GNTYYRVVLIGEQGVGKSTLANIFAGVHDSMDSDC-EVLGEDTYERTLMV-DGESATIILLDMWENK   98 (211)
T ss_dssp             -CCEEEEEEECCTTSSHHHHHHHHHCCCCTTCCC----CCTTEEEEEEEE-TTEEEEEEEECCTTTT
T ss_pred             CCCceEEEEECCCCCCHHHHHHHHHhCCCCCCCcC-CccceeeEEEEEEE-CCeeeEEEEeecCCCc
Confidence            4567899999999999999999999543  34333 55777777788887 8899999999999985

>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=99.49  E-value=3.1e-14  Score=97.74  Aligned_cols=65  Identities=35%  Similarity=0.588  Sum_probs=53.9

Q ss_pred             CceeeEEEEEcCCCCCchhhhhhhhhCcCCCCccCCceeEeEEEEEEecCCeEEEEEEEeCCCCC
Q psy10878         67 PEKLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQN  131 (131)
Q Consensus        67 ~~~~~ki~vvG~~~vGKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gqe  131 (131)
                      ....+||+++|.+|||||||+++++++.+...+.+|.+..+....+...++..+.+.||||+|++
T Consensus         8 ~~~~~ki~vvG~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~   72 (218)
T 4djt_A            8 RELTYKICLIGDGGVGKTTYINRVLDGRFEKNYNATVGAVNHPVTFLDDQGNVIKFNVWDTAGQE   72 (218)
T ss_dssp             --CEEEEEEECCTTSSHHHHHCBCTTCSTTCEEETTTTEEEEEEEEEBTTSCEEEEEEEEECSGG
T ss_pred             ccCccEEEEECCCCCCHHHHHHHHhcCCCCCCCCCccceeeEEEEEEeCCCcEEEEEEEecCCch
Confidence            44678999999999999999999999888888889998877666665534556899999999975

>4bas_A ADP-ribosylation factor, putative (small GTPase, putative); hydrolase; HET: GNP; 2.00A {Trypanosoma brucei TREU927}

Probab=99.49  E-value=3.1e-14  Score=96.08  Aligned_cols=63  Identities=16%  Similarity=0.334  Sum_probs=46.2

Q ss_pred             CCCCceeeEEEEEcCCCCCchhhhhhhhhCcCCC-CccCCceeEeEEEEEEecCCeEEEEEEEeCCCCC
Q psy10878         64 NAPPEKLFKVIVIGDPTVGKTSFVQRYVQNTFKK-DYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQN  131 (131)
Q Consensus        64 ~~~~~~~~ki~vvG~~~vGKSsli~~~~~~~~~~-~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gqe  131 (131)
                      +.......||+++|++|||||||+++|+++.+.. .+.+|++..+  ..+..   ..+.++||||+|++
T Consensus        11 ~~~~~~~~ki~v~G~~~~GKSsl~~~l~~~~~~~~~~~~t~~~~~--~~~~~---~~~~~~i~Dt~G~~   74 (199)
T 4bas_A           11 MGQSKTKLQVVMCGLDNSGKTTIINQVKPAQSSSKHITATVGYNV--ETFEK---GRVAFTVFDMGGAK   74 (199)
T ss_dssp             -----CEEEEEEECCTTSCHHHHHHHHSCCC----CCCCCSSEEE--EEEEE---TTEEEEEEEECCSG
T ss_pred             ccCCCCCcEEEEECCCCCCHHHHHHHHhcCCCcccccccccceeE--EEEEe---CCEEEEEEECCCCH
Confidence            3456678899999999999999999999999987 7889998443  34433   45789999999985

>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=99.48  E-value=1e-14  Score=97.99  Aligned_cols=62  Identities=26%  Similarity=0.509  Sum_probs=39.9

Q ss_pred             eeEEEEEcCCCCCchhhhhhhhhC--cCCCCccCCceeEeEEEEEEec--CCeEEEEEEEeCCCCC
Q psy10878         70 LFKVIVIGDPTVGKTSFVQRYVQN--TFKKDYKGTVGVDFALKIVKWR--DQQKIKLQLWDIAGQN  131 (131)
Q Consensus        70 ~~ki~vvG~~~vGKSsli~~~~~~--~~~~~~~~t~~~~~~~~~~~~~--~~~~~~l~i~Dt~Gqe  131 (131)
                      .+|++++|++|||||||+++|++.  .+...+.+|++.++....+.+.  ++..+.+++|||+|||
T Consensus         2 ~~kv~ivG~~gvGKStLl~~l~~~~~~~~~~~~~t~g~~~~~~~~~~~~~~~~~~~~~i~Dt~G~~   67 (184)
T 2zej_A            2 RMKLMIVGNTGSGKTTLLQQLMKTKKSDLGMQSATVGIDVKDWPIQIRDKRKRDLVLNVWDFAGRE   67 (184)
T ss_dssp             -CEEEEESCTTSSHHHHHHHHTCC-----------CSEEEEEEEC---------CEEEEEEECSHH
T ss_pred             ceEEEEECCCCCCHHHHHHHHhcCCCccCCCcceeccEEeEEeeeccccCCCCceEEEEEecCCCH
Confidence            479999999999999999999974  5666788999988876655431  2356789999999974

>2wjg_A FEOB, ferrous iron transport protein B homolog; membrane G-proteins, cell membrane, ION transport, transmembrane; HET: GDP; 2.20A {Methanocaldococcus jannaschii}

Probab=99.48  E-value=9.1e-14  Score=93.10  Aligned_cols=61  Identities=20%  Similarity=0.308  Sum_probs=49.9

Q ss_pred             ceeeEEEEEcCCCCCchhhhhhhhhCcCCCCccCCceeEeEEEEEEecCCeEEEEEEEeCCCCC
Q psy10878         68 EKLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQN  131 (131)
Q Consensus        68 ~~~~ki~vvG~~~vGKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gqe  131 (131)
                      ...++++++|++|||||||++++++..+...+.|+++.++....+.+ ++  +.+++|||||++
T Consensus         5 ~~~~~i~lvG~~gvGKStL~~~l~~~~~~~~~~~~~t~~~~~~~~~~-~~--~~~~l~Dt~G~~   65 (188)
T 2wjg_A            5 MKSYEIALIGNPNVGKSTIFNALTGENVYIGNWPGVTVEKKEGEFEY-NG--EKFKVVDLPGVY   65 (188)
T ss_dssp             CCEEEEEEECSTTSSHHHHHHHHHTTCEEEEECTTSCCEEEEEEEEE-TT--EEEEEEECCCCS
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHhCCCccccCCCCeeccceEEEEEe-CC--cEEEEEECCCcC
Confidence            35689999999999999999999987766566677776776677766 55  678999999985

>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=99.48  E-value=6.4e-14  Score=92.58  Aligned_cols=59  Identities=19%  Similarity=0.311  Sum_probs=44.2

Q ss_pred             eeEEEEEcCCCCCchhhhhhhhhCcCCCCccCCceeEeEEEEEEecCCeEEEEEEEeCCCCC
Q psy10878         70 LFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQN  131 (131)
Q Consensus        70 ~~ki~vvG~~~vGKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gqe  131 (131)
                      .++++++|++|||||||++++.+..+...+.|+++.++....+.+ ++  ..+++||||||+
T Consensus         3 ~~~v~lvG~~gvGKStL~~~l~~~~~~~~~~~~~t~~~~~~~~~~-~~--~~l~i~Dt~G~~   61 (165)
T 2wji_A            3 SYEIALIGNPNVGKSTIFNALTGENVYIGNWPGVTVEKKEGEFEY-NG--EKFKVVDLPGVY   61 (165)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHCCSSSCC-----CCCCCEEEEEE-TT--EEEEEEECCCCS
T ss_pred             ccEEEEECCCCCCHHHHHHHHhCCCeeccCCCCcceeeeEEEEEE-CC--cEEEEEECCCcc
Confidence            579999999999999999999987776555676666665666666 55  568999999985

>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=99.47  E-value=9.2e-14  Score=94.21  Aligned_cols=61  Identities=20%  Similarity=0.393  Sum_probs=47.7

Q ss_pred             eeeEEEEEcCCCCCchhhhhhhhhC--cCCCCccCCceeEeEEEEEEecCCeEEEEEEEeCCCCC
Q psy10878         69 KLFKVIVIGDPTVGKTSFVQRYVQN--TFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQN  131 (131)
Q Consensus        69 ~~~ki~vvG~~~vGKSsli~~~~~~--~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gqe  131 (131)
                      ..+||+++|++|||||||+++|++.  .+...+ ++++.++..+.+.+ ++..+.+.+|||+|++
T Consensus         5 ~~~kv~lvG~~~vGKSsL~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~-~~~~~~l~~~Dt~~~~   67 (192)
T 2cjw_A            5 TYYRVVLIGEQGVGKSTLANIFAGVHDSMDSDX-EVLGEDTYERTLMV-DGESATIILLDMWENK   67 (192)
T ss_dssp             CEEEEEEECSTTSSHHHHHHHHHHHSCCC-----GGGCTTEEEEEEEE-TTEEEEEEEECCCCC-
T ss_pred             ceEEEEEECCCCCCHHHHHHHHhcCcCCcCccc-cccceeEEEEEEEE-CCeEEEEEEEEeccCc
Confidence            4689999999999999999999953  344333 45777777777877 8899999999999975

>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=99.46  E-value=6.5e-14  Score=94.27  Aligned_cols=61  Identities=21%  Similarity=0.427  Sum_probs=47.7

Q ss_pred             CCceeeEEEEEcCCCCCchhhhhhhhhCc-CCCCccCCceeEeEEEEEEecCCeEEEEEEEeCCCCC
Q psy10878         66 PPEKLFKVIVIGDPTVGKTSFVQRYVQNT-FKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQN  131 (131)
Q Consensus        66 ~~~~~~ki~vvG~~~vGKSsli~~~~~~~-~~~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gqe  131 (131)
                      .....+||+++|.+|||||||+++|.++. +...+.+|++  +....+.+ ++  +.+.||||+|++
T Consensus        17 ~~~~~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~~t~~--~~~~~~~~-~~--~~~~l~Dt~G~~   78 (190)
T 2h57_A           17 RGSKEVHVLCLGLDNSGKTTIINKLKPSNAQSQNILPTIG--FSIEKFKS-SS--LSFTVFDMSGQG   78 (190)
T ss_dssp             ----CEEEEEEECTTSSHHHHHHHTSCGGGCCSSCCCCSS--EEEEEEEC-SS--CEEEEEEECCST
T ss_pred             CCCCccEEEEECCCCCCHHHHHHHHhcCCCCCCCcCCccc--eeEEEEEE-CC--EEEEEEECCCCH
Confidence            45667999999999999999999999877 6677888887  44556666 54  678999999985

>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=99.46  E-value=4.8e-14  Score=94.95  Aligned_cols=60  Identities=28%  Similarity=0.543  Sum_probs=50.4

Q ss_pred             CceeeEEEEEcCCCCCchhhhhhhhhCcCCCCccCCceeEeEEEEEEecCCeEEEEEEEeCCCCC
Q psy10878         67 PEKLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQN  131 (131)
Q Consensus        67 ~~~~~ki~vvG~~~vGKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gqe  131 (131)
                      ....+||+++|.+|||||||+++|+++.+...+.||++.++.  .+..   ..+.++||||+|++
T Consensus        19 ~~~~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~--~~~~---~~~~~~l~Dt~G~~   78 (188)
T 1zd9_A           19 SKEEMELTLVGLQYSGKTTFVNVIASGQFNEDMIPTVGFNMR--KITK---GNVTIKLWDIGGQP   78 (188)
T ss_dssp             CCEEEEEEEECSTTSSHHHHHHHHHHSCCCCSCCCCCSEEEE--EEEE---TTEEEEEEEECCSH
T ss_pred             CCCccEEEEECCCCCCHHHHHHHHHcCCCCCccCCCCceeEE--EEEe---CCEEEEEEECCCCH
Confidence            456899999999999999999999999998888899987764  3433   34778999999984

>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=99.45  E-value=1.1e-13  Score=90.77  Aligned_cols=59  Identities=22%  Similarity=0.392  Sum_probs=40.2

Q ss_pred             eeEEEEEcCCCCCchhhhhhhhhCcCCCCccCCceeEeEEEEEEecCCeEEEEEEEeCCCCC
Q psy10878         70 LFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQN  131 (131)
Q Consensus        70 ~~ki~vvG~~~vGKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gqe  131 (131)
                      .+||+++|++|||||||++++.+..+. ...++.+..+ ...+.+ ++..+.+.+|||+|++
T Consensus         2 ~~ki~~vG~~~~GKSsli~~l~~~~~~-~~~~~~~~~~-~~~~~~-~~~~~~~~i~D~~g~~   60 (166)
T 3q72_A            2 VYKVLLLGAPGVGKSALARIFGGVEDG-PEAEAAGHTY-DRSIVV-DGEEASLMVYDIWEQD   60 (166)
T ss_dssp             CCEEEEEESTTSSHHHHHHHHCCC-----------CEE-EEEEEE-TTEEEEEEEEECC---
T ss_pred             eEEEEEECCCCCCHHHHHHHHcCcccc-CCCCccccce-EEEEEE-CCEEEEEEEEECCCCc
Confidence            479999999999999999999876554 4456667666 456666 8899999999999985

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

Probab=99.44  E-value=7.5e-14  Score=92.56  Aligned_cols=62  Identities=18%  Similarity=0.289  Sum_probs=50.7

Q ss_pred             CceeeEEEEEcCCCCCchhhhhhhhhCcCCCCccCCceeEeEEEEEEecCCeEEEEEEEeCCCCC
Q psy10878         67 PEKLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQN  131 (131)
Q Consensus        67 ~~~~~ki~vvG~~~vGKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gqe  131 (131)
                      ....++|+++|++|||||||+++|.++.+...+.++++.++....+.+ ++.  .+.+|||||++
T Consensus         5 ~~~~~~i~v~G~~~~GKssl~~~l~~~~~~~~~~~~~~~~~~~~~~~~-~~~--~~~l~Dt~G~~   66 (178)
T 2lkc_A            5 VERPPVVTIMGHVDHGKTTLLDAIRHSKVTEQEAGGITQHIGAYQVTV-NDK--KITFLDTPGHE   66 (178)
T ss_dssp             CCCCCEEEEESCTTTTHHHHHHHHHTTCSSCSSCCSSSTTCCCCEEEE-TTE--EEEESCCCSSS
T ss_pred             CCCCCEEEEECCCCCCHHHHHHHHhCCccccCCCCceeEeeeEEEEEe-CCc--eEEEEECCCCH
Confidence            345679999999999999999999998888777777776666666666 664  46799999985

>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=99.43  E-value=1.3e-13  Score=94.39  Aligned_cols=60  Identities=20%  Similarity=0.289  Sum_probs=45.9

Q ss_pred             ceeeEEEEEcCCCCCchhhhhhhhhCcCCCCccCCceeEeEEEEEEecCCe-EEEEEEEeCCCCC
Q psy10878         68 EKLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQ-KIKLQLWDIAGQN  131 (131)
Q Consensus        68 ~~~~ki~vvG~~~vGKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~-~~~l~i~Dt~Gqe  131 (131)
                      ...+||+++|++|||||||+++|+++.|...+.+ ++.++..  +.+ ++. .+.++|||||||+
T Consensus         5 ~~~~ki~vvG~~~~GKTsli~~l~~~~~~~~~~~-~~~~~~~--~~~-~~~~~~~~~i~Dt~G~~   65 (214)
T 2fh5_B            5 SSQRAVLFVGLCDSGKTLLFVRLLTGQYRDTQTS-ITDSSAI--YKV-NNNRGNSLTLIDLPGHE   65 (214)
T ss_dssp             ---CEEEEECSTTSSHHHHHHHHHHSCCCCBCCC-CSCEEEE--EEC-SSTTCCEEEEEECCCCH
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHhCCCcccccCC-cceeeEE--EEe-cCCCccEEEEEECCCCh
Confidence            3568999999999999999999999988877754 4445543  555 433 6889999999985

>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=99.14  E-value=1.2e-14  Score=99.00  Aligned_cols=63  Identities=37%  Similarity=0.587  Sum_probs=53.4

Q ss_pred             CceeeEEEEEcCCCCCchhhhhhhhhCcCCCCccCCceeEeEEEEEEecCCeEEEEEEEeCCCCC
Q psy10878         67 PEKLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQN  131 (131)
Q Consensus        67 ~~~~~ki~vvG~~~vGKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gqe  131 (131)
                      ....+||+++|.+|||||||+++|.++.+...+.+|++..+ ...+.+ ++..+.+++|||+|++
T Consensus        27 ~~~~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~-~~~~~~-~~~~~~l~i~Dt~G~~   89 (204)
T 3th5_A           27 QGQAIKCVVVGDGAVGKTCLLISYTTNAFPGEYIPTVFDNY-SANVMV-DGKPVNLGLWDTAGQE   89 (204)
Confidence            34678999999999999999999999888888888887666 455555 7778899999999985

>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=99.42  E-value=1.6e-13  Score=92.15  Aligned_cols=57  Identities=26%  Similarity=0.536  Sum_probs=45.9

Q ss_pred             eeeEEEEEcCCCCCchhhhhhhhhCcCCCCccCCceeEeEEEEEEecCCeEEEEEEEeCCCCC
Q psy10878         69 KLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQN  131 (131)
Q Consensus        69 ~~~ki~vvG~~~vGKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gqe  131 (131)
                      ..+||+++|.+|||||||++++.++.+. .+.||++..  ...+.+ ++  +.+++|||+|++
T Consensus        15 ~~~~i~v~G~~~~GKssl~~~l~~~~~~-~~~~t~~~~--~~~~~~-~~--~~~~i~Dt~G~~   71 (187)
T 1zj6_A           15 QEHKVIIVGLDNAGKTTILYQFSMNEVV-HTSPTIGSN--VEEIVI-NN--TRFLMWDIGGQE   71 (187)
T ss_dssp             SCEEEEEEESTTSSHHHHHHHHHTTSCE-EEECCSCSS--CEEEEE-TT--EEEEEEECCC--
T ss_pred             CccEEEEECCCCCCHHHHHHHHhcCCCC-cCcCCCccc--eEEEEE-CC--EEEEEEECCCCH
Confidence            4689999999999999999999988887 778888744  345555 54  778999999985

>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=99.42  E-value=1.2e-13  Score=90.39  Aligned_cols=55  Identities=22%  Similarity=0.580  Sum_probs=44.2

Q ss_pred             eEEEEEcCCCCCchhhhhhhhhCcCCCCccCCceeEeEEEEEEecCCeEEEEEEEeCCCCC
Q psy10878         71 FKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQN  131 (131)
Q Consensus        71 ~ki~vvG~~~vGKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gqe  131 (131)
                      +||+++|++|||||||++++.++.+. .+.||++..  ...+.+   ..+.+++|||+|++
T Consensus         1 ~ki~~~G~~~~GKssl~~~l~~~~~~-~~~~t~~~~--~~~~~~---~~~~~~i~Dt~G~~   55 (164)
T 1r8s_A            1 MRILMVGLDAAGKTTILYKLKLGEIV-TTIPTIGFN--VETVEY---KNISFTVWDVGGQD   55 (164)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHHHCSS-CCCCCSSCC--EEEEEC---SSCEEEEEECCCCG
T ss_pred             CEEEEECCCCCCHHHHHHHHHcCCcC-cccCcCcee--EEEEEE---CCEEEEEEEcCCCh
Confidence            58999999999999999999988886 467888733  445544   34679999999985

>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=99.41  E-value=9.1e-14  Score=92.96  Aligned_cols=61  Identities=25%  Similarity=0.481  Sum_probs=46.9

Q ss_pred             CCCceeeEEEEEcCCCCCchhhhhhhhhCcCCCCccCCceeEeEEEEEEecCCeEEEEEEEeCCCCC
Q psy10878         65 APPEKLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQN  131 (131)
Q Consensus        65 ~~~~~~~ki~vvG~~~vGKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gqe  131 (131)
                      ......+||+++|.+|||||||+++|.++.+ ..+.+|++..+  ..+.+ ++  +.+++|||+|++
T Consensus        16 ~~~~~~~~i~v~G~~~~GKSsli~~l~~~~~-~~~~~t~~~~~--~~~~~-~~--~~~~i~Dt~G~~   76 (181)
T 2h17_A           16 PRGSQEHKVIIVGLDNAGKTTILYQFSMNEV-VHTSPTIGSNV--EEIVI-NN--TRFLMWDIGGQE   76 (181)
T ss_dssp             -----CEEEEEEEETTSSHHHHHHHHHTTSC-EEEECCSSSSC--EEEEE-TT--EEEEEEEESSSG
T ss_pred             CCCCceeEEEEECCCCCCHHHHHHHHhcCCC-CccCCcCceee--EEEEE-CC--EEEEEEECCCCH
Confidence            3456789999999999999999999998888 56778888554  45555 54  779999999985

>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=99.41  E-value=5.5e-13  Score=96.58  Aligned_cols=61  Identities=38%  Similarity=0.615  Sum_probs=53.7

Q ss_pred             eeeEEEEEcCCCCCchhhhhhhhhCcCCCCccCCceeEeEEEEEEecCCeEEEEEEEeCCCCC
Q psy10878         69 KLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQN  131 (131)
Q Consensus        69 ~~~ki~vvG~~~vGKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gqe  131 (131)
                      ..+|++++|.+|||||||+++|.++.+...+.+|++..+ ...+.+ ++..+.+++|||+|++
T Consensus       154 ~~~~i~i~G~~~~GKssli~~~~~~~~~~~~~~t~~~~~-~~~~~~-~~~~~~~~l~Dt~G~~  214 (332)
T 2wkq_A          154 ELIKCVVVGDGAVGKTCLLISYTTNAFPGEYIPTVFDNY-SANVMV-DGKPVNLGLWDTAGLE  214 (332)
T ss_dssp             TCEEEEEEESTTSSHHHHHHHHHHSCCCCSCCCCSEEEE-EEEEEE-TTEEEEEEEEEECCCG
T ss_pred             ceeEEEEECCCCCChHHHHHHHHhCCCCcccCCccccee-EEEEEE-CCEEEEEEEEeCCCch
Confidence            458999999999999999999999999888889988766 456666 8889999999999985

>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=99.40  E-value=2.6e-13  Score=90.80  Aligned_cols=58  Identities=24%  Similarity=0.597  Sum_probs=47.1

Q ss_pred             ceeeEEEEEcCCCCCchhhhhhhhhCcCCCCccCCceeEeEEEEEEecCCeEEEEEEEeCCCCC
Q psy10878         68 EKLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQN  131 (131)
Q Consensus        68 ~~~~ki~vvG~~~vGKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gqe  131 (131)
                      ...+||+++|++|||||||++++.++. ...+.||++..  ...+.+ ++  +.+++|||+|++
T Consensus        16 ~~~~~i~v~G~~~~GKssl~~~l~~~~-~~~~~~t~~~~--~~~~~~-~~--~~~~~~Dt~G~~   73 (186)
T 1ksh_A           16 ERELRLLMLGLDNAGKTTILKKFNGED-VDTISPTLGFN--IKTLEH-RG--FKLNIWDVGGQK   73 (186)
T ss_dssp             -CCEEEEEECSTTSSHHHHHHHHTTCC-CSSCCCCSSEE--EEEEEE-TT--EEEEEEEECCSH
T ss_pred             CCeeEEEEECCCCCCHHHHHHHHhcCC-CCcccccCccc--eEEEEE-CC--EEEEEEECCCCH
Confidence            356899999999999999999999877 66788888844  455655 44  678999999984

>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=99.40  E-value=4.9e-13  Score=87.94  Aligned_cols=57  Identities=23%  Similarity=0.542  Sum_probs=46.5

Q ss_pred             eeeEEEEEcCCCCCchhhhhhhhhCcCCCCccCCceeEeEEEEEEecCCeEEEEEEEeCCCCC
Q psy10878         69 KLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQN  131 (131)
Q Consensus        69 ~~~ki~vvG~~~vGKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gqe  131 (131)
                      ..+||+++|++|||||||++++.++.+. .+.||++..  ...+.+ +  .+.+++|||+|++
T Consensus         6 ~~~~i~v~G~~~~GKssl~~~l~~~~~~-~~~~t~~~~--~~~~~~-~--~~~~~~~Dt~G~~   62 (171)
T 1upt_A            6 REMRILILGLDGAGKTTILYRLQVGEVV-TTIPTIGFN--VETVTY-K--NLKFQVWDLGGLT   62 (171)
T ss_dssp             SCEEEEEECSTTSSHHHHHHHHHHSSCC-CCCCCSSEE--EEEEEE-T--TEEEEEEEECCCG
T ss_pred             CccEEEEECCCCCCHHHHHHHHhcCCCC-CcCCcCccc--eEEEEE-C--CEEEEEEECCCCh
Confidence            4689999999999999999999988886 567888744  455655 4  4678999999985

>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=99.40  E-value=1.8e-13  Score=91.70  Aligned_cols=58  Identities=26%  Similarity=0.562  Sum_probs=46.6

Q ss_pred             ceeeEEEEEcCCCCCchhhhhhhhhCcCCCCccCCceeEeEEEEEEecCCeEEEEEEEeCCCCC
Q psy10878         68 EKLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQN  131 (131)
Q Consensus        68 ~~~~ki~vvG~~~vGKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gqe  131 (131)
                      ...+|++++|++|||||||++++.++.+. .+.||++..  ...+.+ ++  +.+++|||+||+
T Consensus        14 ~~~~ki~ivG~~~vGKSsL~~~l~~~~~~-~~~~t~g~~--~~~~~~-~~--~~l~i~Dt~G~~   71 (181)
T 1fzq_A           14 DQEVRILLLGLDNAGKTTLLKQLASEDIS-HITPTQGFN--IKSVQS-QG--FKLNVWDIGGQR   71 (181)
T ss_dssp             SSCEEEEEEESTTSSHHHHHHHHCCSCCE-EEEEETTEE--EEEEEE-TT--EEEEEEECSSCG
T ss_pred             CCceEEEEECCCCCCHHHHHHHHhcCCCC-cccCcCCeE--EEEEEE-CC--EEEEEEECCCCH
Confidence            45789999999999999999999987654 567888843  455666 53  678999999985

>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=99.40  E-value=5.6e-13  Score=90.02  Aligned_cols=57  Identities=19%  Similarity=0.276  Sum_probs=46.3

Q ss_pred             eeeEEEEEcCCCCCchhhhhhhhhCcCCCCccCCceeEeEEEEEEecCCeEEEEEEEeCCCCC
Q psy10878         69 KLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQN  131 (131)
Q Consensus        69 ~~~ki~vvG~~~vGKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gqe  131 (131)
                      ..+||+++|++|||||||++++.++.+. .+.||++..  ...+.+ ++  +.+++|||+||+
T Consensus        22 ~~~ki~~vG~~~vGKSsli~~l~~~~~~-~~~~t~~~~--~~~~~~-~~--~~~~i~Dt~G~~   78 (190)
T 1m2o_B           22 KHGKLLFLGLDNAGKTTLLHMLKNDRLA-TLQPTWHPT--SEELAI-GN--IKFTTFDLGGHI   78 (190)
T ss_dssp             --CEEEEEESTTSSHHHHHHHHHHSCCC-CCCCCCSCE--EEEEEE-TT--EEEEEEECCCSG
T ss_pred             CccEEEEECCCCCCHHHHHHHHhcCCCC-ccccCCCCC--eEEEEE-CC--EEEEEEECCCCH
Confidence            4579999999999999999999988876 577888764  455666 65  789999999985

>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=99.39  E-value=2.4e-13  Score=92.46  Aligned_cols=57  Identities=16%  Similarity=0.237  Sum_probs=41.4

Q ss_pred             eeeEEEEEcCCCCCchhhhhhhhhCcCCCCccCCceeEeEEEEEEecCCeEEEEEEEeCCCCC
Q psy10878         69 KLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQN  131 (131)
Q Consensus        69 ~~~ki~vvG~~~vGKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gqe  131 (131)
                      ..+||+++|++|||||||++++.++.+. .+.||++...  ..+.+ ++  +.+++||||||+
T Consensus        24 ~~~ki~lvG~~~vGKSsLi~~l~~~~~~-~~~~t~~~~~--~~~~~-~~--~~l~i~Dt~G~~   80 (198)
T 1f6b_A           24 KTGKLVFLGLDNAGKTTLLHMLKDDRLG-QHVPTLHPTS--EELTI-AG--MTFTTFDLGGHI   80 (198)
T ss_dssp             CCEEEEEEEETTSSHHHHHHHHSCC-------CCCCCSC--EEEEE-TT--EEEEEEEECC--
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhcCCCC-ccCCCCCcee--EEEEE-CC--EEEEEEECCCcH
Confidence            4579999999999999999999988775 5778887654  45556 55  789999999985

>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=99.39  E-value=2.4e-13  Score=92.01  Aligned_cols=58  Identities=24%  Similarity=0.568  Sum_probs=44.1

Q ss_pred             ceeeEEEEEcCCCCCchhhhhhhhhCcCCCCccCCceeEeEEEEEEecCCeEEEEEEEeCCCCC
Q psy10878         68 EKLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQN  131 (131)
Q Consensus        68 ~~~~ki~vvG~~~vGKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gqe  131 (131)
                      ...+||+++|++|||||||++++.++.+. .+.||++  +....+.+ ++  +.+++|||+|++
T Consensus        27 ~~~~ki~v~G~~~vGKSsLi~~l~~~~~~-~~~~t~~--~~~~~~~~-~~--~~~~i~Dt~G~~   84 (192)
T 2b6h_A           27 KKQMRILMVGLDAAGKTTILYKLKLGEIV-TTIPTIG--FNVETVEY-KN--ICFTVWDVGGQD   84 (192)
T ss_dssp             TSCEEEEEEESTTSSHHHHHHHHCSSCCE-EEEEETT--EEEEEEEE-TT--EEEEEEECC---
T ss_pred             CCccEEEEECCCCCCHHHHHHHHHhCCcc-ccCCcCc--eeEEEEEE-CC--EEEEEEECCCCH
Confidence            35689999999999999999999988876 4667877  33455555 33  779999999985

>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=99.36  E-value=3e-13  Score=90.09  Aligned_cols=58  Identities=26%  Similarity=0.586  Sum_probs=44.9

Q ss_pred             ceeeEEEEEcCCCCCchhhhhhhhhCcCCCCccCCceeEeEEEEEEecCCeEEEEEEEeCCCCC
Q psy10878         68 EKLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQN  131 (131)
Q Consensus        68 ~~~~ki~vvG~~~vGKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gqe  131 (131)
                      ...+||+++|++|||||||++++.++.+ ..+.||++..  ...+.+ ++  +.+++|||+|++
T Consensus        16 ~~~~~i~v~G~~~~GKssli~~l~~~~~-~~~~~t~~~~--~~~~~~-~~--~~~~i~Dt~G~~   73 (183)
T 1moz_A           16 NKELRILILGLDGAGKTTILYRLQIGEV-VTTKPTIGFN--VETLSY-KN--LKLNVWDLGGQT   73 (183)
T ss_dssp             SSCEEEEEEEETTSSHHHHHHHTCCSEE-EEECSSTTCC--EEEEEE-TT--EEEEEEEEC---
T ss_pred             CCccEEEEECCCCCCHHHHHHHHhcCCc-CccCCcCccc--eEEEEE-CC--EEEEEEECCCCH
Confidence            3568999999999999999999998887 4677888844  455555 44  778999999985

>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=99.36  E-value=1.8e-12  Score=86.28  Aligned_cols=59  Identities=22%  Similarity=0.283  Sum_probs=45.1

Q ss_pred             eeEEEEEcCCCCCchhhhhhhhhCcCC-CCccCCceeEeEEEEEEecCCeEEEEEEEeCCCCC
Q psy10878         70 LFKVIVIGDPTVGKTSFVQRYVQNTFK-KDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQN  131 (131)
Q Consensus        70 ~~ki~vvG~~~vGKSsli~~~~~~~~~-~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gqe  131 (131)
                      .+|++++|.+|||||||++++.+..+. ....++++.++....+.+ ++.  .+++|||||++
T Consensus         4 ~~ki~ivG~~g~GKStLl~~l~~~~~~~~~~~~~~t~~~~~~~~~~-~~~--~~~l~Dt~G~~   63 (172)
T 2gj8_A            4 GMKVVIAGRPNAGKSSLLNALAGREAAIVTDIAGTTRDVLREHIHI-DGM--PLHIIDTAGLR   63 (172)
T ss_dssp             CEEEEEEESTTSSHHHHHHHHHTSCCSCCCSSTTCCCSCEEEEEEE-TTE--EEEEEECCCCS
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCCCcceeeCCCCceeceeeEEEEE-CCe--EEEEEECCCcc
Confidence            479999999999999999999976542 223345555666677777 664  47899999984

>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=99.36  E-value=3e-13  Score=91.61  Aligned_cols=64  Identities=19%  Similarity=0.298  Sum_probs=42.4

Q ss_pred             CCCceeeEEEEEcCCCCCchhhhhhhhhCcCCCCccCCceeEeEEEEE--EecCCeEEEEEEEeCCCCC
Q psy10878         65 APPEKLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIV--KWRDQQKIKLQLWDIAGQN  131 (131)
Q Consensus        65 ~~~~~~~ki~vvG~~~vGKSsli~~~~~~~~~~~~~~t~~~~~~~~~~--~~~~~~~~~l~i~Dt~Gqe  131 (131)
                      ......+||+++|++|||||||++++.+ .+...  ++++.++....+  .+.++..+.++||||+|||
T Consensus        15 ~~~~~~~ki~~vG~~~vGKTsLi~~l~~-~~~~~--~~~~~~~~~~~~~~~~~~~~~~~l~i~Dt~G~~   80 (196)
T 3llu_A           15 YFQGSKPRILLMGLRRSGKSSIQKVVFH-KMSPN--ETLFLESTNKIYKDDISNSSFVNFQIWDFPGQM   80 (196)
T ss_dssp             -----CCEEEEEESTTSSHHHHHHHHHS-CCCGG--GGGGCCCCCSCEEEEECCTTSCCEEEEECCSSC
T ss_pred             cccCcceEEEEECCCCCCHHHHHHHHHh-cCCCc--ceeeeccccceeeeeccCCCeeEEEEEECCCCH
Confidence            3466789999999999999999997665 44433  444444433332  2323567889999999986

>3r7w_B Gtpase2, GTP-binding protein GTR2; RAG gtpases, GTR1P, GTR2P, MTOR, protein transport; HET: GNP; 2.77A {Saccharomyces cerevisiae} PDB: 4arz_B*

Probab=99.35  E-value=4.1e-13  Score=98.34  Aligned_cols=54  Identities=20%  Similarity=0.289  Sum_probs=42.3

Q ss_pred             EEEEEcCCCCCchhhhhhhhhCcCCC---CccCCceeEeEEEEEEecCCeEEEEEEEeCCCCC
Q psy10878         72 KVIVIGDPTVGKTSFVQRYVQNTFKK---DYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQN  131 (131)
Q Consensus        72 ki~vvG~~~vGKSsli~~~~~~~~~~---~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gqe  131 (131)
                      |++++|++|||||||++++.++.+..   .+.||++.++..    + + ..++++||||||||
T Consensus         1 KIvllGdsgvGKTSLl~~~~~~~~~~~~~~~~~Tig~~~~~----v-~-~~v~LqIWDTAGQE   57 (331)
T 3r7w_B            1 MVLLMGVRRCGKSSICKVVFHNMQPLDTLYLESTSNPSLEH----F-S-TLIDLAVMELPGQL   57 (331)
T ss_dssp             CEEEECSTTSSTTHHHHHHHSCCCSGGGTTCCCCCSCCCEE----E-C-SSSCEEEEECCSCS
T ss_pred             CEEEECCCCCCHHHHHHHHHcCCCCCccceecCeeeeeeEE----E-c-cEEEEEEEECCCch
Confidence            68999999999999999887654332   356899988752    2 3 24789999999997

>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=99.35  E-value=1.8e-12  Score=91.99  Aligned_cols=61  Identities=23%  Similarity=0.276  Sum_probs=47.7

Q ss_pred             ceeeEEEEEcCCCCCchhhhhhhhhCcCCCCccCCceeEeEEEEEEecCCeEEEEEEEeCCCCC
Q psy10878         68 EKLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQN  131 (131)
Q Consensus        68 ~~~~ki~vvG~~~vGKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gqe  131 (131)
                      ...++|+++|.+|||||||+|++.+..+.....|++..+.....+.. ++  +.+.||||||++
T Consensus         3 ~~~~kI~lvG~~nvGKTsL~n~l~g~~~~~~~~pg~tv~~~~~~~~~-~~--~~~~l~DtpG~~   63 (258)
T 3a1s_A            3 LHMVKVALAGCPNVGKTSLFNALTGTKQYVANWPGVTVEKKEGVFTY-KG--YTINLIDLPGTY   63 (258)
T ss_dssp             CEEEEEEEECCTTSSHHHHHHHHHTTCEEEEECTTSCCEEEEEEEEE-TT--EEEEEEECCCCS
T ss_pred             CCceEEEEECCCCCCHHHHHHHHHCCCCcccCCCCceEEEEEEEEEE-CC--eEEEEEECCCcC
Confidence            45789999999999999999999987775555566666655555554 34  678999999984

>2x77_A ADP-ribosylation factor; GTP-binding protein, small GTPase, nucleotide-binding; HET: GDP; 2.10A {Leishmania major}

Probab=99.34  E-value=4.1e-13  Score=90.14  Aligned_cols=57  Identities=30%  Similarity=0.589  Sum_probs=46.2

Q ss_pred             eeeEEEEEcCCCCCchhhhhhhhhCcCCCCccCCceeEeEEEEEEecCCeEEEEEEEeCCCCC
Q psy10878         69 KLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQN  131 (131)
Q Consensus        69 ~~~ki~vvG~~~vGKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gqe  131 (131)
                      ..+||+++|++|||||||++++..+.+. .+.||++..  ...+.+ +  .+.+++|||+||+
T Consensus        21 ~~~~i~v~G~~~~GKssli~~l~~~~~~-~~~~t~~~~--~~~~~~-~--~~~~~~~Dt~G~~   77 (189)
T 2x77_A           21 RKIRVLMLGLDNAGKTSILYRLHLGDVV-TTVPTVGVN--LETLQY-K--NISFEVWDLGGQT   77 (189)
T ss_dssp             SCEEEEEEEETTSSHHHHHHHTCCSCCE-EECSSTTCC--EEEEEE-T--TEEEEEEEECCSS
T ss_pred             CceEEEEECCCCCCHHHHHHHHHcCCCC-CcCCCCceE--EEEEEE-C--CEEEEEEECCCCH
Confidence            4689999999999999999999988776 467888743  445555 4  3678999999985

>3r7w_A Gtpase1, GTP-binding protein GTR1; RAG gtpases, GTR1P, GTR2P, MTOR, protein transport; HET: GNP; 2.77A {Saccharomyces cerevisiae} PDB: 4arz_A*

Probab=99.33  E-value=1.4e-12  Score=94.69  Aligned_cols=59  Identities=25%  Similarity=0.495  Sum_probs=45.6

Q ss_pred             eeeEEEEEcCCCCCchhhhhhhhhC--cCC-CCccCCceeEeEEEEEEecCCeEEEEEEEeCCCCC
Q psy10878         69 KLFKVIVIGDPTVGKTSFVQRYVQN--TFK-KDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQN  131 (131)
Q Consensus        69 ~~~ki~vvG~~~vGKSsli~~~~~~--~~~-~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gqe  131 (131)
                      ..+||+++|++|||||||++++.++  .+. ..+.+|++..+..  +.+ ++ .+.++|||||||+
T Consensus         2 ~~~KI~lvG~~~vGKSSLi~~l~~~~~~~~~~~~~~Ti~~~~~~--~~~-~~-~~~l~i~Dt~G~~   63 (307)
T 3r7w_A            2 LGSKLLLMGRSGSGKSSMRSIIFSNYSAFDTRRLGATIDVEHSH--LRF-LG-NMTLNLWDCGGQD   63 (307)
T ss_dssp             CEEEEEEECCTTSSHHHHHHHHHSCCCTGGGGGCCCCCSEEEEE--EEE-TT-TEEEEEEEECCSH
T ss_pred             CceEEEEECCCCCCHHHHHHHHHhCCCCccccCcCCccceEEEE--EEe-CC-ceEEEEEECCCcH
Confidence            3579999999999999999999876  332 2466788877653  333 44 4789999999985

>3t5d_A Septin-7; GTP-binding protein, cytoskeleton, signaling protein; HET: GDP; 3.30A {Homo sapiens} PDB: 3tw4_A*

Probab=99.33  E-value=1.2e-12  Score=93.41  Aligned_cols=62  Identities=23%  Similarity=0.427  Sum_probs=42.9

Q ss_pred             ceeeEEEEEcCCCCCchhhhhhhhh-CcCCCCc-------cCCceeEeEEEEEEecCCeEEEEEEEeCCCC
Q psy10878         68 EKLFKVIVIGDPTVGKTSFVQRYVQ-NTFKKDY-------KGTVGVDFALKIVKWRDQQKIKLQLWDIAGQ  130 (131)
Q Consensus        68 ~~~~ki~vvG~~~vGKSsli~~~~~-~~~~~~~-------~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gq  130 (131)
                      ...++|+++|.+|+|||||+|++++ +.+...+       .+|++.++....+.. +|..+.+.||||||+
T Consensus         6 g~~~~I~vvG~~g~GKSTLin~L~~~~~~~~~~~~~~~~~~~t~~~~~~~~~~~~-~~~~~~l~liDTpG~   75 (274)
T 3t5d_A            6 GFEFTLMVVGESGLGKSTLINSLFLTDLYSPEYPGPSHRIKKTVQVEQSKVLIKE-GGVQLLLTIVDTPGF   75 (274)
T ss_dssp             -CEEEEEEEECTTSSHHHHHHHHSSSCC---------------CCCEEEEEEECC---CCEEEEEEECCCC
T ss_pred             ccEEEEEEECCCCCCHHHHHHHHhCCCccccCCCCcccccCCceEEEEEEEEEec-CCeEEEEEEEECCCc
Confidence            4578999999999999999999664 4455555       677877776666655 677789999999997

>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=99.32  E-value=1.8e-12  Score=89.78  Aligned_cols=60  Identities=20%  Similarity=0.244  Sum_probs=41.9

Q ss_pred             ceeeEEEEEcCCCCCchhhhhhhhhCcCCCCccCCceeEeEEEEEEecCCeEEEEEEEeCCCC
Q psy10878         68 EKLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQ  130 (131)
Q Consensus        68 ~~~~ki~vvG~~~vGKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gq  130 (131)
                      ...+||+++|.+|||||||+++|+++.+.....+....+.....+.+ ++  +.+.||||||+
T Consensus        27 ~~~~kI~vvG~~~vGKSsLin~l~~~~~~~~~~~~~t~~~~~~~~~~-~~--~~~~l~DtpG~   86 (228)
T 2qu8_A           27 PHKKTIILSGAPNVGKSSFMNIVSRANVDVQSYSFTTKNLYVGHFDH-KL--NKYQIIDTPGL   86 (228)
T ss_dssp             TTSEEEEEECSTTSSHHHHHHHHTTTCEEEECC-----CEEEEEEEE-TT--EEEEEEECTTT
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHhCCCCccCCCCCcceeeeeeeeec-CC--CeEEEEECCCC
Confidence            45789999999999999999999988775333333333343344444 33  67899999998

>2dyk_A GTP-binding protein; GTPase, ribosome-binding protein, structural genomics; HET: GDP; 1.96A {Thermus thermophilus}

Probab=99.32  E-value=2.6e-12  Score=83.67  Aligned_cols=58  Identities=28%  Similarity=0.396  Sum_probs=39.8

Q ss_pred             eEEEEEcCCCCCchhhhhhhhhCcCC-CCccCCceeEeEEEEEEecCCeEEEEEEEeCCCCC
Q psy10878         71 FKVIVIGDPTVGKTSFVQRYVQNTFK-KDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQN  131 (131)
Q Consensus        71 ~ki~vvG~~~vGKSsli~~~~~~~~~-~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gqe  131 (131)
                      .|++++|++|+|||||++++.++.+. ....++...++....+.+ ++.  .+.+|||+|++
T Consensus         2 ~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~-~~~--~~~l~Dt~G~~   60 (161)
T 2dyk_A            2 HKVVIVGRPNVGKSSLFNRLLKKRSAVVADVPGVTRDLKEGVVET-DRG--RFLLVDTGGLW   60 (161)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHCCC-----------CCEEEEEEE-TTE--EEEEEECGGGC
T ss_pred             CEEEEECCCCCCHHHHHHHHhCCCeeeccCCCCceecceEEEEEe-CCc--eEEEEECCCCC
Confidence            58999999999999999999987653 233344455555666666 554  67899999975

>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=99.29  E-value=5.2e-12  Score=89.97  Aligned_cols=59  Identities=22%  Similarity=0.311  Sum_probs=49.4

Q ss_pred             eeEEEEEcCCCCCchhhhhhhhhCcCCCCccCCceeEeEEEEEEecCCeEEEEEEEeCCCCC
Q psy10878         70 LFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQN  131 (131)
Q Consensus        70 ~~ki~vvG~~~vGKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gqe  131 (131)
                      .++++++|.+|||||||++++.+..+...+.|+++.+.....+.+ ++.  .+.+|||||++
T Consensus         3 ~~~i~lvG~~g~GKTTL~n~l~g~~~~~~~~~~~t~~~~~~~~~~-~~~--~~~l~DtpG~~   61 (271)
T 3k53_A            3 LKTVALVGNPNVGKTTIFNALTGLRQHVGNWPGVTVEKKEGIMEY-REK--EFLVVDLPGIY   61 (271)
T ss_dssp             CEEEEEEECSSSSHHHHHHHHHTTCEEEEECTTSSCEEEEEEEEE-TTE--EEEEEECCCCS
T ss_pred             eeEEEEECCCCCCHHHHHHHHhCCCcccCCCCCeEEEeeEEEEEE-CCc--eEEEEeCCCcc
Confidence            579999999999999999999988776666788887877777777 554  48999999974

>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=99.28  E-value=5.4e-12  Score=89.52  Aligned_cols=57  Identities=18%  Similarity=0.277  Sum_probs=47.5

Q ss_pred             EEEEEcCCCCCchhhhhhhhhCcCCCCccCCceeEeEEEEEEecCCeEEEEEEEeCCCCC
Q psy10878         72 KVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQN  131 (131)
Q Consensus        72 ki~vvG~~~vGKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gqe  131 (131)
                      +|+++|.+|||||||+|++.+..+.....|+++.+.....+.+ ++.  .+.||||||++
T Consensus         3 kI~lvG~~n~GKSTL~n~L~g~~~~v~~~pg~Tv~~~~~~~~~-~~~--~~~lvDtpG~~   59 (256)
T 3iby_A            3 HALLIGNPNCGKTTLFNALTNANQRVGNWPGVTVEKKTGEFLL-GEH--LIEITDLPGVY   59 (256)
T ss_dssp             EEEEEESTTSSHHHHHHHHHTTSEEEEECTTSSSEEEEEEEEE-TTE--EEEEEECCCCS
T ss_pred             EEEEECCCCCCHHHHHHHHHCCCCCccCCCCceEEEEEEEEEE-CCe--EEEEEeCCCcc
Confidence            7999999999999999999987765556677777777777777 654  68999999974

>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=99.26  E-value=4e-12  Score=90.91  Aligned_cols=59  Identities=19%  Similarity=0.265  Sum_probs=48.2

Q ss_pred             eeEEEEEcCCCCCchhhhhhhhhCcCCCCccCCceeEeEEEEEEecCCeEEEEEEEeCCCCC
Q psy10878         70 LFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQN  131 (131)
Q Consensus        70 ~~ki~vvG~~~vGKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gqe  131 (131)
                      .++|+++|.+|||||||+|++.+..+...+.|+++.+.....+.+ ++.  .+.+|||||++
T Consensus         3 ~~~I~lvG~~n~GKSTLin~l~g~~~~v~~~~g~t~~~~~~~~~~-~~~--~~~liDtpG~~   61 (274)
T 3i8s_A            3 KLTIGLIGNPNSGKTTLFNQLTGSRQRVGNWAGVTVERKEGQFST-TDH--QVTLVDLPGTY   61 (274)
T ss_dssp             CEEEEEEECTTSSHHHHHHHHHTTCEEEEECTTSSSEEEEEEEEC-SSC--EEEEEECCCCS
T ss_pred             ccEEEEECCCCCCHHHHHHHHhCCCcccCCCCCeeEEEEEEEEEe-CCC--ceEEEECcCCC
Confidence            579999999999999999999988776566677777777777766 453  46889999974

>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=99.25  E-value=6.5e-12  Score=84.42  Aligned_cols=58  Identities=21%  Similarity=0.346  Sum_probs=36.9

Q ss_pred             ceeeEEEEEcCCCCCchhhhhhhhhCcCCCCccCCceeEeEEEEEEecCCeEEEEEEEeCCC
Q psy10878         68 EKLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAG  129 (131)
Q Consensus        68 ~~~~ki~vvG~~~vGKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~G  129 (131)
                      ...++|+++|.+|||||||+++++++.+...+.++.+.........+ ++   .+.+|||||
T Consensus        21 ~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~t~~~~~~~~-~~---~~~l~Dt~G   78 (195)
T 1svi_A           21 GGLPEIALAGRSNVGKSSFINSLINRKNLARTSSKPGKTQTLNFYII-ND---ELHFVDVPG   78 (195)
T ss_dssp             SCCCEEEEEEBTTSSHHHHHHHHHTC-------------CCEEEEEE-TT---TEEEEECCC
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHhCCCCccccCCCCCceeeEEEEEE-CC---cEEEEECCC
Confidence            45689999999999999999999988876666677765554444444 44   389999999

>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=99.25  E-value=3.9e-12  Score=91.04  Aligned_cols=58  Identities=22%  Similarity=0.280  Sum_probs=42.1

Q ss_pred             eeEEEEEcCCCCCchhhhhhhhhCcCCCCccCCceeEeEEEEEEecCCeEEEEEEEeCCCCC
Q psy10878         70 LFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQN  131 (131)
Q Consensus        70 ~~ki~vvG~~~vGKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gqe  131 (131)
                      .++|+++|.+|||||||+|++.+..+.....|++..+.  +...+ +. .+.+++|||||++
T Consensus         3 ~~kI~lvG~~nvGKSTL~n~L~g~~~~v~~~pg~tv~~--~~~~~-~~-~~~l~l~DtpG~~   60 (272)
T 3b1v_A            3 MTEIALIGNPNSGKTSLFNLITGHNQRVGNWPGVTVER--KSGLV-KK-NKDLEIQDLPGIY   60 (272)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHCCCCCCCSSSCCCCSC--EEEEC-TT-CTTEEEEECCCCS
T ss_pred             ceEEEEECCCCCCHHHHHHHHHCCCCcccCCCCCcEEE--EEEEE-ec-CCeEEEEECCCcC
Confidence            57999999999999999999997654333345444333  33333 44 5678999999985

>3dpu_A RAB family protein; roccor, G-domain, COR, GTP-binding, nucleotide-binding, SIGN protein; 2.90A {Chlorobaculum tepidum}

Probab=99.24  E-value=3e-12  Score=99.14  Aligned_cols=65  Identities=28%  Similarity=0.476  Sum_probs=43.1

Q ss_pred             CceeeEEEEEcCCCCCchhhhhhhhhCcCCCCccCCceeEeEEEE------EEec-CCeEEEEEEEeCCCCC
Q psy10878         67 PEKLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKI------VKWR-DQQKIKLQLWDIAGQN  131 (131)
Q Consensus        67 ~~~~~ki~vvG~~~vGKSsli~~~~~~~~~~~~~~t~~~~~~~~~------~~~~-~~~~~~l~i~Dt~Gqe  131 (131)
                      ....+||+++|.+|||||||++++.+..+...+.||++.++..+.      +.+. ++..+.+.+|||+|||
T Consensus        38 ~~~~~kV~lvG~~~vGKSSLl~~l~~~~~~~~~~~t~g~~~~~~~~~~~~~v~~~~~~~~~~~~i~Dt~G~e  109 (535)
T 3dpu_A           38 HLQEIKVHLIGDGMAGKTSLLKQLIGETFDPKESQTHGLNVVTKQAPNIKGLENDDELKECLFHFWDFGGQE  109 (535)
T ss_dssp             CCCEEEEEEESSSCSSHHHHHHHHHC-----------CCCEEEEEGGGSGGGTTCSTTTTCEEEEECCCSCC
T ss_pred             cccceEEEEECCCCCCHHHHHHHHhcCCCCCCCCCccceEEEEeccccccceeecCCCceEEEEEEECCcHH
Confidence            456799999999999999999999999998888899998876542      2111 2345789999999986

>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=99.23  E-value=2e-11  Score=85.17  Aligned_cols=61  Identities=11%  Similarity=0.279  Sum_probs=43.1

Q ss_pred             CceeeEEEEEcCCCCCchhhhhhhhhCcCCCCccC--CceeEeEEEEEEecCCeEEEEEEEeCCCC
Q psy10878         67 PEKLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKG--TVGVDFALKIVKWRDQQKIKLQLWDIAGQ  130 (131)
Q Consensus        67 ~~~~~ki~vvG~~~vGKSsli~~~~~~~~~~~~~~--t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gq  130 (131)
                      ....++|+++|.+|||||||+|++++..+.....+  +++.+.....+.+ ++.  .+.||||||.
T Consensus        26 ~~~~~~i~lvG~~g~GKStlin~l~g~~~~~~~~~~~~~t~~~~~~~~~~-~~~--~i~liDTpG~   88 (239)
T 3lxx_A           26 RNSQLRIVLVGKTGAGKSATGNSILGRKVFHSGTAAKSITKKCEKRSSSW-KET--ELVVVDTPGI   88 (239)
T ss_dssp             --CEEEEEEECCTTSSHHHHHHHHHTSCCSCC-------CCSCEEEEEEE-TTE--EEEEEECCSC
T ss_pred             CCCceEEEEECCCCCCHHHHHHHHcCCCcCccCCCCCceeeeEEEEEEEe-CCc--eEEEEECCCc
Confidence            45678999999999999999999998877655544  4444555555666 554  5789999993

>3def_A T7I23.11 protein; chloroplast, TOC33, GTPase, hydrolase; HET: GDP; 1.96A {Arabidopsis thaliana} PDB: 3bb3_A* 3bb4_A* 2j3e_A*

Probab=99.23  E-value=2.4e-11  Score=86.19  Aligned_cols=60  Identities=18%  Similarity=0.273  Sum_probs=42.9

Q ss_pred             ceeeEEEEEcCCCCCchhhhhhhhhCcC--CCCccCCceeEeEEEEEEecCCeEEEEEEEeCCCCC
Q psy10878         68 EKLFKVIVIGDPTVGKTSFVQRYVQNTF--KKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQN  131 (131)
Q Consensus        68 ~~~~ki~vvG~~~vGKSsli~~~~~~~~--~~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gqe  131 (131)
                      ...++|+++|.+|+|||||++++++..+  ...+.+ .........+.+ ++.  .+.||||||++
T Consensus        34 ~~~~~I~lvG~~g~GKSSLin~l~~~~~~~~~~~~~-~t~~~~~~~~~~-~~~--~l~liDTpG~~   95 (262)
T 3def_A           34 MNSMTVLVLGKGGVGKSSTVNSLIGEQVVRVSPFQA-EGLRPVMVSRTM-GGF--TINIIDTPGLV   95 (262)
T ss_dssp             CCEEEEEEEECTTSSHHHHHHHHHTSCCSCCCSSCC--CCCCEEEEEEE-TTE--EEEEEECCCSE
T ss_pred             CCCcEEEEECCCCCCHHHHHHHHhCCCCcccCCCCC-cceeeEEEEEEE-CCe--eEEEEECCCCC
Confidence            3578999999999999999999998765  223322 233333445555 553  78999999984

>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=99.22  E-value=9.9e-12  Score=94.17  Aligned_cols=57  Identities=25%  Similarity=0.445  Sum_probs=37.8

Q ss_pred             EEEEEcCCCCCchhhhhhhhhCcCC-CCccCCceeEeEEEEEEecCCeEEEEEEEeCCCCC
Q psy10878         72 KVIVIGDPTVGKTSFVQRYVQNTFK-KDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQN  131 (131)
Q Consensus        72 ki~vvG~~~vGKSsli~~~~~~~~~-~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gqe  131 (131)
                      +|+++|.+|||||||+|++++.++. ....|+++.++....+.+ ++.  .+++|||||++
T Consensus         3 ~v~ivG~pnvGKStL~nrl~~~~~~~v~~~~g~T~d~~~~~~~~-~~~--~~~l~DT~G~~   60 (439)
T 1mky_A            3 TVLIVGRPNVGKSTLFNKLVKKKKAIVEDEEGVTRDPVQDTVEW-YGK--TFKLVDTCGVF   60 (439)
T ss_dssp             EEEEECCTTSSHHHHHHHHHC--------------CCSEEEEEE-TTE--EEEEEECTTTT
T ss_pred             EEEEECCCCCCHHHHHHHHhCCCCceecCCCCCccceeeEEEEE-CCe--EEEEEECCCcc
Confidence            7999999999999999999977642 234456666666677777 665  46899999975

>3o47_A ADP-ribosylation factor GTPase-activating protein ribosylation factor 1; structural genomics consortium, GTPase activation; HET: GDP; 2.80A {Homo sapiens}

Probab=99.21  E-value=6.3e-12  Score=92.08  Aligned_cols=58  Identities=22%  Similarity=0.548  Sum_probs=43.5

Q ss_pred             ceeeEEEEEcCCCCCchhhhhhhhhCcCCCCccCCceeEeEEEEEEecCCeEEEEEEEeCCCCC
Q psy10878         68 EKLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQN  131 (131)
Q Consensus        68 ~~~~ki~vvG~~~vGKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gqe  131 (131)
                      ...+||+++|.+|||||||+++|.++.+... .||++..+.  .+.. +  .+.++||||+|||
T Consensus       163 ~~~~kI~ivG~~~vGKSsLl~~l~~~~~~~~-~pT~~~~~~--~~~~-~--~~~l~i~Dt~G~~  220 (329)
T 3o47_A          163 KKEMRILMVGLDAAGKTTILYKLKLGEIVTT-IPTIGFNVE--TVEY-K--NISFTVWDVGGQD  220 (329)
T ss_dssp             CCSEEEEEEESTTSSHHHHHHHTCSSCCEEE-EEETTEEEE--EEEE-T--TEEEEEEECC---
T ss_pred             cCcceEEEECCCCccHHHHHHHHhCCCCCCc-ccccceEEE--EEec-C--cEEEEEEECCCCH
Confidence            4568999999999999999999998887644 478776553  3433 3  3679999999986

>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=99.18  E-value=9.2e-13  Score=93.20  Aligned_cols=60  Identities=22%  Similarity=0.416  Sum_probs=41.7

Q ss_pred             CCceeeEEEEEcCC---------CCCchhhhhhhhh---CcCCCCccCCc-eeEeEEEEEE--------------ecCCe
Q psy10878         66 PPEKLFKVIVIGDP---------TVGKTSFVQRYVQ---NTFKKDYKGTV-GVDFALKIVK--------------WRDQQ  118 (131)
Q Consensus        66 ~~~~~~ki~vvG~~---------~vGKSsli~~~~~---~~~~~~~~~t~-~~~~~~~~~~--------------~~~~~  118 (131)
                      .....+||+++|++         |||||||+++|++   +.+...+.||+ +.++..+.+.              + ++.
T Consensus        15 ~~~~~~ki~lvG~~~~~~~~~~~~vGKSsLi~~l~~~~~~~~~~~~~~t~~~~~~~~~~i~~~~~~~~~~~~~~~~-~~~   93 (255)
T 3c5h_A           15 YFQGTYNISVVGLSGTEKEKGQCGIGKSCLCNRFVRPSADEFHLDHTSVLSTSDFGGRVVNNDHFLYWGEVSRSLE-DCV   93 (255)
T ss_dssp             SCCSCEEEEEEESCCCTTTTTTCCCSHHHHHHHHHCCSTTTCCSCCCCEECHHHHTSTTTTTCSEEEEEEEC--------
T ss_pred             CCCceeEEEEECCCccccccCCCCcCHHHHHHHHHhccCCccccccCCcccccccceeEeeccccccccccccccc-CCc
Confidence            35667999999999         9999999999998   66777777775 4444322221              2 567


Q ss_pred             EEEEEEEe
Q psy10878        119 KIKLQLWD  126 (131)
Q Consensus       119 ~~~l~i~D  126 (131)
                      .+.++|||
T Consensus        94 ~~~l~i~D  101 (255)
T 3c5h_A           94 ECKMHIVE  101 (255)
T ss_dssp             --CEEEEE
T ss_pred             EEEEEEEE
Confidence            88999999

>2yv5_A YJEQ protein; hydrolase, GTPase, permutation, structural genomics, NPPSFA, national project on protein structural and functional analyses; HET: GDP; 1.90A {Aquifex aeolicus}

Probab=99.18  E-value=3.5e-12  Score=92.48  Aligned_cols=69  Identities=23%  Similarity=0.225  Sum_probs=52.9

Q ss_pred             cCCCcEEeeccCCCcccccc-c-cc---c----c-CCCCccccccCCcccccccccccccccCCCcccCCCCCCceeeEE
Q psy10878          4 KAKKPILLPSASEDPSIDNW-D-KA---S----W-ENVTPIVSEQGDGEIIEIIDPSLKLVRVPSIRKSFNAPPEKLFKV   73 (131)
Q Consensus         4 ~~~kp~vlv~NK~Dl~~~~~-~-~~---~----~-~~~~~is~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ki   73 (131)
                      ..++|+++|+||+|+.+... . ..   +    + ..++++||+++.| +.++++.+...                  .+
T Consensus       108 ~~~~~~ilV~NK~DL~~~~~v~~~~~~~~~~~~~g~~~~~~SA~~g~g-i~~L~~~l~G~------------------i~  168 (302)
T 2yv5_A          108 YFKVEPVIVFNKIDLLNEEEKKELERWISIYRDAGYDVLKVSAKTGEG-IDELVDYLEGF------------------IC  168 (302)
T ss_dssp             HTTCEEEEEECCGGGCCHHHHHHHHHHHHHHHHTTCEEEECCTTTCTT-HHHHHHHTTTC------------------EE
T ss_pred             hCCCCEEEEEEcccCCCccccHHHHHHHHHHHHCCCeEEEEECCCCCC-HHHHHhhccCc------------------EE
Confidence            35799999999999965421 0 11   1    1 4578999999999 88876654332                  38


Q ss_pred             EEEcCCCCCchhhhhhhh
Q psy10878         74 IVIGDPTVGKTSFVQRYV   91 (131)
Q Consensus        74 ~vvG~~~vGKSsli~~~~   91 (131)
                      +++|.+|+|||||+|.+.
T Consensus       169 ~l~G~sG~GKSTLln~l~  186 (302)
T 2yv5_A          169 ILAGPSGVGKSSILSRLT  186 (302)
T ss_dssp             EEECSTTSSHHHHHHHHH
T ss_pred             EEECCCCCCHHHHHHHHH
Confidence            999999999999999988

>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=99.18  E-value=2.6e-11  Score=85.56  Aligned_cols=61  Identities=11%  Similarity=0.283  Sum_probs=44.8

Q ss_pred             CceeeEEEEEcCCCCCchhhhhhhhhCc-CCCCccCC-ceeEeEEEEEEecCCeEEEEEEEeCCCC
Q psy10878         67 PEKLFKVIVIGDPTVGKTSFVQRYVQNT-FKKDYKGT-VGVDFALKIVKWRDQQKIKLQLWDIAGQ  130 (131)
Q Consensus        67 ~~~~~ki~vvG~~~vGKSsli~~~~~~~-~~~~~~~t-~~~~~~~~~~~~~~~~~~~l~i~Dt~Gq  130 (131)
                      ....++|+++|.+|||||||++++++.. +...+.++ +..+.....+.+ ++  ..+.||||||+
T Consensus        19 ~~~~~~I~lvG~~g~GKStl~n~l~~~~~~~~~~~~~~~t~~~~~~~~~~-~~--~~i~iiDTpG~   81 (260)
T 2xtp_A           19 SRSELRIILVGKTGTGKSAAGNSILRKQAFESKLGSQTLTKTCSKSQGSW-GN--REIVIIDTPDM   81 (260)
T ss_dssp             --CCEEEEEEECTTSCHHHHHHHHHTSCCSCCCTTSCCCCCSCEEEEEEE-TT--EEEEEEECCGG
T ss_pred             CCCceEEEEECCCCCCHHHHHHHHhCCCCcccCCCCCceeeeeEEEEEEe-CC--CEEEEEECcCC
Confidence            3456899999999999999999999776 55555554 444444555555 55  45899999996

>1h65_A Chloroplast outer envelope protein OEP34; GTPase, translocon; HET: GDP; 2.0A {Pisum sativum} SCOP: c.37.1.8 PDB: 3bb1_A*

Probab=99.18  E-value=1.3e-11  Score=87.77  Aligned_cols=60  Identities=18%  Similarity=0.274  Sum_probs=40.7

Q ss_pred             ceeeEEEEEcCCCCCchhhhhhhhhCcCC--CCccCCceeEeEEEEEEecCCeEEEEEEEeCCCCC
Q psy10878         68 EKLFKVIVIGDPTVGKTSFVQRYVQNTFK--KDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQN  131 (131)
Q Consensus        68 ~~~~ki~vvG~~~vGKSsli~~~~~~~~~--~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gqe  131 (131)
                      ...++|+++|.+|+|||||+|++++..+.  ..+.++ ........+.. +  .+.+.||||||++
T Consensus        37 ~~~~~I~vvG~~g~GKSSLin~l~~~~~~~~~~~~~~-t~~~~~~~~~~-~--~~~l~iiDTpG~~   98 (270)
T 1h65_A           37 VNSLTILVMGKGGVGKSSTVNSIIGERVVSISPFQSE-GPRPVMVSRSR-A--GFTLNIIDTPGLI   98 (270)
T ss_dssp             CCEEEEEEEESTTSSHHHHHHHHHTSCCSCCCSSSCC-CSSCEEEEEEE-T--TEEEEEEECCCSE
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHhCCCcccccCCCCc-ceeeEEEEEee-C--CeEEEEEECCCCC
Confidence            34789999999999999999999987653  222222 21222223333 3  3568999999974

>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=99.18  E-value=1.7e-11  Score=81.85  Aligned_cols=52  Identities=19%  Similarity=0.454  Sum_probs=41.7

Q ss_pred             eEEEEEcCCCCCchhhhhhhhhCcCCCCccCCceeEeEEEEEEecCCeEEEEEEEeCCC
Q psy10878         71 FKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAG  129 (131)
Q Consensus        71 ~ki~vvG~~~vGKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~G  129 (131)
                      +||+++|++|||||||+++++++.+...+.|++....  ..+.+ +    .+.+|||||
T Consensus         2 ~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~~~t~~~--~~~~~-~----~~~l~Dt~G   53 (190)
T 2cxx_A            2 ATIIFAGRSNVGKSTLIYRLTGKKVRRGKRPGVTRKI--IEIEW-K----NHKIIDMPG   53 (190)
T ss_dssp             CEEEEEEBTTSSHHHHHHHHHSCCCSSSSSTTCTTSC--EEEEE-T----TEEEEECCC
T ss_pred             cEEEEECCCCCCHHHHHHHHhCcCCccCCCCCcccee--EEEec-C----CEEEEECCC
Confidence            5899999999999999999999888877777665433  33444 3    478999999

>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=99.17  E-value=5.5e-12  Score=86.44  Aligned_cols=55  Identities=18%  Similarity=0.286  Sum_probs=41.5

Q ss_pred             CceeeEEEEEcCCCCCchhhhhhhhhCcCCC---CccCCceeEeEEEEEEecCCeEEEEEEEeCCCCC
Q psy10878         67 PEKLFKVIVIGDPTVGKTSFVQRYVQNTFKK---DYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQN  131 (131)
Q Consensus        67 ~~~~~ki~vvG~~~vGKSsli~~~~~~~~~~---~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gqe  131 (131)
                      ....++++++|++|+|||||++++.+..+..   .+.|+++.++          ..+.+.+|||+|++
T Consensus         9 ~~~~~~i~~~G~~g~GKTsl~~~l~~~~~~~~~~~~~~~~~~~~----------~~~~~~l~Dt~G~~   66 (218)
T 1nrj_B            9 KSYQPSIIIAGPQNSGKTSLLTLLTTDSVRPTVVSQEPLSAADY----------DGSGVTLVDFPGHV   66 (218)
T ss_dssp             -CCCCEEEEECSTTSSHHHHHHHHHHSSCCCBCCCSSCEEETTG----------GGSSCEEEECCCCG
T ss_pred             cCCCCEEEEECCCCCCHHHHHHHHhcCCCCCeeeecCceEEEEe----------eCceEEEEECCCcH
Confidence            3456899999999999999999999887654   3445554333          23458999999985

>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=99.17  E-value=1.1e-12  Score=95.30  Aligned_cols=71  Identities=17%  Similarity=0.160  Sum_probs=53.3

Q ss_pred             cCCCcEEeeccCCCcccccc---ccccc--------CCCCccccccCCcccccccccccccccCCCcccCCCCCCceeeE
Q psy10878          4 KAKKPILLPSASEDPSIDNW---DKASW--------ENVTPIVSEQGDGEIIEIIDPSLKLVRVPSIRKSFNAPPEKLFK   72 (131)
Q Consensus         4 ~~~kp~vlv~NK~Dl~~~~~---~~~~~--------~~~~~is~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~k   72 (131)
                      ..++|+++|+||+||.+...   ....|        .+++++|+.++.| +.++++....                  -.
T Consensus       115 ~~~~~~vivlnK~DL~~~~~~~~~~~~~~~~y~~~g~~v~~~sa~~~~g-~~~L~~~~~G------------------~~  175 (307)
T 1t9h_A          115 ANDIQPIICITKMDLIEDQDTEDTIQAYAEDYRNIGYDVYLTSSKDQDS-LADIIPHFQD------------------KT  175 (307)
T ss_dssp             TTTCEEEEEEECGGGCCCHHHHHHHHHHHHHHHHHTCCEEECCHHHHTT-CTTTGGGGTT------------------SE
T ss_pred             HCCCCEEEEEECCccCchhhhHHHHHHHHHHHHhCCCeEEEEecCCCCC-HHHHHhhcCC------------------CE
Confidence            47899999999999976532   11222        5678999999998 7776543211                  15


Q ss_pred             EEEEcCCCCCchhhhhhhhhC
Q psy10878         73 VIVIGDPTVGKTSFVQRYVQN   93 (131)
Q Consensus        73 i~vvG~~~vGKSsli~~~~~~   93 (131)
                      ++++|.+|||||||+|.+.+.
T Consensus       176 ~~lvG~sG~GKSTLln~L~g~  196 (307)
T 1t9h_A          176 TVFAGQSGVGKSSLLNAISPE  196 (307)
T ss_dssp             EEEEESHHHHHHHHHHHHCC-
T ss_pred             EEEECCCCCCHHHHHHHhccc
Confidence            899999999999999998754

>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=99.16  E-value=4.8e-12  Score=93.71  Aligned_cols=72  Identities=18%  Similarity=0.135  Sum_probs=54.2

Q ss_pred             cCCCcEEeeccCCCcccccc------ccccc----CCCCccccccCCcccccccccccccccCCCcccCCCCCCceeeEE
Q psy10878          4 KAKKPILLPSASEDPSIDNW------DKASW----ENVTPIVSEQGDGEIIEIIDPSLKLVRVPSIRKSFNAPPEKLFKV   73 (131)
Q Consensus         4 ~~~kp~vlv~NK~Dl~~~~~------~~~~~----~~~~~is~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ki   73 (131)
                      ..++|++||+||+||.+.+.      ....|    .+++++|+.++.| +.++...+..                  -.+
T Consensus       158 ~~~~~~iivlNK~DL~~~~~~~~~~~~~~~y~~~G~~v~~~Sa~~~~g-l~~L~~~~~G------------------~~~  218 (358)
T 2rcn_A          158 TLQVEPLIVLNKIDLLDDEGMDFVNEQMDIYRNIGYRVLMVSSHTQDG-LKPLEEALTG------------------RIS  218 (358)
T ss_dssp             HHTCEEEEEEECGGGCCHHHHHHHHHHHHHHHTTTCCEEECBTTTTBT-HHHHHHHHTT------------------SEE
T ss_pred             hcCCCEEEEEECccCCCchhHHHHHHHHHHHHhCCCcEEEEecCCCcC-HHHHHHhcCC------------------CEE
Confidence            35899999999999976542      11122    4688999999999 8777543211                  158


Q ss_pred             EEEcCCCCCchhhhhhhhhCc
Q psy10878         74 IVIGDPTVGKTSFVQRYVQNT   94 (131)
Q Consensus        74 ~vvG~~~vGKSsli~~~~~~~   94 (131)
                      +++|.+|+|||||+|.+++..
T Consensus       219 ~lvG~sG~GKSTLln~L~g~~  239 (358)
T 2rcn_A          219 IFAGQSGVGKSSLLNALLGLQ  239 (358)
T ss_dssp             EEECCTTSSHHHHHHHHHCCS
T ss_pred             EEECCCCccHHHHHHHHhccc
Confidence            999999999999999998643

>2ged_A SR-beta, signal recognition particle receptor beta subunit; protein transport, G protein, proline isomerization, circular permutation; 2.20A {Saccharomyces cerevisiae}

Probab=99.15  E-value=5.6e-12  Score=84.72  Aligned_cols=54  Identities=19%  Similarity=0.295  Sum_probs=37.0

Q ss_pred             ceeeEEEEEcCCCCCchhhhhhhhhCcCCC---CccCCceeEeEEEEEEecCCeEEEEEEEeCCCCC
Q psy10878         68 EKLFKVIVIGDPTVGKTSFVQRYVQNTFKK---DYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQN  131 (131)
Q Consensus        68 ~~~~ki~vvG~~~vGKSsli~~~~~~~~~~---~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gqe  131 (131)
                      ...++|+++|.+|||||||++++.+..+..   .+.++++.++          ..+.+.+|||+|++
T Consensus        46 ~~~~~i~vvG~~g~GKSsll~~l~~~~~~~~~~~~~~~~~~~~----------~~~~~~l~Dt~G~~  102 (193)
T 2ged_A           46 SYQPSIIIAGPQNSGKTSLLTLLTTDSVRPTVVSQEPLSAADY----------DGSGVTLVDFPGHV  102 (193)
T ss_dssp             CCCCEEEEECCTTSSHHHHHHHHHHSSCC------------CC----------CCTTCSEEEETTCC
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHhcCCCCcccccCCCceeeee----------cCCeEEEEECCCCc
Confidence            456899999999999999999999887643   2333333222          23457899999985

>1wf3_A GTP-binding protein; GTPase, riken structural genomics/prote initiative, RSGI, structural genomics, hydrolase; HET: GNP; 1.88A {Thermus thermophilus} SCOP: c.37.1.8 d.52.3.1

Probab=99.15  E-value=8.5e-11  Score=85.17  Aligned_cols=60  Identities=15%  Similarity=0.186  Sum_probs=41.1

Q ss_pred             eeeEEEEEcCCCCCchhhhhhhhhCcCCC-CccCCceeEeEEEEEEecCCeEEEEEEEeCCCCC
Q psy10878         69 KLFKVIVIGDPTVGKTSFVQRYVQNTFKK-DYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQN  131 (131)
Q Consensus        69 ~~~ki~vvG~~~vGKSsli~~~~~~~~~~-~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gqe  131 (131)
                      +..+++++|.+|||||||+|++++..+.. ...|.+..+.....+.. +  ...+.||||||++
T Consensus         6 ~~g~V~ivG~~nvGKSTLln~l~g~~~~ivs~~~~tTr~~i~~i~~~-~--~~~l~l~DTpG~~   66 (301)
T 1wf3_A            6 YSGFVAIVGKPNVGKSTLLNNLLGVKVAPISPRPQTTRKRLRGILTE-G--RRQIVFVDTPGLH   66 (301)
T ss_dssp             EEEEEEEECSTTSSHHHHHHHHHTSCCSCCCSSSCCCCSCEEEEEEE-T--TEEEEEEECCCCC
T ss_pred             cCCEEEEECCCCCCHHHHHHHHhCCceeeecCCCCceeEEEEEEEEe-C--CcEEEEecCcccc
Confidence            45689999999999999999999887742 23332222222222333 3  3678999999974

>3pqc_A Probable GTP-binding protein ENGB; rossmann fold, GTPase, cell cycle, hydrolase; HET: GDP; 1.90A {Thermotoga maritima} PDB: 3pr1_A

Probab=99.14  E-value=6.9e-11  Score=79.06  Aligned_cols=58  Identities=21%  Similarity=0.277  Sum_probs=42.2

Q ss_pred             CceeeEEEEEcCCCCCchhhhhhhhhCcCCCCccCCceeEeEEEEEEecCCeEEEEEEEeCCC
Q psy10878         67 PEKLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAG  129 (131)
Q Consensus        67 ~~~~~ki~vvG~~~vGKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~G  129 (131)
                      ....+||+++|.+|||||||+++++++.+. .+.++.+.......... +.   .+.+|||+|
T Consensus        20 ~~~~~~i~v~G~~~~GKSsli~~l~~~~~~-~~~~~~~~t~~~~~~~~-~~---~~~i~Dt~G   77 (195)
T 3pqc_A           20 PPLKGEVAFVGRSNVGKSSLLNALFNRKIA-FVSKTPGKTRSINFYLV-NS---KYYFVDLPG   77 (195)
T ss_dssp             CCTTCEEEEEEBTTSSHHHHHHHHHTSCCS-CCCSSCCCCCCEEEEEE-TT---TEEEEECCC
T ss_pred             CCCCeEEEEECCCCCCHHHHHHHHHcCccc-cccCCCCCccCeEEEEE-CC---cEEEEECCC
Confidence            345679999999999999999999987743 45566655443333333 33   367999999

>1u0l_A Probable GTPase ENGC; permutation, OB-fold, zinc-finger, structural genomics, BSGC structure funded by NIH, protein structure initiative, PSI; HET: GDP; 2.80A {Thermotoga maritima} SCOP: b.40.4.5 c.37.1.8

Probab=99.12  E-value=1.3e-11  Score=89.32  Aligned_cols=71  Identities=14%  Similarity=0.104  Sum_probs=53.8

Q ss_pred             CCCcEEeeccCCCcccccc--cccc----cC---CCCccccccCCcccccccccccccccCCCcccCCCCCCceeeEEEE
Q psy10878          5 AKKPILLPSASEDPSIDNW--DKAS----WE---NVTPIVSEQGDGEIIEIIDPSLKLVRVPSIRKSFNAPPEKLFKVIV   75 (131)
Q Consensus         5 ~~kp~vlv~NK~Dl~~~~~--~~~~----~~---~~~~is~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ki~v   75 (131)
                      .++|++||+||+|+.+...  ...+    +.   .++++||+++.| +.++++.+...                  .+++
T Consensus       114 ~~~piilv~NK~DL~~~~~v~~~~~~~~~~~~~~~~~~~SAktg~g-v~~lf~~l~ge------------------iv~l  174 (301)
T 1u0l_A          114 NELETVMVINKMDLYDEDDLRKVRELEEIYSGLYPIVKTSAKTGMG-IEELKEYLKGK------------------ISTM  174 (301)
T ss_dssp             TTCEEEEEECCGGGCCHHHHHHHHHHHHHHTTTSCEEECCTTTCTT-HHHHHHHHSSS------------------EEEE
T ss_pred             CCCCEEEEEeHHHcCCchhHHHHHHHHHHHhhhCcEEEEECCCCcC-HHHHHHHhcCC------------------eEEE
Confidence            5789999999999965421  0111    12   568899999999 88887654433                  3889


Q ss_pred             EcCCCCCchhhhhhhhhCc
Q psy10878         76 IGDPTVGKTSFVQRYVQNT   94 (131)
Q Consensus        76 vG~~~vGKSsli~~~~~~~   94 (131)
                      +|.+|+|||||++.+.+..
T Consensus       175 ~G~sG~GKSTll~~l~g~~  193 (301)
T 1u0l_A          175 AGLSGVGKSSLLNAINPGL  193 (301)
T ss_dssp             ECSTTSSHHHHHHHHSTTC
T ss_pred             ECCCCCcHHHHHHHhcccc
Confidence            9999999999999988643

>4dhe_A Probable GTP-binding protein ENGB; melioidosis, RAS-like GTPase, cell division, cell cycle, SEP GTP-binding; 2.20A {Burkholderia thailandensis}

Probab=99.10  E-value=2.6e-11  Score=83.27  Aligned_cols=63  Identities=13%  Similarity=0.080  Sum_probs=40.1

Q ss_pred             ceeeEEEEEcCCCCCchhhhhhhhhCcCCCCccCCceeEeEEEEEEecCCeEEEEEEEeCCCC
Q psy10878         68 EKLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQ  130 (131)
Q Consensus        68 ~~~~ki~vvG~~~vGKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gq  130 (131)
                      ...++|+++|.+|+|||||++++++..+.....++.+.........+.......+.||||||.
T Consensus        27 ~~~~~i~v~G~~~~GKSslin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~l~DtpG~   89 (223)
T 4dhe_A           27 TVQPEIAFAGRSNAGKSTAINVLCNQKRLAFASKTPGRTQHINYFSVGPAAEPVAHLVDLPGY   89 (223)
T ss_dssp             CCSCEEEEEESCHHHHHHHHHHHTTCSSSSCTTCCCCSCCCEEEEEESCTTSCSEEEEECCCC
T ss_pred             CCCCEEEEEcCCCCCHHHHHHHHhCCCcceeecCCCCcccceEEEEecCCCCCcEEEEcCCCC
Confidence            346799999999999999999999876322222222222222222231123356899999994

>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=7.3e-11  Score=90.42  Aligned_cols=60  Identities=17%  Similarity=0.245  Sum_probs=33.0

Q ss_pred             eeeEEEEEcCCCCCchhhhhhhhhCcC-CCCccCCceeEeEEEEEEecCCeEEEEEEEeCCCCC
Q psy10878         69 KLFKVIVIGDPTVGKTSFVQRYVQNTF-KKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQN  131 (131)
Q Consensus        69 ~~~ki~vvG~~~vGKSsli~~~~~~~~-~~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gqe  131 (131)
                      ..++|+++|.+|||||||+|++++..+ .....++++.++....+.+ +|  +.+.||||||++
T Consensus       232 ~~~kV~ivG~~nvGKSSLln~L~~~~~a~vs~~~gtT~d~~~~~i~~-~g--~~l~liDT~G~~  292 (476)
T 3gee_A          232 EGVSTVIAGKPNAGKSTLLNTLLGQERAIVSHMPGTTRDYIEECFIH-DK--TMFRLTDTAGLR  292 (476)
T ss_dssp             HCEEEEEECCTTSSHHHHHHHCC------------------CEEEEE-TT--EEEEEEC-----
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCCCcccCCCCCceEEEEEEEEEE-CC--eEEEEEECCCCC
Confidence            458999999999999999999997643 2344455566666667777 66  468999999974

>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=99.07  E-value=7.3e-11  Score=80.27  Aligned_cols=58  Identities=17%  Similarity=0.193  Sum_probs=35.7

Q ss_pred             eeeEEEEEcCCCCCchhhhhhhhhCcCCCCccCCceeEeEEEEEEecCCeEEEEEEEeCCCC
Q psy10878         69 KLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQ  130 (131)
Q Consensus        69 ~~~ki~vvG~~~vGKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gq  130 (131)
                      ...+++++|.+|+|||||++++++..+...+.|+.|..+....+.+ ++   .+.+|||+|+
T Consensus        25 ~~~~v~lvG~~g~GKSTLl~~l~g~~~~~~~~~~~G~~~~~~~~~~-~~---~~~l~Dt~G~   82 (210)
T 1pui_A           25 TGIEVAFAGRSNAGKSSALNTLTNQKSLARTSKTPGRTQLINLFEV-AD---GKRLVDLPGY   82 (210)
T ss_dssp             CSEEEEEEECTTSSHHHHHTTTCCC-------------CCEEEEEE-ET---TEEEEECCCC
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhCCCccccccCCCccceeeEEEEe-cC---CEEEEECcCC
Confidence            4568999999999999999999987655555677776554444444 33   3689999997

>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=99.07  E-value=1.1e-10  Score=86.61  Aligned_cols=62  Identities=18%  Similarity=0.338  Sum_probs=37.5

Q ss_pred             ceeeEEEEEcCCCCCchhhhhhhhh-CcCCCCcc--------CCceeEeEEEEEEecCCeEEEEEEEeCCCC
Q psy10878         68 EKLFKVIVIGDPTVGKTSFVQRYVQ-NTFKKDYK--------GTVGVDFALKIVKWRDQQKIKLQLWDIAGQ  130 (131)
Q Consensus        68 ~~~~ki~vvG~~~vGKSsli~~~~~-~~~~~~~~--------~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gq  130 (131)
                      ...++|+++|.+|+|||||++++++ ..+...+.        +|++.++....+.. ++..+.+++|||+|+
T Consensus        35 ~~~~~I~vvG~~g~GKSTLln~L~~~~~~~~~~~~~~~~~~~~ti~~~~~~~~~~~-~~~~~~l~i~DTpG~  105 (361)
T 2qag_A           35 GFEFTLMVVGESGLGKSTLINSLFLTDLYPERVIPGAAEKIERTVQIEASTVEIEE-RGVKLRLTVVDTPGY  105 (361)
T ss_dssp             CCEECEEECCCTTSCHHHHHHHHTTCCC---------------CEEEEEEEEC-----CEEEEEEEEC----
T ss_pred             CCCEEEEEEcCCCCCHHHHHHHHhCCCCCCCCcccCCCcccCCceeEEEEEEEeec-CCcccceEEEEeccc
Confidence            4568999999999999999999664 44443332        56666655444554 677789999999997

>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=99.06  E-value=3.2e-10  Score=82.30  Aligned_cols=62  Identities=18%  Similarity=0.251  Sum_probs=42.6

Q ss_pred             CceeeEEEEEcCCCCCchhhhhhhhhCcCCC-CccCCceeEeEEEEEEecCCeEEEEEEEeCCCC
Q psy10878         67 PEKLFKVIVIGDPTVGKTSFVQRYVQNTFKK-DYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQ  130 (131)
Q Consensus        67 ~~~~~ki~vvG~~~vGKSsli~~~~~~~~~~-~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gq  130 (131)
                      +...-.|+++|.+|||||||+|++++..+.. ...+.+........+.. + ..+.+.||||||+
T Consensus         7 ~~~~g~v~ivG~~nvGKSTLin~l~g~~~~i~s~~~~tT~~~~~~~~~~-~-~~~~i~lvDTPG~   69 (308)
T 3iev_A            7 HMKVGYVAIVGKPNVGKSTLLNNLLGTKVSIISPKAGTTRMRVLGVKNI-P-NEAQIIFLDTPGI   69 (308)
T ss_dssp             CCEEEEEEEECSTTSSHHHHHHHHHTSCCSCCCSSSCCCCSCEEEEEEE-T-TTEEEEEEECCCC
T ss_pred             CCCCCEEEEECCCCCcHHHHHHHHhCCCccccCCCCCceeeEEEEEEec-C-CCCeEEEEECcCC
Confidence            5566789999999999999999999887642 22232222332333333 3 1467899999997

>3qq5_A Small GTP-binding protein; hydrogenase, H-cluster, HYDA maturation, GTP-binding domain, maturation enzyme, oxidoreductase; 2.99A {Thermotoga neapolitana}

Probab=99.02  E-value=2.6e-10  Score=86.24  Aligned_cols=63  Identities=21%  Similarity=0.200  Sum_probs=40.7

Q ss_pred             CceeeEEEEEcCCCCCchhhhhhhhhCcCC-CCccCCceeEeEEEEEEecCCeEEEEEEEeCCCCC
Q psy10878         67 PEKLFKVIVIGDPTVGKTSFVQRYVQNTFK-KDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQN  131 (131)
Q Consensus        67 ~~~~~ki~vvG~~~vGKSsli~~~~~~~~~-~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gqe  131 (131)
                      ....++|+++|.+++|||||++++++..+. ....+++..+.....+.+ .+. ..+.||||||++
T Consensus        31 ~~~~~kI~IvG~~~vGKSTLin~L~~~~~~~~~~~~gtT~d~~~~~~~~-~~~-~~l~liDTpG~~   94 (423)
T 3qq5_A           31 AGFRRYIVVAGRRNVGKSSFMNALVGQNVSIVSDYAGTTTDPVYKSMEL-HPI-GPVTLVDTPGLD   94 (423)
T ss_dssp             -CCCEEEEEECSCSTTTTTTTTSSCC-------------CCCCEEEEEE-TTT-EEEEEEECSSTT
T ss_pred             CCCCEEEEEECCCCCCHHHHHHHHHcCCCCccCCCCCeeeeeEEEEEEE-CCC-CeEEEEECcCCC
Confidence            445789999999999999999999987763 233344455555666666 443 368999999985

>2hjg_A GTP-binding protein ENGA; GTPase ENGA KH-domain, hydrolase; HET: GDP; 2.50A {Bacillus subtilis}

Probab=99.01  E-value=5.4e-11  Score=90.07  Aligned_cols=57  Identities=26%  Similarity=0.440  Sum_probs=33.2

Q ss_pred             eEEEEEcCCCCCchhhhhhhhhCcCCCCccCCcee--EeEEEEEEecCCeEEEEEEEeCCCCC
Q psy10878         71 FKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGV--DFALKIVKWRDQQKIKLQLWDIAGQN  131 (131)
Q Consensus        71 ~ki~vvG~~~vGKSsli~~~~~~~~~~~~~~t~~~--~~~~~~~~~~~~~~~~l~i~Dt~Gqe  131 (131)
                      .+|+++|.+|||||||+|++++.++. ...++.|.  +.....+.+ ++  ..+.+|||+|++
T Consensus         4 ~~V~ivG~~nvGKStL~n~l~~~~~~-~v~~~~g~T~d~~~~~~~~-~~--~~~~l~DT~G~~   62 (436)
T 2hjg_A            4 PVVAIVGRPNVGKSTIFNRIAGERIS-IVEDTPGVTRDRIYSSAEW-LN--YDFNLIDTGGID   62 (436)
T ss_dssp             CEEEEECSTTSSHHHHHHHHEEEECC------------CEEEECTT-CS--SCCEEEC-----
T ss_pred             CEEEEECCCCCCHHHHHHHHhCCCce-eecCCCCCccceEEEEEEE-CC--ceEEEEECCCCC
Confidence            58999999999999999999987664 22333343  443444444 33  458999999984

>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=1.2e-10  Score=89.36  Aligned_cols=59  Identities=17%  Similarity=0.272  Sum_probs=45.4

Q ss_pred             eeEEEEEcCCCCCchhhhhhhhhCcC-CCCccCCceeEeEEEEEEecCCeEEEEEEEeCCCCC
Q psy10878         70 LFKVIVIGDPTVGKTSFVQRYVQNTF-KKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQN  131 (131)
Q Consensus        70 ~~ki~vvG~~~vGKSsli~~~~~~~~-~~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gqe  131 (131)
                      .++|+++|.+|||||||+|++++.++ .....|+++.++....+.+ ++.  .+.||||||++
T Consensus       243 ~~kV~ivG~pnvGKSSLln~L~~~~~a~vs~~~gTT~d~~~~~i~~-~g~--~~~l~DTaG~~  302 (482)
T 1xzp_A          243 GLRMVIVGKPNVGKSTLLNRLLNEDRAIVTDIPGTTRDVISEEIVI-RGI--LFRIVDTAGVR  302 (482)
T ss_dssp             CEEEEEECCHHHHTCHHHHHHHHHTBCCCCCSSCCSSCSCCEEEEE-TTE--EEEEEESSCCC
T ss_pred             CCEEEEECcCCCcHHHHHHHHHCCCCCccCCCCCeeeeeEEEEEec-CCe--EEEEEECCCcc
Confidence            47999999999999999999997654 2333455555666677777 664  57899999974

>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=98.99  E-value=1.6e-10  Score=85.76  Aligned_cols=58  Identities=22%  Similarity=0.352  Sum_probs=37.4

Q ss_pred             eEEEEEcCCCCCchhhhhhhhhCcCCCCccC--CceeEeEEEEEEecCCe---------------EEEEEEEeCCCCC
Q psy10878         71 FKVIVIGDPTVGKTSFVQRYVQNTFKKDYKG--TVGVDFALKIVKWRDQQ---------------KIKLQLWDIAGQN  131 (131)
Q Consensus        71 ~ki~vvG~~~vGKSsli~~~~~~~~~~~~~~--t~~~~~~~~~~~~~~~~---------------~~~l~i~Dt~Gqe  131 (131)
                      ++++++|.+|||||||+|++.+..+.....|  |+..+.  ..+.+ .+.               ...+++|||||++
T Consensus         3 ~kI~IVG~pnvGKSTL~n~Lt~~~~~v~~~p~tTi~p~~--g~v~~-~~~r~~~l~~~~~~~~~~~~~i~lvDtpGl~   77 (363)
T 1jal_A            3 FKCGIVGLPNVGKSTLFNALTKAGIEAANYPFCTIEPNT--GVVPM-PDPRLDALAEIVKPERILPTTMEFVDIAGLV   77 (363)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHTC------CCCCCCCCS--SEEEC-CCHHHHHHHHHHCCSEEECCEEEEEECCSCC
T ss_pred             CEEEEECCCCCCHHHHHHHHHCCCCcccCCCCceECceE--EEEec-CCcccceeeeeecccceeeeEEEEEECCCCc
Confidence            6899999999999999999998664322222  333222  12333 332               2568999999984

>2aka_B Dynamin-1; fusion protein, GTPase domain, myosin, contractIle protein; 1.90A {Rattus norvegicus} SCOP: c.37.1.8 PDB: 3l43_A*

Probab=98.94  E-value=2.7e-10  Score=81.55  Aligned_cols=29  Identities=28%  Similarity=0.534  Sum_probs=25.5

Q ss_pred             ceeeEEEEEcCCCCCchhhhhhhhhCcCC
Q psy10878         68 EKLFKVIVIGDPTVGKTSFVQRYVQNTFK   96 (131)
Q Consensus        68 ~~~~ki~vvG~~~vGKSsli~~~~~~~~~   96 (131)
                      ....+|+++|.+|||||||+|++++..+.
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            34579999999999999999999988773

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

Probab=98.93  E-value=2.4e-09  Score=81.20  Aligned_cols=62  Identities=15%  Similarity=0.234  Sum_probs=43.8

Q ss_pred             CceeeEEEEEcCCCCCchhhhhhhhhCc-------------------------------CCCCccCCceeEeEEEEEEec
Q psy10878         67 PEKLFKVIVIGDPTVGKTSFVQRYVQNT-------------------------------FKKDYKGTVGVDFALKIVKWR  115 (131)
Q Consensus        67 ~~~~~ki~vvG~~~vGKSsli~~~~~~~-------------------------------~~~~~~~t~~~~~~~~~~~~~  115 (131)
                      ....++++++|.+++|||||+++++...                               +..+..++++.+.....+.. 
T Consensus        14 ~k~~~~i~iiG~~d~GKSTL~~~Ll~~~~~i~~~~~~~~~~~~~~~g~~~~~~a~~~d~~~~er~~GiTid~~~~~~~~-   92 (439)
T 3j2k_7           14 KKEHVNVVFIGHVDAGKSTIGGQIMYLTGMVDKRTLEKYEREAKEKNRETWYLSWALDTNQEERDKGKTVEVGRAYFET-   92 (439)
T ss_pred             CCceeEEEEEeCCCCCHHHHHHHHHHHcCCCchHHHHHHHHHHHhccccchhhhhhhccchhHhhcCceEEEeEEEEec-
Confidence            4457899999999999999999995421                               11122345555665555655 


Q ss_pred             CCeEEEEEEEeCCCCC
Q psy10878        116 DQQKIKLQLWDIAGQN  131 (131)
Q Consensus       116 ~~~~~~l~i~Dt~Gqe  131 (131)
                      ++  ..+.||||||++
T Consensus        93 ~~--~~~~iiDTPGh~  106 (439)
T 3j2k_7           93 EK--KHFTILDAPGHK  106 (439)
T ss_pred             CC--eEEEEEECCChH
Confidence            33  478999999985

>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=98.92  E-value=2.1e-10  Score=87.60  Aligned_cols=59  Identities=24%  Similarity=0.266  Sum_probs=40.8

Q ss_pred             eeeEEEEEcCCCCCchhhhhhhhhCcCC-CCccCCceeEeEEEEEEecCCeEEEEEEEeCCCC
Q psy10878         69 KLFKVIVIGDPTVGKTSFVQRYVQNTFK-KDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQ  130 (131)
Q Consensus        69 ~~~ki~vvG~~~vGKSsli~~~~~~~~~-~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gq  130 (131)
                      ..++++++|.+|||||||+|++++..+. ....++++.++....+.+ +|.  .+.||||||+
T Consensus       223 ~~~kV~ivG~~nvGKSSLln~L~~~~~a~v~~~~gtT~d~~~~~i~~-~g~--~v~liDT~G~  282 (462)
T 3geh_A          223 TGLKVAIVGRPNVGKSSLLNAWSQSDRAIVTDLPGTTRDVVESQLVV-GGI--PVQVLDTAGI  282 (462)
T ss_dssp             HCEEEEEEECTTSSHHHHHHHHHHHHBSCCSCCTTCCHHHHHHEEEE-TTE--EEEECC----
T ss_pred             CCCEEEEEcCCCCCHHHHHHHHhCCCcccccCCCCeeEEEEEEEEEE-CCE--EEEEEECCcc
Confidence            4689999999999999999999976542 333455555555556666 664  4689999996

>2ohf_A Protein OLA1, GTP-binding protein 9; ATPase, GTPase, P-loop, OBG-like, hydrolase; HET: ACP; 2.70A {Homo sapiens}

Probab=98.90  E-value=6.1e-10  Score=83.44  Aligned_cols=62  Identities=23%  Similarity=0.252  Sum_probs=36.0

Q ss_pred             eeeEEEEEcCCCCCchhhhhhhhhCcCCCCccCCceeEeEEEEEEecCCe---------------EEEEEEEeCCCCC
Q psy10878         69 KLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQ---------------KIKLQLWDIAGQN  131 (131)
Q Consensus        69 ~~~ki~vvG~~~vGKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~---------------~~~l~i~Dt~Gqe  131 (131)
                      ..+++.++|.+|||||||+|++.+..+.....|+.+.+.....+.+ .+.               ...+++|||||+.
T Consensus        21 ~~~kvgIVG~pnvGKSTL~n~Ltg~~~~~~~~p~tTi~p~~g~v~v-~~~r~~~l~~~~~p~~~~~~~i~lvDtpGl~   97 (396)
T 2ohf_A           21 TSLKIGIVGLPNVGKSTFFNVLTNSQASAENFPFCTIDPNESRVPV-PDERFDFLCQYHKPASKIPAFLNVVDIAGLV   97 (396)
T ss_dssp             SCCCEEEECCSSSSHHHHHHHHHC-------------CCSEEEEEC-CCHHHHHHHHHHCCSEEECCEEEEEECCC--
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHCCCccccCCCccccCceeEEEEE-CCccceeeccccCcccccccccEEEECCCcc
Confidence            3568999999999999999999977664444444444444444544 332               2358999999974

>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=98.89  E-value=1.3e-09  Score=81.80  Aligned_cols=25  Identities=28%  Similarity=0.535  Sum_probs=20.8

Q ss_pred             eEEEEEcCCCCCchhhhhhhhhCcC
Q psy10878         71 FKVIVIGDPTVGKTSFVQRYVQNTF   95 (131)
Q Consensus        71 ~ki~vvG~~~vGKSsli~~~~~~~~   95 (131)
                      ++|+++|.+|||||||+|++.+...
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            4899999999999999999997653

>2qnr_A Septin-2, protein NEDD5; structural genomics consortium, SGC, mitosis, GDP, C cycle, cell division, GTP-binding, nucleotide-binding; HET: GDP; 2.60A {Homo sapiens} PDB: 2qa5_A* 3ftq_A*

Probab=98.88  E-value=8.4e-10  Score=79.92  Aligned_cols=63  Identities=17%  Similarity=0.338  Sum_probs=32.5

Q ss_pred             CceeeEEEEEcCCCCCchhhhhhhhhC-cCCCCc--------cCCceeEeEEEEEEecCCeEEEEEEEeCCCC
Q psy10878         67 PEKLFKVIVIGDPTVGKTSFVQRYVQN-TFKKDY--------KGTVGVDFALKIVKWRDQQKIKLQLWDIAGQ  130 (131)
Q Consensus        67 ~~~~~ki~vvG~~~vGKSsli~~~~~~-~~~~~~--------~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gq  130 (131)
                      ....++++++|++|+|||||++++.+. .+...+        .+++........++. ++....+++|||+|+
T Consensus        15 ~~~~~~I~lvG~nG~GKSTLl~~L~g~~~~~~~gi~~~g~~~~~t~~~~~~~~~~q~-~~~~~~ltv~Dt~g~   86 (301)
T 2qnr_A           15 KGFEFTLMVVGESGLGKSTLINSLFLTDLYPERVISGAAEKIERTVQIEASTVEIEE-RGVKLRLTVVDTPGY   86 (301)
T ss_dssp             ---CEEEEEEEETTSSHHHHHHHHHC------------------------CEEEEC----CCEEEEEEEEC--
T ss_pred             cCCCEEEEEECCCCCCHHHHHHHHhCCCccCCCCcccCCcccCCcceEeeEEEEecC-CCcccCcchhhhhhh
Confidence            445689999999999999999997754 554433        123322221222222 455678999999997

>2e87_A Hypothetical protein PH1320; GTP-binding, GTPase, OBG, bundle, GDP, complex, structural G NPPSFA; HET: GDP; 2.35A {Pyrococcus horikoshii}

Probab=98.86  E-value=2.1e-09  Score=79.35  Aligned_cols=60  Identities=15%  Similarity=0.208  Sum_probs=41.0

Q ss_pred             ceeeEEEEEcCCCCCchhhhhhhhhCcCCCCccCCceeEeEEEEEEecCCeEEEEEEEeCCCC
Q psy10878         68 EKLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQ  130 (131)
Q Consensus        68 ~~~~ki~vvG~~~vGKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gq  130 (131)
                      ...++++++|.+|||||||++++.+..+.....+....+.....+.. ++  ..+.+|||+|+
T Consensus       165 ~~~~~v~lvG~~gvGKSTLin~L~~~~~~~~~~~~~t~~~~~~~~~~-~~--~~~~l~Dt~G~  224 (357)
T 2e87_A          165 LEIPTVVIAGHPNVGKSTLLKALTTAKPEIASYPFTTRGINVGQFED-GY--FRYQIIDTPGL  224 (357)
T ss_dssp             SSSCEEEEECSTTSSHHHHHHHHCSSCCEEECCTTCSSCEEEEEEEE-TT--EEEEEEECTTT
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHhCCCCccCCCCCeeeceeEEEEEe-cC--ceEEEEeCCCc
Confidence            34679999999999999999999977653222222222333334433 33  56899999997

>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=98.86  E-value=2.9e-09  Score=77.03  Aligned_cols=60  Identities=15%  Similarity=0.206  Sum_probs=39.5

Q ss_pred             eeeEEEEEcCCCCCchhhhhhhhhCcCC-CCccCCceeEeEEEEEEecCCeEEEEEEEeCCCCC
Q psy10878         69 KLFKVIVIGDPTVGKTSFVQRYVQNTFK-KDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQN  131 (131)
Q Consensus        69 ~~~ki~vvG~~~vGKSsli~~~~~~~~~-~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gqe  131 (131)
                      +..+++++|.+|||||||+|++++..+. ....+.+..+.....+.. ++  ..+.+|||||++
T Consensus         7 r~~~VaIvG~~nvGKSTLln~L~g~~~~i~s~~~~tTr~~~~gi~~~-~~--~~i~~iDTpG~~   67 (301)
T 1ega_A            7 YCGFIAIVGRPNVGKSTLLNKLLGQKISITSRKAQTTRHRIVGIHTE-GA--YQAIYVDTPGLH   67 (301)
T ss_dssp             EEEEEEEECSSSSSHHHHHHHHHTCSEEECCCCSSCCSSCEEEEEEE-TT--EEEEEESSSSCC
T ss_pred             cCCEEEEECCCCCCHHHHHHHHHCCCccccCCCCCcceeeEEEEEEE-CC--eeEEEEECcCCC
Confidence            3458999999999999999999987653 222232221221222333 33  568899999974

>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=98.86  E-value=2.3e-09  Score=79.53  Aligned_cols=58  Identities=22%  Similarity=0.180  Sum_probs=37.7

Q ss_pred             eeE-EEEEcCCCCCchhhhhhhhhCcCCCCccCCceeEeEEEEEEecCCeEEEEEEEeCCCC
Q psy10878         70 LFK-VIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQ  130 (131)
Q Consensus        70 ~~k-i~vvG~~~vGKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gq  130 (131)
                      .++ ++++|.+|+|||||+|++.+..+.....+....++....+.+ +|.  .+.+|||+|+
T Consensus       178 ~~~~V~lvG~~naGKSTLln~L~~~~~~~~~~~~~T~d~~~~~i~~-~g~--~v~l~DT~G~  236 (364)
T 2qtf_A          178 NIPSIGIVGYTNSGKTSLFNSLTGLTQKVDTKLFTTMSPKRYAIPI-NNR--KIMLVDTVGF  236 (364)
T ss_dssp             -CCEEEEECBTTSSHHHHHHHHHCC-----------CCSCEEEEEE-TTE--EEEEEECCCB
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHCCCccccCCcccccCCEEEEEEE-CCE--EEEEEeCCCc
Confidence            345 999999999999999999977664333333333455666777 664  5789999995

>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=98.86  E-value=4.7e-10  Score=85.34  Aligned_cols=59  Identities=22%  Similarity=0.265  Sum_probs=36.2

Q ss_pred             eeeEEEEEcCCCCCchhhhhhhhhCcCCCCccCCceeEeEEEEEEecCCeEEEEEEEeCCC
Q psy10878         69 KLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAG  129 (131)
Q Consensus        69 ~~~ki~vvG~~~vGKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~G  129 (131)
                      ...+|+++|.+|||||||+|++++.++. ...++.|.+........ +.....+++|||+|
T Consensus        22 ~~~~V~lvG~~nvGKSTL~n~l~~~~~~-~v~~~~g~t~~~~~~~~-~~~~~~~~liDT~G   80 (456)
T 4dcu_A           22 GKPVVAIVGRPNVGKSTIFNRIAGERIS-IVEDTPGVTRDRIYSSA-EWLNYDFNLIDTGG   80 (456)
T ss_dssp             -CCEEEEECSSSSSHHHHHHHHEEEEEC------------CEEEEC-TTCSSCCEEECCCC
T ss_pred             CCCEEEEECCCCCcHHHHHHHHhCCCCc-ccCCCCCcceeEEEEEE-EECCceEEEEECCC
Confidence            3568999999999999999999987664 22334444333222222 33335689999999

>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=98.84  E-value=6.3e-09  Score=78.51  Aligned_cols=65  Identities=22%  Similarity=0.359  Sum_probs=38.3

Q ss_pred             CCceeeEEEEEcCCCCCchhhhhhhhhCcCCCC-c-------cCCceeEeEEEEEEecCCeEEEEEEEeCCCCC
Q psy10878         66 PPEKLFKVIVIGDPTVGKTSFVQRYVQNTFKKD-Y-------KGTVGVDFALKIVKWRDQQKIKLQLWDIAGQN  131 (131)
Q Consensus        66 ~~~~~~ki~vvG~~~vGKSsli~~~~~~~~~~~-~-------~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gqe  131 (131)
                      .....++++++|++|+|||||++++++..+... +       .++++..+....+.. ++....+++|||+|++
T Consensus        27 l~~vsf~I~lvG~sGaGKSTLln~L~g~~~~~~~~~~~~~~~~~t~~~~~i~~v~q~-~~~~~~Ltv~Dt~g~~   99 (418)
T 2qag_C           27 KRGFEFTLMVVGESGLGKSTLINSLFLTDLYSPEYPGPSHRIKKTVQVEQSKVLIKE-GGVQLLLTIVDTPGFG   99 (418)
T ss_dssp             C-CCCEEEEEECCTTSSHHHHHHHHTTCCCCCCCCCSCC-----CCEEEEEECC-------CEEEEEEECC---
T ss_pred             ecCCCEEEEEECCCCCcHHHHHHHHhCCCCCCCCCCCcccCCccceeeeeEEEEEec-CCcccceeeeechhhh
Confidence            345678999999999999999999998766311 1       234443332222222 3445679999999973

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

Probab=98.79  E-value=1.7e-10  Score=89.49  Aligned_cols=60  Identities=17%  Similarity=0.238  Sum_probs=45.1

Q ss_pred             eeEEEEEcCCCCCchhhhhhhhhCcCCCCccCCceeEeEEEEEEecCCeEEEEEEEeCCCCC
Q psy10878         70 LFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQN  131 (131)
Q Consensus        70 ~~ki~vvG~~~vGKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gqe  131 (131)
                      ..+|+++|.+++|||||+++|.+..+...+.++++.++....+.+.++  ..++||||||++
T Consensus         4 ~pkV~IvG~~~vGKTSLl~~L~~~~~~~~~~~giT~~i~~~~v~~~~g--~~i~~iDTPGhe   63 (537)
T 3izy_P            4 SPVVTIMGHVDHGKTTLLDKLRKTQVAAMEAGGITQHIGAFLVSLPSG--EKITFLDTPGHA   63 (537)
T ss_dssp             CCBCEEEESTTTTHHHHHHHHHHHHHHHSSSCCBCCCTTSCCBCSSCS--SCCBCEECSSSC
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCCCcccccCCceeEEEeEEEEEeCCC--CEEEEEECCChH
Confidence            457999999999999999999987776666677666554444433223  358899999985

>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=2.4e-09  Score=82.01  Aligned_cols=26  Identities=19%  Similarity=0.436  Sum_probs=23.0

Q ss_pred             ceeeEEEEEcCCCCCchhhhhhhhhC
Q psy10878         68 EKLFKVIVIGDPTVGKTSFVQRYVQN   93 (131)
Q Consensus        68 ~~~~ki~vvG~~~vGKSsli~~~~~~   93 (131)
                      ...+||+++|.+++|||||+++|+..
T Consensus        31 k~~~ki~iiG~~~~GKSTLi~~Ll~~   56 (483)
T 3p26_A           31 LPHLSFVVLGHVDAGKSTLMGRLLYD   56 (483)
T ss_dssp             CCEEEEEEESCGGGTHHHHHHHHHHH
T ss_pred             CCceEEEEECCCCCCHHHHHHHHHHh
Confidence            35689999999999999999999754

>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=98.72  E-value=4.1e-09  Score=77.70  Aligned_cols=27  Identities=30%  Similarity=0.602  Sum_probs=24.3

Q ss_pred             eeEEEEEcCCCCCchhhhhhhhhCcCC
Q psy10878         70 LFKVIVIGDPTVGKTSFVQRYVQNTFK   96 (131)
Q Consensus        70 ~~ki~vvG~~~vGKSsli~~~~~~~~~   96 (131)
                      ..+|+++|.+|||||||+|++++..+.
T Consensus        31 ~~~I~vvG~~~~GKSSLln~L~g~~~~   57 (353)
T 2x2e_A           31 LPQIAVVGGQSAGKSSVLENFVGRDFL   57 (353)
T ss_dssp             CCEEEEECBTTSSHHHHHHTTTTSCCS
T ss_pred             CCeEEEECCCCCCHHHHHHHHhCCCcC
Confidence            468999999999999999999988773

>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=98.72  E-value=7.4e-09  Score=79.41  Aligned_cols=62  Identities=18%  Similarity=0.292  Sum_probs=39.0

Q ss_pred             CceeeEEEEEcCCCCCchhhhhhhhhCc-------CCCCccCCceeEeEEEEEEecCCeEEEEEEEeCCCCC
Q psy10878         67 PEKLFKVIVIGDPTVGKTSFVQRYVQNT-------FKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQN  131 (131)
Q Consensus        67 ~~~~~ki~vvG~~~vGKSsli~~~~~~~-------~~~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gqe  131 (131)
                      ....++++++|..++|||||++++.+..       +..+..+.+..+.....+.+ ++  ..+.||||||++
T Consensus        16 ~m~~~~I~iiG~~d~GKSTLi~~L~~~~~~~~~d~~~~e~~~GiTi~~~~~~~~~-~~--~~i~iiDtPGh~   84 (482)
T 1wb1_A           16 DFKNINLGIFGHIDHGKTTLSKVLTEIASTSAHDKLPESQKRGITIDIGFSAFKL-EN--YRITLVDAPGHA   84 (482)
T ss_dssp             CCEEEEEEEEECTTSSHHHHHHHHHTTC--------------------CCCEEEE-TT--EEEEECCCSSHH
T ss_pred             cCCCCEEEEECCCCChHHHHHHHHHCCCcccccccccccccCccEEecceEEEEE-CC--EEEEEEECCChH
Confidence            4467899999999999999999998765       23333343333333334555 44  568999999974

>3izq_1 HBS1P, elongation factor 1 alpha-like protein; NO-GO mRNA decay, ribosomal protein,hydrolase; 9.50A {Saccharomyces cerevisiae}

Probab=98.70  E-value=6.5e-09  Score=81.80  Aligned_cols=27  Identities=19%  Similarity=0.423  Sum_probs=23.7

Q ss_pred             CceeeEEEEEcCCCCCchhhhhhhhhC
Q psy10878         67 PEKLFKVIVIGDPTVGKTSFVQRYVQN   93 (131)
Q Consensus        67 ~~~~~ki~vvG~~~vGKSsli~~~~~~   93 (131)
                      ....++|+++|.+++|||||+++++..
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            345789999999999999999999854

>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=98.68  E-value=7.5e-09  Score=76.93  Aligned_cols=24  Identities=25%  Similarity=0.522  Sum_probs=21.4

Q ss_pred             eEEEEEcCCCCCchhhhhhhhhCc
Q psy10878         71 FKVIVIGDPTVGKTSFVQRYVQNT   94 (131)
Q Consensus        71 ~ki~vvG~~~vGKSsli~~~~~~~   94 (131)
                      ++++++|.+|||||||+|++.+..
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            479999999999999999998654

>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=98.68  E-value=2.5e-08  Score=74.82  Aligned_cols=63  Identities=13%  Similarity=0.194  Sum_probs=39.8

Q ss_pred             eeeEEEEEcCCCCCchhhhhhhhhC---cCCCCccC--CceeEeEEEEEEec------------C--Ce----EEEEEEE
Q psy10878         69 KLFKVIVIGDPTVGKTSFVQRYVQN---TFKKDYKG--TVGVDFALKIVKWR------------D--QQ----KIKLQLW  125 (131)
Q Consensus        69 ~~~ki~vvG~~~vGKSsli~~~~~~---~~~~~~~~--t~~~~~~~~~~~~~------------~--~~----~~~l~i~  125 (131)
                      ..++++++|..++|||||++++.+.   .+..++.+  |+...|....+...            +  +.    ...+.||
T Consensus         7 ~~~~I~iiG~~d~GKSTLi~~L~g~~~~~~~~e~~~giTi~~~~~~~~~~~~~~~~~y~~~~~~~~~g~~~~~~~~i~ii   86 (408)
T 1s0u_A            7 AEVNIGMVGHVDHGKTSLTKALTGVWTDRHSEELRRGISIRLGYADCEIRKCPQCGTYTTKPRCPNCLAETEFLRRVSFV   86 (408)
T ss_dssp             CCEEEEEESCTTSSHHHHHHHHHSCCCCC-------CCCCCCEEEEEEEEECTTTCCEESSSBCTTSCCBCEEEEEEEEE
T ss_pred             CceEEEEEcCCCCCHHHHHHHHhCCccccCcccccCCcEEEecccccccccccccccccccccccccCcccccccEEEEE
Confidence            4689999999999999999999843   34444445  55555544433210            0  21    3679999


Q ss_pred             eCCCCC
Q psy10878        126 DIAGQN  131 (131)
Q Consensus       126 Dt~Gqe  131 (131)
                      ||||++
T Consensus        87 DtPGh~   92 (408)
T 1s0u_A           87 DSPGHE   92 (408)
T ss_dssp             ECSSHH
T ss_pred             ECCCHH
Confidence            999974

>3mca_A HBS1, elongation factor 1 alpha-like protein; protein protein complex, translation regulation; 2.74A {Schizosaccharomyces pombe}

Probab=98.66  E-value=6.5e-09  Score=81.52  Aligned_cols=26  Identities=23%  Similarity=0.524  Sum_probs=22.9

Q ss_pred             CceeeEEEEEcCCCCCchhhhhhhhh
Q psy10878         67 PEKLFKVIVIGDPTVGKTSFVQRYVQ   92 (131)
Q Consensus        67 ~~~~~ki~vvG~~~vGKSsli~~~~~   92 (131)
                      ....++|+++|.+++|||||+++++.
T Consensus       174 ~k~~~~I~iiG~~d~GKSTLi~~Ll~  199 (592)
T 3mca_A          174 PKPVVHLVVTGHVDSGKSTMLGRIMF  199 (592)
T ss_dssp             CCCEEEEEEECCSSSTHHHHHHHHHH
T ss_pred             CCCccEEEEEcCCCCCHHHHHHHHHH
Confidence            44678999999999999999999963

>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=98.66  E-value=2e-08  Score=72.37  Aligned_cols=27  Identities=30%  Similarity=0.602  Sum_probs=24.2

Q ss_pred             eeeEEEEEcCCCCCchhhhhhhhhCcC
Q psy10878         69 KLFKVIVIGDPTVGKTSFVQRYVQNTF   95 (131)
Q Consensus        69 ~~~ki~vvG~~~vGKSsli~~~~~~~~   95 (131)
                      ...+|+++|.+|+|||||+|++++..+
T Consensus        23 ~~~~I~vvG~~~~GKSTlln~l~g~~~   49 (315)
T 1jwy_B           23 DLPQIVVVGSQSSGKSSVLENIVGRDF   49 (315)
T ss_dssp             CCCEEEEEECSSSSHHHHHHHHHTSCC
T ss_pred             CCCeEEEEcCCCCCHHHHHHHHHCCCc
Confidence            346899999999999999999998776

>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=98.64  E-value=6.4e-08  Score=72.61  Aligned_cols=65  Identities=15%  Similarity=0.267  Sum_probs=43.0

Q ss_pred             CceeeEEEEEcCCCCCchhhhhhhhhC---cCCCCccC--CceeEeEEEEEEec------------C--Ce----EEEEE
Q psy10878         67 PEKLFKVIVIGDPTVGKTSFVQRYVQN---TFKKDYKG--TVGVDFALKIVKWR------------D--QQ----KIKLQ  123 (131)
Q Consensus        67 ~~~~~ki~vvG~~~vGKSsli~~~~~~---~~~~~~~~--t~~~~~~~~~~~~~------------~--~~----~~~l~  123 (131)
                      ....++|+++|..++|||||++++.+.   .+..++.+  |+...|....+...            +  +.    ...+.
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            346789999999999999999999843   34444445  55545543333210            0  11    36799


Q ss_pred             EEeCCCCC
Q psy10878        124 LWDIAGQN  131 (131)
Q Consensus       124 i~Dt~Gqe  131 (131)
                      ||||||++
T Consensus        87 iiDtPGh~   94 (410)
T 1kk1_A           87 FIDAPGHE   94 (410)
T ss_dssp             EEECSSHH
T ss_pred             EEECCChH
Confidence            99999974

>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=98.64  E-value=8.5e-09  Score=78.04  Aligned_cols=25  Identities=32%  Similarity=0.555  Sum_probs=22.6

Q ss_pred             eeeEEEEEcCCCCCchhhhhhhhhC
Q psy10878         69 KLFKVIVIGDPTVGKTSFVQRYVQN   93 (131)
Q Consensus        69 ~~~ki~vvG~~~vGKSsli~~~~~~   93 (131)
                      ..++++++|..++|||||+++++..
T Consensus         5 ~~~~I~iiG~~~~GKSTLi~~Ll~~   29 (435)
T 1jny_A            5 PHLNLIVIGHVDHGKSTLVGRLLMD   29 (435)
T ss_dssp             CEEEEEEEESTTSSHHHHHHHHHHH
T ss_pred             CEEEEEEEeCCCCCHHHHHHHHHHH
Confidence            4689999999999999999999853

>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=98.63  E-value=2.4e-09  Score=82.44  Aligned_cols=59  Identities=17%  Similarity=0.219  Sum_probs=41.4

Q ss_pred             eeEEEEEcCCCCCchhhhhhhhhCcCCCCccCCceeEeEEEEEEecCCeEEEEEEEeCCCCC
Q psy10878         70 LFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQN  131 (131)
Q Consensus        70 ~~ki~vvG~~~vGKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gqe  131 (131)
                      ..+++++|..++|||||++++....+.....+++..+.....+.+ ++.  .+.||||||++
T Consensus         4 ~~~V~IvGhvd~GKTTLl~~L~~~~v~~~e~~GIT~~i~~~~v~~-~~~--~i~~iDTPGhe   62 (501)
T 1zo1_I            4 APVVTIMGHVDHGKTSLLEYIRSTKVASGEAGGITQHIGAYHVET-ENG--MITFLDTPGHA   62 (501)
T ss_dssp             CCCEEEEESTTSSSHHHHHHHHHHHHSBTTBCCCCCCSSCCCCCT-TSS--CCCEECCCTTT
T ss_pred             CeEEEEECCCCCCHHHHHHHHHcCCCccccCCCeeEeEEEEEEEE-CCE--EEEEEECCCcH
Confidence            457999999999999999999976665444444433332233433 443  57899999985

>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=98.63  E-value=3.1e-08  Score=74.94  Aligned_cols=26  Identities=15%  Similarity=0.547  Sum_probs=23.2

Q ss_pred             ceeeEEEEEcCCCCCchhhhhhhhhC
Q psy10878         68 EKLFKVIVIGDPTVGKTSFVQRYVQN   93 (131)
Q Consensus        68 ~~~~ki~vvG~~~vGKSsli~~~~~~   93 (131)
                      ...++++++|..++|||||+++++.+
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            35689999999999999999999854

>4a9a_A Ribosome-interacting GTPase 1; DRG-DFRP complex, ribosome binding GTPase; 2.67A {Saccharomyces cerevisiae}

Probab=98.62  E-value=2.7e-08  Score=74.15  Aligned_cols=60  Identities=17%  Similarity=0.295  Sum_probs=43.4

Q ss_pred             CceeeEEEEEcCCCCCchhhhhhhhhCcCCCCccCCceeEeEEEEEEecCCeEEEEEEEeCCC
Q psy10878         67 PEKLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAG  129 (131)
Q Consensus        67 ~~~~~ki~vvG~~~vGKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~G  129 (131)
                      ......|.+||.||||||||+|++.+........|....+.....+.+ ++.  .+++.||||
T Consensus        69 k~g~a~V~ivG~PNvGKSTL~n~Lt~~~~~v~~~pftT~~~~~g~~~~-~~~--~i~l~D~pG  128 (376)
T 4a9a_A           69 RTGVASVGFVGFPSVGKSTLLSKLTGTESEAAEYEFTTLVTVPGVIRY-KGA--KIQMLDLPG  128 (376)
T ss_dssp             BCSSEEEEEECCCCHHHHHHHHHHHSBCCCGGGTCSSCCCEEEEEEEE-TTE--EEEEEECGG
T ss_pred             ecCCCeEEEECCCCCCHHHHHHHHhCCCCcccCCCCceeeeeeEEEEe-CCc--EEEEEeCCC
Confidence            444568999999999999999999865543333344444555566666 554  578999998

>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=98.61  E-value=1.1e-08  Score=77.94  Aligned_cols=26  Identities=23%  Similarity=0.408  Sum_probs=23.0

Q ss_pred             ceeeEEEEEcCCCCCchhhhhhhhhC
Q psy10878         68 EKLFKVIVIGDPTVGKTSFVQRYVQN   93 (131)
Q Consensus        68 ~~~~ki~vvG~~~vGKSsli~~~~~~   93 (131)
                      ...++++++|.+++|||||+++++..
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            35689999999999999999999853

>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=98.61  E-value=1.1e-08  Score=76.63  Aligned_cols=25  Identities=24%  Similarity=0.255  Sum_probs=22.7

Q ss_pred             ceeeEEEEEcCCCCCchhhhhhhhh
Q psy10878         68 EKLFKVIVIGDPTVGKTSFVQRYVQ   92 (131)
Q Consensus        68 ~~~~ki~vvG~~~vGKSsli~~~~~   92 (131)
                      ...++++++|.+++|||||++++++
T Consensus         9 ~~~~~I~iiG~~~~GKSTLi~~L~~   33 (405)
T 2c78_A            9 KPHVNVGTIGHVDHGKTTLTAALTY   33 (405)
T ss_dssp             CCEEEEEEECSTTSSHHHHHHHHHH
T ss_pred             CCeEEEEEEcCCCCCHHHHHHHHHh
Confidence            3568999999999999999999986

>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=98.61  E-value=1.7e-08  Score=74.53  Aligned_cols=24  Identities=29%  Similarity=0.581  Sum_probs=22.7

Q ss_pred             EEEEEcCCCCCchhhhhhhhhCcC
Q psy10878         72 KVIVIGDPTVGKTSFVQRYVQNTF   95 (131)
Q Consensus        72 ki~vvG~~~vGKSsli~~~~~~~~   95 (131)
                      .|+++|++|+|||||++++.+..|
T Consensus        36 ~I~vvG~~~sGKSSLln~l~g~~~   59 (360)
T 3t34_A           36 AIAVVGGQSSGKSSVLESIVGKDF   59 (360)
T ss_dssp             EEEEECBTTSSHHHHHHHHHTSCC
T ss_pred             EEEEECCCCCcHHHHHHHHhCCCc
Confidence            799999999999999999998776

>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=98.58  E-value=7e-09  Score=76.39  Aligned_cols=55  Identities=27%  Similarity=0.396  Sum_probs=36.4

Q ss_pred             EEEEEcCCCCCchhhhhhhhhCcCC-CCcc-CCceeEeEEEEEEecCCeEEEEEEEeCCCC
Q psy10878         72 KVIVIGDPTVGKTSFVQRYVQNTFK-KDYK-GTVGVDFALKIVKWRDQQKIKLQLWDIAGQ  130 (131)
Q Consensus        72 ki~vvG~~~vGKSsli~~~~~~~~~-~~~~-~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gq  130 (131)
                      +|+++|.+|||||||++++.+.... ..|. .|....  ...+.+ ++ ...+.||||||+
T Consensus       160 ~V~lvG~~nvGKSTLln~L~~~~~~i~~~~ftTl~p~--~g~v~~-~~-~~~~~l~DtPG~  216 (342)
T 1lnz_A          160 DVGLVGFPSVGKSTLLSVVSSAKPKIADYHFTTLVPN--LGMVET-DD-GRSFVMADLPGL  216 (342)
T ss_dssp             CEEEESSTTSSHHHHHHHSEEECCEESSTTSSCCCCC--EEEEEC-SS-SCEEEEEEHHHH
T ss_pred             eeeeeCCCCCCHHHHHHHHHcCCCccccCCccccCce--EEEEEe-CC-CceEEEecCCCC
Confidence            5889999999999999999876542 2232 222222  233444 33 135889999984

>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=98.58  E-value=1.3e-07  Score=70.86  Aligned_cols=28  Identities=25%  Similarity=0.228  Sum_probs=24.1

Q ss_pred             CceeeEEEEEcCCCCCchhhhhhhhhCc
Q psy10878         67 PEKLFKVIVIGDPTVGKTSFVQRYVQNT   94 (131)
Q Consensus        67 ~~~~~ki~vvG~~~vGKSsli~~~~~~~   94 (131)
                      ....++|+++|.+++|||||++++.+..
T Consensus         5 ~~~~~~I~vvG~~~~GKSTLi~~L~~~~   32 (403)
T 3sjy_A            5 VQPEVNIGVVGHVDHGKTTLVQAITGIW   32 (403)
T ss_dssp             CCCCCEEEEECSTTSSHHHHHHHHHSCC
T ss_pred             cCCCcEEEEECCCCCCHHHHHHHHhCcc
Confidence            3456899999999999999999998643

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

Probab=98.58  E-value=7e-08  Score=75.78  Aligned_cols=62  Identities=16%  Similarity=0.303  Sum_probs=33.2

Q ss_pred             eeEEEEEcCCCCCchhhhhhhhhC--cCCC-----Ccc------CCceeEeE--EEEEEec--CCeEEEEEEEeCCCCC
Q psy10878         70 LFKVIVIGDPTVGKTSFVQRYVQN--TFKK-----DYK------GTVGVDFA--LKIVKWR--DQQKIKLQLWDIAGQN  131 (131)
Q Consensus        70 ~~ki~vvG~~~vGKSsli~~~~~~--~~~~-----~~~------~t~~~~~~--~~~~~~~--~~~~~~l~i~Dt~Gqe  131 (131)
                      ..+++++|..++|||||+++++..  .+..     .+.      .+.|.++.  ...+.+.  ++..+.++||||||++
T Consensus         4 irnI~IiGh~d~GKTTLi~rLl~~tg~i~~~~~~~~~~D~~~~ErerGiTi~~~~~~~~~~~~~g~~~~l~liDTPGh~   82 (599)
T 3cb4_D            4 IRNFSIIAHIDHGKSTLSDRIIQICGGLSDREMEAQVLDSMDLERERGITIKAQSVTLDYKASDGETYQLNFIDTPGHV   82 (599)
T ss_dssp             EEEEEEECCC----CCHHHHHHHHTTC--------------------------CEEEEEEECTTSCEEEEEEEECCCCG
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHhcCCcccccccccccccchhhhcccceeeeeEEEEEEecCCCCeEEEEEEECCCch
Confidence            468999999999999999999852  1110     110      11222222  2223332  4667899999999984

>3tr5_A RF-3, peptide chain release factor 3; protein synthesis, translation; HET: GDP; 2.11A {Coxiella burnetii}

Probab=98.54  E-value=1.2e-08  Score=79.01  Aligned_cols=23  Identities=22%  Similarity=0.439  Sum_probs=20.9

Q ss_pred             eeeEEEEEcCCCCCchhhhhhhh
Q psy10878         69 KLFKVIVIGDPTVGKTSFVQRYV   91 (131)
Q Consensus        69 ~~~ki~vvG~~~vGKSsli~~~~   91 (131)
                      ...+|+++|.+++|||||+++++
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            35689999999999999999996

>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=98.54  E-value=2.7e-08  Score=74.47  Aligned_cols=24  Identities=25%  Similarity=0.253  Sum_probs=22.0

Q ss_pred             eeEEEEEcCCCCCchhhhhhhhhC
Q psy10878         70 LFKVIVIGDPTVGKTSFVQRYVQN   93 (131)
Q Consensus        70 ~~ki~vvG~~~vGKSsli~~~~~~   93 (131)
                      .++++++|..++|||||++++++.
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            579999999999999999999863

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

Probab=98.52  E-value=5.1e-08  Score=72.48  Aligned_cols=49  Identities=14%  Similarity=0.150  Sum_probs=35.3

Q ss_pred             EEEEEcCCCCCchhhhhhhhhCcCCCCccCCceeEeEEEEEEecCCeEEEEEEEeCCCCC
Q psy10878         72 KVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQN  131 (131)
Q Consensus        72 ki~vvG~~~vGKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gqe  131 (131)
                      +++++|.+++|||||+++++      .+..|+...+  ..+.+ ++  ..+.||||||++
T Consensus        23 ~i~iiG~~d~GKSTL~~~L~------~~giTi~~~~--~~~~~-~~--~~i~iiDtPGh~   71 (370)
T 2elf_A           23 NVAIIGTEKSGRTSLAANLG------KKGTSSDITM--YNNDK-EG--RNMVFVDAHSYP   71 (370)
T ss_dssp             EEEEEESTTSSHHHHHHTTS------EEEEESSSEE--EEECS-SS--SEEEEEECTTTT
T ss_pred             EEEEECCCCCCHHHHHHHHH------hCCEEEEeeE--EEEec-CC--eEEEEEECCChH
Confidence            89999999999999999998      2223333222  33433 33  458999999985

>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=98.52  E-value=2.7e-08  Score=77.11  Aligned_cols=24  Identities=25%  Similarity=0.433  Sum_probs=22.0

Q ss_pred             eeeEEEEEcCCCCCchhhhhhhhh
Q psy10878         69 KLFKVIVIGDPTVGKTSFVQRYVQ   92 (131)
Q Consensus        69 ~~~ki~vvG~~~vGKSsli~~~~~   92 (131)
                      ...+|+++|.+++|||||+++++.
T Consensus        12 ~~~~I~IiG~~~aGKTTL~~~Ll~   35 (529)
T 2h5e_A           12 KRRTFAIISHPDAGKTTITEKVLL   35 (529)
T ss_dssp             TEEEEEEEECTTSSHHHHHHHHHH
T ss_pred             CCCEEEEECCCCChHHHHHHHHHh
Confidence            457999999999999999999985

>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=98.52  E-value=1.2e-07  Score=77.17  Aligned_cols=25  Identities=24%  Similarity=0.353  Sum_probs=22.4

Q ss_pred             eeeEEEEEcCCCCCchhhhhhhhhC
Q psy10878         69 KLFKVIVIGDPTVGKTSFVQRYVQN   93 (131)
Q Consensus        69 ~~~ki~vvG~~~vGKSsli~~~~~~   93 (131)
                      ...||+++|..++|||||+++++..
T Consensus        18 ~~rnI~IiG~~~~GKTTL~~~Ll~~   42 (842)
T 1n0u_A           18 NVRNMSVIAHVDHGKSTLTDSLVQR   42 (842)
T ss_dssp             GEEEEEEECCGGGTHHHHHHHHHHH
T ss_pred             cccEEEEECCCCCCHHHHHHHHHHh
Confidence            4679999999999999999999853

>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=98.51  E-value=7e-08  Score=72.25  Aligned_cols=61  Identities=23%  Similarity=0.318  Sum_probs=41.8

Q ss_pred             eeeEEEEEcCCCCCchhhhhhhhhCcC-CCCccCCceeEeEEEEEEecCCe---------------EEEEEEEeCCCC
Q psy10878         69 KLFKVIVIGDPTVGKTSFVQRYVQNTF-KKDYKGTVGVDFALKIVKWRDQQ---------------KIKLQLWDIAGQ  130 (131)
Q Consensus        69 ~~~ki~vvG~~~vGKSsli~~~~~~~~-~~~~~~t~~~~~~~~~~~~~~~~---------------~~~l~i~Dt~Gq  130 (131)
                      ...++.++|.+|+|||||+|.+.+... .....|....+.....+.+ .+.               ...+.+|||+|.
T Consensus        19 ~g~~vgiVG~pnaGKSTL~n~Ltg~~~a~~~~~p~tTi~p~~G~v~v-~~~r~~~l~~~~~~~~~v~~~i~lvD~pGl   95 (392)
T 1ni3_A           19 NNLKTGIVGMPNVGKSTFFRAITKSVLGNPANYPYATIDPEEAKVAV-PDERFDWLCEAYKPKSRVPAFLTVFDIAGL   95 (392)
T ss_dssp             SCCEEEEEECSSSSHHHHHHHHHHSTTTSTTCCSSCCCCTTEEEEEE-CCHHHHHHHHHHCCSEEECEEEEEECTGGG
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHCCCcccccCCCceeecceeeeeee-CCcchhhhhhhcccccccCcceEEEecccc
Confidence            356899999999999999999998665 4344454443343344444 331               135899999984

>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=98.48  E-value=5.5e-08  Score=74.24  Aligned_cols=25  Identities=16%  Similarity=0.352  Sum_probs=22.4

Q ss_pred             ceeeEEEEEcCCCCCchhhhhhhhh
Q psy10878         68 EKLFKVIVIGDPTVGKTSFVQRYVQ   92 (131)
Q Consensus        68 ~~~~ki~vvG~~~vGKSsli~~~~~   92 (131)
                      ...++|+++|..++|||||+++++.
T Consensus        41 k~~~~i~iiG~vd~GKSTLi~~Ll~   65 (467)
T 1r5b_A           41 KEHVNIVFIGHVDAGKSTLGGNILF   65 (467)
T ss_dssp             CEEEEEEEEECGGGTHHHHHHHHHH
T ss_pred             CCeeEEEEEECCCCCHHHHHHHHHH
Confidence            4568999999999999999999874

>2hf9_A Probable hydrogenase nickel incorporation protein HYPB; alpha and beta protein; HET: GSP; 1.90A {Methanocaldococcus jannaschii} PDB: 2hf8_A*

Probab=98.48  E-value=5.9e-09  Score=71.62  Aligned_cols=40  Identities=18%  Similarity=0.209  Sum_probs=32.4

Q ss_pred             eeeEEEEEcCCCCCchhhhhhhhhCcCCCCccCCceeEeE
Q psy10878         69 KLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFA  108 (131)
Q Consensus        69 ~~~ki~vvG~~~vGKSsli~~~~~~~~~~~~~~t~~~~~~  108 (131)
                      ...+++++|.+|||||||+++|+...+...+.++++.++.
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            3579999999999999999999987666556677776653

>2j69_A Bacterial dynamin-like protein; FZO, FZL, GTPase, hydrolase; 3.0A {Nostoc punctiforme} PDB: 2j68_A 2w6d_A*

Probab=98.46  E-value=1.2e-07  Score=75.58  Aligned_cols=35  Identities=23%  Similarity=0.545  Sum_probs=27.5

Q ss_pred             eeeEEEEEcCCCCCchhhhhhhhhCcC-CCCccCCc
Q psy10878         69 KLFKVIVIGDPTVGKTSFVQRYVQNTF-KKDYKGTV  103 (131)
Q Consensus        69 ~~~ki~vvG~~~vGKSsli~~~~~~~~-~~~~~~t~  103 (131)
                      ..++|+++|.+|+|||||+|++++..+ +....|++
T Consensus        68 ~~~~V~VvG~~naGKSSLlNaLlg~~~~~v~~~p~T  103 (695)
T 2j69_A           68 GVFRLLVLGDMKRGKSTFLNALIGENLLPSDVNPCT  103 (695)
T ss_dssp             CCEEEEEECCTTSCHHHHHHHHHTSSCSCCCCCTTT
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCCCCCCCCCCCc
Confidence            468999999999999999999997765 33334444

>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=98.46  E-value=1.3e-07  Score=74.22  Aligned_cols=63  Identities=17%  Similarity=0.316  Sum_probs=35.5

Q ss_pred             eeeEEEEEcCCCCCchhhhhhhhhC--cCCC-----CccC------CceeEe--EEEEEEec--CCeEEEEEEEeCCCCC
Q psy10878         69 KLFKVIVIGDPTVGKTSFVQRYVQN--TFKK-----DYKG------TVGVDF--ALKIVKWR--DQQKIKLQLWDIAGQN  131 (131)
Q Consensus        69 ~~~ki~vvG~~~vGKSsli~~~~~~--~~~~-----~~~~------t~~~~~--~~~~~~~~--~~~~~~l~i~Dt~Gqe  131 (131)
                      ...+++++|..++|||||+++++..  .+..     .+..      ..|.++  ....+.+.  ++..+.++||||||++
T Consensus         5 ~irnI~IiGh~d~GKTTLi~rLl~~tg~i~~~~~~~~~~D~~~~ErerGITI~~~~~~~~~~~~dg~~~~inliDTPGh~   84 (600)
T 2ywe_A            5 NVRNFCIIAHVDHGKSTLADRLLEYTGAISEREKREQLLDTLDVERERGITVKMQAVRMFYKAKDGNTYKLHLIDTPGHV   84 (600)
T ss_dssp             GEEEEEEECC--CCHHHHHHHHHHHHTC-----------------------CCCCSEEEEEECTTSCEEEEEEECCCCSG
T ss_pred             CceEEEEECCCCCCHHHHHHHHHhccCCcccccccccccccchhhhcccceeeeeEEEEEEEcCCCCeEEEEEEECCCcH
Confidence            4568999999999999999999852  2111     0000      011111  11122221  5667899999999984

>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=98.44  E-value=9.4e-08  Score=75.87  Aligned_cols=60  Identities=18%  Similarity=0.258  Sum_probs=38.5

Q ss_pred             eeeEEEEEcCCCCCchhhhhhhhhCcCCCCcc------------------CCceeEeEEEEEEecCCeEEEEEEEeCCCC
Q psy10878         69 KLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYK------------------GTVGVDFALKIVKWRDQQKIKLQLWDIAGQ  130 (131)
Q Consensus        69 ~~~ki~vvG~~~vGKSsli~~~~~~~~~~~~~------------------~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gq  130 (131)
                      ...+++++|..++|||||+++++.........                  ..++.......+.+   ..+.++||||+|+
T Consensus         8 ~~~~i~IiG~~gaGKTTLl~~L~~~~~~~~~~G~V~~g~~~~d~~~~e~~~giti~~~~~~~~~---~~~~~nliDTpG~   84 (665)
T 2dy1_A            8 MIRTVALVGHAGSGKTTLTEALLYKTGAKERRGRVEEGTTTTDYTPEAKLHRTTVRTGVAPLLF---RGHRVFLLDAPGY   84 (665)
T ss_dssp             CEEEEEEEESTTSSHHHHHHHHHHHTTSSSSCCCGGGTCCSSCCSHHHHHTTSCCSCEEEEEEE---TTEEEEEEECCCS
T ss_pred             CCcEEEEECCCCChHHHHHHHHHHhcCCCCccceecCCcccccCCHHHHhcCCeEEecceEEee---CCEEEEEEeCCCc
Confidence            45689999999999999999998433211100                  11222222333433   3467899999998


Q ss_pred             C
Q psy10878        131 N  131 (131)
Q Consensus       131 e  131 (131)
                      +
T Consensus        85 ~   85 (665)
T 2dy1_A           85 G   85 (665)
T ss_dssp             G
T ss_pred             c
Confidence            5

>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=98.42  E-value=2.2e-07  Score=74.04  Aligned_cols=60  Identities=17%  Similarity=0.284  Sum_probs=37.5

Q ss_pred             CceeeEEEEEcCCCCCchhhhhhhhhC--cCCC------------------CccCCceeEeEEEEEEecCCeEEEEEEEe
Q psy10878         67 PEKLFKVIVIGDPTVGKTSFVQRYVQN--TFKK------------------DYKGTVGVDFALKIVKWRDQQKIKLQLWD  126 (131)
Q Consensus        67 ~~~~~ki~vvG~~~vGKSsli~~~~~~--~~~~------------------~~~~t~~~~~~~~~~~~~~~~~~~l~i~D  126 (131)
                      .....+|+++|.+++|||||+++++..  .+..                  .+.+|+...  ...+.+ +  .+.++|||
T Consensus         9 ~~~~~~I~IvG~~~aGKTTL~~~Ll~~~g~~~~~g~v~~~~~~~d~~~~E~~~giTi~~~--~~~~~~-~--~~~i~liD   83 (691)
T 1dar_A            9 LKRLRNIGIAAHIDAGKTTTTERILYYTGRIHKIGEVHEGAATMDFMEQERERGITITAA--VTTCFW-K--DHRINIID   83 (691)
T ss_dssp             GGGEEEEEEEECTTSCHHHHHHHHHHHHCC----------------------------CC--EEEEEE-T--TEEEEEEC
T ss_pred             cccccEEEEECCCCCCHHHHHHHHHHhcCCCcccceecCCceeccCchhhhhcccccccc--eEEEEE-C--CeEEEEEE
Confidence            456789999999999999999999832  1110                  112333322  233444 3  36789999


Q ss_pred             CCCCC
Q psy10878        127 IAGQN  131 (131)
Q Consensus       127 t~Gqe  131 (131)
                      |||++
T Consensus        84 TPG~~   88 (691)
T 1dar_A           84 TPGHV   88 (691)
T ss_dssp             CCSST
T ss_pred             CcCcc
Confidence            99984

>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=98.41  E-value=5.2e-08  Score=76.45  Aligned_cols=63  Identities=17%  Similarity=0.185  Sum_probs=38.9

Q ss_pred             eeeEEEEEcCCCCCchhhhhhhhhCcCCC----CccCCceeEeEEEEE------EecC-----CeEEEEEEEeCCCCC
Q psy10878         69 KLFKVIVIGDPTVGKTSFVQRYVQNTFKK----DYKGTVGVDFALKIV------KWRD-----QQKIKLQLWDIAGQN  131 (131)
Q Consensus        69 ~~~ki~vvG~~~vGKSsli~~~~~~~~~~----~~~~t~~~~~~~~~~------~~~~-----~~~~~l~i~Dt~Gqe  131 (131)
                      +..+|+++|.+++|||||++++++..+..    ...++++..+.....      ...+     .....++||||||++
T Consensus         4 r~~~V~IvGh~d~GKTTLl~~L~~~~v~~~e~ggiT~~ig~~~~~~~~~~~~~~~~~~~~~v~~~~~~i~liDTPGhe   81 (594)
T 1g7s_A            4 RSPIVSVLGHVDHGKTTLLDHIRGSAVASREAGGITQHIGATEIPMDVIEGICGDFLKKFSIRETLPGLFFIDTPGHE   81 (594)
T ss_dssp             CCCEEEEECSTTSSHHHHHHHHHHHHHSCC----CCCBTTEEEEEHHHHHHHSCGGGGGCGGGGTCCEEEEECCCTTS
T ss_pred             CCcEEEEECCCCCcHHHHHHHHhcccCccccCCceecccCeEEEeechhhhhccccccccccccccCCEEEEECCCcH
Confidence            34689999999999999999998765532    122344543321100      0000     111258999999985

>2qpt_A EH domain-containing protein-2; protein-nucleotide complex, membrane protein, endocytosis; HET: ANP; 3.10A {Mus musculus}

Probab=98.39  E-value=1.7e-07  Score=73.02  Aligned_cols=29  Identities=31%  Similarity=0.439  Sum_probs=25.6

Q ss_pred             ceeeEEEEEcCCCCCchhhhhhhhhCcCC
Q psy10878         68 EKLFKVIVIGDPTVGKTSFVQRYVQNTFK   96 (131)
Q Consensus        68 ~~~~ki~vvG~~~vGKSsli~~~~~~~~~   96 (131)
                      ....+|+++|.+|+|||||+|++++..+.
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            45679999999999999999999988763

>2xex_A Elongation factor G; GTPase, translation, biosynthetic protein; 1.90A {Staphylococcus aureus}

Probab=98.33  E-value=3.9e-07  Score=72.70  Aligned_cols=25  Identities=24%  Similarity=0.309  Sum_probs=22.5

Q ss_pred             ceeeEEEEEcCCCCCchhhhhhhhh
Q psy10878         68 EKLFKVIVIGDPTVGKTSFVQRYVQ   92 (131)
Q Consensus        68 ~~~~ki~vvG~~~vGKSsli~~~~~   92 (131)
                      ....+|+++|.+++|||||+++++.
T Consensus         8 ~~~~~I~IvG~~~aGKSTL~~~Ll~   32 (693)
T 2xex_A            8 EKTRNIGIMAHIDAGKTTTTERILY   32 (693)
T ss_dssp             TTEEEEEEECCGGGTHHHHHHHHHH
T ss_pred             ccceEEEEECCCCCCHHHHHHHHHH
Confidence            4567999999999999999999984

>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=98.33  E-value=1e-07  Score=79.50  Aligned_cols=64  Identities=17%  Similarity=0.195  Sum_probs=37.4

Q ss_pred             CceeeEEEEEcCCCCCchhhhhhhhhCc-------CCC-------CccCCceeEeEEEEEEecCCeEEEEEEEeCCCCC
Q psy10878         67 PEKLFKVIVIGDPTVGKTSFVQRYVQNT-------FKK-------DYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQN  131 (131)
Q Consensus        67 ~~~~~ki~vvG~~~vGKSsli~~~~~~~-------~~~-------~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gqe  131 (131)
                      ....++|+++|.+++|||||++++.+..       +..       ....+.|.++....+.+ +.....+.||||||++
T Consensus       293 ~k~~lnIvIIGhvDvGKSTLInrLt~~~~~~G~a~f~~~a~lD~~~~ErerGITIdva~v~f-~~~~~kI~IIDTPGHe  370 (1289)
T 3avx_A          293 TKPHVNVGTIGHVDHGKTTLTAAITTVLAKTYGGAARAFDQIDNAPEEKARGITINTSHVEY-DTPTRHYAHVDCPGHA  370 (1289)
T ss_dssp             CCCEEEEEEEESTTSSHHHHHHHHHHHHHHHSCC---------------------CCSCEEE-ECSSCEEEEEECCCHH
T ss_pred             cCCeeEEEEEcCCCCCHHHHHHHHHhhhccccccccccccccccccccccCceeEEEEEEEE-cCCCEEEEEEECCChH
Confidence            3456899999999999999999998631       100       01122333222222233 3334678999999974

>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=98.32  E-value=1.2e-06  Score=70.05  Aligned_cols=25  Identities=16%  Similarity=0.203  Sum_probs=22.2

Q ss_pred             ceeeEEEEEcCCCCCchhhhhhhhh
Q psy10878         68 EKLFKVIVIGDPTVGKTSFVQRYVQ   92 (131)
Q Consensus        68 ~~~~ki~vvG~~~vGKSsli~~~~~   92 (131)
                      ....+|+++|..++|||||+++++.
T Consensus         8 ~~~~~I~IiG~~~~GKTTL~~~Ll~   32 (704)
T 2rdo_7            8 ARYRNIGISAHIDAGKTTTTERILF   32 (704)
T ss_pred             ccccEEEEECCCCCCHHHHHHHHHH
Confidence            4567899999999999999999974

>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=98.16  E-value=2.2e-06  Score=67.23  Aligned_cols=60  Identities=18%  Similarity=0.169  Sum_probs=36.6

Q ss_pred             eeeEEEEEcCCCCCchhhhhhhhhCcCCCCcc-----CCceeEeEEEEEEecCCeEEEEEEEeCCCC
Q psy10878         69 KLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYK-----GTVGVDFALKIVKWRDQQKIKLQLWDIAGQ  130 (131)
Q Consensus        69 ~~~ki~vvG~~~vGKSsli~~~~~~~~~~~~~-----~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gq  130 (131)
                      ....|+++|.+|||||||+|++++....-...     .|.+...  ....+.......+.++||||-
T Consensus        37 ~~~~VaivG~pnvGKStLiN~L~g~~~~~~~~~tt~~~T~gi~~--~~~~~~~~~~~~i~LiDTpGi  101 (592)
T 1f5n_A           37 PMVVVAIVGLYRTGKSYLMNKLAGKKKGFSLGSTVQSHTKGIWM--WCVPHPKKPGHILVLLDTEGL  101 (592)
T ss_dssp             BEEEEEEEEBTTSSHHHHHHHHTTCSSCSCCCCSSSCCCCSEEE--EEEECSSSTTCEEEEEEECCB
T ss_pred             CCcEEEEECCCCCCHHHHHHhHcCCCCccccCCCCCCceeEEEE--eecccccCCCceEEEecCCCc
Confidence            45789999999999999999999765321221     2222211  111111112235789999994

>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=98.14  E-value=1.3e-06  Score=65.80  Aligned_cols=56  Identities=27%  Similarity=0.364  Sum_probs=35.1

Q ss_pred             EEEEEcCCCCCchhhhhhhhhCcCC-CCccCCceeEeEEEEEEecCCeEEEEEEEeCCCC
Q psy10878         72 KVIVIGDPTVGKTSFVQRYVQNTFK-KDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQ  130 (131)
Q Consensus        72 ki~vvG~~~vGKSsli~~~~~~~~~-~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gq  130 (131)
                      .++++|.+|+|||||++++.+.... ..+..+ ........+.+ ++ ...+.+|||+|+
T Consensus       159 ~VgLVG~~gAGKSTLL~~Lsg~~~~i~~~~ft-Tl~p~~G~V~~-~~-~~~~~l~DtpGl  215 (416)
T 1udx_A          159 DVGLVGYPNAGKSSLLAAMTRAHPKIAPYPFT-TLSPNLGVVEV-SE-EERFTLADIPGI  215 (416)
T ss_dssp             SEEEECCGGGCHHHHHHHHCSSCCEECCCTTC-SSCCEEEEEEC-SS-SCEEEEEECCCC
T ss_pred             EEEEECCCCCcHHHHHHHHHcCCccccCcccc-eecceeeEEEe-cC-cceEEEEecccc
Confidence            4789999999999999999865331 122111 11122233444 33 245789999996

>2wsm_A Hydrogenase expression/formation protein (HYPB); metal binding protein; 2.30A {Archaeoglobus fulgidus}

Probab=98.10  E-value=3.9e-07  Score=62.21  Aligned_cols=24  Identities=25%  Similarity=0.433  Sum_probs=21.7

Q ss_pred             eeEEEEEcCCCCCchhhhhhhhhC
Q psy10878         70 LFKVIVIGDPTVGKTSFVQRYVQN   93 (131)
Q Consensus        70 ~~ki~vvG~~~vGKSsli~~~~~~   93 (131)
                      ..+++++|.+|+|||||+++++..
T Consensus        30 ~~~i~i~G~~g~GKTTl~~~l~~~   53 (221)
T 2wsm_A           30 TVAVNIMGAIGSGKTLLIERTIER   53 (221)
T ss_dssp             CEEEEEEECTTSCHHHHHHHHHHH
T ss_pred             ceEEEEEcCCCCCHHHHHHHHHHH
Confidence            468999999999999999999864

>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=98.07  E-value=7.4e-07  Score=59.25  Aligned_cols=49  Identities=10%  Similarity=0.082  Sum_probs=36.9

Q ss_pred             CCCcEEeeccCCCcccccccc---ccc-----CCCCccccccCCcccccccccccccc
Q psy10878          5 AKKPILLPSASEDPSIDNWDK---ASW-----ENVTPIVSEQGDGEIIEIIDPSLKLV   54 (131)
Q Consensus         5 ~~kp~vlv~NK~Dl~~~~~~~---~~~-----~~~~~is~~~~~~~~~~~~~~~~~~~   54 (131)
                      .++|+++|+||+|+.+.....   ..+     ..++++|++++.| +.++++.+.+.+
T Consensus       120 ~~~p~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~g-i~~l~~~l~~~~  176 (195)
T 1x3s_A          120 NDIVNMLVGNKIDKENREVDRNEGLKFARKHSMLFIEASAKTCDG-VQCAFEELVEKI  176 (195)
T ss_dssp             SCCEEEEEEECTTSSSCCSCHHHHHHHHHHTTCEEEECCTTTCTT-HHHHHHHHHHHH
T ss_pred             CCCcEEEEEECCcCcccccCHHHHHHHHHHcCCEEEEecCCCCCC-HHHHHHHHHHHH
Confidence            478999999999995433221   112     3568899999999 999999887765

>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=97.98  E-value=5.4e-06  Score=60.95  Aligned_cols=22  Identities=23%  Similarity=0.513  Sum_probs=18.7

Q ss_pred             ceeeEEEEEcCCCCCchhhhhh
Q psy10878         68 EKLFKVIVIGDPTVGKTSFVQR   89 (131)
Q Consensus        68 ~~~~ki~vvG~~~vGKSsli~~   89 (131)
                      ...+|++++|...+||||++.+
T Consensus         3 ~~~~klLLLG~geSGKSTi~KQ   24 (340)
T 4fid_A            3 AKPITVMLLGSGESGKSTIAKQ   24 (340)
T ss_dssp             -CCEEEEEEECTTSSHHHHHHH
T ss_pred             CCcceEEEECCCCCcHHHHHHH
Confidence            3578999999999999999754

>3sop_A Neuronal-specific septin-3; hydrolase; HET: GDP; 2.88A {Homo sapiens}

Probab=97.84  E-value=7.5e-06  Score=58.30  Aligned_cols=24  Identities=25%  Similarity=0.635  Sum_probs=21.8

Q ss_pred             eeEEEEEcCCCCCchhhhhhhhhC
Q psy10878         70 LFKVIVIGDPTVGKTSFVQRYVQN   93 (131)
Q Consensus        70 ~~ki~vvG~~~vGKSsli~~~~~~   93 (131)
                      .++++++|.+|+|||||++.+++.
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            578999999999999999998864

>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=97.78  E-value=8.1e-07  Score=58.51  Aligned_cols=49  Identities=8%  Similarity=0.155  Sum_probs=36.1

Q ss_pred             CCCcEEeeccCCCcccccccc----ccc-----CCCCccccccCCcccccccccccccc
Q psy10878          5 AKKPILLPSASEDPSIDNWDK----ASW-----ENVTPIVSEQGDGEIIEIIDPSLKLV   54 (131)
Q Consensus         5 ~~kp~vlv~NK~Dl~~~~~~~----~~~-----~~~~~is~~~~~~~~~~~~~~~~~~~   54 (131)
                      .++|+++|+||+|+.+.....    ..+     ...+++||+++.| +.++++.+.+.+
T Consensus       110 ~~~p~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~-v~~l~~~l~~~~  167 (181)
T 3t5g_A          110 VQIPIMLVGNKKDLHMERVISYEEGKALAESWNAAFLESSAKENQT-AVDVFRRIILEA  167 (181)
T ss_dssp             --CCEEEEEECTTCTTTCCSCHHHHHHHHHHTTCEEEECCTTSHHH-HHHHHHHHHHHH
T ss_pred             CCCCEEEEEECccchhcceecHHHHHHHHHHhCCcEEEEecCCCCC-HHHHHHHHHHHH
Confidence            478999999999986433211    112     4578899999999 999999888776

>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=97.78  E-value=2.2e-05  Score=63.20  Aligned_cols=61  Identities=21%  Similarity=0.334  Sum_probs=32.2

Q ss_pred             CCccccccCCccccccccccccccc-CCCcccCCCCCCceeeEEEEEcCCCCCchhhhhhhhhCcC
Q psy10878         31 VTPIVSEQGDGEIIEIIDPSLKLVR-VPSIRKSFNAPPEKLFKVIVIGDPTVGKTSFVQRYVQNTF   95 (131)
Q Consensus        31 ~~~is~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~ki~vvG~~~vGKSsli~~~~~~~~   95 (131)
                      +...++....| +.++++.+.+... +....   ........+|+|+|.+++|||||+|++++..+
T Consensus        15 ~~~~~~~~~~~-~~~li~~inkl~d~l~~lg---~~~~i~lp~I~vvG~~saGKSSllnaL~g~~~   76 (772)
T 3zvr_A           15 VPRGSHMGNRG-MEDLIPLVNRLQDAFSAIG---QNADLDLPQIAVVGGQSAGKSSVLENFVGRDF   76 (772)
T ss_dssp             ----------C-GGGHHHHHHHHHHHHHTTT---CCGGGCCSEEEEEECTTTCHHHHHHHHHSSCC
T ss_pred             CCccccccccc-HHHHHHHHHHHHHHHHhcC---ccccCCCCEEEEECCCCCcHHHHHHHHhCCCc
Confidence            44456666667 6776655433211 00000   01122345899999999999999999998766

>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=97.74  E-value=7.2e-05  Score=56.56  Aligned_cols=27  Identities=19%  Similarity=0.588  Sum_probs=23.0

Q ss_pred             eeeEEEEEcCCCCCchhhhhhhhhCcC
Q psy10878         69 KLFKVIVIGDPTVGKTSFVQRYVQNTF   95 (131)
Q Consensus        69 ~~~ki~vvG~~~vGKSsli~~~~~~~~   95 (131)
                      ..++++++|.+|+|||||++.+++..+
T Consensus        41 ei~~vaLvG~nGaGKSTLln~L~G~~l   67 (427)
T 2qag_B           41 FCFNILCVGETGLGKSTLMDTLFNTKF   67 (427)
T ss_dssp             CEEEEEEECSTTSSSHHHHHHHHTSCC
T ss_pred             CeeEEEEECCCCCCHHHHHHHHhCccc
Confidence            446799999999999999999887643

>2dyk_A GTP-binding protein; GTPase, ribosome-binding protein, structural genomics; HET: GDP; 1.96A {Thermus thermophilus}

Probab=97.62  E-value=1.9e-05  Score=50.60  Aligned_cols=49  Identities=18%  Similarity=0.307  Sum_probs=37.7

Q ss_pred             CCCcEEeeccCCCccccccccccc-----CCCCccccccCCcccccccccccccc
Q psy10878          5 AKKPILLPSASEDPSIDNWDKASW-----ENVTPIVSEQGDGEIIEIIDPSLKLV   54 (131)
Q Consensus         5 ~~kp~vlv~NK~Dl~~~~~~~~~~-----~~~~~is~~~~~~~~~~~~~~~~~~~   54 (131)
                      .+.|+++|+||+|+.+......++     ...+++|++++.| +.++++.+.+.+
T Consensus       107 ~~~p~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~Sa~~~~g-v~~l~~~l~~~l  160 (161)
T 2dyk_A          107 KGKPVILVATKVDDPKHELYLGPLYGLGFGDPIPTSSEHARG-LEELLEAIWERL  160 (161)
T ss_dssp             HTCCEEEEEECCCSGGGGGGCGGGGGGSSCSCEECBTTTTBS-HHHHHHHHHHHC
T ss_pred             cCCCEEEEEECcccccchHhHHHHHhCCCCCeEEEecccCCC-hHHHHHHHHHhC
Confidence            478999999999997654333333     3678999999999 999988776654

>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=97.46  E-value=0.00015  Score=55.08  Aligned_cols=62  Identities=23%  Similarity=0.319  Sum_probs=38.7

Q ss_pred             eeeEEEEEcCCCCCchhhhhhhhhC------------------cCCC---CccCCceeEeEEEE--EEecCCeEEEEEEE
Q psy10878         69 KLFKVIVIGDPTVGKTSFVQRYVQN------------------TFKK---DYKGTVGVDFALKI--VKWRDQQKIKLQLW  125 (131)
Q Consensus        69 ~~~ki~vvG~~~vGKSsli~~~~~~------------------~~~~---~~~~t~~~~~~~~~--~~~~~~~~~~l~i~  125 (131)
                      ...-|.|+|.+++|||+|+|++++.                  .|..   ....|.|+......  ....++....+-+.
T Consensus        66 ~v~vVsV~G~~~~GKStLLN~llg~~~~~~~~~wl~~~~~~~~~f~~~~t~~~~T~GIw~~~~p~~~~~~~~~~~~vvll  145 (447)
T 3q5d_A           66 EVVAVSVAGAFRKGKSFLMDFMLRYMYNQESVDWVGDYNEPLTGFSWRGGSERETTGIQIWSEIFLINKPDGKKVAVLLM  145 (447)
T ss_dssp             BEEEEEEEESTTSSHHHHHHHHHHHHHCCSTTTSSCCTTSBCCSSCSCCSSCCCCCEEEEESSCEEEECSSSCEEEEEEE
T ss_pred             ceEEEEEECCCCCcHHHHHHHHhhhcccccccccccccccccceecCCCCCCCceeEEEEecCccccccCCCCcceEEEE
Confidence            4556999999999999999999853                  2321   11123343221100  11125566788999


Q ss_pred             eCCCC
Q psy10878        126 DIAGQ  130 (131)
Q Consensus       126 Dt~Gq  130 (131)
                      ||+|.
T Consensus       146 DTeG~  150 (447)
T 3q5d_A          146 DTQGT  150 (447)
T ss_dssp             EEECC
T ss_pred             cCCcc
Confidence            99995

>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=97.40  E-value=2.6e-05  Score=50.30  Aligned_cols=49  Identities=8%  Similarity=0.090  Sum_probs=35.9

Q ss_pred             CCCcEEeeccCCCcccccccc----ccc-----CCCCccccccCCcccccccccccccc
Q psy10878          5 AKKPILLPSASEDPSIDNWDK----ASW-----ENVTPIVSEQGDGEIIEIIDPSLKLV   54 (131)
Q Consensus         5 ~~kp~vlv~NK~Dl~~~~~~~----~~~-----~~~~~is~~~~~~~~~~~~~~~~~~~   54 (131)
                      .++|+++|+||+|+.+.....    ..+     ...+++||+++.| +.++++.+.+.+
T Consensus       105 ~~~p~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~g-i~~l~~~l~~~~  162 (166)
T 3q72_A          105 DDVPIILVGNKSDLVRSREVSVDEGRACAVVFDCKFIETSAALHHN-VQALFEGVVRQI  162 (166)
T ss_dssp             -CCCEEEEEECTTCCSSCCSCHHHHHHHHHHTTCEEEECBGGGTBS-HHHHHHHHHHHH
T ss_pred             CCCCEEEEEeccccccccccCHHHHHHHHHHhCCcEEEeccCCCCC-HHHHHHHHHHHH
Confidence            478999999999996543221    111     4568899999999 999988776554

>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=97.34  E-value=6.1e-05  Score=54.36  Aligned_cols=51  Identities=18%  Similarity=0.244  Sum_probs=39.0

Q ss_pred             ccCCCcEEeeccCCCcc-cccccc---c-------ccCCCCccccccCCcccccccccccccc
Q psy10878          3 YKAKKPILLPSASEDPS-IDNWDK---A-------SWENVTPIVSEQGDGEIIEIIDPSLKLV   54 (131)
Q Consensus         3 ~~~~kp~vlv~NK~Dl~-~~~~~~---~-------~~~~~~~is~~~~~~~~~~~~~~~~~~~   54 (131)
                      +..++|+++|+||+|+. ......   .       .+..++++||.++.| +.++++.+.+.+
T Consensus       119 ~~~~~pvilV~NK~Dl~~~~~~~~~~~~~l~~~~~~~~~i~~vSA~~g~g-v~~L~~~l~~~l  180 (308)
T 3iev_A          119 KPLNKPVIVVINKIDKIGPAKNVLPLIDEIHKKHPELTEIVPISALKGAN-LDELVKTILKYL  180 (308)
T ss_dssp             GGGCCCEEEEEECGGGSSSGGGGHHHHHHHHHHCTTCCCEEECBTTTTBS-HHHHHHHHHHHS
T ss_pred             HhcCCCEEEEEECccCCCCHHHHHHHHHHHHHhccCCCeEEEEeCCCCCC-HHHHHHHHHHhC
Confidence            44579999999999997 332111   1       125678999999999 999999888877

>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=97.34  E-value=4.9e-05  Score=49.91  Aligned_cols=49  Identities=10%  Similarity=0.124  Sum_probs=37.4

Q ss_pred             CCCcEEeeccCCCcccccccc---ccc-----CCCCccccccCCcccccccccccccc
Q psy10878          5 AKKPILLPSASEDPSIDNWDK---ASW-----ENVTPIVSEQGDGEIIEIIDPSLKLV   54 (131)
Q Consensus         5 ~~kp~vlv~NK~Dl~~~~~~~---~~~-----~~~~~is~~~~~~~~~~~~~~~~~~~   54 (131)
                      .+.|+++|+||+|+.+.....   ..+     ..++++||.++.| +.++++.+.+.+
T Consensus       108 ~~~p~i~v~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~Sa~~g~g-i~~l~~~l~~~~  164 (189)
T 4dsu_A          108 EDVPMVLVGNKCDLPSRTVDTKQAQDLARSYGIPFIETSAKTRQG-VDDAFYTLVREI  164 (189)
T ss_dssp             SCCCEEEEEECTTSSSCSSCHHHHHHHHHHHTCCEEECCTTTCTT-HHHHHHHHHHHH
T ss_pred             CCCcEEEEEECccCcccccCHHHHHHHHHHcCCeEEEEeCCCCCC-HHHHHHHHHHHH
Confidence            478999999999997543222   122     5678999999999 999998876655

>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=97.33  E-value=1.4e-05  Score=52.52  Aligned_cols=49  Identities=14%  Similarity=0.184  Sum_probs=37.1

Q ss_pred             CCCcEEeeccCCCcccccccccc-c-CCCCccccccCCcccccccccccccc
Q psy10878          5 AKKPILLPSASEDPSIDNWDKAS-W-ENVTPIVSEQGDGEIIEIIDPSLKLV   54 (131)
Q Consensus         5 ~~kp~vlv~NK~Dl~~~~~~~~~-~-~~~~~is~~~~~~~~~~~~~~~~~~~   54 (131)
                      .++|+++|+||+|+......... . ..++++||+++.| +.++++.+.+.+
T Consensus       114 ~~~p~ilv~NK~Dl~~~~~~~~~~~~~~~~~~SA~~g~g-v~~l~~~l~~~~  164 (172)
T 2gj8_A          114 AKLPITVVRNKADITGETLGMSEVNGHALIRLSARTGEG-VDVLRNHLKQSM  164 (172)
T ss_dssp             TTCCEEEEEECHHHHCCCCEEEEETTEEEEECCTTTCTT-HHHHHHHHHHHC
T ss_pred             cCCCEEEEEECccCCcchhhhhhccCCceEEEeCCCCCC-HHHHHHHHHHHh
Confidence            36899999999999643222211 1 4578999999999 999999887766

>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=97.32  E-value=3.7e-05  Score=49.68  Aligned_cols=49  Identities=8%  Similarity=0.081  Sum_probs=36.4

Q ss_pred             CCCcEEeeccCCCcccccccc----ccc-----CCCCccccccCCcccccccccccccc
Q psy10878          5 AKKPILLPSASEDPSIDNWDK----ASW-----ENVTPIVSEQGDGEIIEIIDPSLKLV   54 (131)
Q Consensus         5 ~~kp~vlv~NK~Dl~~~~~~~----~~~-----~~~~~is~~~~~~~~~~~~~~~~~~~   54 (131)
                      .++|+++|+||+|+.+.....    ..+     ...+++||+++.| +.++++.+.+.+
T Consensus       108 ~~~p~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~-v~~l~~~l~~~i  165 (169)
T 3q85_A          108 HDLPVILVGNKSDLARSREVSLEEGRHLAGTLSCKHIETSAALHHN-TRELFEGAVRQI  165 (169)
T ss_dssp             SCCCEEEEEECTTCGGGCCSCHHHHHHHHHHTTCEEEECBTTTTBS-HHHHHHHHHHHH
T ss_pred             CCCCEEEEeeCcchhhcccCCHHHHHHHHHHcCCcEEEecCccCCC-HHHHHHHHHHHH
Confidence            378999999999996432211    111     4568999999999 999988776654

>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=97.25  E-value=4.6e-05  Score=49.44  Aligned_cols=49  Identities=10%  Similarity=0.104  Sum_probs=35.6

Q ss_pred             CCCcEEeeccCCCcccccccc----ccc-----CCCCccccccCCcccccccccccccc
Q psy10878          5 AKKPILLPSASEDPSIDNWDK----ASW-----ENVTPIVSEQGDGEIIEIIDPSLKLV   54 (131)
Q Consensus         5 ~~kp~vlv~NK~Dl~~~~~~~----~~~-----~~~~~is~~~~~~~~~~~~~~~~~~~   54 (131)
                      .++|+++|+||+|+.+.....    ..+     ...+++||+++.| +.++++.+.+.+
T Consensus       110 ~~~piilv~NK~Dl~~~~~v~~~~~~~~~~~~~~~~~~~Sa~~g~g-i~~l~~~l~~~~  167 (175)
T 2nzj_A          110 DHVPIILVGNKADLARCREVSVEEGRACAVVFDCKFIETSATLQHN-VAELFEGVVRQL  167 (175)
T ss_dssp             --CCEEEEEECTTCTTTCCSCHHHHHHHHHHHTSEEEECBTTTTBS-HHHHHHHHHHHH
T ss_pred             CCCCEEEEEEChhhccccccCHHHHHHHHHHcCCeEEEEecCCCCC-HHHHHHHHHHHH
Confidence            378999999999996542211    112     3578999999999 999988876654

>3l0i_B RAS-related protein RAB-1A; GEF-GDF-RAB complex, GTP-binding, guanine-nucleotide exchang GDI-displacement factor; 2.85A {Homo sapiens}

Probab=97.24  E-value=8.7e-05  Score=49.61  Aligned_cols=49  Identities=6%  Similarity=-0.036  Sum_probs=32.0

Q ss_pred             CCCcEEeeccCCCccccccc----cccc-----CCCCccccccCCcccccccccccccc
Q psy10878          5 AKKPILLPSASEDPSIDNWD----KASW-----ENVTPIVSEQGDGEIIEIIDPSLKLV   54 (131)
Q Consensus         5 ~~kp~vlv~NK~Dl~~~~~~----~~~~-----~~~~~is~~~~~~~~~~~~~~~~~~~   54 (131)
                      .+.|+++|+||+|+.+....    ...+     ...+++|++.+.| +.++++.+.+.+
T Consensus       137 ~~~p~ilv~nK~Dl~~~~~v~~~~~~~~~~~~~~~~~~vSA~~g~g-v~~l~~~l~~~l  194 (199)
T 3l0i_B          137 ENVNKLLVGNKCDLTTKKVVDYTTAKEFADSLGIPFLETSAKNATN-VEQSFMTMAAEI  194 (199)
T ss_dssp             CCSEEEEC-CCSSCC--CCCCSCC-CHHHHTTTCCBCCCCC---HH-HHHHHHHHTTTT
T ss_pred             CCCCEEEEEECccCCccccCCHHHHHHHHHHcCCeEEEEECCCCCC-HHHHHHHHHHHH
Confidence            37899999999999654311    1122     5678999999999 999988877765

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

Probab=97.24  E-value=4.3e-05  Score=60.05  Aligned_cols=82  Identities=12%  Similarity=0.183  Sum_probs=55.2

Q ss_pred             cCCCcEEeeccCCCcccccc--ccccc--------CCCCccccccCCcccccccccccccccCCCcccCCCCCCceeeEE
Q psy10878          4 KAKKPILLPSASEDPSIDNW--DKASW--------ENVTPIVSEQGDGEIIEIIDPSLKLVRVPSIRKSFNAPPEKLFKV   73 (131)
Q Consensus         4 ~~~kp~vlv~NK~Dl~~~~~--~~~~~--------~~~~~is~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ki   73 (131)
                      ..+.|+++|+||+|+.....  ...++        .+++++||+++.| +.++++.+.+.+..|...      ....+..
T Consensus       121 ~~~ipiIvViNKiDl~~a~~~~v~~ei~~~lg~~~~~vi~vSAktg~G-I~~Ll~~I~~~lp~p~~~------~~~p~~a  193 (599)
T 3cb4_D          121 EMDLEVVPVLNKIDLPAADPERVAEEIEDIVGIDATDAVRCSAKTGVG-VQDVLERLVRDIPPPEGD------PEGPLQA  193 (599)
T ss_dssp             HTTCEEEEEEECTTSTTCCHHHHHHHHHHHTCCCCTTCEEECTTTCTT-HHHHHHHHHHHSCCCCCC------TTSCCEE
T ss_pred             HCCCCEEEeeeccCcccccHHHHHHHHHHHhCCCcceEEEeecccCCC-chhHHHHHhhcCCCcccc------ccCCcee
Confidence            35789999999999965321  11122        3589999999999 999999998887433211      2223333


Q ss_pred             EEEc---CCCCCchhhhhhhhh
Q psy10878         74 IVIG---DPTVGKTSFVQRYVQ   92 (131)
Q Consensus        74 ~vvG---~~~vGKSsli~~~~~   92 (131)
                      +++.   ++++|+.++...+.+
T Consensus       194 lI~d~~~d~~~G~v~~~rV~sG  215 (599)
T 3cb4_D          194 LIIDSWFDNYLGVVSLIRIKNG  215 (599)
T ss_dssp             EEEEEEEETTTEEEEEEEEEES
T ss_pred             eeeeccccccccEEEEEEEEeC
Confidence            3333   378999988876654

>3cph_A RAS-related protein SEC4; RAB GTPase, prenylation, vesicular transport, cytoplasm, cytoplasmic vesicle, exocytosis, GTP-binding; HET: GDP; 2.90A {Saccharomyces cerevisiae} SCOP: c.37.1.8

Probab=97.23  E-value=4.3e-05  Score=51.35  Aligned_cols=48  Identities=17%  Similarity=0.135  Sum_probs=35.5

Q ss_pred             CCcEEeeccCCCcccccccc---ccc-----CCCCccccccCCcccccccccccccc
Q psy10878          6 KKPILLPSASEDPSIDNWDK---ASW-----ENVTPIVSEQGDGEIIEIIDPSLKLV   54 (131)
Q Consensus         6 ~kp~vlv~NK~Dl~~~~~~~---~~~-----~~~~~is~~~~~~~~~~~~~~~~~~~   54 (131)
                      ++|+++|+||+|+.......   ..+     ..++++|++++.| +.++++.+.+.+
T Consensus       125 ~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~g-i~~l~~~l~~~~  180 (213)
T 3cph_A          125 EAQLLLVGNKSDMETRVVTADQGEALAKELGIPFIESSAKNDDN-VNEIFFTLAKLI  180 (213)
T ss_dssp             CSEEEEEEECTTCSSCCSCHHHHHHHHHHHTCCEEECBTTTTBS-SHHHHHHHHHHH
T ss_pred             CCCEEEEEECCCCcccccCHHHHHHHHHHcCCEEEEEeCCCCCC-HHHHHHHHHHHH
Confidence            68999999999994332111   112     4678999999999 999988776554

>1wms_A RAB-9, RAB9, RAS-related protein RAB-9A; GTPase, protein transport; HET: GDP; 1.25A {Homo sapiens} SCOP: c.37.1.8 PDB: 1s8f_A* 1yzl_A* 2ocb_A*

Probab=97.23  E-value=8.7e-05  Score=48.26  Aligned_cols=49  Identities=10%  Similarity=0.185  Sum_probs=36.5

Q ss_pred             CCCcEEeeccCCCcccccccc---ccc------CCCCccccccCCcccccccccccccc
Q psy10878          5 AKKPILLPSASEDPSIDNWDK---ASW------ENVTPIVSEQGDGEIIEIIDPSLKLV   54 (131)
Q Consensus         5 ~~kp~vlv~NK~Dl~~~~~~~---~~~------~~~~~is~~~~~~~~~~~~~~~~~~~   54 (131)
                      .+.|+++|+||+|+.+.....   ..+      ...+++|++++.| +.++++.+.+.+
T Consensus       115 ~~~p~i~v~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~g-i~~l~~~l~~~~  172 (177)
T 1wms_A          115 ESFPFVILGNKIDISERQVSTEEAQAWCRDNGDYPYFETSAKDATN-VAAAFEEAVRRV  172 (177)
T ss_dssp             TTSCEEEEEECTTCSSCSSCHHHHHHHHHHTTCCCEEECCTTTCTT-HHHHHHHHHHHH
T ss_pred             CCCcEEEEEECCcccccccCHHHHHHHHHhcCCceEEEEeCCCCCC-HHHHHHHHHHHH
Confidence            578999999999996432211   111      4578999999999 999988776654

>2erx_A GTP-binding protein DI-RAS2; GTP hydrolysis, transport protein; HET: GDP; 1.65A {Homo sapiens} SCOP: c.37.1.8

Probab=97.22  E-value=5.4e-05  Score=48.82  Aligned_cols=49  Identities=16%  Similarity=0.143  Sum_probs=37.0

Q ss_pred             CCCcEEeeccCCCcccccccc----ccc-----CCCCccccccCCcccccccccccccc
Q psy10878          5 AKKPILLPSASEDPSIDNWDK----ASW-----ENVTPIVSEQGDGEIIEIIDPSLKLV   54 (131)
Q Consensus         5 ~~kp~vlv~NK~Dl~~~~~~~----~~~-----~~~~~is~~~~~~~~~~~~~~~~~~~   54 (131)
                      .++|+++|+||+|+.......    ..+     ..++++|++++.| +.++++.+.+.+
T Consensus       108 ~~~pii~v~nK~Dl~~~~~v~~~~~~~~~~~~~~~~~~~Sa~~~~g-i~~l~~~l~~~~  165 (172)
T 2erx_A          108 ESIPIMLVGNKCDESPSREVQSSEAEALARTWKCAFMETSAKLNHN-VKELFQELLNLE  165 (172)
T ss_dssp             -CCCEEEEEECGGGGGGCCSCHHHHHHHHHHHTCEEEECBTTTTBS-HHHHHHHHHHTC
T ss_pred             CCCCEEEEEEccccccccccCHHHHHHHHHHhCCeEEEecCCCCcC-HHHHHHHHHHHH
Confidence            368999999999996543211    111     3568999999999 999999888766

>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=97.21  E-value=5.7e-05  Score=48.53  Aligned_cols=49  Identities=10%  Similarity=0.042  Sum_probs=35.8

Q ss_pred             CCCcEEeeccCCCccccccc----cccc------CCCCccccccCCcccccccccccccc
Q psy10878          5 AKKPILLPSASEDPSIDNWD----KASW------ENVTPIVSEQGDGEIIEIIDPSLKLV   54 (131)
Q Consensus         5 ~~kp~vlv~NK~Dl~~~~~~----~~~~------~~~~~is~~~~~~~~~~~~~~~~~~~   54 (131)
                      .++|+++|+||+|+.+....    ...+      ..++++||+++.| +.++++.+.+.+
T Consensus       107 ~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~g-i~~l~~~l~~~i  165 (167)
T 1c1y_A          107 EDVPMILVGNKCDLEDERVVGKEQGQNLARQWCNCAFLESSAKSKIN-VNEIFYDLVRQI  165 (167)
T ss_dssp             SCCCEEEEEECTTCGGGCCSCHHHHHHHHHHTTSCEEEECBTTTTBS-HHHHHHHHHHHH
T ss_pred             CCCcEEEEEECccccccccCCHHHHHHHHHHccCCcEEEecCCCCCC-HHHHHHHHHHHH
Confidence            47899999999999654321    1111      3468899999999 999988776543

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

Probab=97.18  E-value=6.7e-05  Score=48.84  Aligned_cols=48  Identities=10%  Similarity=0.060  Sum_probs=36.5

Q ss_pred             CCcEEeeccCCCcccccccc----ccc-----CCCCccccccCCcccccccccccccc
Q psy10878          6 KKPILLPSASEDPSIDNWDK----ASW-----ENVTPIVSEQGDGEIIEIIDPSLKLV   54 (131)
Q Consensus         6 ~kp~vlv~NK~Dl~~~~~~~----~~~-----~~~~~is~~~~~~~~~~~~~~~~~~~   54 (131)
                      +.|+++|+||+|+.+.....    ..+     ..++++|+.++.| +.++++.+.+.+
T Consensus       113 ~~p~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~g-i~~l~~~l~~~~  169 (181)
T 3tw8_B          113 DVCRILVGNKNDDPERKVVETEDAYKFAGQMGIQLFETSAKENVN-VEEMFNCITELV  169 (181)
T ss_dssp             TSEEEEEEECTTCGGGCCSCHHHHHHHHHHHTCCEEECBTTTTBS-HHHHHHHHHHHH
T ss_pred             CCCEEEEEECCCCchhcccCHHHHHHHHHHcCCeEEEEECCCCCC-HHHHHHHHHHHH
Confidence            68999999999986543211    111     5678999999999 999998876654

>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=97.17  E-value=6.9e-05  Score=50.71  Aligned_cols=49  Identities=8%  Similarity=-0.061  Sum_probs=35.5

Q ss_pred             CCCcEEeeccCCCcccccccc----ccc-----CCCCccccccCCcccccccccccccc
Q psy10878          5 AKKPILLPSASEDPSIDNWDK----ASW-----ENVTPIVSEQGDGEIIEIIDPSLKLV   54 (131)
Q Consensus         5 ~~kp~vlv~NK~Dl~~~~~~~----~~~-----~~~~~is~~~~~~~~~~~~~~~~~~~   54 (131)
                      .++|+++|+||+|+.+.....    ..+     ..++++||+++.| +.++++.+.+.+
T Consensus       116 ~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~g~g-v~~l~~~l~~~~  173 (218)
T 4djt_A          116 NEAPIVVCANKIDIKNRQKISKKLVMEVLKGKNYEYFEISAKTAHN-FGLPFLHLARIF  173 (218)
T ss_dssp             SSSCEEEEEECTTCC----CCHHHHHHHTTTCCCEEEEEBTTTTBT-TTHHHHHHHHHH
T ss_pred             CCCCEEEEEECCCCccccccCHHHHHHHHHHcCCcEEEEecCCCCC-HHHHHHHHHHHH
Confidence            368999999999996542111    111     4578999999999 999998887665

>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=97.16  E-value=3.2e-05  Score=49.59  Aligned_cols=49  Identities=10%  Similarity=0.084  Sum_probs=36.0

Q ss_pred             CCCcEEeeccCCCcccccccc----ccc-----CCCCccccccCCcccccccccccccc
Q psy10878          5 AKKPILLPSASEDPSIDNWDK----ASW-----ENVTPIVSEQGDGEIIEIIDPSLKLV   54 (131)
Q Consensus         5 ~~kp~vlv~NK~Dl~~~~~~~----~~~-----~~~~~is~~~~~~~~~~~~~~~~~~~   54 (131)
                      .++|+++|+||+|+.+.....    ..+     ..++++|++++.| +.++++.+.+.+
T Consensus       107 ~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~g-i~~l~~~l~~~~  164 (167)
T 1kao_A          107 EKVPVILVGNKVDLESEREVSSSEGRALAEEWGCPFMETSAKSKTM-VDELFAEIVRQM  164 (167)
T ss_dssp             SCCCEEEEEECGGGGGGCCSCHHHHHHHHHHHTSCEEEECTTCHHH-HHHHHHHHHHHH
T ss_pred             CCCCEEEEEECCcccccccCCHHHHHHHHHHhCCCEEEecCCCCcC-HHHHHHHHHHHH
Confidence            479999999999986543211    112     4678999999999 999888776543

>1g16_A RAS-related protein SEC4; G protein RAB, signaling protein, endocytosis/exocytosis complex; HET: GDP; 1.80A {Saccharomyces cerevisiae} SCOP: c.37.1.8 PDB: 1g17_A* 2ocy_C 2eqb_A

Probab=97.14  E-value=8.3e-05  Score=47.91  Aligned_cols=49  Identities=16%  Similarity=0.130  Sum_probs=36.3

Q ss_pred             CCCcEEeeccCCCcccccccc---ccc-----CCCCccccccCCcccccccccccccc
Q psy10878          5 AKKPILLPSASEDPSIDNWDK---ASW-----ENVTPIVSEQGDGEIIEIIDPSLKLV   54 (131)
Q Consensus         5 ~~kp~vlv~NK~Dl~~~~~~~---~~~-----~~~~~is~~~~~~~~~~~~~~~~~~~   54 (131)
                      .++|+++|+||+|+.......   ..+     ..++++|++++.| +.++++.+.+.+
T Consensus       107 ~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~g-v~~l~~~l~~~~  163 (170)
T 1g16_A          107 DEAQLLLVGNKSDMETRVVTADQGEALAKELGIPFIESSAKNDDN-VNEIFFTLAKLI  163 (170)
T ss_dssp             TTCEEEEEEECTTCTTCCSCHHHHHHHHHHHTCCEEECBTTTTBS-HHHHHHHHHHHH
T ss_pred             CCCcEEEEEECccCCcCccCHHHHHHHHHHcCCeEEEEECCCCCC-HHHHHHHHHHHH
Confidence            478999999999994432211   112     4678999999999 999988776654

>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=97.14  E-value=9e-05  Score=48.33  Aligned_cols=49  Identities=10%  Similarity=0.024  Sum_probs=37.2

Q ss_pred             CCCcEEeeccCCCcccccccc----ccc-----CCCCccccccCCcccccccccccccc
Q psy10878          5 AKKPILLPSASEDPSIDNWDK----ASW-----ENVTPIVSEQGDGEIIEIIDPSLKLV   54 (131)
Q Consensus         5 ~~kp~vlv~NK~Dl~~~~~~~----~~~-----~~~~~is~~~~~~~~~~~~~~~~~~~   54 (131)
                      .++|+++|+||+|+.+.....    ..+     ...+++||+++.| +.++++.+.+.+
T Consensus       115 ~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~g-i~~l~~~l~~~~  172 (180)
T 2g6b_A          115 HDVALMLLGNKVDSAHERVVKREDGEKLAKEYGLPFMETSAKTGLN-VDLAFTAIAKEL  172 (180)
T ss_dssp             TTCEEEEEEECCSTTSCCCSCHHHHHHHHHHHTCCEEECCTTTCTT-HHHHHHHHHHHH
T ss_pred             CCCcEEEEEECcccCcccccCHHHHHHHHHHcCCeEEEEeCCCCCC-HHHHHHHHHHHH
Confidence            578999999999997543211    112     4678999999999 999998887665

>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=97.13  E-value=7.7e-05  Score=49.49  Aligned_cols=49  Identities=14%  Similarity=0.155  Sum_probs=37.2

Q ss_pred             CCCcEEeeccCCCcccccccc---ccc-----CCCCccccccCCcccccccccccccc
Q psy10878          5 AKKPILLPSASEDPSIDNWDK---ASW-----ENVTPIVSEQGDGEIIEIIDPSLKLV   54 (131)
Q Consensus         5 ~~kp~vlv~NK~Dl~~~~~~~---~~~-----~~~~~is~~~~~~~~~~~~~~~~~~~   54 (131)
                      .+.|+++|+||+|+.+.....   ..+     ..++++||.++.| +.++++.+.+.+
T Consensus       113 ~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~g-i~~l~~~l~~~~  169 (199)
T 2gf0_A          113 EDIPVMLVGNKCDETQREVDTREAQAVAQEWKCAFMETSAKMNYN-VKELFQELLTLE  169 (199)
T ss_dssp             GGSCEEEEEECTTCSSCSSCHHHHHHHHHHHTCEEEECBTTTTBS-HHHHHHHHHHHC
T ss_pred             CCCCEEEEEECccCCccccCHHHHHHHHHHhCCeEEEEecCCCCC-HHHHHHHHHHHH
Confidence            368999999999997533221   111     3578999999999 999999887765

>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=97.13  E-value=0.00011  Score=48.19  Aligned_cols=50  Identities=6%  Similarity=-0.007  Sum_probs=36.5

Q ss_pred             cCCCcEEeeccCCCcccccccc----ccc-----CCCCccccc-cCCcccccccccccccc
Q psy10878          4 KAKKPILLPSASEDPSIDNWDK----ASW-----ENVTPIVSE-QGDGEIIEIIDPSLKLV   54 (131)
Q Consensus         4 ~~~kp~vlv~NK~Dl~~~~~~~----~~~-----~~~~~is~~-~~~~~~~~~~~~~~~~~   54 (131)
                      ..+.|+++|+||+|+.+.....    ..+     ...+++|++ ++.| +.++++.+.+.+
T Consensus       121 ~~~~p~ilv~nK~Dl~~~~~v~~~~~~~~~~~~~~~~~~~Sa~~~~~~-v~~l~~~l~~~i  180 (183)
T 3kkq_A          121 RESFPMILVANKVDLMHLRKVTRDQGKEMATKYNIPYIETSAKDPPLN-VDKTFHDLVRVI  180 (183)
T ss_dssp             SSCCCEEEEEECTTCSTTCCSCHHHHHHHHHHHTCCEEEEBCSSSCBS-HHHHHHHHHHHH
T ss_pred             CCCCcEEEEEECCCchhccCcCHHHHHHHHHHhCCeEEEeccCCCCCC-HHHHHHHHHHHH
Confidence            3578999999999986532211    112     567889999 9999 999988776543

>2j0v_A RAC-like GTP-binding protein ARAC7; nucleotide-binding protein, ROP9, atrac7, membrane, palmitate, RHO GTPase; HET: GDP; 1.78A {Arabidopsis thaliana}

Probab=97.12  E-value=2.1e-05  Score=53.13  Aligned_cols=48  Identities=19%  Similarity=0.229  Sum_probs=36.4

Q ss_pred             CCcEEeeccCCCcccccc------------ccccc----C--CCCccccccCCcccccccccccccc
Q psy10878          6 KKPILLPSASEDPSIDNW------------DKASW----E--NVTPIVSEQGDGEIIEIIDPSLKLV   54 (131)
Q Consensus         6 ~kp~vlv~NK~Dl~~~~~------------~~~~~----~--~~~~is~~~~~~~~~~~~~~~~~~~   54 (131)
                      +.|+++|+||+|+.+...            ...++    +  ..+++||+++.| +.++++.+.+.+
T Consensus       113 ~~piilv~nK~Dl~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~~~Sa~~g~g-i~~l~~~l~~~~  178 (212)
T 2j0v_A          113 NVPIVLVGTKLDLRDDKGYLADHTNVITSTQGEELRKQIGAAAYIECSSKTQQN-VKAVFDTAIKVV  178 (212)
T ss_dssp             TCCEEEEEECHHHHTCHHHHHTCSSCCCHHHHHHHHHHHTCSEEEECCTTTCTT-HHHHHHHHHHHH
T ss_pred             CCCEEEEEeCHHhhhCccccccccCCCCHHHHHHHHHHcCCceEEEccCCCCCC-HHHHHHHHHHHH
Confidence            789999999999865321            11111    2  678999999999 999999887765

>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=97.11  E-value=0.0001  Score=47.00  Aligned_cols=49  Identities=8%  Similarity=0.141  Sum_probs=36.4

Q ss_pred             CCCcEEeeccCCCcccccccc---ccc-----CCCCccccccCCcccccccccccccc
Q psy10878          5 AKKPILLPSASEDPSIDNWDK---ASW-----ENVTPIVSEQGDGEIIEIIDPSLKLV   54 (131)
Q Consensus         5 ~~kp~vlv~NK~Dl~~~~~~~---~~~-----~~~~~is~~~~~~~~~~~~~~~~~~~   54 (131)
                      .++|+++|+||+|+.+.....   .++     ..++++|+.++.| +.++++.+.+.+
T Consensus       107 ~~~p~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~g-i~~l~~~l~~~~  163 (166)
T 2ce2_X          107 DDVPMVLVGNKSDLAARTVESRQAQDLARSYGIPYIETSAKTRQG-VEDAFYTLVREI  163 (166)
T ss_dssp             SCCCEEEEEECTTCSCCCSCHHHHHHHHHHHTCCEEEECTTTCTT-HHHHHHHHHHHH
T ss_pred             CCCcEEEEEEchhhhhcccCHHHHHHHHHHcCCeEEEecCCCCCC-HHHHHHHHHHHH
Confidence            378999999999986532211   122     4678999999999 999988776544

>1z0f_A RAB14, member RAS oncogene family; RAB GTPase, vesicular trafficking, protein transport; HET: GDP; 2.15A {Homo sapiens} SCOP: c.37.1.8 PDB: 2aed_A* 4drz_A*

Probab=97.11  E-value=8.9e-05  Score=48.16  Aligned_cols=49  Identities=10%  Similarity=0.079  Sum_probs=36.1

Q ss_pred             CCCcEEeeccCCCccccccc----cccc-----CCCCccccccCCcccccccccccccc
Q psy10878          5 AKKPILLPSASEDPSIDNWD----KASW-----ENVTPIVSEQGDGEIIEIIDPSLKLV   54 (131)
Q Consensus         5 ~~kp~vlv~NK~Dl~~~~~~----~~~~-----~~~~~is~~~~~~~~~~~~~~~~~~~   54 (131)
                      .+.|+++|+||+|+.+....    ..++     ...+++|++++.| +.++++.+.+.+
T Consensus       119 ~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~g-i~~l~~~l~~~i  176 (179)
T 1z0f_A          119 PNTVIILIGNKADLEAQRDVTYEEAKQFAEENGLLFLEASAKTGEN-VEDAFLEAAKKI  176 (179)
T ss_dssp             TTCEEEEEEECTTCGGGCCSCHHHHHHHHHHTTCEEEECCTTTCTT-HHHHHHHHHHHH
T ss_pred             CCCcEEEEEECcccccccccCHHHHHHHHHHcCCEEEEEeCCCCCC-HHHHHHHHHHHH
Confidence            47899999999999653221    1122     4578999999999 999988776544

>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=97.11  E-value=6.5e-05  Score=48.17  Aligned_cols=49  Identities=10%  Similarity=0.074  Sum_probs=36.1

Q ss_pred             CCCcEEeeccCCCcccccccc----ccc-----CCCCccccccCCcccccccccccccc
Q psy10878          5 AKKPILLPSASEDPSIDNWDK----ASW-----ENVTPIVSEQGDGEIIEIIDPSLKLV   54 (131)
Q Consensus         5 ~~kp~vlv~NK~Dl~~~~~~~----~~~-----~~~~~is~~~~~~~~~~~~~~~~~~~   54 (131)
                      .++|+++|+||+|+.+.....    ..+     ...+++|+.++.| +.++++.+.+.+
T Consensus       108 ~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~g-i~~l~~~l~~~i  165 (168)
T 1u8z_A          108 ENVPFLLVGNKSDLEDKRQVSVEEAKNRADQWNVNYVETSAKTRAN-VDKVFFDLMREI  165 (168)
T ss_dssp             TTSCEEEEEECGGGGGGCCSCHHHHHHHHHHHTCEEEECCTTTCTT-HHHHHHHHHHHH
T ss_pred             CCCcEEEEEECccccccCccCHHHHHHHHHHcCCeEEEeCCCCCCC-HHHHHHHHHHHH
Confidence            378999999999996542211    111     4578999999999 999988776543

>2www_A Methylmalonic aciduria type A protein, mitochondrial; transport protein, nucleotide-binding; HET: GDP 2PE; 2.64A {Homo sapiens}

Probab=97.10  E-value=0.00024  Score=52.18  Aligned_cols=24  Identities=29%  Similarity=0.610  Sum_probs=21.7

Q ss_pred             eeeEEEEEcCCCCCchhhhhhhhh
Q psy10878         69 KLFKVIVIGDPTVGKTSFVQRYVQ   92 (131)
Q Consensus        69 ~~~ki~vvG~~~vGKSsli~~~~~   92 (131)
                      ....+.++|.+|+|||||+|++++
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            356899999999999999999985

>2gf9_A RAS-related protein RAB-3D; G-protein, structural genomics, structural genomics consortium, SGC, protein transport; HET: GDP; 1.53A {Homo sapiens} PDB: 3rab_A*

Probab=97.10  E-value=8.4e-05  Score=49.18  Aligned_cols=49  Identities=4%  Similarity=0.048  Sum_probs=36.7

Q ss_pred             CCCcEEeeccCCCcccccccc----ccc-----CCCCccccccCCcccccccccccccc
Q psy10878          5 AKKPILLPSASEDPSIDNWDK----ASW-----ENVTPIVSEQGDGEIIEIIDPSLKLV   54 (131)
Q Consensus         5 ~~kp~vlv~NK~Dl~~~~~~~----~~~-----~~~~~is~~~~~~~~~~~~~~~~~~~   54 (131)
                      .++|+++|+||+|+.+.....    .++     ..++++|++++.| +.++++.+.+.+
T Consensus       126 ~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~g~g-i~~l~~~l~~~i  183 (189)
T 2gf9_A          126 DNAQVILVGNKCDLEDERVVPAEDGRRLADDLGFEFFEASAKENIN-VKQVFERLVDVI  183 (189)
T ss_dssp             TTCEEEEEEECTTCGGGCCSCHHHHHHHHHHHTCEEEECBTTTTBS-HHHHHHHHHHHH
T ss_pred             CCCCEEEEEECcccccccCCCHHHHHHHHHHcCCeEEEEECCCCCC-HHHHHHHHHHHH
Confidence            478999999999996543211    122     4578999999999 999988776654

>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=97.09  E-value=8.5e-05  Score=50.80  Aligned_cols=49  Identities=12%  Similarity=0.075  Sum_probs=36.2

Q ss_pred             CCCcEEeeccCCCccccccc-c---ccc-----CCCCccccccCCcccccccccccccc
Q psy10878          5 AKKPILLPSASEDPSIDNWD-K---ASW-----ENVTPIVSEQGDGEIIEIIDPSLKLV   54 (131)
Q Consensus         5 ~~kp~vlv~NK~Dl~~~~~~-~---~~~-----~~~~~is~~~~~~~~~~~~~~~~~~~   54 (131)
                      .++|++||.||+|+.+.... .   ..+     ...+.+||+++.| +.++++.+.+.+
T Consensus       144 ~~~piilVgNK~DL~~~r~v~~~e~~~~a~~~~~~~~e~SAk~g~~-v~elf~~l~~~i  201 (211)
T 2g3y_A          144 EDIPIILVGNKSDLVRCREVSVSEGRACAVVFDCKFIETSAAVQHN-VKELFEGIVRQV  201 (211)
T ss_dssp             TTSCEEEEEECTTCGGGCCSCHHHHHHHHHHHTCEEEECBTTTTBS-HHHHHHHHHHHH
T ss_pred             CCCcEEEEEEChHHhcCceEeHHHHHHHHHHcCCEEEEEeCCCCCC-HHHHHHHHHHHH
Confidence            37899999999999653211 1   111     3567899999999 999998877654

>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=97.09  E-value=8.6e-05  Score=49.26  Aligned_cols=49  Identities=4%  Similarity=0.005  Sum_probs=36.6

Q ss_pred             CCCcEEeeccCCCcccccccc----ccc-----CCCCccccccCCcccccccccccccc
Q psy10878          5 AKKPILLPSASEDPSIDNWDK----ASW-----ENVTPIVSEQGDGEIIEIIDPSLKLV   54 (131)
Q Consensus         5 ~~kp~vlv~NK~Dl~~~~~~~----~~~-----~~~~~is~~~~~~~~~~~~~~~~~~~   54 (131)
                      .+.|+++|+||+|+.+.....    ..+     ..++++|++++.| +.++++.+.+.+
T Consensus       127 ~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~g-i~~l~~~l~~~i  184 (191)
T 3dz8_A          127 DNAQVILVGNKCDMEEERVVPTEKGQLLAEQLGFDFFEASAKENIS-VRQAFERLVDAI  184 (191)
T ss_dssp             TTCEEEEEEECTTCGGGCCSCHHHHHHHHHHHTCEEEECBTTTTBS-HHHHHHHHHHHH
T ss_pred             CCCCEEEEEECCCCccccccCHHHHHHHHHHcCCeEEEEECCCCCC-HHHHHHHHHHHH
Confidence            478999999999996543221    112     4678999999999 999988776654

>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=97.09  E-value=6.9e-05  Score=48.79  Aligned_cols=49  Identities=10%  Similarity=0.083  Sum_probs=36.8

Q ss_pred             CCCcEEeeccCCCcccccccc----ccc-----CCCCccccccCCcccccccccccccc
Q psy10878          5 AKKPILLPSASEDPSIDNWDK----ASW-----ENVTPIVSEQGDGEIIEIIDPSLKLV   54 (131)
Q Consensus         5 ~~kp~vlv~NK~Dl~~~~~~~----~~~-----~~~~~is~~~~~~~~~~~~~~~~~~~   54 (131)
                      .++|+++|+||+|+.+.....    ..+     ..++++|++++.| +.++++.+.+.+
T Consensus       113 ~~~piilv~nK~Dl~~~~~v~~~~~~~~~~~~~~~~~~~Sa~~~~g-v~~l~~~l~~~~  170 (181)
T 2fn4_A          113 DDFPVVLVGNKADLESQRQVPRSEASAFGASHHVAYFEASAKLRLN-VDEAFEQLVRAV  170 (181)
T ss_dssp             SCCCEEEEEECGGGGGGCCSCHHHHHHHHHHTTCEEEECBTTTTBS-HHHHHHHHHHHH
T ss_pred             CCCCEEEEEECcccccccccCHHHHHHHHHHcCCeEEEecCCCCCC-HHHHHHHHHHHH
Confidence            478999999999996543211    112     4578999999999 999998877665

>2efe_B Small GTP-binding protein-like; GEF, GTPase, VPS9, nucleotide, transport protein; HET: GNH; 2.08A {Arabidopsis thaliana} PDB: 2efd_B 2efc_B* 2efh_B*

Probab=97.08  E-value=0.00011  Score=47.87  Aligned_cols=49  Identities=8%  Similarity=0.001  Sum_probs=37.1

Q ss_pred             CCCcEEeeccCCCcccccccc----ccc-----CCCCccccccCCcccccccccccccc
Q psy10878          5 AKKPILLPSASEDPSIDNWDK----ASW-----ENVTPIVSEQGDGEIIEIIDPSLKLV   54 (131)
Q Consensus         5 ~~kp~vlv~NK~Dl~~~~~~~----~~~-----~~~~~is~~~~~~~~~~~~~~~~~~~   54 (131)
                      .+.|+++|+||+|+.+.....    ..+     ..++++|++++.| +.++++.+.+.+
T Consensus       116 ~~~p~i~v~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~g~g-i~~l~~~l~~~~  173 (181)
T 2efe_B          116 PNMVMALAGNKSDLLDARKVTAEDAQTYAQENGLFFMETSAKTATN-VKEIFYEIARRL  173 (181)
T ss_dssp             TTCEEEEEEECTTCTTTCCSCHHHHHHHHHHTTCEEEECCSSSCTT-HHHHHHHHHHTC
T ss_pred             CCCcEEEEEECCcccccccCCHHHHHHHHHHcCCEEEEEECCCCCC-HHHHHHHHHHHH
Confidence            378899999999996543211    112     3578999999999 999999887766

>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=97.08  E-value=0.00015  Score=49.24  Aligned_cols=48  Identities=10%  Similarity=-0.031  Sum_probs=36.8

Q ss_pred             CCcEEeeccCCCcccccccc--ccc-----CCCCccccccCCcccccccccccccc
Q psy10878          6 KKPILLPSASEDPSIDNWDK--ASW-----ENVTPIVSEQGDGEIIEIIDPSLKLV   54 (131)
Q Consensus         6 ~kp~vlv~NK~Dl~~~~~~~--~~~-----~~~~~is~~~~~~~~~~~~~~~~~~~   54 (131)
                      ++|+++|+||+|+.+.....  ..+     ..++++|++++.| +.++++.+.+.+
T Consensus       119 ~~p~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~g-i~~l~~~l~~~l  173 (221)
T 3gj0_A          119 NIPIVLCGNKVDIKDRKVKAKSIVFHRKKNLQYYDISAKSNYN-FEKPFLWLARKL  173 (221)
T ss_dssp             TCCEEEEEECTTSSSCSSCGGGCCHHHHHTCEEEECBGGGTBT-TTHHHHHHHHHH
T ss_pred             CCCEEEEEECCccccccccHHHHHHHHHcCCEEEEEeCCCCCC-HHHHHHHHHHHH
Confidence            78999999999996543221  122     5578999999999 999998876655

>3tkl_A RAS-related protein RAB-1A; vesicle trafficking, protein transport-protein binding compl; HET: GTP; 2.18A {Homo sapiens}

Probab=97.07  E-value=0.00013  Score=48.34  Aligned_cols=49  Identities=6%  Similarity=-0.030  Sum_probs=37.1

Q ss_pred             CCCcEEeeccCCCcccccccc----ccc-----CCCCccccccCCcccccccccccccc
Q psy10878          5 AKKPILLPSASEDPSIDNWDK----ASW-----ENVTPIVSEQGDGEIIEIIDPSLKLV   54 (131)
Q Consensus         5 ~~kp~vlv~NK~Dl~~~~~~~----~~~-----~~~~~is~~~~~~~~~~~~~~~~~~~   54 (131)
                      .++|+++|+||+|+.......    ..+     ...+++|++++.| +.++++.+.+.+
T Consensus       120 ~~~p~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~g~g-v~~l~~~l~~~i  177 (196)
T 3tkl_A          120 ENVNKLLVGNKCDLTTKKVVDYTTAKEFADSLGIPFLETSAKNATN-VEQSFMTMAAEI  177 (196)
T ss_dssp             TTCEEEEEEECTTCTTTCCSCHHHHHHHHHHTTCCEEEECTTTCTT-HHHHHHHHHHHH
T ss_pred             CCCCEEEEEECcccccccccCHHHHHHHHHHcCCcEEEEeCCCCCC-HHHHHHHHHHHH
Confidence            378999999999996543211    122     5678999999999 999988877665

>1vg8_A RAS-related protein RAB-7; GTP-binding protein, protein transport; HET: GNP; 1.70A {Rattus norvegicus} SCOP: c.37.1.8 PDB: 1vg0_B* 3law_A* 1t91_A* 1yhn_A* 1vg1_A* 1vg9_B*

Probab=97.06  E-value=0.0001  Score=49.25  Aligned_cols=49  Identities=6%  Similarity=0.068  Sum_probs=36.6

Q ss_pred             CCCcEEeeccCCCcccccccc---ccc------CCCCccccccCCcccccccccccccc
Q psy10878          5 AKKPILLPSASEDPSIDNWDK---ASW------ENVTPIVSEQGDGEIIEIIDPSLKLV   54 (131)
Q Consensus         5 ~~kp~vlv~NK~Dl~~~~~~~---~~~------~~~~~is~~~~~~~~~~~~~~~~~~~   54 (131)
                      .+.|+++|+||+|+.+.....   ..+      ..++++||+++.| +.++++.+.+.+
T Consensus       116 ~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~g~g-i~~l~~~l~~~~  173 (207)
T 1vg8_A          116 ENFPFVVLGNKIDLENRQVATKRAQAWCYSKNNIPYFETSAKEAIN-VEQAFQTIARNA  173 (207)
T ss_dssp             GGSCEEEEEECTTSSCCCSCHHHHHHHHHHTTSCCEEECBTTTTBS-HHHHHHHHHHHH
T ss_pred             CCCcEEEEEECCCCcccccCHHHHHHHHHhcCCceEEEEeCCCCCC-HHHHHHHHHHHH
Confidence            478999999999997433211   111      4578999999999 999998876654

>1tq4_A IIGP1, interferon-inducible GTPase; interferon gamma, dimer, immunology, signaling protein; HET: GDP; 1.95A {Mus musculus} SCOP: c.37.1.8 PDB: 1tqd_A* 1tq6_A* 1tpz_A* 1tq2_A*

Probab=97.06  E-value=0.00023  Score=53.58  Aligned_cols=23  Identities=30%  Similarity=0.491  Sum_probs=20.8

Q ss_pred             eEEEEEcCCCCCchhhhhhhhhC
Q psy10878         71 FKVIVIGDPTVGKTSFVQRYVQN   93 (131)
Q Consensus        71 ~ki~vvG~~~vGKSsli~~~~~~   93 (131)
                      ..++++|.+|+|||||+|.+++-
T Consensus        70 ~~valvG~nGaGKSTLln~L~Gl   92 (413)
T 1tq4_A           70 LNVAVTGETGSGKSSFINTLRGI   92 (413)
T ss_dssp             EEEEEEECTTSSHHHHHHHHHTC
T ss_pred             eEEEEECCCCCcHHHHHHHHhCC
Confidence            47999999999999999998873

>1z0j_A RAB-22, RAS-related protein RAB-22A; RAB GTPase, RAB22 GTPase, rabenosyn, endosomal trafficking; HET: GTP; 1.32A {Mus musculus} SCOP: c.37.1.8 PDB: 1yvd_A*

Probab=97.05  E-value=0.00012  Score=47.15  Aligned_cols=49  Identities=6%  Similarity=-0.058  Sum_probs=36.1

Q ss_pred             CCCcEEeeccCCCcccccccc----ccc-----CCCCccccccCCcccccccccccccc
Q psy10878          5 AKKPILLPSASEDPSIDNWDK----ASW-----ENVTPIVSEQGDGEIIEIIDPSLKLV   54 (131)
Q Consensus         5 ~~kp~vlv~NK~Dl~~~~~~~----~~~-----~~~~~is~~~~~~~~~~~~~~~~~~~   54 (131)
                      .+.|+++|+||+|+.+.....    ..+     ...+++|++++.| +.++++.+.+.+
T Consensus       110 ~~~~iilv~nK~Dl~~~~~v~~~~~~~~~~~~~~~~~~~Sa~~~~~-i~~l~~~i~~~i  167 (170)
T 1z0j_A          110 PSIVVAIAGNKCDLTDVREVMERDAKDYADSIHAIFVETSAKNAIN-INELFIEISRRI  167 (170)
T ss_dssp             TTSEEEEEEECTTCGGGCCSCHHHHHHHHHHTTCEEEECBTTTTBS-HHHHHHHHHHHC
T ss_pred             CCCcEEEEEECCccccccccCHHHHHHHHHHcCCEEEEEeCCCCcC-HHHHHHHHHHHH
Confidence            467899999999996543221    112     4568899999999 999988776654

>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=97.05  E-value=0.00013  Score=47.88  Aligned_cols=49  Identities=16%  Similarity=0.097  Sum_probs=36.9

Q ss_pred             CCCcEEeeccCCCccccccc----cccc-----CCCCccccccCCcccccccccccccc
Q psy10878          5 AKKPILLPSASEDPSIDNWD----KASW-----ENVTPIVSEQGDGEIIEIIDPSLKLV   54 (131)
Q Consensus         5 ~~kp~vlv~NK~Dl~~~~~~----~~~~-----~~~~~is~~~~~~~~~~~~~~~~~~~   54 (131)
                      .++|+++|+||+|+.+....    ...+     ..++++|++++.| +.++++.+.+.+
T Consensus       126 ~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~-v~~l~~~l~~~~  183 (195)
T 3bc1_A          126 ENPDIVLCGNKSDLEDQRAVKEEEARELAEKYGIPYFETSAANGTN-ISHAIEMLLDLI  183 (195)
T ss_dssp             SSCCEEEEEECTTCGGGCCSCHHHHHHHHHHHTCCEEECCTTTCTT-HHHHHHHHHHHH
T ss_pred             CCCCEEEEEECcccccccccCHHHHHHHHHHcCCCEEEEECCCCCC-HHHHHHHHHHHH
Confidence            57899999999999653211    1112     4678999999999 999988776654

>2y8e_A RAB-protein 6, GH09086P, RAB6; hydrolase, nucleotide binding, GTP binding; HET: GNP; 1.39A {Drosophila melanogaster} PDB: 3cwz_A* 1yzq_A* 2gil_A* 2e9s_A* 2fe4_A* 2ffq_A* 1d5c_A*

Probab=97.04  E-value=8.9e-05  Score=48.16  Aligned_cols=49  Identities=10%  Similarity=0.014  Sum_probs=36.7

Q ss_pred             CCCcEEeeccCCCcccccccc----ccc-----CCCCccccccCCcccccccccccccc
Q psy10878          5 AKKPILLPSASEDPSIDNWDK----ASW-----ENVTPIVSEQGDGEIIEIIDPSLKLV   54 (131)
Q Consensus         5 ~~kp~vlv~NK~Dl~~~~~~~----~~~-----~~~~~is~~~~~~~~~~~~~~~~~~~   54 (131)
                      .+.|+++|+||+|+.+.....    ..+     ..++++|++++.| +.++++.+.+.+
T Consensus       118 ~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~-i~~l~~~l~~~~  175 (179)
T 2y8e_A          118 SDVIIMLVGNKTDLSDKRQVSTEEGERKAKELNVMFIETSAKAGYN-VKQLFRRVAAAL  175 (179)
T ss_dssp             TSSEEEEEEECGGGGGGCCSCHHHHHHHHHHHTCEEEEEBTTTTBS-HHHHHHHHHHTC
T ss_pred             CCCcEEEEEECCcccccCcCCHHHHHHHHHHcCCeEEEEeCCCCCC-HHHHHHHHHHHH
Confidence            478999999999996543211    111     4568999999999 999988877665

>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=97.04  E-value=0.00028  Score=47.01  Aligned_cols=22  Identities=45%  Similarity=0.910  Sum_probs=19.5

Q ss_pred             EEEEEcCCCCCchhhhhhhhhC
Q psy10878         72 KVIVIGDPTVGKTSFVQRYVQN   93 (131)
Q Consensus        72 ki~vvG~~~vGKSsli~~~~~~   93 (131)
                      +++++|++|+|||||++.+++.
T Consensus         2 ~i~l~G~nGsGKTTLl~~l~g~   23 (178)
T 1ye8_A            2 KIIITGEPGVGKTTLVKKIVER   23 (178)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHH
Confidence            6899999999999999987753

>1ky3_A GTP-binding protein YPT7P; vesicular traffic, GTP hydrolysis, YPT/RAB protein, endocytosis, hydrolase, endocytosis/exocytosis complex; HET: GDP; 1.35A {Saccharomyces cerevisiae} SCOP: c.37.1.8 PDB: 1ky2_A*

Probab=97.03  E-value=0.00018  Score=46.80  Aligned_cols=49  Identities=4%  Similarity=-0.051  Sum_probs=35.8

Q ss_pred             CCCcEEeeccCCCccccccc-----cccc------CCCCccccccCCcccccccccccccc
Q psy10878          5 AKKPILLPSASEDPSIDNWD-----KASW------ENVTPIVSEQGDGEIIEIIDPSLKLV   54 (131)
Q Consensus         5 ~~kp~vlv~NK~Dl~~~~~~-----~~~~------~~~~~is~~~~~~~~~~~~~~~~~~~   54 (131)
                      .+.|+++|+||+|+.+....     ...+      ..++++|++++.| +.++++.+.+.+
T Consensus       117 ~~~p~ilv~nK~Dl~~~~~~v~~~~~~~~~~~~~~~~~~~~Sa~~~~g-i~~l~~~l~~~~  176 (182)
T 1ky3_A          117 ETFPFVILGNKIDAEESKKIVSEKSAQELAKSLGDIPLFLTSAKNAIN-VDTAFEEIARSA  176 (182)
T ss_dssp             TTCCEEEEEECTTSCGGGCCSCHHHHHHHHHHTTSCCEEEEBTTTTBS-HHHHHHHHHHHH
T ss_pred             CCCcEEEEEECCccccccccCCHHHHHHHHHhcCCCeEEEEecCCCCC-HHHHHHHHHHHH
Confidence            57899999999999543211     1111      4568999999999 999988776544

>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=97.01  E-value=0.00016  Score=47.76  Aligned_cols=49  Identities=10%  Similarity=0.131  Sum_probs=37.0

Q ss_pred             CCCcEEeeccCCCcccccccc---ccc-----CCCCccccccCCcccccccccccccc
Q psy10878          5 AKKPILLPSASEDPSIDNWDK---ASW-----ENVTPIVSEQGDGEIIEIIDPSLKLV   54 (131)
Q Consensus         5 ~~kp~vlv~NK~Dl~~~~~~~---~~~-----~~~~~is~~~~~~~~~~~~~~~~~~~   54 (131)
                      .++|+++|+||+|+.......   .++     ..++++|+.++.| +.++++.+.+.+
T Consensus       125 ~~~p~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~g-i~~l~~~l~~~~  181 (190)
T 3con_A          125 DDVPMVLVGNKCDLPTRTVDTKQAHELAKSYGIPFIETSAKTRQG-VEDAFYTLVREI  181 (190)
T ss_dssp             SCCCEEEEEECTTCSCCCSCHHHHHHHHHHHTCCEEECCTTTCTT-HHHHHHHHHHHH
T ss_pred             CCCeEEEEEECCcCCcccCCHHHHHHHHHHcCCeEEEEeCCCCCC-HHHHHHHHHHHH
Confidence            478999999999986532211   122     4678999999999 999998877655

>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=97.01  E-value=0.00013  Score=48.60  Aligned_cols=49  Identities=10%  Similarity=0.062  Sum_probs=36.8

Q ss_pred             CCCcEEeeccCCCccccccc-c---ccc-----CCCCccccccCCcccccccccccccc
Q psy10878          5 AKKPILLPSASEDPSIDNWD-K---ASW-----ENVTPIVSEQGDGEIIEIIDPSLKLV   54 (131)
Q Consensus         5 ~~kp~vlv~NK~Dl~~~~~~-~---~~~-----~~~~~is~~~~~~~~~~~~~~~~~~~   54 (131)
                      .++|+++|+||+|+.+.... .   ..+     ..++++|+.++.| +.++++.+.+.+
T Consensus       118 ~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~g~g-i~~l~~~l~~~i  175 (206)
T 2bov_A          118 ENVPFLLVGNKSDLEDKRQVSVEEAKNRAEQWNVNYVETSAKTRAN-VDKVFFDLMREI  175 (206)
T ss_dssp             SCCCEEEEEECTTCGGGCCSCHHHHHHHHHHHTCEEEEECTTTCTT-HHHHHHHHHHHH
T ss_pred             CCCCEEEEEeccCccccccccHHHHHHHHHHhCCeEEEEeCCCCCC-HHHHHHHHHHHH
Confidence            37899999999999654221 1   112     4578999999999 999998876654

>3pqc_A Probable GTP-binding protein ENGB; rossmann fold, GTPase, cell cycle, hydrolase; HET: GDP; 1.90A {Thermotoga maritima} PDB: 3pr1_A

Probab=97.00  E-value=8.8e-05  Score=48.92  Aligned_cols=50  Identities=20%  Similarity=0.213  Sum_probs=36.6

Q ss_pred             cCCCcEEeeccCCCcccccccc------ccc------CCCCccccccCCcccccccccccccc
Q psy10878          4 KAKKPILLPSASEDPSIDNWDK------ASW------ENVTPIVSEQGDGEIIEIIDPSLKLV   54 (131)
Q Consensus         4 ~~~kp~vlv~NK~Dl~~~~~~~------~~~------~~~~~is~~~~~~~~~~~~~~~~~~~   54 (131)
                      ..++|+++|+||+|+.+.....      ..+      ..++++|++++.| +.++++.+.+.+
T Consensus       131 ~~~~p~i~v~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~g-v~~l~~~l~~~l  192 (195)
T 3pqc_A          131 SLNIPFTIVLTKMDKVKMSERAKKLEEHRKVFSKYGEYTIIPTSSVTGEG-ISELLDLISTLL  192 (195)
T ss_dssp             HTTCCEEEEEECGGGSCGGGHHHHHHHHHHHHHSSCCSCEEECCTTTCTT-HHHHHHHHHHHH
T ss_pred             HcCCCEEEEEEChhcCChHHHHHHHHHHHHHHhhcCCCceEEEecCCCCC-HHHHHHHHHHHh
Confidence            3478999999999996432111      111      2678899999999 999998877654

>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=97.00  E-value=9.9e-05  Score=48.27  Aligned_cols=49  Identities=10%  Similarity=0.062  Sum_probs=36.3

Q ss_pred             CCCcEEeeccCCCccccccc-c---ccc-----CCCCccccccCCcccccccccccccc
Q psy10878          5 AKKPILLPSASEDPSIDNWD-K---ASW-----ENVTPIVSEQGDGEIIEIIDPSLKLV   54 (131)
Q Consensus         5 ~~kp~vlv~NK~Dl~~~~~~-~---~~~-----~~~~~is~~~~~~~~~~~~~~~~~~~   54 (131)
                      .++|+++|+||+|+.+.... .   ..+     ..++++|++++.| +.++++.+.+.+
T Consensus       122 ~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~g-i~~l~~~l~~~i  179 (187)
T 2a9k_A          122 ENVPFLLVGNKSDLEDKRQVSVEEAKNRAEQWNVNYVETSAKTRAN-VDKVFFDLMREI  179 (187)
T ss_dssp             TTCCEEEEEECGGGGGGCCSCHHHHHHHHHHTTCEEEECCTTTCTT-HHHHHHHHHHHH
T ss_pred             CCCCEEEEEECccccccCccCHHHHHHHHHHcCCeEEEeCCCCCCC-HHHHHHHHHHHH
Confidence            37899999999999653211 1   111     4568999999999 999988876654

>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=96.99  E-value=0.00015  Score=53.27  Aligned_cols=49  Identities=14%  Similarity=0.183  Sum_probs=38.2

Q ss_pred             CCCcEEeeccCCCccccccccc----cc---CCCCccccccCCcccccccccccccc
Q psy10878          5 AKKPILLPSASEDPSIDNWDKA----SW---ENVTPIVSEQGDGEIIEIIDPSLKLV   54 (131)
Q Consensus         5 ~~kp~vlv~NK~Dl~~~~~~~~----~~---~~~~~is~~~~~~~~~~~~~~~~~~~   54 (131)
                      .++|+++|+||+|+........    .+   ..++++||.++.| +.++++.+.+.+
T Consensus       273 ~~~p~ilV~NK~Dl~~~~e~~~~l~~~l~~~~~v~~iSA~tg~g-i~eL~~~l~~~l  328 (342)
T 1lnz_A          273 TERPQIIVANKMDMPEAAENLEAFKEKLTDDYPVFPISAVTREG-LRELLFEVANQL  328 (342)
T ss_dssp             TTSCBCBEEECTTSTTHHHHHHHHHHHCCSCCCBCCCSSCCSST-THHHHHHHHHHH
T ss_pred             cCCCEEEEEECccCCCCHHHHHHHHHHhhcCCCEEEEECCCCcC-HHHHHHHHHHHH
Confidence            4799999999999975432222    22   2678999999999 999999887776

>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=96.99  E-value=0.00021  Score=47.19  Aligned_cols=50  Identities=10%  Similarity=-0.006  Sum_probs=34.2

Q ss_pred             cCCCcEEeeccCCCccccccc----cccc-----CCCCccccccC---Ccccccccccccccc
Q psy10878          4 KAKKPILLPSASEDPSIDNWD----KASW-----ENVTPIVSEQG---DGEIIEIIDPSLKLV   54 (131)
Q Consensus         4 ~~~kp~vlv~NK~Dl~~~~~~----~~~~-----~~~~~is~~~~---~~~~~~~~~~~~~~~   54 (131)
                      ..++|+++|+||+|+.+....    ...+     ...+++|++.+   .+ +.++++.+.+.+
T Consensus       125 ~~~~piilv~nK~Dl~~~~~v~~~~~~~~~~~~~~~~~~~Sa~~~~~~~~-i~~l~~~l~~~i  186 (189)
T 1z06_A          125 ANDIPRILVGNKCDLRSAIQVPTDLAQKFADTHSMPLFETSAKNPNDNDH-VEAIFMTLAHKL  186 (189)
T ss_dssp             CSCCCEEEEEECTTCGGGCCSCHHHHHHHHHHTTCCEEECCSSSGGGGSC-HHHHHHHHC---
T ss_pred             CCCCCEEEEEECccccccceeCHHHHHHHHHHcCCEEEEEeCCcCCcccC-HHHHHHHHHHHH
Confidence            457899999999999654221    1122     45788999999   88 888877766554

>1zbd_A Rabphilin-3A; G protein, effector, RABCDR, synaptic exocytosis, RAB protein, RAB3A; HET: GTP; 2.60A {Rattus norvegicus} SCOP: c.37.1.8

Probab=96.98  E-value=0.00013  Score=48.65  Aligned_cols=49  Identities=6%  Similarity=0.032  Sum_probs=36.4

Q ss_pred             CCCcEEeeccCCCcccccccc----ccc-----CCCCccccccCCcccccccccccccc
Q psy10878          5 AKKPILLPSASEDPSIDNWDK----ASW-----ENVTPIVSEQGDGEIIEIIDPSLKLV   54 (131)
Q Consensus         5 ~~kp~vlv~NK~Dl~~~~~~~----~~~-----~~~~~is~~~~~~~~~~~~~~~~~~~   54 (131)
                      .++|+++|+||+|+.+.....    ..+     ..++++|++++.| +.++++.+.+.+
T Consensus       112 ~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~g-i~~l~~~l~~~i  169 (203)
T 1zbd_A          112 DNAQVLLVGNKCDMEDERVVSSERGRQLADHLGFEFFEASAKDNIN-VKQTFERLVDVI  169 (203)
T ss_dssp             SSCEEEEEEECTTCTTSCCSCHHHHHHHHHHHTCEEEECBTTTTBS-SHHHHHHHHHHH
T ss_pred             CCCCEEEEEECcccCcccccCHHHHHHHHHHCCCeEEEEECCCCCC-HHHHHHHHHHHH
Confidence            478999999999996543211    112     4678999999999 998888776554

>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=96.98  E-value=0.00017  Score=47.61  Aligned_cols=49  Identities=20%  Similarity=0.247  Sum_probs=36.6

Q ss_pred             CCCcEEeeccCCCccccc--cccccc-----C-CCCccccccCCcccccccccccccc
Q psy10878          5 AKKPILLPSASEDPSIDN--WDKASW-----E-NVTPIVSEQGDGEIIEIIDPSLKLV   54 (131)
Q Consensus         5 ~~kp~vlv~NK~Dl~~~~--~~~~~~-----~-~~~~is~~~~~~~~~~~~~~~~~~~   54 (131)
                      .+.|+++|+||+|+.+..  ....++     . ..+++||+++.| +.++++.+.+.+
T Consensus       134 ~~~piilv~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~g-v~~l~~~l~~~i  190 (198)
T 3t1o_A          134 DDVPIVIQVNKRDLPDALPVEMVRAVVDPEGKFPVLEAVATEGKG-VFETLKEVSRLV  190 (198)
T ss_dssp             TSSCEEEEEECTTSTTCCCHHHHHHHHCTTCCSCEEECBGGGTBT-HHHHHHHHHHHH
T ss_pred             CCCCEEEEEEchhcccccCHHHHHHHHHhcCCceEEEEecCCCcC-HHHHHHHHHHHH
Confidence            578999999999996542  111122     3 678999999999 999988776654

>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=96.97  E-value=7.6e-05  Score=48.15  Aligned_cols=49  Identities=14%  Similarity=0.076  Sum_probs=36.0

Q ss_pred             CCCcEEeeccCCCccccccc----cccc-----CCCCccccccCCcccccccccccccc
Q psy10878          5 AKKPILLPSASEDPSIDNWD----KASW-----ENVTPIVSEQGDGEIIEIIDPSLKLV   54 (131)
Q Consensus         5 ~~kp~vlv~NK~Dl~~~~~~----~~~~-----~~~~~is~~~~~~~~~~~~~~~~~~~   54 (131)
                      .+.|+++|+||+|+.+....    ...+     ...+++||+++.| +.++++.+.+.+
T Consensus       110 ~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~g-i~~l~~~l~~~~  167 (170)
T 1z08_A          110 NEICLCIVGNKIDLEKERHVSIQEAESYAESVGAKHYHTSAKQNKG-IEELFLDLCKRM  167 (170)
T ss_dssp             GGSEEEEEEECGGGGGGCCSCHHHHHHHHHHTTCEEEEEBTTTTBS-HHHHHHHHHHHH
T ss_pred             CCCeEEEEEECcccccccccCHHHHHHHHHHcCCeEEEecCCCCCC-HHHHHHHHHHHH
Confidence            46899999999999653211    1112     4578999999999 999988776543

>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=96.97  E-value=0.00014  Score=46.76  Aligned_cols=49  Identities=8%  Similarity=-0.032  Sum_probs=36.3

Q ss_pred             CCCcEEeeccCCCccccc---ccc----ccc-----CCCCccccccCCcccccccccccccc
Q psy10878          5 AKKPILLPSASEDPSIDN---WDK----ASW-----ENVTPIVSEQGDGEIIEIIDPSLKLV   54 (131)
Q Consensus         5 ~~kp~vlv~NK~Dl~~~~---~~~----~~~-----~~~~~is~~~~~~~~~~~~~~~~~~~   54 (131)
                      .+.|+++|+||+|+.+..   ...    ..+     ..++++||+++.| +.++++.+.+.+
T Consensus       107 ~~~piilv~nK~Dl~~~~~~~~v~~~~~~~~~~~~~~~~~~~Sa~~~~g-i~~l~~~l~~~i  167 (170)
T 1ek0_A          107 KDIIIALVGNKIDXLQEGGERKVAREEGEKLAEEKGLLFFETSAKTGEN-VNDVFLGIGEKI  167 (170)
T ss_dssp             TTCEEEEEEECGGGGGSSCCCCSCHHHHHHHHHHHTCEEEECCTTTCTT-HHHHHHHHHTTS
T ss_pred             CCCcEEEEEECCCccccccccCCCHHHHHHHHHHcCCEEEEEeCCCCCC-HHHHHHHHHHHH
Confidence            478999999999996542   111    111     4578999999999 999988877655

>1kgd_A CASK, peripheral plasma membrane CASK; maguk, guanylate kinase like domain, protein binding; 1.31A {Homo sapiens} SCOP: c.37.1.1

Probab=96.96  E-value=0.00034  Score=46.38  Aligned_cols=21  Identities=14%  Similarity=0.460  Sum_probs=19.3

Q ss_pred             EEEEEcCCCCCchhhhhhhhh
Q psy10878         72 KVIVIGDPTVGKTSFVQRYVQ   92 (131)
Q Consensus        72 ki~vvG~~~vGKSsli~~~~~   92 (131)
                      -++++|.+|+|||||++.+..
T Consensus         7 ~i~i~GpsGsGKSTL~~~L~~   27 (180)
T 1kgd_A            7 TLVLLGAHGVGRRHIKNTLIT   27 (180)
T ss_dssp             EEEEECCTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHh
Confidence            589999999999999999875

>2fg5_A RAB-22B, RAS-related protein RAB-31; G-protein, GTP analogue, structural genomics, structural genomics consortium, SGC, signaling protein; HET: GNP; 2.80A {Homo sapiens} SCOP: c.37.1.8

Probab=96.95  E-value=0.00012  Score=48.63  Aligned_cols=49  Identities=10%  Similarity=-0.004  Sum_probs=37.0

Q ss_pred             CCCcEEeeccCCCccccccc----cccc-----CCCCccccccCCcccccccccccccc
Q psy10878          5 AKKPILLPSASEDPSIDNWD----KASW-----ENVTPIVSEQGDGEIIEIIDPSLKLV   54 (131)
Q Consensus         5 ~~kp~vlv~NK~Dl~~~~~~----~~~~-----~~~~~is~~~~~~~~~~~~~~~~~~~   54 (131)
                      .+.|+++|+||+|+.+....    ..++     ..++++|++.+.| +.++++.+.+.+
T Consensus       127 ~~~piiiv~NK~Dl~~~~~v~~~~~~~~~~~~~~~~~~~Sa~~~~g-i~~l~~~l~~~i  184 (192)
T 2fg5_A          127 ENIVMAIAGNKCDLSDIREVPLKDAKEYAESIGAIVVETSAKNAIN-IEELFQGISRQI  184 (192)
T ss_dssp             TTCEEEEEEECGGGGGGCCSCHHHHHHHHHTTTCEEEECBTTTTBS-HHHHHHHHHHTC
T ss_pred             CCCcEEEEEECcccccccccCHHHHHHHHHHcCCEEEEEeCCCCcC-HHHHHHHHHHHH
Confidence            37899999999999653211    1112     3468999999999 999999887766

>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=96.95  E-value=0.00012  Score=46.98  Aligned_cols=49  Identities=14%  Similarity=0.024  Sum_probs=36.0

Q ss_pred             CCCcEEeeccCCCccccccc----cccc-----CCCCccccccCCcccccccccccccc
Q psy10878          5 AKKPILLPSASEDPSIDNWD----KASW-----ENVTPIVSEQGDGEIIEIIDPSLKLV   54 (131)
Q Consensus         5 ~~kp~vlv~NK~Dl~~~~~~----~~~~-----~~~~~is~~~~~~~~~~~~~~~~~~~   54 (131)
                      .+.|+++|+||+|+.+....    ...+     ...+++|++++.| +.++++.+.+.+
T Consensus       110 ~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~g~g-i~~l~~~i~~~~  167 (170)
T 1r2q_A          110 PNIVIALSGNKADLANKRAVDFQEAQSYADDNSLLFMETSAKTSMN-VNEIFMAIAKKL  167 (170)
T ss_dssp             TTCEEEEEEECGGGGGGCCSCHHHHHHHHHHTTCEEEECCTTTCTT-HHHHHHHHHHTS
T ss_pred             CCCcEEEEEECccCccccccCHHHHHHHHHHcCCeEEEEeCCCCCC-HHHHHHHHHHHH
Confidence            36789999999999653211    1112     3467899999999 999998887665

>1r8s_A ADP-ribosylation factor 1; protein transport/exchange factor, protein transport-exchang complex; HET: GDP; 1.46A {Bos taurus} SCOP: c.37.1.8 PDB: 1re0_A* 1s9d_A* 1u81_A* 1r8q_A* 1rrf_A* 1rrg_A* 1hur_A* 1o3y_A* 1j2j_A* 2j59_A* 1mr3_F* 2k5u_A* 3lrp_A* 3tjz_A* 3rd1_A* 2ksq_A* 2a5d_A* 2a5f_A* 2j5x_A* 1e0s_A* ...

Probab=96.94  E-value=0.00012  Score=46.92  Aligned_cols=49  Identities=14%  Similarity=0.078  Sum_probs=35.7

Q ss_pred             CCCcEEeeccCCCcccccc---ccccc---------CCCCccccccCCcccccccccccccc
Q psy10878          5 AKKPILLPSASEDPSIDNW---DKASW---------ENVTPIVSEQGDGEIIEIIDPSLKLV   54 (131)
Q Consensus         5 ~~kp~vlv~NK~Dl~~~~~---~~~~~---------~~~~~is~~~~~~~~~~~~~~~~~~~   54 (131)
                      .+.|+++|+||+|+.+...   ....+         ..++++||+++.| +.++++.+.+.+
T Consensus       100 ~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~g-i~~l~~~l~~~i  160 (164)
T 1r8s_A          100 RDAVLLVFANKQDLPNAMNAAEITDKLGLHSLRHRNWYIQATCATSGDG-LYEGLDWLSNQL  160 (164)
T ss_dssp             TTCEEEEEEECTTSTTCCCHHHHHHHTTGGGCSSCCEEEEECBTTTTBT-HHHHHHHHHHHC
T ss_pred             cCCeEEEEEECcCCcCCCCHHHHHHHhCcccccCccEEEEEcccCCCcC-HHHHHHHHHHHH
Confidence            3789999999999965311   11111         1367899999999 999988877655

>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=96.94  E-value=6.7e-05  Score=48.74  Aligned_cols=49  Identities=20%  Similarity=0.139  Sum_probs=36.0

Q ss_pred             CCCcEEeeccCCCcccccc---ccccc-----CCCCccccccCCcccccccccccccc
Q psy10878          5 AKKPILLPSASEDPSIDNW---DKASW-----ENVTPIVSEQGDGEIIEIIDPSLKLV   54 (131)
Q Consensus         5 ~~kp~vlv~NK~Dl~~~~~---~~~~~-----~~~~~is~~~~~~~~~~~~~~~~~~~   54 (131)
                      .++|+++|+||+|+.....   ....+     ...+++||+++.| +.++++.+.+.+
T Consensus       107 ~~~p~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~SA~~~~~-v~~l~~~l~~~~  163 (165)
T 2wji_A          107 MGANLLLALNKMDLAKSLGIEIDVDKLEKILGVKVVPLSAAKKMG-IEELKKAISIAV  163 (165)
T ss_dssp             TTCCEEEEEECHHHHHHTTCCCCHHHHHHHHTSCEEECBGGGTBS-HHHHHHHHHHHT
T ss_pred             cCCCEEEEEEchHhccccChhhHHHHHHHHhCCCEEEEEcCCCCC-HHHHHHHHHHHh
Confidence            4789999999999854321   11222     4568999999999 999988776543

>2f7s_A C25KG, RAS-related protein RAB-27B; G-protein, structural genomics, structural genomics consortium, SGC, signaling protein; HET: GDP; 2.70A {Homo sapiens} SCOP: c.37.1.8 PDB: 2iez_A*

Probab=96.92  E-value=0.00017  Score=48.74  Aligned_cols=49  Identities=12%  Similarity=0.102  Sum_probs=36.6

Q ss_pred             CCCcEEeeccCCCccccccc----cccc-----CCCCccccccCCcccccccccccccc
Q psy10878          5 AKKPILLPSASEDPSIDNWD----KASW-----ENVTPIVSEQGDGEIIEIIDPSLKLV   54 (131)
Q Consensus         5 ~~kp~vlv~NK~Dl~~~~~~----~~~~-----~~~~~is~~~~~~~~~~~~~~~~~~~   54 (131)
                      .++|+++|+||+|+.+....    ..++     ..++++|++++.| +.++++.+.+.+
T Consensus       140 ~~~piilV~NK~Dl~~~~~v~~~~~~~~~~~~~~~~~~~Sa~~g~g-i~~l~~~l~~~i  197 (217)
T 2f7s_A          140 ENPDIVLIGNKADLPDQREVNERQARELADKYGIPYFETSAATGQN-VEKAVETLLDLI  197 (217)
T ss_dssp             TCCEEEEEEECTTCGGGCCSCHHHHHHHHHHTTCCEEEEBTTTTBT-HHHHHHHHHHHH
T ss_pred             CCCCEEEEEECCccccccccCHHHHHHHHHHCCCcEEEEECCCCCC-HHHHHHHHHHHH
Confidence            57899999999999653221    1122     4578999999999 999988876654

>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=96.92  E-value=0.00012  Score=47.04  Aligned_cols=49  Identities=10%  Similarity=-0.048  Sum_probs=35.8

Q ss_pred             CCCcEEeeccCCCccccccc----cccc-----CCCCccccccCCcccccccccccccc
Q psy10878          5 AKKPILLPSASEDPSIDNWD----KASW-----ENVTPIVSEQGDGEIIEIIDPSLKLV   54 (131)
Q Consensus         5 ~~kp~vlv~NK~Dl~~~~~~----~~~~-----~~~~~is~~~~~~~~~~~~~~~~~~~   54 (131)
                      .+.|+++|+||+|+.+....    ...+     ...+++|++++.| +.++++.+.+.+
T Consensus       108 ~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~-i~~l~~~l~~~~  165 (168)
T 1z2a_A          108 GDIPTALVQNKIDLLDDSCIKNEEAEGLAKRLKLRFYRTSVKEDLN-VSEVFKYLAEKH  165 (168)
T ss_dssp             CSCCEEEEEECGGGGGGCSSCHHHHHHHHHHHTCEEEECBTTTTBS-SHHHHHHHHHHH
T ss_pred             CCCCEEEEEECcccCcccccCHHHHHHHHHHcCCeEEEEecCCCCC-HHHHHHHHHHHH
Confidence            37899999999999653221    1112     4578999999999 999888766543

>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=96.92  E-value=0.00015  Score=48.13  Aligned_cols=49  Identities=10%  Similarity=-0.006  Sum_probs=36.0

Q ss_pred             CCCcEEeeccCCCccccccc----cccc-----CCCCccccccCCcccccccccccccc
Q psy10878          5 AKKPILLPSASEDPSIDNWD----KASW-----ENVTPIVSEQGDGEIIEIIDPSLKLV   54 (131)
Q Consensus         5 ~~kp~vlv~NK~Dl~~~~~~----~~~~-----~~~~~is~~~~~~~~~~~~~~~~~~~   54 (131)
                      .+.|+++|+||+|+.+....    ...+     ...+++|++++.| +.++++.+.+.+
T Consensus       125 ~~~piilv~nK~Dl~~~~~v~~~~~~~~~~~~~~~~~~~Sa~~~~g-i~~l~~~l~~~i  182 (191)
T 2a5j_A          125 SNMVIMLIGNKSDLESRRDVKREEGEAFAREHGLIFMETSAKTACN-VEEAFINTAKEI  182 (191)
T ss_dssp             TTCEEEEEEECTTCGGGCCSCHHHHHHHHHHHTCEEEEECTTTCTT-HHHHHHHHHHHH
T ss_pred             CCCCEEEEEECcccCCccccCHHHHHHHHHHcCCEEEEEeCCCCCC-HHHHHHHHHHHH
Confidence            47899999999999653221    1122     4568899999999 999988776554

>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=96.90  E-value=0.00013  Score=47.80  Aligned_cols=49  Identities=4%  Similarity=-0.114  Sum_probs=31.5

Q ss_pred             CCCcEEeeccCCCccccccc----cccc-----CCCCccccccCCcccccccccccccc
Q psy10878          5 AKKPILLPSASEDPSIDNWD----KASW-----ENVTPIVSEQGDGEIIEIIDPSLKLV   54 (131)
Q Consensus         5 ~~kp~vlv~NK~Dl~~~~~~----~~~~-----~~~~~is~~~~~~~~~~~~~~~~~~~   54 (131)
                      .+.|+++|+||+|+.+....    ...+     ..++++||+++.| +.++++.+.+.+
T Consensus       112 ~~~piilv~nK~Dl~~~~~v~~~~~~~~~~~~~~~~~~~Sa~~~~~-i~~l~~~l~~~i  169 (183)
T 2fu5_C          112 ADVEKMILGNKCDVNDKRQVSKERGEKLALDYGIKFMETSAKANIN-VENAFFTLARDI  169 (183)
T ss_dssp             TTCEEEEEEEC--CCSCCCSCHHHHHHHHHHHTCEEEECCC---CC-HHHHHHHHHHHH
T ss_pred             CCCCEEEEEECccCCccCcCCHHHHHHHHHHcCCeEEEEeCCCCCC-HHHHHHHHHHHH
Confidence            46899999999999653211    1122     4578999999999 999988876654

>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=96.89  E-value=8.6e-05  Score=52.29  Aligned_cols=50  Identities=18%  Similarity=0.205  Sum_probs=38.3

Q ss_pred             ccCCCcEEeeccCCCccccccc---cccc-----CCCCccccccCCccccccccccccc
Q psy10878          3 YKAKKPILLPSASEDPSIDNWD---KASW-----ENVTPIVSEQGDGEIIEIIDPSLKL   53 (131)
Q Consensus         3 ~~~~kp~vlv~NK~Dl~~~~~~---~~~~-----~~~~~is~~~~~~~~~~~~~~~~~~   53 (131)
                      +..++|+++|+||+|+.+....   ...+     ..++++||.++.| +.++++.+.+.
T Consensus       107 ~~~~~pvilv~NK~Dl~~~~~~~~~~~~l~~~lg~~vi~~SA~~g~g-i~el~~~i~~~  164 (256)
T 3iby_A          107 FELGKPVVVALNMMDIAEHRGISIDTEKLESLLGCSVIPIQAHKNIG-IPALQQSLLHC  164 (256)
T ss_dssp             TTSCSCEEEEEECHHHHHHTTCEECHHHHHHHHCSCEEECBGGGTBS-HHHHHHHHHTC
T ss_pred             HHcCCCEEEEEEChhcCCcCCcHHHHHHHHHHcCCCEEEEECCCCCC-HHHHHHHHHhh
Confidence            3458999999999998654321   1122     5678999999999 99999888776

>1ega_A Protein (GTP-binding protein ERA); GTPase, RNA-binding, RAS-like, hydrolase; 2.40A {Escherichia coli} SCOP: c.37.1.8 d.52.3.1 PDB: 1x1l_X 3ieu_A* 1x18_X

Probab=96.89  E-value=0.0002  Score=51.55  Aligned_cols=50  Identities=20%  Similarity=0.172  Sum_probs=38.1

Q ss_pred             cCCCcEEeeccCCCccc-cccc---cccc------CCCCccccccCCcccccccccccccc
Q psy10878          4 KAKKPILLPSASEDPSI-DNWD---KASW------ENVTPIVSEQGDGEIIEIIDPSLKLV   54 (131)
Q Consensus         4 ~~~kp~vlv~NK~Dl~~-~~~~---~~~~------~~~~~is~~~~~~~~~~~~~~~~~~~   54 (131)
                      ..++|+++++||+|+.. ....   ..++      ..++++|+.++.| +.++++.+...+
T Consensus       114 ~~~~P~ilvlNK~D~~~~~~~~~~~l~~l~~~~~~~~~i~iSA~~g~~-v~~l~~~i~~~l  173 (301)
T 1ega_A          114 EGKAPVILAVNKVDNVQEKADLLPHLQFLASQMNFLDIVPISAETGLN-VDTIAAIVRKHL  173 (301)
T ss_dssp             SSSSCEEEEEESTTTCCCHHHHHHHHHHHHTTSCCSEEEECCTTTTTT-HHHHHHHHHTTC
T ss_pred             hcCCCEEEEEECcccCccHHHHHHHHHHHHHhcCcCceEEEECCCCCC-HHHHHHHHHHhC
Confidence            45899999999999975 2211   1111      3578999999999 999999988776

>4bas_A ADP-ribosylation factor, putative (small GTPase, putative); hydrolase; HET: GNP; 2.00A {Trypanosoma brucei TREU927}

Probab=96.88  E-value=0.00011  Score=48.66  Aligned_cols=48  Identities=13%  Similarity=-0.022  Sum_probs=36.2

Q ss_pred             CCcEEeeccCCCccccc---cccccc----------CCCCccccccCCcccccccccccccc
Q psy10878          6 KKPILLPSASEDPSIDN---WDKASW----------ENVTPIVSEQGDGEIIEIIDPSLKLV   54 (131)
Q Consensus         6 ~kp~vlv~NK~Dl~~~~---~~~~~~----------~~~~~is~~~~~~~~~~~~~~~~~~~   54 (131)
                      ++|+++|+||+|+....   .....+          ..++++||+++.| +.++++.+.+.+
T Consensus       127 ~~piilv~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~g~g-v~~l~~~l~~~~  187 (199)
T 4bas_A          127 RVPFLFFANKMDAAGAKTAAELVEILDLTTLMGDHPFVIFASNGLKGTG-VHEGFSWLQETA  187 (199)
T ss_dssp             BCCEEEEEECTTSTTCCCHHHHHHHHTHHHHHTTSCEEEEECBTTTTBT-HHHHHHHHHHHH
T ss_pred             CCCEEEEEECcCCCCCCCHHHHHHHhcchhhccCCeeEEEEeeCCCccC-HHHHHHHHHHHH
Confidence            88999999999997652   111111          2358999999999 999999887765

>3oes_A GTPase rhebl1; small GTPase, structural genomics, structural genomics conso SGC, hydrolase; HET: GNP; 2.30A {Homo sapiens}

Probab=96.87  E-value=8e-05  Score=49.86  Aligned_cols=49  Identities=10%  Similarity=0.113  Sum_probs=36.7

Q ss_pred             CCCcEEeeccCCCcccccccc----ccc-----CCCCccccccCCcccccccccccccc
Q psy10878          5 AKKPILLPSASEDPSIDNWDK----ASW-----ENVTPIVSEQGDGEIIEIIDPSLKLV   54 (131)
Q Consensus         5 ~~kp~vlv~NK~Dl~~~~~~~----~~~-----~~~~~is~~~~~~~~~~~~~~~~~~~   54 (131)
                      .++|+++|+||+|+.......    ..+     ...+++||+++.| +.++++.+.+.+
T Consensus       128 ~~~piilv~nK~Dl~~~~~v~~~~~~~~~~~~~~~~~~~Sa~~~~~-v~~l~~~l~~~i  185 (201)
T 3oes_A          128 TRVPVVLVGNKADLSPEREVQAVEGKKLAESWGATFMESSARENQL-TQGIFTKVIQEI  185 (201)
T ss_dssp             -CCCEEEEEECTTCGGGCCSCHHHHHHHHHHHTCEEEECCTTCHHH-HHHHHHHHHHHH
T ss_pred             CCCCEEEEEECccCccccccCHHHHHHHHHHhCCeEEEEeCCCCCC-HHHHHHHHHHHH
Confidence            478999999999986543211    112     5568899999999 999998887765

>2x77_A ADP-ribosylation factor; GTP-binding protein, small GTPase, nucleotide-binding; HET: GDP; 2.10A {Leishmania major}

Probab=96.87  E-value=0.00013  Score=48.11  Aligned_cols=49  Identities=18%  Similarity=0.159  Sum_probs=36.0

Q ss_pred             CCCcEEeeccCCCccccc---cccccc---------CCCCccccccCCcccccccccccccc
Q psy10878          5 AKKPILLPSASEDPSIDN---WDKASW---------ENVTPIVSEQGDGEIIEIIDPSLKLV   54 (131)
Q Consensus         5 ~~kp~vlv~NK~Dl~~~~---~~~~~~---------~~~~~is~~~~~~~~~~~~~~~~~~~   54 (131)
                      .++|+++|+||+|+.+..   .....+         -.++++|++++.| +.++++.+.+.+
T Consensus       122 ~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~g-i~~l~~~l~~~i  182 (189)
T 2x77_A          122 RKSLLLIFANKQDLPDAASEAEIAEQLGVSSIMNRTWTIVKSSSKTGDG-LVEGMDWLVERL  182 (189)
T ss_dssp             TTCEEEEEEECTTSTTCCCHHHHHHHTTGGGCCSSCEEEEECCTTTCTT-HHHHHHHHHHHH
T ss_pred             CCCeEEEEEECCCCcCCCCHHHHHHHhChhhccCCceEEEEccCCCccC-HHHHHHHHHHHH
Confidence            478999999999996542   111111         1468899999999 999988877655

>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=96.86  E-value=0.00019  Score=48.02  Aligned_cols=49  Identities=8%  Similarity=0.066  Sum_probs=37.0

Q ss_pred             CCCcEEeeccCCCccccccc-c---ccc-----CCCCccccccCCcccccccccccccc
Q psy10878          5 AKKPILLPSASEDPSIDNWD-K---ASW-----ENVTPIVSEQGDGEIIEIIDPSLKLV   54 (131)
Q Consensus         5 ~~kp~vlv~NK~Dl~~~~~~-~---~~~-----~~~~~is~~~~~~~~~~~~~~~~~~~   54 (131)
                      .++|+++|.||+|+.+.... .   ..+     ...+++||+++.| +.++++.+.+.+
T Consensus       129 ~~~piilv~nK~Dl~~~~~v~~~~~~~~a~~~~~~~~e~Sa~~~~~-v~~lf~~l~~~i  186 (195)
T 3cbq_A          129 HDLPVILVGNKSDLARSREVSLEEGRHLAGTLSCKHIETSAALHHN-TRELFEGAVRQI  186 (195)
T ss_dssp             SCCCEEEEEECTTCTTTCCSCHHHHHHHHHHTTCEEEEEBTTTTBS-HHHHHHHHHHHH
T ss_pred             CCCCEEEEeechhccccCCcCHHHHHHHHHHhCCEEEEEcCCCCCC-HHHHHHHHHHHH
Confidence            47899999999999653211 1   112     3578999999999 999998887765

>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=96.86  E-value=0.00018  Score=47.64  Aligned_cols=49  Identities=12%  Similarity=-0.044  Sum_probs=36.4

Q ss_pred             CCCcEEeeccCCCcccccc---ccccc---------CCCCccccccCCcccccccccccccc
Q psy10878          5 AKKPILLPSASEDPSIDNW---DKASW---------ENVTPIVSEQGDGEIIEIIDPSLKLV   54 (131)
Q Consensus         5 ~~kp~vlv~NK~Dl~~~~~---~~~~~---------~~~~~is~~~~~~~~~~~~~~~~~~~   54 (131)
                      .+.|+++|+||+|+.....   ....+         ...+++||+++.| +.++++.+.+.+
T Consensus       123 ~~~piilv~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~SA~~g~g-v~~l~~~l~~~~  183 (188)
T 1zd9_A          123 QGIPVLVLGNKRDLPGALDEKELIEKMNLSAIQDREICCYSISCKEKDN-IDITLQWLIQHS  183 (188)
T ss_dssp             TTCCEEEEEECTTSTTCCCHHHHHHHTTGGGCCSSCEEEEECCTTTCTT-HHHHHHHHHHTC
T ss_pred             CCCCEEEEEECCCCccCCCHHHHHHHhChhhhccCCeeEEEEECCCCCC-HHHHHHHHHHHH
Confidence            5789999999999965311   11111         2357999999999 999999887766

>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=96.85  E-value=0.00022  Score=47.77  Aligned_cols=49  Identities=6%  Similarity=-0.063  Sum_probs=36.4

Q ss_pred             CCCcEEeeccCCCccccccc----cccc-----CCCCccccccCCcccccccccccccc
Q psy10878          5 AKKPILLPSASEDPSIDNWD----KASW-----ENVTPIVSEQGDGEIIEIIDPSLKLV   54 (131)
Q Consensus         5 ~~kp~vlv~NK~Dl~~~~~~----~~~~-----~~~~~is~~~~~~~~~~~~~~~~~~~   54 (131)
                      .+.|+++|+||+|+.+....    ...+     ..++++||.++.| +.++++.+.+.+
T Consensus       112 ~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~g~g-i~~l~~~l~~~i  169 (206)
T 2bcg_Y          112 STVLKLLVGNKCDLKDKRVVEYDVAKEFADANKMPFLETSALDSTN-VEDAFLTMARQI  169 (206)
T ss_dssp             TTCEEEEEEECTTCTTTCCSCHHHHHHHHHHTTCCEEECCTTTCTT-HHHHHHHHHHHH
T ss_pred             CCCCEEEEEECCCCccccccCHHHHHHHHHHcCCeEEEEeCCCCCC-HHHHHHHHHHHH
Confidence            46899999999999653211    1112     4578999999999 999998876654

>2ew1_A RAS-related protein RAB-30; G-protein, GTP analogue, structural genomics, structural genomics consortium, SGC, signaling protein; HET: GNP; 2.00A {Homo sapiens} SCOP: c.37.1.8

Probab=96.84  E-value=0.00017  Score=48.57  Aligned_cols=49  Identities=8%  Similarity=-0.050  Sum_probs=36.2

Q ss_pred             CCCcEEeeccCCCccccccc----cccc-----CCCCccccccCCcccccccccccccc
Q psy10878          5 AKKPILLPSASEDPSIDNWD----KASW-----ENVTPIVSEQGDGEIIEIIDPSLKLV   54 (131)
Q Consensus         5 ~~kp~vlv~NK~Dl~~~~~~----~~~~-----~~~~~is~~~~~~~~~~~~~~~~~~~   54 (131)
                      .+.|+++|+||+|+.+....    ...+     ...+++||+++.| +.++++.+.+.+
T Consensus       130 ~~~piilv~NK~Dl~~~~~v~~~~~~~~~~~~~~~~~~~Sa~~g~g-v~~l~~~l~~~i  187 (201)
T 2ew1_A          130 NKVITVLVGNKIDLAERREVSQQRAEEFSEAQDMYYLETSAKESDN-VEKLFLDLACRL  187 (201)
T ss_dssp             TTCEEEEEEECGGGGGGCSSCHHHHHHHHHHHTCCEEECCTTTCTT-HHHHHHHHHHHH
T ss_pred             CCCCEEEEEECCCCccccccCHHHHHHHHHHcCCEEEEEeCCCCCC-HHHHHHHHHHHH
Confidence            46899999999999653221    1122     4568899999999 999988776654

>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=96.84  E-value=0.0002  Score=49.15  Aligned_cols=49  Identities=8%  Similarity=0.007  Sum_probs=36.3

Q ss_pred             CCCcEEeeccCCCcccccccc----ccc-----CCCCccccccCCcccccccccccccc
Q psy10878          5 AKKPILLPSASEDPSIDNWDK----ASW-----ENVTPIVSEQGDGEIIEIIDPSLKLV   54 (131)
Q Consensus         5 ~~kp~vlv~NK~Dl~~~~~~~----~~~-----~~~~~is~~~~~~~~~~~~~~~~~~~   54 (131)
                      .+.|++||.||+|+.+.....    ..|     ...+.+||+++.| +.++++.+.+.+
T Consensus       117 ~~~piilVgNK~Dl~~~r~V~~~e~~~~a~~~~~~~~e~SAktg~n-V~e~F~~i~~~i  174 (216)
T 4dkx_A          117 SDVIIMLVGNKTDLADKRQVSIEEGERKAKELNVMFIETSAKAGYN-VKQLFRRVAAAL  174 (216)
T ss_dssp             TSSEEEEEEECTTCGGGCCSCHHHHHHHHHHHTCEEEEEBTTTTBS-HHHHHHHHHHHC
T ss_pred             CCCeEEEEeeccchHhcCcccHHHHhhHHHHhCCeeEEEeCCCCcC-HHHHHHHHHHHH
Confidence            467999999999996643211    122     4457799999999 999998876655

>2il1_A RAB12; G-protein, GDP, GTPase, predicted, structural genomics, structural genomics consortium, SGC, protein transport; HET: GDP; 2.10A {Homo sapiens}

Probab=96.84  E-value=0.00015  Score=48.26  Aligned_cols=49  Identities=12%  Similarity=0.041  Sum_probs=35.4

Q ss_pred             CCCcEEeeccCCCcccccccc----ccc------CCCCccccccCCcccccccccccccc
Q psy10878          5 AKKPILLPSASEDPSIDNWDK----ASW------ENVTPIVSEQGDGEIIEIIDPSLKLV   54 (131)
Q Consensus         5 ~~kp~vlv~NK~Dl~~~~~~~----~~~------~~~~~is~~~~~~~~~~~~~~~~~~~   54 (131)
                      .++|+++|+||+|+.+.....    ..+      ...+++||+++.| +.++++.+.+.+
T Consensus       130 ~~~piilV~NK~Dl~~~~~v~~~~~~~~~~~~~~~~~~~~SA~~g~g-i~~l~~~l~~~i  188 (192)
T 2il1_A          130 EDAELLLVGNKLDCETDREITRQQGEKFAQQITGMRFCEASAKDNFN-VDEIFLKLVDDI  188 (192)
T ss_dssp             TTCEEEEEEECGGGGGGCCSCHHHHHHHHHTSTTCEEEECBTTTTBS-HHHHHHHHHHHH
T ss_pred             CCCcEEEEEECcccccccccCHHHHHHHHHhcCCCeEEEEeCCCCCC-HHHHHHHHHHHH
Confidence            478999999999996532211    112      3467899999999 999988776543

>2oil_A CATX-8, RAS-related protein RAB-25; G-protein, GDP, structural genomics, structural genomics consortium, SGC, protein transport; HET: GDP; 2.30A {Homo sapiens}

Probab=96.83  E-value=0.00015  Score=48.01  Aligned_cols=49  Identities=12%  Similarity=0.013  Sum_probs=36.0

Q ss_pred             CCCcEEeeccCCCcccccccc----ccc-----CCCCccccccCCcccccccccccccc
Q psy10878          5 AKKPILLPSASEDPSIDNWDK----ASW-----ENVTPIVSEQGDGEIIEIIDPSLKLV   54 (131)
Q Consensus         5 ~~kp~vlv~NK~Dl~~~~~~~----~~~-----~~~~~is~~~~~~~~~~~~~~~~~~~   54 (131)
                      .+.|+++|+||+|+.......    ..+     ..++++|++++.| +.++++.+.+.+
T Consensus       129 ~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~g-i~~l~~~l~~~i  186 (193)
T 2oil_A          129 ATIVVMLVGNKSDLSQAREVPTEEARMFAENNGLLFLETSALDSTN-VELAFETVLKEI  186 (193)
T ss_dssp             TTCEEEEEEECGGGGGGCCSCHHHHHHHHHHTTCEEEEECTTTCTT-HHHHHHHHHHHH
T ss_pred             CCCeEEEEEECCCcccccccCHHHHHHHHHHcCCEEEEEeCCCCCC-HHHHHHHHHHHH
Confidence            478999999999996532211    112     4568899999999 999988776543

>1lvg_A Guanylate kinase, GMP kinase; transferase; HET: ADP 5GP; 2.10A {Mus musculus} SCOP: c.37.1.1

Probab=96.82  E-value=0.00051  Score=46.29  Aligned_cols=21  Identities=24%  Similarity=0.553  Sum_probs=19.1

Q ss_pred             EEEEEcCCCCCchhhhhhhhh
Q psy10878         72 KVIVIGDPTVGKTSFVQRYVQ   92 (131)
Q Consensus        72 ki~vvG~~~vGKSsli~~~~~   92 (131)
                      .++++|++|+|||||++.+.+
T Consensus         6 ~i~lvGpsGaGKSTLl~~L~~   26 (198)
T 1lvg_A            6 PVVLSGPSGAGKSTLLKKLFQ   26 (198)
T ss_dssp             CEEEECCTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHh
Confidence            489999999999999998874

>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=96.81  E-value=0.00034  Score=46.48  Aligned_cols=47  Identities=13%  Similarity=0.007  Sum_probs=33.4

Q ss_pred             CCCcEEeeccCCCccccc--cccccc-----------------CCCCccccccCCcccccccccccc
Q psy10878          5 AKKPILLPSASEDPSIDN--WDKASW-----------------ENVTPIVSEQGDGEIIEIIDPSLK   52 (131)
Q Consensus         5 ~~kp~vlv~NK~Dl~~~~--~~~~~~-----------------~~~~~is~~~~~~~~~~~~~~~~~   52 (131)
                      .++|+++|+||+|+.+..  ....++                 ...+++||+++.| +.++++.+.+
T Consensus       123 ~~~piilv~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~g~g-i~~l~~~l~~  188 (190)
T 1m2o_B          123 KDVPFVILGNKIDAPNAVSEAELRSALGLLNTTGSQRIEGQRPVEVFMCSVVMRNG-YLEAFQWLSQ  188 (190)
T ss_dssp             TTCCEEEEEECTTSTTCCCHHHHHHHTTCSSCCC---CCSSCCEEEEECBTTTTBS-HHHHHHHHHT
T ss_pred             cCCCEEEEEECCCCcCCCCHHHHHHHhCCccccccccccccceEEEEEeECCcCCC-HHHHHHHHHh
Confidence            578999999999996521  111111                 1367899999999 9988877654

>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=96.80  E-value=0.00016  Score=47.75  Aligned_cols=49  Identities=10%  Similarity=0.071  Sum_probs=36.7

Q ss_pred             CCCcEEeeccCCCcccccc--cc-cc-----c----CCCCccccccCCcccccccccccccc
Q psy10878          5 AKKPILLPSASEDPSIDNW--DK-AS-----W----ENVTPIVSEQGDGEIIEIIDPSLKLV   54 (131)
Q Consensus         5 ~~kp~vlv~NK~Dl~~~~~--~~-~~-----~----~~~~~is~~~~~~~~~~~~~~~~~~~   54 (131)
                      .++|+++|+||+|+.+...  .. ..     +    ..++++||+++.| +.++++.+.+.+
T Consensus       116 ~~~piilv~NK~Dl~~~~~~~~i~~~~~~~~~~~~~~~~~~~Sa~~g~g-i~~l~~~l~~~~  176 (187)
T 1zj6_A          116 RKAGLLIFANKQDVKECMTVAEISQFLKLTSIKDHQWHIQACCALTGEG-LCQGLEWMMSRL  176 (187)
T ss_dssp             TTCEEEEEEECTTSTTCCCHHHHHHHHTGGGCCSSCEEEEECBTTTTBT-HHHHHHHHHHHH
T ss_pred             CCCeEEEEEECCCCcCCCCHHHHHHHhChhhhcCCCcEEEEccCCCCcC-HHHHHHHHHHHH
Confidence            5789999999999965311  11 11     1    2467899999999 999999888776

>3reg_A RHO-like small GTPase; cytoskeleton, nucleotide-binding, GTP-binding, signaling Pro lipoprotein, prenylation; HET: GSP; 1.80A {Entamoeba histolytica} PDB: 3ref_B* 4dvg_A*

Probab=96.79  E-value=0.00022  Score=47.33  Aligned_cols=48  Identities=17%  Similarity=0.118  Sum_probs=35.8

Q ss_pred             CCcEEeeccCCCccccc---ccc---ccc------CCCCccccccCCcccccccccccccc
Q psy10878          6 KKPILLPSASEDPSIDN---WDK---ASW------ENVTPIVSEQGDGEIIEIIDPSLKLV   54 (131)
Q Consensus         6 ~kp~vlv~NK~Dl~~~~---~~~---~~~------~~~~~is~~~~~~~~~~~~~~~~~~~   54 (131)
                      +.|+++|+||+|+.+..   ...   ..+      ...+++||+++.| +.++++.+.+.+
T Consensus       127 ~~p~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~g-i~~l~~~l~~~i  186 (194)
T 3reg_A          127 TAKTVLVGLKVDLRKDGSDDVTKQEGDDLCQKLGCVAYIEASSVAKIG-LNEVFEKSVDCI  186 (194)
T ss_dssp             TSEEEEEEECGGGCCTTTTCCCHHHHHHHHHHHTCSCEEECBTTTTBS-HHHHHHHHHHHH
T ss_pred             CCCEEEEEEChhhccCCCCcccHHHHHHHHHhcCCCEEEEeecCCCCC-HHHHHHHHHHHH
Confidence            68999999999996431   111   111      3378999999999 999998887765

>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=96.77  E-value=0.00015  Score=47.40  Aligned_cols=49  Identities=14%  Similarity=0.186  Sum_probs=35.6

Q ss_pred             CCCcEEeeccCCCccccc--ccccc-c---------CCCCccccccCCcccccccccccccc
Q psy10878          5 AKKPILLPSASEDPSIDN--WDKAS-W---------ENVTPIVSEQGDGEIIEIIDPSLKLV   54 (131)
Q Consensus         5 ~~kp~vlv~NK~Dl~~~~--~~~~~-~---------~~~~~is~~~~~~~~~~~~~~~~~~~   54 (131)
                      .++|+++|+||+|+.+..  ....+ +         ..++++|++++.| +.++++.+.+.+
T Consensus       118 ~~~piilv~nK~Dl~~~~~~~~i~~~~~~~~~~~~~~~~~~~Sa~~~~g-i~~l~~~l~~~~  178 (183)
T 1moz_A          118 QDAALLVFANKQDQPGALSASEVSKELNLVELKDRSWSIVASSAIKGEG-ITEGLDWLIDVI  178 (183)
T ss_dssp             SSCEEEEEEECTTSTTCCCHHHHHHHTTTTTCCSSCEEEEEEBGGGTBT-HHHHHHHHHHHH
T ss_pred             CCCeEEEEEECCCCCCCCCHHHHHHHhCcccccCCceEEEEccCCCCcC-HHHHHHHHHHHH
Confidence            578999999999996531  11111 1         1468899999999 999988776654

>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=96.76  E-value=0.00021  Score=47.58  Aligned_cols=49  Identities=14%  Similarity=0.067  Sum_probs=36.2

Q ss_pred             CCCcEEeeccCCCccccccc----cccc-----CCCCccccccCC-cccccccccccccc
Q psy10878          5 AKKPILLPSASEDPSIDNWD----KASW-----ENVTPIVSEQGD-GEIIEIIDPSLKLV   54 (131)
Q Consensus         5 ~~kp~vlv~NK~Dl~~~~~~----~~~~-----~~~~~is~~~~~-~~~~~~~~~~~~~~   54 (131)
                      .+.|+++|+||+|+.+....    ...+     ...+++|++++. | +.++++.+.+.+
T Consensus       131 ~~~piilv~NK~Dl~~~~~v~~~~~~~~~~~~~~~~~~~Sa~~g~~g-i~~l~~~l~~~i  189 (196)
T 2atv_A          131 KNVTLILVGNKADLDHSRQVSTEEGEKLATELACAFYECSACTGEGN-ITEIFYELCREV  189 (196)
T ss_dssp             SCCCEEEEEECGGGGGGCCSCHHHHHHHHHHHTSEEEECCTTTCTTC-HHHHHHHHHHHH
T ss_pred             CCCcEEEEEECcccccccccCHHHHHHHHHHhCCeEEEECCCcCCcC-HHHHHHHHHHHH
Confidence            47899999999999653211    1112     457889999999 8 999988776654

>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=95.80  E-value=0.00022  Score=47.76  Aligned_cols=47  Identities=15%  Similarity=0.193  Sum_probs=34.0

Q ss_pred             CCcEEeeccCCCcccccc----------------ccccc-----C-CCCccccccCCccccccccccccc
Q psy10878          6 KKPILLPSASEDPSIDNW----------------DKASW-----E-NVTPIVSEQGDGEIIEIIDPSLKL   53 (131)
Q Consensus         6 ~kp~vlv~NK~Dl~~~~~----------------~~~~~-----~-~~~~is~~~~~~~~~~~~~~~~~~   53 (131)
                      ++|+++|+||+|+.+...                ....+     . ..+++||+++.| +.++++.+.+.
T Consensus       134 ~~piilv~NK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~~vSA~~g~g-i~~l~~~l~~~  202 (204)
T 3th5_A          134 NTPIILVGTKLDLRDDKDTIEKLKEKKLTPITYPQGLAMAKEIGAVKYLECSALTQRG-LKTVFDEAIRA  202 (204)
Confidence            789999999999965321                01111     1 578899999999 99888876553

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

Probab=96.76  E-value=0.00078  Score=52.42  Aligned_cols=23  Identities=22%  Similarity=0.498  Sum_probs=20.4

Q ss_pred             eeeEEEEEcCCCCCchhhhhhhh
Q psy10878         69 KLFKVIVIGDPTVGKTSFVQRYV   91 (131)
Q Consensus        69 ~~~ki~vvG~~~vGKSsli~~~~   91 (131)
                      +.-+|+++|-..+|||||.-+++
T Consensus        30 r~RNiaIiaHvdaGKTTLtE~lL   52 (548)
T 3vqt_A           30 RRRTFAIISHPDAGKTTLTEKLL   52 (548)
T ss_dssp             TEEEEEEECCTTSSHHHHHHHHH
T ss_pred             ccceEEEEeCCCCCHHHHHHHHH
Confidence            34589999999999999999986

>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=96.76  E-value=0.00016  Score=48.16  Aligned_cols=49  Identities=14%  Similarity=0.038  Sum_probs=35.6

Q ss_pred             CCCcEEeeccCCCcccccc---ccccc---------CCCCccccccCCcccccccccccccc
Q psy10878          5 AKKPILLPSASEDPSIDNW---DKASW---------ENVTPIVSEQGDGEIIEIIDPSLKLV   54 (131)
Q Consensus         5 ~~kp~vlv~NK~Dl~~~~~---~~~~~---------~~~~~is~~~~~~~~~~~~~~~~~~~   54 (131)
                      .+.|+++|+||+|+.....   ....+         ...+++||+++.| +.++++.+.+.+
T Consensus       129 ~~~piilv~NK~Dl~~~~~~~~i~~~~~~~~~~~~~~~~~~~SA~~g~g-i~~l~~~l~~~i  189 (192)
T 2b6h_A          129 RDAVLLVFANKQDMPNAMPVSELTDKLGLQHLRSRTWYVQATCATQGTG-LYDGLDWLSHEL  189 (192)
T ss_dssp             TTCEEEEEEECTTSTTCCCHHHHHHHTTGGGCSSCCEEEEECBTTTTBT-HHHHHHHHHHHT
T ss_pred             CCCeEEEEEECCCCCCCCCHHHHHHHhCcccccCCceEEEECcCCCcCC-HHHHHHHHHHHH
Confidence            4789999999999965421   11111         1367899999999 999988877654

>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=96.76  E-value=0.00027  Score=46.52  Aligned_cols=49  Identities=14%  Similarity=0.135  Sum_probs=36.1

Q ss_pred             CCCcEEeeccCCCcccccc--cc-ccc---------CCCCccccccCCcccccccccccccc
Q psy10878          5 AKKPILLPSASEDPSIDNW--DK-ASW---------ENVTPIVSEQGDGEIIEIIDPSLKLV   54 (131)
Q Consensus         5 ~~kp~vlv~NK~Dl~~~~~--~~-~~~---------~~~~~is~~~~~~~~~~~~~~~~~~~   54 (131)
                      .++|+++|+||+|+.+...  .. ..+         ...+++||+++.| +.++++.+.+.+
T Consensus       116 ~~~piilv~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~g~g-i~~l~~~l~~~~  176 (181)
T 1fzq_A          116 SCVPVLIFANKQDLLTAAPASEIAEGLNLHTIRDRVWQIQSCSALTGEG-VQDGMNWVCKNV  176 (181)
T ss_dssp             TTCCEEEEEECTTSTTCCCHHHHHHHTTGGGCCSSCEEEEECCTTTCTT-HHHHHHHHHHTC
T ss_pred             cCCCEEEEEECcCcccCCCHHHHHHHhCchhccCCceEEEEccCCCCCC-HHHHHHHHHHHH
Confidence            5789999999999965321  11 111         1367899999999 999998887765

>2hup_A RAS-related protein RAB-43; G-protein, GDP, structural genomics, structural genomics consortium, SGC, signaling protein; HET: GDP; 2.05A {Homo sapiens}

Probab=96.76  E-value=0.00022  Score=47.82  Aligned_cols=49  Identities=12%  Similarity=-0.045  Sum_probs=36.5

Q ss_pred             CCCcEEeeccCCCcccccc----ccccc-----C-CCCccccccCCcccccccccccccc
Q psy10878          5 AKKPILLPSASEDPSIDNW----DKASW-----E-NVTPIVSEQGDGEIIEIIDPSLKLV   54 (131)
Q Consensus         5 ~~kp~vlv~NK~Dl~~~~~----~~~~~-----~-~~~~is~~~~~~~~~~~~~~~~~~~   54 (131)
                      .+.|+++|+||+|+.+...    ...++     . ..+++||+++.| +.++++.+.+.+
T Consensus       133 ~~~piilv~NK~Dl~~~~~v~~~~~~~~~~~~~~~~~~~~SA~~g~g-i~~l~~~l~~~i  191 (201)
T 2hup_A          133 SNIVQLLIGNKSDLSELREVSLAEAQSLAEHYDILCAIETSAKDSSN-VEEAFLRVATEL  191 (201)
T ss_dssp             TTCEEEEEEECTTCGGGCCSCHHHHHHHHHHTTCSEEEECBTTTTBS-HHHHHHHHHHHH
T ss_pred             CCCCEEEEEECCccccccccCHHHHHHHHHHcCCCEEEEEeCCCCCC-HHHHHHHHHHHH
Confidence            4689999999999965321    11122     2 568999999999 999998877655

>1upt_A ARL1, ADP-ribosylation factor-like protein 1; hydrolase/protein-binding, complex (GTPase/golgin), golgin-245, GRIP, golgin, GTPase, G-protein; HET: GTP; 1.7A {Homo sapiens} SCOP: c.37.1.8 PDB: 1r4a_A*

Probab=96.75  E-value=0.00014  Score=46.94  Aligned_cols=49  Identities=12%  Similarity=0.080  Sum_probs=35.9

Q ss_pred             CCCcEEeeccCCCcccccc---ccccc---------CCCCccccccCCcccccccccccccc
Q psy10878          5 AKKPILLPSASEDPSIDNW---DKASW---------ENVTPIVSEQGDGEIIEIIDPSLKLV   54 (131)
Q Consensus         5 ~~kp~vlv~NK~Dl~~~~~---~~~~~---------~~~~~is~~~~~~~~~~~~~~~~~~~   54 (131)
                      .++|+++|+||+|+.+...   ....+         -.++++|++++.| +.++++.+.+.+
T Consensus       107 ~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~g-i~~l~~~l~~~i  167 (171)
T 1upt_A          107 RKAILVVFANKQDMEQAMTSSEMANSLGLPALKDRKWQIFKTSATKGTG-LDEAMEWLVETL  167 (171)
T ss_dssp             TTCEEEEEEECTTSTTCCCHHHHHHHHTGGGCTTSCEEEEECCTTTCTT-HHHHHHHHHHHH
T ss_pred             CCCEEEEEEECCCCcCCCCHHHHHHHhCchhccCCceEEEECcCCCCcC-HHHHHHHHHHHH
Confidence            5789999999999965421   11111         1468899999999 999988776654

>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=96.74  E-value=0.00034  Score=46.85  Aligned_cols=49  Identities=16%  Similarity=-0.024  Sum_probs=34.5

Q ss_pred             CCCcEEeeccCCCccccc--cccccc----------------------CCCCccccccCCcccccccccccccc
Q psy10878          5 AKKPILLPSASEDPSIDN--WDKASW----------------------ENVTPIVSEQGDGEIIEIIDPSLKLV   54 (131)
Q Consensus         5 ~~kp~vlv~NK~Dl~~~~--~~~~~~----------------------~~~~~is~~~~~~~~~~~~~~~~~~~   54 (131)
                      .++|+++|+||+|+....  ....++                      ...+++||+++.| +.++++.+.+.+
T Consensus       125 ~~~piilv~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~SA~~g~g-v~~l~~~l~~~l  197 (198)
T 1f6b_A          125 ANVPILILGNKIDRPEAISEERLREMFGLYGQTTGKGSVSLKELNARPLEVFMCSVLKRQG-YGEGFRWMAQYI  197 (198)
T ss_dssp             TTSCEEEEEECTTSTTCCCHHHHHHHHTCTTTCCCSSCCCTTTCCSCCEEEEECBTTTTBS-HHHHHHHHHTTC
T ss_pred             CCCcEEEEEECCCccccCCHHHHHHHhCcccccccccccccccccCceEEEEEEECCCCCC-HHHHHHHHHHhc
Confidence            579999999999996421  111111                      2367899999999 999888776543

>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=96.73  E-value=0.00021  Score=46.79  Aligned_cols=49  Identities=12%  Similarity=0.096  Sum_probs=35.9

Q ss_pred             CCCcEEeeccCCCcccccccc----ccc-----CCCCccccccCCcccccccccccccc
Q psy10878          5 AKKPILLPSASEDPSIDNWDK----ASW-----ENVTPIVSEQGDGEIIEIIDPSLKLV   54 (131)
Q Consensus         5 ~~kp~vlv~NK~Dl~~~~~~~----~~~-----~~~~~is~~~~~~~~~~~~~~~~~~~   54 (131)
                      .+.|+++|+||+|+.......    ..+     ...+++|++++.| +.++++.+.+.+
T Consensus       114 ~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~g-i~~l~~~l~~~~  171 (186)
T 2bme_A          114 QNIVIILCGNKKDLDADREVTFLEASRFAQENELMFLETSALTGEN-VEEAFVQCARKI  171 (186)
T ss_dssp             TTCEEEEEEECGGGGGGCCSCHHHHHHHHHHTTCEEEECCTTTCTT-HHHHHHHHHHHH
T ss_pred             CCCcEEEEEECcccccccccCHHHHHHHHHHcCCEEEEecCCCCCC-HHHHHHHHHHHH
Confidence            578999999999996432111    112     3468899999999 999988776554

>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=96.71  E-value=0.00018  Score=47.26  Aligned_cols=47  Identities=11%  Similarity=0.114  Sum_probs=33.9

Q ss_pred             CCCcEEeeccCCCccccc--ccccc-c---------CCCCccccccCCcccccccccccc
Q psy10878          5 AKKPILLPSASEDPSIDN--WDKAS-W---------ENVTPIVSEQGDGEIIEIIDPSLK   52 (131)
Q Consensus         5 ~~kp~vlv~NK~Dl~~~~--~~~~~-~---------~~~~~is~~~~~~~~~~~~~~~~~   52 (131)
                      .++|+++|+||+|+....  ....+ +         ...+++||+++.| +.++++.+.+
T Consensus       121 ~~~piilv~NK~Dl~~~~~~~~i~~~~~~~~~~~~~~~~~~~Sa~~g~g-i~~l~~~l~~  179 (181)
T 2h17_A          121 RKAGLLIFANKQDVKECMTVAEISQFLKLTSIKDHQWHIQACCALTGEG-LCQGLEWMMS  179 (181)
T ss_dssp             TTCEEEEEEECTTSTTCCCHHHHHHHTTGGGCCSSCEEEEECBTTTTBT-HHHHHHHHHT
T ss_pred             CCCeEEEEEECCCcccCCCHHHHHHHhCcccccCCceEEEEccCCCCcC-HHHHHHHHHh
Confidence            578999999999996531  11111 1         1468899999999 9988877654

>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=96.71  E-value=0.00018  Score=47.54  Aligned_cols=50  Identities=14%  Similarity=0.076  Sum_probs=36.4

Q ss_pred             cCCCcEEeeccCCCccccccc------ccc-c-----CCCCccccccCCcccccccccccccc
Q psy10878          4 KAKKPILLPSASEDPSIDNWD------KAS-W-----ENVTPIVSEQGDGEIIEIIDPSLKLV   54 (131)
Q Consensus         4 ~~~kp~vlv~NK~Dl~~~~~~------~~~-~-----~~~~~is~~~~~~~~~~~~~~~~~~~   54 (131)
                      ..+.|+++|+||+|+.+....      ..+ +     ..++++|++++.| +.++++.+.+.+
T Consensus       132 ~~~~p~i~v~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~g-v~~l~~~l~~~l  193 (195)
T 1svi_A          132 YYGIPVIVIATKADKIPKGKWDKHAKVVRQTLNIDPEDELILFSSETKKG-KDEAWGAIKKMI  193 (195)
T ss_dssp             HTTCCEEEEEECGGGSCGGGHHHHHHHHHHHHTCCTTSEEEECCTTTCTT-HHHHHHHHHHHH
T ss_pred             HcCCCEEEEEECcccCChHHHHHHHHHHHHHHcccCCCceEEEEccCCCC-HHHHHHHHHHHh
Confidence            357899999999999654311      111 2     3568899999999 999988776544

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

Probab=96.70  E-value=0.00051  Score=53.37  Aligned_cols=52  Identities=15%  Similarity=0.313  Sum_probs=37.6

Q ss_pred             ccCCCcEEeeccCCCccccccc--c----------ccc---CCCCccccccCCccccccccccccccc
Q psy10878          3 YKAKKPILLPSASEDPSIDNWD--K----------ASW---ENVTPIVSEQGDGEIIEIIDPSLKLVR   55 (131)
Q Consensus         3 ~~~~kp~vlv~NK~Dl~~~~~~--~----------~~~---~~~~~is~~~~~~~~~~~~~~~~~~~~   55 (131)
                      +..+.|+++|+||+|+......  .          ..|   ..++++||+++.| +.++++.+...+.
T Consensus       101 ~~~~vPiIVViNKiDl~~~~~~~v~~~l~~~~~~~e~~~~~~~iv~vSAktG~G-I~eLle~I~~l~~  167 (537)
T 3izy_P          101 KDAHVPIVLAINKCDKAEADPEKVKKELLAYDVVCEDYGGDVQAVHVSALTGEN-MMALAEATIALAE  167 (537)
T ss_dssp             HTTTCCEEECCBSGGGTTTSCCSSSSHHHHTTSCCCCSSSSEEECCCCSSSSCS-SHHHHHHHHHHHT
T ss_pred             HHcCCcEEEEEecccccccchHHHHHHHHhhhhhHHhcCCCceEEEEECCCCCC-chhHHHHHHHhhh
Confidence            3467899999999998642211  1          111   1468999999999 9999998876653

>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=96.70  E-value=0.00072  Score=45.95  Aligned_cols=21  Identities=19%  Similarity=0.506  Sum_probs=19.2

Q ss_pred             EEEEEcCCCCCchhhhhhhhh
Q psy10878         72 KVIVIGDPTVGKTSFVQRYVQ   92 (131)
Q Consensus        72 ki~vvG~~~vGKSsli~~~~~   92 (131)
                      -++++|++|+|||||++.++.
T Consensus        21 ~ivl~GPSGaGKsTL~~~L~~   41 (197)
T 3ney_A           21 TLVLIGASGVGRSHIKNALLS   41 (197)
T ss_dssp             EEEEECCTTSSHHHHHHHHHH
T ss_pred             EEEEECcCCCCHHHHHHHHHh
Confidence            589999999999999999884

>4dhe_A Probable GTP-binding protein ENGB; melioidosis, RAS-like GTPase, cell division, cell cycle, SEP GTP-binding; 2.20A {Burkholderia thailandensis}

Probab=96.69  E-value=5.5e-05  Score=51.31  Aligned_cols=51  Identities=12%  Similarity=-0.057  Sum_probs=38.4

Q ss_pred             ccCCCcEEeeccCCCccccccc---c-------cc--------cCCCCccccccCCcccccccccccccc
Q psy10878          3 YKAKKPILLPSASEDPSIDNWD---K-------AS--------WENVTPIVSEQGDGEIIEIIDPSLKLV   54 (131)
Q Consensus         3 ~~~~kp~vlv~NK~Dl~~~~~~---~-------~~--------~~~~~~is~~~~~~~~~~~~~~~~~~~   54 (131)
                      +..++|+++|+||+|+......   .       ..        ...++++|++++.| +.++++.+.+.+
T Consensus       141 ~~~~~p~i~v~nK~Dl~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~SA~~g~g-v~~l~~~l~~~~  209 (223)
T 4dhe_A          141 APTGKPIHSLLTKCDKLTRQESINALRATQKSLDAYRDAGYAGKLTVQLFSALKRTG-LDDAHALIESWL  209 (223)
T ss_dssp             GGGCCCEEEEEECGGGSCHHHHHHHHHHHHHHHHHHHHHTCCSCEEEEEEBTTTTBS-HHHHHHHHHHHH
T ss_pred             HhcCCCEEEEEeccccCChhhHHHHHHHHHHHHHhhhhcccCCCCeEEEeecCCCcC-HHHHHHHHHHhc
Confidence            3457899999999999653321   0       11        13478999999999 999999888776

>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=96.69  E-value=0.00071  Score=44.77  Aligned_cols=22  Identities=18%  Similarity=0.422  Sum_probs=19.7

Q ss_pred             EEEEEcCCCCCchhhhhhhhhC
Q psy10878         72 KVIVIGDPTVGKTSFVQRYVQN   93 (131)
Q Consensus        72 ki~vvG~~~vGKSsli~~~~~~   93 (131)
                      .++++|.+|+||||+++.+.+.
T Consensus        11 ~i~l~G~~GsGKSTl~~~La~~   32 (191)
T 1zp6_A           11 ILLLSGHPGSGKSTIAEALANL   32 (191)
T ss_dssp             EEEEEECTTSCHHHHHHHHHTC
T ss_pred             EEEEECCCCCCHHHHHHHHHhc
Confidence            5899999999999999988753

>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=96.68  E-value=0.0003  Score=46.95  Aligned_cols=49  Identities=12%  Similarity=0.127  Sum_probs=35.7

Q ss_pred             CCCcEEeeccCCCccccccc-cc---cc-----CCCCccccccCCcccccccccccccc
Q psy10878          5 AKKPILLPSASEDPSIDNWD-KA---SW-----ENVTPIVSEQGDGEIIEIIDPSLKLV   54 (131)
Q Consensus         5 ~~kp~vlv~NK~Dl~~~~~~-~~---~~-----~~~~~is~~~~~~~~~~~~~~~~~~~   54 (131)
                      .++|+++|.||+|+.+.... ..   .+     ...+++||+++.| +.++++.+.+.+
T Consensus       113 ~~~piilV~NK~Dl~~~r~v~~~~~~~~a~~~~~~~~e~SA~~g~~-v~~lf~~l~~~~  170 (192)
T 2cjw_A          113 EDIPIILVGNKSDLVRXREVSVSEGRAXAVVFDXKFIETSAAVQHN-VKELFEGIVRQV  170 (192)
T ss_dssp             SCCCEEEEEECTTCGGGCCSCHHHHHHHHHHTTCEEEECBTTTTBS-HHHHHHHHHHHH
T ss_pred             CCCeEEEEEechhhhccccccHHHHHHHHHHhCCceEEeccccCCC-HHHHHHHHHHHH
Confidence            36899999999999653211 11   11     3467899999999 999998776654

>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=96.67  E-value=0.00021  Score=46.97  Aligned_cols=49  Identities=16%  Similarity=0.173  Sum_probs=36.7

Q ss_pred             CCCcEEeeccCCCccccc-cccccc----C--------CCCccccccCCcccccccccccccc
Q psy10878          5 AKKPILLPSASEDPSIDN-WDKASW----E--------NVTPIVSEQGDGEIIEIIDPSLKLV   54 (131)
Q Consensus         5 ~~kp~vlv~NK~Dl~~~~-~~~~~~----~--------~~~~is~~~~~~~~~~~~~~~~~~~   54 (131)
                      .+.|+++|+||+|+.... ....++    +        .++++||+++.| +.++++.+.+.+
T Consensus       121 ~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~-v~~l~~~l~~~~  182 (190)
T 2cxx_A          121 LDIPTIVAVNKLDKIKNVQEVINFLAEKFEVPLSEIDKVFIPISAKFGDN-IERLKNRIFEVI  182 (190)
T ss_dssp             TTCCEEEEEECGGGCSCHHHHHHHHHHHHTCCGGGHHHHEEECCTTTCTT-HHHHHHHHHHHH
T ss_pred             cCCceEEEeehHhccCcHHHHHHHHHHHhhhhhhccCCcEEEEecCCCCC-HHHHHHHHHHhc
Confidence            478999999999996543 112222    2        248999999999 999998887665

>3tr0_A Guanylate kinase, GMP kinase; purines, pyrimidines, nucleosides, nucleotides, transferase; HET: 5GP; 1.85A {Coxiella burnetii}

Probab=96.67  E-value=0.00079  Score=45.00  Aligned_cols=21  Identities=33%  Similarity=0.449  Sum_probs=19.1

Q ss_pred             EEEEEcCCCCCchhhhhhhhh
Q psy10878         72 KVIVIGDPTVGKTSFVQRYVQ   92 (131)
Q Consensus        72 ki~vvG~~~vGKSsli~~~~~   92 (131)
                      -++++|.+|+|||||++.+.+
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            489999999999999998875

>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=96.65  E-value=0.00035  Score=52.16  Aligned_cols=48  Identities=10%  Similarity=0.074  Sum_probs=36.0

Q ss_pred             CCcEEeeccCCCcccccccc---ccc-----------CCCCccccccCCcccccccccccccc
Q psy10878          6 KKPILLPSASEDPSIDNWDK---ASW-----------ENVTPIVSEQGDGEIIEIIDPSLKLV   54 (131)
Q Consensus         6 ~kp~vlv~NK~Dl~~~~~~~---~~~-----------~~~~~is~~~~~~~~~~~~~~~~~~~   54 (131)
                      .+|+++|+||+|+.+.+...   .++           ..++++||.++.| +.++++.+.+.+
T Consensus       129 ~~~iivviNK~Dl~~~~~~~~~~~~i~~~l~~~~~~~~~ii~vSA~~g~g-i~~L~~~l~~~l  190 (403)
T 3sjy_A          129 VKNLIIVQNKVDVVSKEEALSQYRQIKQFTKGTWAENVPIIPVSALHKIN-IDSLIEGIEEYI  190 (403)
T ss_dssp             CCCEEEEEECGGGSCHHHHHHHHHHHHHHHTTSTTTTCCEEECBTTTTBS-HHHHHHHHHHHS
T ss_pred             CCCEEEEEECccccchHHHHHHHHHHHHHHHhhCCCCCEEEEEECCCCcC-hHHHHHHHHHhC
Confidence            36899999999997543211   111           3478999999999 999999888765

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

Probab=96.65  E-value=0.00028  Score=46.55  Aligned_cols=49  Identities=14%  Similarity=0.060  Sum_probs=34.2

Q ss_pred             CCCcEEeeccCCCccccccccc---cc-----CCCCccccccCCcccccccccccccc
Q psy10878          5 AKKPILLPSASEDPSIDNWDKA---SW-----ENVTPIVSEQGDGEIIEIIDPSLKLV   54 (131)
Q Consensus         5 ~~kp~vlv~NK~Dl~~~~~~~~---~~-----~~~~~is~~~~~~~~~~~~~~~~~~~   54 (131)
                      .++|+++|+||+|+.+......   .+     ..++++||+++.| +.++++.+.+.+
T Consensus       146 ~~~piilv~NK~D~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~-i~~l~~~l~~~~  202 (208)
T 3clv_A          146 SNYIIILVANKIDKNKFQVDILEVQKYAQDNNLLFIQTSAKTGTN-IKNIFYMLAEEI  202 (208)
T ss_dssp             SCCEEEEEEECTTCC-CCSCHHHHHHHHHHTTCEEEEECTTTCTT-HHHHHHHHHHHH
T ss_pred             CCCcEEEEEECCCcccccCCHHHHHHHHHHcCCcEEEEecCCCCC-HHHHHHHHHHHH
Confidence            3589999999999432222111   12     4568999999999 999988776543

>4gzl_A RAS-related C3 botulinum toxin substrate 1; rossmann fold, GTP binding, membrane, hydrolase; HET: GNP; 2.00A {Homo sapiens} PDB: 3th5_A* 4gzm_A*

Probab=96.65  E-value=0.00014  Score=48.88  Aligned_cols=48  Identities=15%  Similarity=0.165  Sum_probs=35.0

Q ss_pred             CCCcEEeeccCCCccccccc-------------c---ccc------CCCCccccccCCccccccccccccc
Q psy10878          5 AKKPILLPSASEDPSIDNWD-------------K---ASW------ENVTPIVSEQGDGEIIEIIDPSLKL   53 (131)
Q Consensus         5 ~~kp~vlv~NK~Dl~~~~~~-------------~---~~~------~~~~~is~~~~~~~~~~~~~~~~~~   53 (131)
                      .++|+++|+||+|+......             .   ..+      ...+++||+++.| +.++++.+.+.
T Consensus       133 ~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~~~SA~~g~g-i~~l~~~l~~~  202 (204)
T 4gzl_A          133 PNTPIILVGTKLDLRDDKDTIEKLKEKKLTPITYPQGLAMAKEIGAVKYLECSALTQRG-LKTVFDEAIRA  202 (204)
T ss_dssp             SSCCEEEEEECHHHHTCHHHHHHHHHTTCCCCCHHHHHHHHHHTTCSEEEECCTTTCTT-HHHHHHHHHHT
T ss_pred             CCCCEEEEEechhhccchhhhhhhhccccccccHHHHHHHHHhcCCcEEEEeeCCCCCC-HHHHHHHHHHH
Confidence            37899999999999654210             0   011      2378899999999 99998877654

>2o52_A RAS-related protein RAB-4B; G-protein, GDP, structural genomics, structural genomics consortium, SGC, protein transport; HET: GDP; 2.20A {Homo sapiens}

Probab=96.63  E-value=0.00024  Score=47.60  Aligned_cols=49  Identities=8%  Similarity=0.059  Sum_probs=36.0

Q ss_pred             CCCcEEeeccCCCccccccc----cccc-----CCCCccccccCCcccccccccccccc
Q psy10878          5 AKKPILLPSASEDPSIDNWD----KASW-----ENVTPIVSEQGDGEIIEIIDPSLKLV   54 (131)
Q Consensus         5 ~~kp~vlv~NK~Dl~~~~~~----~~~~-----~~~~~is~~~~~~~~~~~~~~~~~~~   54 (131)
                      .+.|+++|+||+|+......    ...+     ...+++||+++.| +.++++.+.+.+
T Consensus       129 ~~~piilv~nK~Dl~~~~~v~~~~~~~~~~~~~~~~~~~SA~~g~g-i~~l~~~l~~~i  186 (200)
T 2o52_A          129 PNIVVILCGNKKDLDPEREVTFLEASRFAQENELMFLETSALTGEN-VEEAFLKCARTI  186 (200)
T ss_dssp             TTCEEEEEEECGGGGGGCCSCHHHHHHHHHHTTCEEEEECTTTCTT-HHHHHHHHHHHH
T ss_pred             CCCcEEEEEECCCcccccccCHHHHHHHHHHcCCEEEEEeCCCCCC-HHHHHHHHHHHH
Confidence            47899999999999643211    1112     3468899999999 999998776654

>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=96.63  E-value=0.00087  Score=46.11  Aligned_cols=22  Identities=27%  Similarity=0.397  Sum_probs=19.6

Q ss_pred             EEEEEcCCCCCchhhhhhhhhC
Q psy10878         72 KVIVIGDPTVGKTSFVQRYVQN   93 (131)
Q Consensus        72 ki~vvG~~~vGKSsli~~~~~~   93 (131)
                      -++++|++|+|||||++.+++.
T Consensus        18 ii~l~GpsGsGKSTLlk~L~g~   39 (219)
T 1s96_A           18 LYIVSAPSGAGKSSLIQALLKT   39 (219)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHhcc
Confidence            5899999999999999998753

>2hxs_A RAB-26, RAS-related protein RAB-28; GTPase, signaling protein; HET: G3D; 1.10A {Homo sapiens} PDB: 2hy4_A* 3e5h_A*

Probab=96.63  E-value=0.00026  Score=45.99  Aligned_cols=48  Identities=10%  Similarity=0.080  Sum_probs=35.2

Q ss_pred             CCc-EEeeccCCCccccccc----cccc-----CCCCccccccCCcccccccccccccc
Q psy10878          6 KKP-ILLPSASEDPSIDNWD----KASW-----ENVTPIVSEQGDGEIIEIIDPSLKLV   54 (131)
Q Consensus         6 ~kp-~vlv~NK~Dl~~~~~~----~~~~-----~~~~~is~~~~~~~~~~~~~~~~~~~   54 (131)
                      ++| +++|+||+|+.+....    ...+     ...+++||+++.| +.++++.+.+.+
T Consensus       114 ~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~g-i~~l~~~l~~~~  171 (178)
T 2hxs_A          114 TQPLVALVGNKIDLEHMRTIKPEKHLRFCQENGFSSHFVSAKTGDS-VFLCFQKVAAEI  171 (178)
T ss_dssp             CCCEEEEEEECGGGGGGCSSCHHHHHHHHHHHTCEEEEECTTTCTT-HHHHHHHHHHHH
T ss_pred             CCCeEEEEEEccccccccccCHHHHHHHHHHcCCcEEEEeCCCCCC-HHHHHHHHHHHH
Confidence            456 7899999999653211    1122     4568999999999 999998887665

>4gp7_A Metallophosphoesterase; polynucleotide kinase phosphatase, RNA repair, transferase; HET: ATP CIT; 2.00A {Clostridium thermocellum} PDB: 4gp6_A*

Probab=96.62  E-value=0.00071  Score=44.49  Aligned_cols=19  Identities=32%  Similarity=0.658  Sum_probs=16.8

Q ss_pred             EEEEEcCCCCCchhhhhhh
Q psy10878         72 KVIVIGDPTVGKTSFVQRY   90 (131)
Q Consensus        72 ki~vvG~~~vGKSsli~~~   90 (131)
                      -++++|.+|+|||||++.+
T Consensus        11 i~~l~G~nGsGKSTl~~~~   29 (171)
T 4gp7_A           11 LVVLIGSSGSGKSTFAKKH   29 (171)
T ss_dssp             EEEEECCTTSCHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHH
Confidence            4889999999999999943

>3qq5_A Small GTP-binding protein; hydrogenase, H-cluster, HYDA maturation, GTP-binding domain, maturation enzyme, oxidoreductase; 2.99A {Thermotoga neapolitana}

Probab=96.62  E-value=0.00053  Score=51.75  Aligned_cols=50  Identities=14%  Similarity=0.151  Sum_probs=39.3

Q ss_pred             cCCCcEEeeccCCCccccccc--cccc-----CCCCccccccCCcccccccccccccc
Q psy10878          4 KAKKPILLPSASEDPSIDNWD--KASW-----ENVTPIVSEQGDGEIIEIIDPSLKLV   54 (131)
Q Consensus         4 ~~~kp~vlv~NK~Dl~~~~~~--~~~~-----~~~~~is~~~~~~~~~~~~~~~~~~~   54 (131)
                      ..++|+++|+||+|+......  ..++     ..++++|++.+.| +.++++.+.+.+
T Consensus       138 ~~~~piIvV~NK~Dl~~~~~~~~~~~l~~~~g~~v~~vSAktg~g-I~eL~~~L~~~l  194 (423)
T 3qq5_A          138 EMEIPFVVVVNKIDVLGEKAEELKGLYESRYEAKVLLVSALQKKG-FDDIGKTISEIL  194 (423)
T ss_dssp             HTTCCEEEECCCCTTTTCCCTHHHHHSSCCTTCCCCCCSSCCTTS-TTTHHHHHHHHS
T ss_pred             hcCCCEEEEEeCcCCCCccHHHHHHHHHHHcCCCEEEEECCCCCC-HHHHHHHHHHhh
Confidence            457999999999999665422  1222     5678999999999 999999888777

>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=96.60  E-value=0.00089  Score=45.25  Aligned_cols=21  Identities=29%  Similarity=0.483  Sum_probs=19.0

Q ss_pred             EEEEEcCCCCCchhhhhhhhh
Q psy10878         72 KVIVIGDPTVGKTSFVQRYVQ   92 (131)
Q Consensus        72 ki~vvG~~~vGKSsli~~~~~   92 (131)
                      -++++|++|+|||||++.+.+
T Consensus        22 i~~l~GpnGsGKSTLl~~l~g   42 (207)
T 1znw_A           22 VVVLSGPSAVGKSTVVRCLRE   42 (207)
T ss_dssp             EEEEECSTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHh
Confidence            488999999999999998875

>2h57_A ADP-ribosylation factor-like protein 6; GTP, GTPase, membrane trafficking, structural genomics consortium, SGC, transport protein; HET: GTP; 2.00A {Homo sapiens}

Probab=96.60  E-value=0.00038  Score=45.96  Aligned_cols=49  Identities=16%  Similarity=0.112  Sum_probs=36.0

Q ss_pred             CCCcEEeeccCCCcccccc--ccc------cc----CCCCccccccCCcccccccccccccc
Q psy10878          5 AKKPILLPSASEDPSIDNW--DKA------SW----ENVTPIVSEQGDGEIIEIIDPSLKLV   54 (131)
Q Consensus         5 ~~kp~vlv~NK~Dl~~~~~--~~~------~~----~~~~~is~~~~~~~~~~~~~~~~~~~   54 (131)
                      .++|+++|+||+|+.+...  ...      .+    ..++++||+++.| +.++++.+.+.+
T Consensus       125 ~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~g-i~~l~~~l~~~i  185 (190)
T 2h57_A          125 RRIPILFFANKMDLRDAVTSVKVSQLLCLENIKDKPWHICASDAIKGEG-LQEGVDWLQDQI  185 (190)
T ss_dssp             SCCCEEEEEECTTSTTCCCHHHHHHHHTGGGCCSSCEEEEECBTTTTBT-HHHHHHHHHHHC
T ss_pred             CCCeEEEEEeCcCcccCCCHHHHHHHhChhhccCCceEEEEccCCCCcC-HHHHHHHHHHHH
Confidence            5789999999999965311  111      11    2467899999999 999998877665

>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=96.58  E-value=0.00095  Score=44.92  Aligned_cols=20  Identities=15%  Similarity=0.557  Sum_probs=18.6

Q ss_pred             EEEEcCCCCCchhhhhhhhh
Q psy10878         73 VIVIGDPTVGKTSFVQRYVQ   92 (131)
Q Consensus        73 i~vvG~~~vGKSsli~~~~~   92 (131)
                      |+++|++|+|||||+++++.
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            89999999999999999874

>3a1s_A Iron(II) transport protein B; FEOB, iron transporter, small GTPase, G protein, GDI; HET: GDP; 1.50A {Thermotoga maritima} PDB: 3a1t_A* 3a1u_A* 3a1v_A* 3a1w_A

Probab=96.58  E-value=0.00014  Score=51.20  Aligned_cols=50  Identities=16%  Similarity=0.187  Sum_probs=37.9

Q ss_pred             cCCCcEEeeccCCCccccccc---cccc-----CCCCccccccCCcccccccccccccc
Q psy10878          4 KAKKPILLPSASEDPSIDNWD---KASW-----ENVTPIVSEQGDGEIIEIIDPSLKLV   54 (131)
Q Consensus         4 ~~~kp~vlv~NK~Dl~~~~~~---~~~~-----~~~~~is~~~~~~~~~~~~~~~~~~~   54 (131)
                      ..++|+++|+||+|+.+....   ...+     ..++++||.++.| +.++++.+.+..
T Consensus       108 ~~~~pvilv~NK~Dl~~~~~i~~~~~~l~~~lg~~vi~~SA~~g~g-i~el~~~i~~~~  165 (258)
T 3a1s_A          108 EMEKKVILAMTAIDEAKKTGMKIDRYELQKHLGIPVVFTSSVTGEG-LEELKEKIVEYA  165 (258)
T ss_dssp             TTTCCEEEEEECHHHHHHTTCCBCHHHHHHHHCSCEEECCTTTCTT-HHHHHHHHHHHH
T ss_pred             hcCCCEEEEEECcCCCCccchHHHHHHHHHHcCCCEEEEEeeCCcC-HHHHHHHHHHHh
Confidence            357999999999998653221   1222     5678999999999 999999887654

>1z6g_A Guanylate kinase; structural genomics, SGC, structural genom consortium, transferase; HET: EPE; 2.18A {Plasmodium falciparum}

Probab=96.58  E-value=0.00094  Score=45.68  Aligned_cols=21  Identities=19%  Similarity=0.586  Sum_probs=19.1

Q ss_pred             EEEEEcCCCCCchhhhhhhhh
Q psy10878         72 KVIVIGDPTVGKTSFVQRYVQ   92 (131)
Q Consensus        72 ki~vvG~~~vGKSsli~~~~~   92 (131)
                      .++++|++|+|||||++.+++
T Consensus        25 ~~~lvGpsGsGKSTLl~~L~g   45 (218)
T 1z6g_A           25 PLVICGPSGVGKGTLIKKLLN   45 (218)
T ss_dssp             CEEEECSTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHh
Confidence            489999999999999998875

>3cpj_B GTP-binding protein YPT31/YPT8; RAB GTPase, prenylation, vesicular transport, acetylation, golgi apparatus, lipoprotein, membrane; HET: GDP; 2.35A {Saccharomyces cerevisiae}

Probab=96.57  E-value=0.00027  Score=48.07  Aligned_cols=49  Identities=6%  Similarity=-0.005  Sum_probs=34.4

Q ss_pred             CCCcEEeeccCCCccccccc----cccc-----CCCCccccccCCcccccccccccccc
Q psy10878          5 AKKPILLPSASEDPSIDNWD----KASW-----ENVTPIVSEQGDGEIIEIIDPSLKLV   54 (131)
Q Consensus         5 ~~kp~vlv~NK~Dl~~~~~~----~~~~-----~~~~~is~~~~~~~~~~~~~~~~~~~   54 (131)
                      .++|+++|+||+|+......    ...+     ..++++|++++.| +.++++.+.+.+
T Consensus       117 ~~~piilv~nK~Dl~~~~~v~~~~~~~~~~~~~~~~~~~Sa~~~~g-i~~l~~~l~~~i  174 (223)
T 3cpj_B          117 DNVAVGLIGNKSDLAHLRAVPTEESKTFAQENQLLFTETSALNSEN-VDKAFEELINTI  174 (223)
T ss_dssp             --CEEEEEECCGGGGGGCCSCHHHHHHHHHHTTCEEEECCCC-CCC-HHHHHHHHHHHH
T ss_pred             CCCeEEEEEECcccccccccCHHHHHHHHHHcCCEEEEEeCCCCCC-HHHHHHHHHHHH
Confidence            36899999999999653211    1122     3567899999999 999998887665

>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=96.57  E-value=0.001  Score=45.07  Aligned_cols=22  Identities=18%  Similarity=0.377  Sum_probs=19.6

Q ss_pred             EEEEEcCCCCCchhhhhhhhhC
Q psy10878         72 KVIVIGDPTVGKTSFVQRYVQN   93 (131)
Q Consensus        72 ki~vvG~~~vGKSsli~~~~~~   93 (131)
                      -++++|++|+||||+++.++..
T Consensus        10 ~i~l~GpsGsGKsTl~~~L~~~   31 (208)
T 3tau_A           10 LIVLSGPSGVGKGTVREAVFKD   31 (208)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHS
T ss_pred             EEEEECcCCCCHHHHHHHHHhh
Confidence            4899999999999999998854

>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=96.54  E-value=0.00018  Score=51.89  Aligned_cols=48  Identities=19%  Similarity=0.097  Sum_probs=37.3

Q ss_pred             CCcEEeeccCCCcccccc-c---cc---ccCCCCccccccCCcccccccccccccc
Q psy10878          6 KKPILLPSASEDPSIDNW-D---KA---SWENVTPIVSEQGDGEIIEIIDPSLKLV   54 (131)
Q Consensus         6 ~kp~vlv~NK~Dl~~~~~-~---~~---~~~~~~~is~~~~~~~~~~~~~~~~~~~   54 (131)
                      ++|+++|+||+|+..... .   ..   .+..++++||+++.| +.++++.+.+.+
T Consensus       117 ~~p~ilV~NK~Dl~~~~~~~~~~~~~~~~~~~~~~iSA~~g~g-v~~l~~~l~~~l  171 (301)
T 1wf3_A          117 KVPILLVGNKLDAAKYPEEAMKAYHELLPEAEPRMLSALDERQ-VAELKADLLALM  171 (301)
T ss_dssp             TSCEEEEEECGGGCSSHHHHHHHHHHTSTTSEEEECCTTCHHH-HHHHHHHHHTTC
T ss_pred             CCCEEEEEECcccCCchHHHHHHHHHhcCcCcEEEEeCCCCCC-HHHHHHHHHHhc
Confidence            799999999999975432 1   11   124578999999999 999999888766

>3c8u_A Fructokinase; YP_612366.1, putative fructose transport system kinase, STRU genomics, joint center for structural genomics, JCSG; 1.95A {Silicibacter SP}

Probab=96.53  E-value=0.0016  Score=44.01  Aligned_cols=23  Identities=22%  Similarity=0.306  Sum_probs=19.8

Q ss_pred             eeEEEEEcCCCCCchhhhhhhhh
Q psy10878         70 LFKVIVIGDPTVGKTSFVQRYVQ   92 (131)
Q Consensus        70 ~~ki~vvG~~~vGKSsli~~~~~   92 (131)
                      ...+.++|.+|+|||||++.+.+
T Consensus        22 g~~v~I~G~sGsGKSTl~~~l~~   44 (208)
T 3c8u_A           22 RQLVALSGAPGSGKSTLSNPLAA   44 (208)
T ss_dssp             CEEEEEECCTTSCTHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHH
Confidence            45799999999999999987663

>1ksh_A ARF-like protein 2; small GTPase, small GTP-binding protein, ARF family; HET: CME GDP; 1.80A {Mus musculus} SCOP: c.37.1.8 PDB: 1ksg_A* 1ksj_A* 3doe_A* 3dof_A*

Probab=96.53  E-value=0.00036  Score=45.82  Aligned_cols=49  Identities=14%  Similarity=0.063  Sum_probs=36.1

Q ss_pred             CCCcEEeeccCCCcccccc--cc-ccc---------CCCCccccccCCcccccccccccccc
Q psy10878          5 AKKPILLPSASEDPSIDNW--DK-ASW---------ENVTPIVSEQGDGEIIEIIDPSLKLV   54 (131)
Q Consensus         5 ~~kp~vlv~NK~Dl~~~~~--~~-~~~---------~~~~~is~~~~~~~~~~~~~~~~~~~   54 (131)
                      .++|+++|+||+|+.+...  .. ..+         ...+++|++++.| +.++++.+.+.+
T Consensus       118 ~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~g-i~~l~~~l~~~i  178 (186)
T 1ksh_A          118 AGATLLIFANKQDLPGALSCNAIQEALELDSIRSHHWRIQGCSAVTGED-LLPGIDWLLDDI  178 (186)
T ss_dssp             TTCEEEEEEECTTSTTCCCHHHHHHHTTGGGCCSSCEEEEECCTTTCTT-HHHHHHHHHHHH
T ss_pred             CCCcEEEEEeCccCCCCCCHHHHHHHhChhhccCCceEEEEeeCCCCCC-HHHHHHHHHHHH
Confidence            4789999999999965321  11 111         2467899999999 999998887665

>2qor_A Guanylate kinase; phosphotransferase, purine metabolism, structural genomics, structural genomics of pathogenic protozoa consortium; HET: 5GP POP; 1.80A {Plasmodium vivax}

Probab=96.51  E-value=0.0012  Score=44.49  Aligned_cols=21  Identities=24%  Similarity=0.566  Sum_probs=19.0

Q ss_pred             EEEEEcCCCCCchhhhhhhhh
Q psy10878         72 KVIVIGDPTVGKTSFVQRYVQ   92 (131)
Q Consensus        72 ki~vvG~~~vGKSsli~~~~~   92 (131)
                      -++++|.+|+||||+++++..
T Consensus        14 ~i~l~G~sGsGKsTl~~~L~~   34 (204)
T 2qor_A           14 PLVVCGPSGVGKGTLIKKVLS   34 (204)
T ss_dssp             CEEEECCTTSCHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            489999999999999999874

>2atx_A Small GTP binding protein TC10; GTPase, P-loop, alpha-beta, hydrolase; HET: GNP; 2.65A {Homo sapiens} SCOP: c.37.1.8

Probab=96.50  E-value=0.00057  Score=45.19  Aligned_cols=48  Identities=15%  Similarity=0.105  Sum_probs=35.1

Q ss_pred             CCcEEeeccCCCccccc-------------ccc---ccc------CCCCccccccCCcccccccccccccc
Q psy10878          6 KKPILLPSASEDPSIDN-------------WDK---ASW------ENVTPIVSEQGDGEIIEIIDPSLKLV   54 (131)
Q Consensus         6 ~kp~vlv~NK~Dl~~~~-------------~~~---~~~------~~~~~is~~~~~~~~~~~~~~~~~~~   54 (131)
                      +.|+++|+||+|+.+..             ...   ..+      ...+++|++++.| +.++++.+.+.+
T Consensus       122 ~~piilv~nK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~~~Sa~~g~g-i~~l~~~l~~~i  191 (194)
T 2atx_A          122 NVPFLLIGTQIDLRDDPKTLARLNDMKEKPICVEQGQKLAKEIGACCYVECSALTQKG-LKTVFDEAIIAI  191 (194)
T ss_dssp             TCCEEEEEECTTSTTCHHHHHHHTTTTCCCCCHHHHHHHHHHHTCSCEEECCTTTCTT-HHHHHHHHHHHH
T ss_pred             CCCEEEEEEChhhcccccchhhcccccCcccCHHHHHHHHHHcCCcEEEEeeCCCCCC-HHHHHHHHHHHH
Confidence            78999999999996531             111   111      2678899999999 999988776543

>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=96.50  E-value=0.0019  Score=47.16  Aligned_cols=40  Identities=18%  Similarity=0.271  Sum_probs=0.0

Q ss_pred             hhhhhhCcCCCC-------ccCCceeEeEEEEEEecCCeEEEEEEEeCCCCC
Q psy10878         87 VQRYVQNTFKKD-------YKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQN  131 (131)
Q Consensus        87 i~~~~~~~~~~~-------~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gqe  131 (131)
                      +.|+....+...       +.||+|  +....+.+   ..+.+++|||+|||
T Consensus       132 l~Ri~~~~Y~PT~~Dilr~r~~TiG--i~~~~~~~---~~v~l~iwDtgGQe  178 (327)
T 3ohm_A          132 LDRVADPSYLPTQQDVLRVRVPTTG--IIEYPFDL---QSVIFRMVDVGGQR  178 (327)
T ss_dssp             HHHHHSTTCCCCHHHHTTCCCCCCS--EEEEEEEE---TTEEEEEEEECCSH
T ss_pred             HHHHhccCCCccccchhcccCceee--EEEEEEEe---eceeeEEEEcCCch

>2yc2_C IFT27, small RAB-related GTPase; transport protein, cilium, IFT complex; 2.59A {Chlamydomonas reinhardtii} PDB: 2yc4_C

Probab=96.50  E-value=0.00036  Score=46.46  Aligned_cols=49  Identities=8%  Similarity=0.024  Sum_probs=26.7

Q ss_pred             CCCcEEeeccCCCccc-cccc----cccc-----CCCCcccccc-CCcccccccccccccc
Q psy10878          5 AKKPILLPSASEDPSI-DNWD----KASW-----ENVTPIVSEQ-GDGEIIEIIDPSLKLV   54 (131)
Q Consensus         5 ~~kp~vlv~NK~Dl~~-~~~~----~~~~-----~~~~~is~~~-~~~~~~~~~~~~~~~~   54 (131)
                      .++|+++|+||+|+.+ ....    ...+     ...+++|+++ +.| +.++++.+.+.+
T Consensus       131 ~~~piilv~nK~Dl~~~~~~v~~~~~~~~~~~~~~~~~~~Sa~~~~~g-i~~l~~~i~~~~  190 (208)
T 2yc2_C          131 RPLRAVLVANKTDLPPQRHQVRLDMAQDWATTNTLDFFDVSANPPGKD-ADAPFLSIATTF  190 (208)
T ss_dssp             SCCEEEEEEECC-------CCCHHHHHHHHHHTTCEEEECCC--------CHHHHHHHHHH
T ss_pred             cCCcEEEEEECcccchhhccCCHHHHHHHHHHcCCEEEEeccCCCCcC-HHHHHHHHHHHH
Confidence            5789999999999976 2211    1122     4568899999 999 999988776654

>2wjg_A FEOB, ferrous iron transport protein B homolog; membrane G-proteins, cell membrane, ION transport, transmembrane; HET: GDP; 2.20A {Methanocaldococcus jannaschii}

Probab=96.49  E-value=0.00015  Score=47.68  Aligned_cols=50  Identities=20%  Similarity=0.144  Sum_probs=37.6

Q ss_pred             cCCCcEEeeccCCCcccccc---ccccc-----CCCCccccccCCcccccccccccccc
Q psy10878          4 KAKKPILLPSASEDPSIDNW---DKASW-----ENVTPIVSEQGDGEIIEIIDPSLKLV   54 (131)
Q Consensus         4 ~~~kp~vlv~NK~Dl~~~~~---~~~~~-----~~~~~is~~~~~~~~~~~~~~~~~~~   54 (131)
                      ..+.|+++|+||+|+.....   ....+     ...+++|++.+.| +.++++.+.+.+
T Consensus       110 ~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~-v~~l~~~i~~~~  167 (188)
T 2wjg_A          110 EMGANLLLALNKMDLAKSLGIEIDVDKLEKILGVKVVPLSAAKKMG-IEELKKAISIAV  167 (188)
T ss_dssp             TTTCCEEEEEECHHHHHHTTCCCCHHHHHHHHTSCEEECBGGGTBS-HHHHHHHHHHHH
T ss_pred             hcCCCEEEEEEhhhccccccchHHHHHHHHHhCCCeEEEEecCCCC-HHHHHHHHHHHH
Confidence            35789999999999854321   12222     4578999999999 999999887766

>3i8s_A Ferrous iron transport protein B; GTPase, GPCR, iron uptake, FEO, cell inner membrane, cell ME GTP-binding, ION transport, membrane; 1.80A {Escherichia coli} PDB: 3i8x_A* 3i92_A* 3hyr_A 3hyt_A* 2wic_A* 2wib_A* 2wia_A*

Probab=96.48  E-value=0.00014  Score=51.61  Aligned_cols=49  Identities=18%  Similarity=0.151  Sum_probs=37.9

Q ss_pred             CCCcEEeeccCCCcccccc---ccccc-----CCCCccccccCCcccccccccccccc
Q psy10878          5 AKKPILLPSASEDPSIDNW---DKASW-----ENVTPIVSEQGDGEIIEIIDPSLKLV   54 (131)
Q Consensus         5 ~~kp~vlv~NK~Dl~~~~~---~~~~~-----~~~~~is~~~~~~~~~~~~~~~~~~~   54 (131)
                      .++|+++|+||+|+.+...   ....+     ..++++||.++.| +.++++.+.+.+
T Consensus       111 ~~~p~ivv~NK~Dl~~~~~~~~~~~~l~~~lg~~~i~~SA~~g~g-i~el~~~i~~~~  167 (274)
T 3i8s_A          111 LGIPCIVALNMLDIAEKQNIRIEIDALSARLGCPVIPLVSTRGRG-IEALKLAIDRYK  167 (274)
T ss_dssp             HTCCEEEEEECHHHHHHTTEEECHHHHHHHHTSCEEECCCGGGHH-HHHHHHHHHTCC
T ss_pred             cCCCEEEEEECccchhhhhHHHHHHHHHHhcCCCEEEEEcCCCCC-HHHHHHHHHHHH
Confidence            4789999999999865432   11122     5678999999999 999998887766

>1knq_A Gluconate kinase; ALFA/beta structure, transferase; 2.00A {Escherichia coli} SCOP: c.37.1.17 PDB: 1ko1_A 1ko4_A 1ko5_A* 1ko8_A* 1kof_A*

Probab=96.48  E-value=0.0018  Score=42.28  Aligned_cols=22  Identities=14%  Similarity=0.297  Sum_probs=19.1

Q ss_pred             eEEEEEcCCCCCchhhhhhhhh
Q psy10878         71 FKVIVIGDPTVGKTSFVQRYVQ   92 (131)
Q Consensus        71 ~ki~vvG~~~vGKSsli~~~~~   92 (131)
                      ..++++|.+|+||||+++.+..
T Consensus         9 ~~i~l~G~~GsGKSTl~~~l~~   30 (175)
T 1knq_A            9 HIYVLMGVSGSGKSAVASEVAH   30 (175)
T ss_dssp             EEEEEECSTTSCHHHHHHHHHH
T ss_pred             cEEEEEcCCCCCHHHHHHHHHH
Confidence            4699999999999999987763

>1mh1_A RAC1; GTP-binding, GTPase, small G-protein, RHO family, RAS super family; HET: GNP; 1.38A {Homo sapiens} SCOP: c.37.1.8 PDB: 1hh4_A* 2p2l_A* 2h7v_A* 1g4u_R* 1i4d_D* 1i4l_D* 2vrw_A 1e96_A* 1i4t_D* 2rmk_A* 2yin_C 1ryf_A* 1ryh_A* 3su8_A* 3sua_A* 2fju_A* 1he1_C* 2nz8_A 1foe_B 3bji_C ...

Probab=96.46  E-value=0.00025  Score=46.30  Aligned_cols=48  Identities=17%  Similarity=0.186  Sum_probs=36.2

Q ss_pred             CCcEEeeccCCCcccccc-------------cc---ccc------CCCCccccccCCcccccccccccccc
Q psy10878          6 KKPILLPSASEDPSIDNW-------------DK---ASW------ENVTPIVSEQGDGEIIEIIDPSLKLV   54 (131)
Q Consensus         6 ~kp~vlv~NK~Dl~~~~~-------------~~---~~~------~~~~~is~~~~~~~~~~~~~~~~~~~   54 (131)
                      ++|+++|+||+|+.+...             ..   ..+      ..++++||+++.| +.++++.+.+.+
T Consensus       109 ~~piilv~nK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~~~Sa~~g~g-i~~l~~~l~~~~  178 (186)
T 1mh1_A          109 NTPIILVGTKLDLRDDKDTIEKLKEKKLTPITYPQGLAMAKEIGAVKYLECSALTQRG-LKTVFDEAIRAV  178 (186)
T ss_dssp             TSCEEEEEECHHHHTCHHHHHHHHHTTCCCCCHHHHHHHHHHTTCSEEEECCTTTCTT-HHHHHHHHHHHH
T ss_pred             CCCEEEEeEcccccccchhhhhhcccccccCCHHHHHHHHHhcCCcEEEEecCCCccC-HHHHHHHHHHHH
Confidence            789999999999965321             00   011      2578999999999 999999887766

>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=96.45  E-value=0.00038  Score=47.59  Aligned_cols=48  Identities=13%  Similarity=0.060  Sum_probs=35.3

Q ss_pred             CCcEEeeccCCCcccccccc-------ccc-------CCCCccccccCCcccccccccccccc
Q psy10878          6 KKPILLPSASEDPSIDNWDK-------ASW-------ENVTPIVSEQGDGEIIEIIDPSLKLV   54 (131)
Q Consensus         6 ~kp~vlv~NK~Dl~~~~~~~-------~~~-------~~~~~is~~~~~~~~~~~~~~~~~~~   54 (131)
                      ++|+++|+||+|+.+.....       ..+       ..++++||+++.| +.++++.+.+.+
T Consensus       142 ~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~SA~~g~g-i~~l~~~l~~~i  203 (228)
T 2qu8_A          142 NKSIVIGFNKIDKCNMDSLSIDNKLLIKQILDNVKNPIKFSSFSTLTGVG-VEQAKITACELL  203 (228)
T ss_dssp             CCCEEEEEECGGGCC--CCCHHHHHHHHHHHHHCCSCEEEEECCTTTCTT-HHHHHHHHHHHH
T ss_pred             CCcEEEEEeCcccCCchhhHHHHHHHHHHHHHhcCCCceEEEEecccCCC-HHHHHHHHHHHH
Confidence            78999999999996543211       112       2468999999999 999998876655

>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=96.45  E-value=0.00095  Score=49.87  Aligned_cols=48  Identities=10%  Similarity=0.173  Sum_probs=29.7

Q ss_pred             CcEEeeccCCCccccccc---c---ccc--------CCCCccccccCCccccccccccccccc
Q psy10878          7 KPILLPSASEDPSIDNWD---K---ASW--------ENVTPIVSEQGDGEIIEIIDPSLKLVR   55 (131)
Q Consensus         7 kp~vlv~NK~Dl~~~~~~---~---~~~--------~~~~~is~~~~~~~~~~~~~~~~~~~~   55 (131)
                      +|+++|+||+|+.+.+..   .   .++        ..++++||.++.| +.++++.+.+.+.
T Consensus       136 ~~iivv~NK~Dl~~~~~~~~~~~~i~~~l~~~~~~~~~~i~vSA~~g~g-i~~L~~~l~~~i~  197 (408)
T 1s0u_A          136 DKIIIVQNKIDLVDEKQAEENYEQIKEFVKGTIAENAPIIPISAHHEAN-IDVLLKAIQDFIP  197 (408)
T ss_dssp             CCEEEEEECTTSSCTTTTTTHHHHHHHHHTTSTTTTCCEEEC------C-HHHHHHHHHHHSC
T ss_pred             CeEEEEEEccCCCCHHHHHHHHHHHHHHHhhcCCCCCeEEEeeCCCCCC-HHHHHHHHHHhCC
Confidence            589999999999764321   1   111        2468999999999 9999998877653

>1kag_A SKI, shikimate kinase I; transferase, structural genomics, PSI, protein structure initiative; 2.05A {Escherichia coli} SCOP: c.37.1.2

Probab=96.45  E-value=0.0014  Score=42.66  Aligned_cols=21  Identities=19%  Similarity=0.455  Sum_probs=18.9

Q ss_pred             EEEEEcCCCCCchhhhhhhhh
Q psy10878         72 KVIVIGDPTVGKTSFVQRYVQ   92 (131)
Q Consensus        72 ki~vvG~~~vGKSsli~~~~~   92 (131)
                      .++++|.+|+||||+.+.+..
T Consensus         6 ~i~l~G~~GsGKSTl~~~La~   26 (173)
T 1kag_A            6 NIFLVGPMGAGKSTIGRQLAQ   26 (173)
T ss_dssp             CEEEECCTTSCHHHHHHHHHH
T ss_pred             eEEEECCCCCCHHHHHHHHHH
Confidence            589999999999999998764

>2wwf_A Thymidilate kinase, putative; transferase, malaria; HET: TMP ADP; 1.89A {Plasmodium falciparum} PDB: 2wwg_A* 2wwh_A* 2wwi_A*

Probab=96.45  E-value=0.0019  Score=43.34  Aligned_cols=23  Identities=17%  Similarity=0.102  Sum_probs=20.1

Q ss_pred             eeEEEEEcCCCCCchhhhhhhhh
Q psy10878         70 LFKVIVIGDPTVGKTSFVQRYVQ   92 (131)
Q Consensus        70 ~~ki~vvG~~~vGKSsli~~~~~   92 (131)
                      ...|++.|.+|+||||+.+.+..
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            45799999999999999998763

>3fb4_A Adenylate kinase; psychrophIle, phosphotransferase, ATP-binding, nucleotide-binding, transferase; HET: AP5; 2.00A {Marinibacillus marinus}

Probab=96.45  E-value=0.0013  Score=44.35  Aligned_cols=22  Identities=18%  Similarity=0.563  Sum_probs=19.3

Q ss_pred             eEEEEEcCCCCCchhhhhhhhh
Q psy10878         71 FKVIVIGDPTVGKTSFVQRYVQ   92 (131)
Q Consensus        71 ~ki~vvG~~~vGKSsli~~~~~   92 (131)
                      ++|++.|.+|+||||+.+.+..
T Consensus         1 m~I~l~G~~GsGKsT~a~~L~~   22 (216)
T 3fb4_A            1 MNIVLMGLPGAGKGTQAEQIIE   22 (216)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHH
Confidence            3699999999999999998853

>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=96.44  E-value=0.0014  Score=42.32  Aligned_cols=21  Identities=14%  Similarity=0.208  Sum_probs=18.9

Q ss_pred             EEEEEcCCCCCchhhhhhhhh
Q psy10878         72 KVIVIGDPTVGKTSFVQRYVQ   92 (131)
Q Consensus        72 ki~vvG~~~vGKSsli~~~~~   92 (131)
                      .|++.|.+|+||||+.+.+..
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            589999999999999998864

>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=96.44  E-value=0.0016  Score=47.79  Aligned_cols=24  Identities=25%  Similarity=0.384  Sum_probs=21.2

Q ss_pred             eeeEEEEEcCCCCCchhhhhhhhh
Q psy10878         69 KLFKVIVIGDPTVGKTSFVQRYVQ   92 (131)
Q Consensus        69 ~~~ki~vvG~~~vGKSsli~~~~~   92 (131)
                      ....++++|.+|+|||||++++..
T Consensus        78 ~~~~I~i~G~~G~GKSTl~~~L~~  101 (355)
T 3p32_A           78 NAHRVGITGVPGVGKSTAIEALGM  101 (355)
T ss_dssp             CSEEEEEECCTTSSHHHHHHHHHH
T ss_pred             CceEEEEECCCCCCHHHHHHHHHH
Confidence            456899999999999999999863

>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=96.43  E-value=0.0014  Score=45.39  Aligned_cols=21  Identities=29%  Similarity=0.672  Sum_probs=19.3

Q ss_pred             eEEEEEcCCCCCchhhhhhhh
Q psy10878         71 FKVIVIGDPTVGKTSFVQRYV   91 (131)
Q Consensus        71 ~ki~vvG~~~vGKSsli~~~~   91 (131)
                      ..++++|.+|+||||+++.+.
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            469999999999999999887

>3o47_A ADP-ribosylation factor GTPase-activating protein ribosylation factor 1; structural genomics consortium, GTPase activation; HET: GDP; 2.80A {Homo sapiens}

Probab=96.42  E-value=0.00059  Score=49.65  Aligned_cols=49  Identities=14%  Similarity=0.078  Sum_probs=36.2

Q ss_pred             CCCcEEeeccCCCcccccc---ccccc---------CCCCccccccCCcccccccccccccc
Q psy10878          5 AKKPILLPSASEDPSIDNW---DKASW---------ENVTPIVSEQGDGEIIEIIDPSLKLV   54 (131)
Q Consensus         5 ~~kp~vlv~NK~Dl~~~~~---~~~~~---------~~~~~is~~~~~~~~~~~~~~~~~~~   54 (131)
                      .++|+++|+||+|+.+...   ....+         -.++++||+++.| +.++++.+.+.+
T Consensus       265 ~~~piilV~NK~Dl~~~~~~~~i~~~~~~~~~~~~~~~~~~vSAk~g~g-i~el~~~l~~~l  325 (329)
T 3o47_A          265 RDAVLLVFANKQDLPNAMNAAEITDKLGLHSLRHRNWYIQATCATSGDG-LYEGLDWLSNQL  325 (329)
T ss_dssp             TTCEEEEEEECTTSTTCCCHHHHHHHHTCTTCCSSCEEEEECBTTTTBT-HHHHHHHHHHHH
T ss_pred             CCCeEEEEEECccCCcccCHHHHHHHhchhhhhcCCCEEEEEECCCCcC-HHHHHHHHHHHH
Confidence            3789999999999965421   11111         1267899999999 999998887765

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

Probab=96.42  E-value=0.0002  Score=46.58  Aligned_cols=50  Identities=16%  Similarity=0.272  Sum_probs=36.1

Q ss_pred             cCCCcEEeeccCCCccccc--ccc---cc-------cC---CCCccccccCCcccccccccccccc
Q psy10878          4 KAKKPILLPSASEDPSIDN--WDK---AS-------WE---NVTPIVSEQGDGEIIEIIDPSLKLV   54 (131)
Q Consensus         4 ~~~kp~vlv~NK~Dl~~~~--~~~---~~-------~~---~~~~is~~~~~~~~~~~~~~~~~~~   54 (131)
                      ..+.|+++|+||+|+.+..  ...   .+       ++   .++++||+++.| +.++++.+.+.+
T Consensus       105 ~~~~p~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~g-v~~l~~~l~~~~  169 (178)
T 2lkc_A          105 AANVPIIVAINKMDKPEANPDRVMQELMEYNLVPEEWGGDTIFCKLSAKTKEG-LDHLLEMILLVS  169 (178)
T ss_dssp             GGSCCEEEEEETTTSSCSCHHHHHHHHTTTTCCBTTTTSSEEEEECCSSSSHH-HHHHHHHHHHHH
T ss_pred             hCCCCEEEEEECccCCcCCHHHHHHHHHhcCcChhHcCCcccEEEEecCCCCC-HHHHHHHHHHhh
Confidence            3578999999999996531  111   11       11   467899999999 999988876654

>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=96.41  E-value=0.0015  Score=44.23  Aligned_cols=22  Identities=27%  Similarity=0.545  Sum_probs=19.4

Q ss_pred             eEEEEEcCCCCCchhhhhhhhh
Q psy10878         71 FKVIVIGDPTVGKTSFVQRYVQ   92 (131)
Q Consensus        71 ~ki~vvG~~~vGKSsli~~~~~   92 (131)
                      ++|++.|.+|+||||+...+..
T Consensus         1 m~I~l~G~~GsGKsT~a~~L~~   22 (216)
T 3dl0_A            1 MNLVLMGLPGAGKGTQGERIVE   22 (216)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHH
Confidence            3699999999999999998863

>2p5s_A RAS and EF-hand domain containing; G-protein, RAB, GDP, structural genomics, SGC, structural genomics consortium, signaling protein; HET: GDP; 2.15A {Homo sapiens}

Probab=96.41  E-value=0.00036  Score=46.52  Aligned_cols=49  Identities=16%  Similarity=0.152  Sum_probs=33.9

Q ss_pred             CCCcEEeeccCCCcccc------cccc----ccc-----CCCCccccccCCcccccccccccccc
Q psy10878          5 AKKPILLPSASEDPSID------NWDK----ASW-----ENVTPIVSEQGDGEIIEIIDPSLKLV   54 (131)
Q Consensus         5 ~~kp~vlv~NK~Dl~~~------~~~~----~~~-----~~~~~is~~~~~~~~~~~~~~~~~~~   54 (131)
                      .++|+++|+||+|+.+.      ....    ..+     ...+++||+++.| +.++++.+.+.+
T Consensus       132 ~~~piilv~NK~Dl~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~~SA~~g~g-v~el~~~l~~~i  195 (199)
T 2p5s_A          132 ETVPIMLVGNKADIRDTAATEGQKCVPGHFGEKLAMTYGALFCETSAKDGSN-IVEAVLHLAREV  195 (199)
T ss_dssp             --CCEEEEEECGGGHHHHHHTTCCCCCHHHHHHHHHHHTCEEEECCTTTCTT-HHHHHHHHHHHH
T ss_pred             CCCCEEEEEECcccccccccccccccCHHHHHHHHHHcCCeEEEeeCCCCCC-HHHHHHHHHHHH
Confidence            37899999999999631      1111    111     3467899999999 999988776654

>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=96.40  E-value=0.00029  Score=46.65  Aligned_cols=49  Identities=8%  Similarity=-0.015  Sum_probs=35.6

Q ss_pred             CCCcEEeeccCCCccccccc----cccc-----CCCCcccc-ccCCcccccccccccccc
Q psy10878          5 AKKPILLPSASEDPSIDNWD----KASW-----ENVTPIVS-EQGDGEIIEIIDPSLKLV   54 (131)
Q Consensus         5 ~~kp~vlv~NK~Dl~~~~~~----~~~~-----~~~~~is~-~~~~~~~~~~~~~~~~~~   54 (131)
                      .+.|+++|+||+|+.+....    ...+     ...+.+|| +++.| +.++++.+.+.+
T Consensus       126 ~~~piilv~nK~Dl~~~~~v~~~~~~~~~~~~~~~~~e~Sa~~~g~g-v~~lf~~l~~~i  184 (187)
T 3c5c_A          126 RSIPALLLGNKLDMAQYRQVTKAEGVALAGRFGCLFFEVSACLDFEH-VQHVFHEAVREA  184 (187)
T ss_dssp             CCCCEEEEEECGGGGGGCSSCHHHHHHHHHHHTCEEEECCSSSCSHH-HHHHHHHHHHHH
T ss_pred             CCCCEEEEEECcchhhcCccCHHHHHHHHHHcCCcEEEEeecCcccc-HHHHHHHHHHHH
Confidence            47899999999999653211    1122     45788999 89999 999988776543

>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=96.39  E-value=0.00048  Score=44.81  Aligned_cols=49  Identities=8%  Similarity=-0.007  Sum_probs=34.5

Q ss_pred             CCCcEEeeccCCCccc--c-cc---ccccc------CCCCccccccCCcccccccccccccc
Q psy10878          5 AKKPILLPSASEDPSI--D-NW---DKASW------ENVTPIVSEQGDGEIIEIIDPSLKLV   54 (131)
Q Consensus         5 ~~kp~vlv~NK~Dl~~--~-~~---~~~~~------~~~~~is~~~~~~~~~~~~~~~~~~~   54 (131)
                      .+.|+++|.||+|+..  . ..   ....+      ...+.+||+++.| +.++++.+.+.+
T Consensus       107 ~~~piilv~nK~Dl~~~~~~~v~~~~~~~~~~~~~~~~~~~~Sa~~~~~-i~~lf~~l~~~~  167 (178)
T 2iwr_A          107 GGLALALVGTQDRISASSPRVVGDARARALXADMKRCSYYETXATYGLN-VDRVFQEVAQKV  167 (178)
T ss_dssp             CCCEEEEEEECTTCBTTBCCCSCHHHHHHHHHHHSSEEEEEEBTTTTBT-HHHHHHHHHHHH
T ss_pred             CCCCEEEEEECccccccccCcCCHHHHHHHHHhhcCCeEEEEeccccCC-HHHHHHHHHHHH
Confidence            4789999999999842  1 11   11112      2467899999999 999988776544

>1ly1_A Polynucleotide kinase; PNK, phosphatase, transferase; 2.00A {Enterobacteria phage T4} SCOP: c.37.1.1

Probab=96.39  E-value=0.0015  Score=42.58  Aligned_cols=21  Identities=24%  Similarity=0.684  Sum_probs=19.1

Q ss_pred             EEEEEcCCCCCchhhhhhhhh
Q psy10878         72 KVIVIGDPTVGKTSFVQRYVQ   92 (131)
Q Consensus        72 ki~vvG~~~vGKSsli~~~~~   92 (131)
                      .|++.|.+|+||||+.+.+..
T Consensus         4 ~I~i~G~~GsGKST~a~~L~~   24 (181)
T 1ly1_A            4 IILTIGCPGSGKSTWAREFIA   24 (181)
T ss_dssp             EEEEECCTTSSHHHHHHHHHH
T ss_pred             EEEEecCCCCCHHHHHHHHHh
Confidence            589999999999999998875

>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=96.38  E-value=0.0016  Score=41.98  Aligned_cols=19  Identities=26%  Similarity=0.592  Sum_probs=17.7

Q ss_pred             EEEEEcCCCCCchhhhhhh
Q psy10878         72 KVIVIGDPTVGKTSFVQRY   90 (131)
Q Consensus        72 ki~vvG~~~vGKSsli~~~   90 (131)
                      -|++.|.+|+||||+.+.+
T Consensus         3 ~I~l~G~~GsGKsT~a~~L   21 (179)
T 3lw7_A            3 VILITGMPGSGKSEFAKLL   21 (179)
T ss_dssp             EEEEECCTTSCHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHH
Confidence            5899999999999999988

>3bwd_D RAC-like GTP-binding protein ARAC6; G domain, cytoplasm, lipoprotein, membrane, methylation, nucleotide-binding, prenylation, ----; HET: GDP; 1.53A {Arabidopsis thaliana} PDB: 2nty_C* 2wbl_C

Probab=96.38  E-value=0.00022  Score=46.53  Aligned_cols=48  Identities=17%  Similarity=0.194  Sum_probs=35.5

Q ss_pred             CCcEEeeccCCCccccccc--------------cccc----C--CCCccccccCCcccccccccccccc
Q psy10878          6 KKPILLPSASEDPSIDNWD--------------KASW----E--NVTPIVSEQGDGEIIEIIDPSLKLV   54 (131)
Q Consensus         6 ~kp~vlv~NK~Dl~~~~~~--------------~~~~----~--~~~~is~~~~~~~~~~~~~~~~~~~   54 (131)
                      +.|+++|+||+|+.+....              ...+    +  ..+++||+++.| +.++++.+.+.+
T Consensus       112 ~~piilv~nK~Dl~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~~~Sa~~~~g-i~~l~~~l~~~i  179 (182)
T 3bwd_D          112 GVPIVLVGTKLDLRDDKQFFIDHPGAVPITTVQGEELKKLIGAPAYIECSSKSQEN-VKGVFDAAIRVV  179 (182)
T ss_dssp             TCCEEEEEECHHHHTCHHHHHHC--CCCCCHHHHHHHHHHHTCSEEEECCTTTCTT-HHHHHHHHHHHH
T ss_pred             CCCEEEEEechhhhcCcccccccccCCCCCHHHHHHHHHHcCCCEEEEEECCCCCC-HHHHHHHHHHHH
Confidence            7899999999998653221              1112    2  568899999999 999988776654

>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=96.37  E-value=0.00034  Score=49.72  Aligned_cols=49  Identities=8%  Similarity=0.055  Sum_probs=37.4

Q ss_pred             CCCcEEeeccCCCcccccc---ccccc-----CCCCccccccCCcccccccccccccc
Q psy10878          5 AKKPILLPSASEDPSIDNW---DKASW-----ENVTPIVSEQGDGEIIEIIDPSLKLV   54 (131)
Q Consensus         5 ~~kp~vlv~NK~Dl~~~~~---~~~~~-----~~~~~is~~~~~~~~~~~~~~~~~~~   54 (131)
                      .++|+++|+||+|+.....   ....+     ..++++||.++.| +.++++.+.+.+
T Consensus       106 ~~~p~ilv~NK~Dl~~~~~~~~~~~~l~~~lg~~vi~~SA~~g~g-i~el~~~i~~~~  162 (272)
T 3b1v_A          106 TGIPVTIALNMIDVLDGQGKKINVDKLSYHLGVPVVATSALKQTG-VDQVVKKAAHTT  162 (272)
T ss_dssp             TCSCEEEEEECHHHHHHTTCCCCHHHHHHHHTSCEEECBTTTTBS-HHHHHHHHHHSC
T ss_pred             cCCCEEEEEEChhhCCcCCcHHHHHHHHHHcCCCEEEEEccCCCC-HHHHHHHHHHHH
Confidence            4789999999999864321   11222     4678999999999 999999887765

>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=96.36  E-value=0.00069  Score=44.76  Aligned_cols=49  Identities=12%  Similarity=0.137  Sum_probs=34.7

Q ss_pred             CCCcEEeeccCCCcccc--c-cc---cccc------CCCCccccccCCcccccccccccccc
Q psy10878          5 AKKPILLPSASEDPSID--N-WD---KASW------ENVTPIVSEQGDGEIIEIIDPSLKLV   54 (131)
Q Consensus         5 ~~kp~vlv~NK~Dl~~~--~-~~---~~~~------~~~~~is~~~~~~~~~~~~~~~~~~~   54 (131)
                      .+.|+++|.||+|+...  . ..   ...+      ...+.+||+++.| +.++++.+.+.+
T Consensus       118 ~~~piilv~nK~Dl~~~~~~~v~~~~~~~~~~~~~~~~~~e~Sa~~~~g-v~~lf~~l~~~i  178 (184)
T 3ihw_A          118 SEVPMVLVGTQDAISAANPRVIDDSRARKLSTDLKRCTYYETCATYGLN-VERVFQDVAQKV  178 (184)
T ss_dssp             GGSCEEEEEECTTCBTTBCCCSCHHHHHHHHHHTTTCEEEEEBTTTTBT-HHHHHHHHHHHH
T ss_pred             CCCCEEEEEECcccccccccccCHHHHHHHHHHcCCCeEEEecCCCCCC-HHHHHHHHHHHH
Confidence            46899999999998421  1 11   1112      3467899999999 999988776654

>2j41_A Guanylate kinase; GMP, GMK, transferase, ATP-binding, nucleotide- binding; HET: 5GP; 1.9A {Staphylococcus aureus}

Probab=96.36  E-value=0.0016  Score=43.48  Aligned_cols=22  Identities=23%  Similarity=0.463  Sum_probs=19.6

Q ss_pred             EEEEEcCCCCCchhhhhhhhhC
Q psy10878         72 KVIVIGDPTVGKTSFVQRYVQN   93 (131)
Q Consensus        72 ki~vvG~~~vGKSsli~~~~~~   93 (131)
                      .++++|.+|+||||+++.+.+.
T Consensus         8 ~i~l~G~~GsGKSTl~~~L~~~   29 (207)
T 2j41_A            8 LIVLSGPSGVGKGTVRKRIFED   29 (207)
T ss_dssp             EEEEECSTTSCHHHHHHHHHHC
T ss_pred             EEEEECCCCCCHHHHHHHHHHh
Confidence            5899999999999999988753

>2gco_A H9, RHO-related GTP-binding protein RHOC; GTPase,signaling protein, signaling Pro; HET: GNP; 1.40A {Homo sapiens} PDB: 2gcn_A* 2gcp_A* 1z2c_A* 1x86_B 2rgn_C* 1lb1_B 1s1c_A* 3kz1_E* 3lxr_A* 3lwn_A* 3lw8_A* 1cxz_A* 1a2b_A* 1ow3_B* 1ftn_A* 1cc0_A* 3msx_A* 1xcg_B 3t06_B 1tx4_B* ...

Probab=96.35  E-value=0.00051  Score=45.90  Aligned_cols=47  Identities=15%  Similarity=0.225  Sum_probs=34.3

Q ss_pred             CCcEEeeccCCCccccccc-----------c-----ccc------CCCCccccccCCccccccccccccc
Q psy10878          6 KKPILLPSASEDPSIDNWD-----------K-----ASW------ENVTPIVSEQGDGEIIEIIDPSLKL   53 (131)
Q Consensus         6 ~kp~vlv~NK~Dl~~~~~~-----------~-----~~~------~~~~~is~~~~~~~~~~~~~~~~~~   53 (131)
                      +.|+++|+||+|+.+....           .     ..+      ...+++||+++.| +.++++.+.+.
T Consensus       129 ~~piilv~nK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~~~SA~~g~g-i~~l~~~i~~~  197 (201)
T 2gco_A          129 NVPIILVGNKKDLRQDEHTRRELAKMKQEPVRSEEGRDMANRISAFGYLECSAKTKEG-VREVFEMATRA  197 (201)
T ss_dssp             TCCEEEEEECGGGTTCHHHHHHHHTTTCCCCCHHHHHHHHHHTTCSEEEECCTTTCTT-HHHHHHHHHHH
T ss_pred             CCCEEEEEecHHhhcCccchhhhcccccCcCCHHHHHHHHHhCCCcEEEEeeCCCCCC-HHHHHHHHHHH
Confidence            7899999999999654210           0     011      2568899999999 99998876654

>2jaq_A Deoxyguanosine kinase; transferase, deoxyribonucleoside kinase; HET: DCP; 2.3A {Mycoplasma mycoides subsp} PDB: 2jat_A* 2jas_A*

Probab=96.35  E-value=0.0018  Score=43.01  Aligned_cols=21  Identities=19%  Similarity=0.417  Sum_probs=18.9

Q ss_pred             EEEEEcCCCCCchhhhhhhhh
Q psy10878         72 KVIVIGDPTVGKTSFVQRYVQ   92 (131)
Q Consensus        72 ki~vvG~~~vGKSsli~~~~~   92 (131)
                      .|++.|.+|+||||+++.+..
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            589999999999999988764

>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=96.34  E-value=0.00035  Score=47.28  Aligned_cols=49  Identities=12%  Similarity=0.148  Sum_probs=36.2

Q ss_pred             CCCcEEeeccCCCcccccc-------------c---cccc------CCCCccccccCCcccccccccccccc
Q psy10878          5 AKKPILLPSASEDPSIDNW-------------D---KASW------ENVTPIVSEQGDGEIIEIIDPSLKLV   54 (131)
Q Consensus         5 ~~kp~vlv~NK~Dl~~~~~-------------~---~~~~------~~~~~is~~~~~~~~~~~~~~~~~~~   54 (131)
                      .+.|+++|+||+|+.....             .   ...+      ...+++||+++.| +.++++.+.+.+
T Consensus       137 ~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~~~SA~~g~g-i~el~~~l~~~~  207 (214)
T 2j1l_A          137 KKVPIIVVGCKTDLRKDKSLVNKLRRNGLEPVTYHRGQEMARSVGAVAYLECSARLHDN-VHAVFQEAAEVA  207 (214)
T ss_dssp             SSCCEEEEEECGGGGSCHHHHHHHHHTTCCCCCHHHHHHHHHHTTCSEEEECBTTTTBS-HHHHHHHHHHHH
T ss_pred             CCCCEEEEEEChhhhccchhhhhhcccccCcccHHHHHHHHHhcCCCEEEEecCCCCCC-HHHHHHHHHHHH
Confidence            3789999999999965421             0   0111      2578999999999 999998876654

>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=96.31  E-value=0.0017  Score=42.93  Aligned_cols=21  Identities=29%  Similarity=0.453  Sum_probs=18.7

Q ss_pred             EEEEEcCCCCCchhhhhhhhh
Q psy10878         72 KVIVIGDPTVGKTSFVQRYVQ   92 (131)
Q Consensus        72 ki~vvG~~~vGKSsli~~~~~   92 (131)
                      -++++|.+|+||||+++.+..
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            478999999999999998874

>2qm8_A GTPase/ATPase; G protein, G3E, metallochaperone, chaperone; HET: MSE; 1.70A {Methylobacterium extorquens} SCOP: c.37.1.10 PDB: 2qm7_A*

Probab=96.30  E-value=0.0021  Score=46.96  Aligned_cols=23  Identities=26%  Similarity=0.413  Sum_probs=20.3

Q ss_pred             eeEEEEEcCCCCCchhhhhhhhh
Q psy10878         70 LFKVIVIGDPTVGKTSFVQRYVQ   92 (131)
Q Consensus        70 ~~ki~vvG~~~vGKSsli~~~~~   92 (131)
                      ...+.++|.+|+|||||++.+.+
T Consensus        55 g~~v~i~G~~GaGKSTLl~~l~g   77 (337)
T 2qm8_A           55 AIRVGITGVPGVGKSTTIDALGS   77 (337)
T ss_dssp             SEEEEEECCTTSCHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHH
Confidence            35799999999999999999873

>2q3h_A RAS homolog gene family, member U; GTPase, structural genomics, structural genomics consortium,; HET: GDP; 1.73A {Homo sapiens}

Probab=96.30  E-value=0.00036  Score=46.45  Aligned_cols=48  Identities=17%  Similarity=0.153  Sum_probs=35.4

Q ss_pred             CCcEEeeccCCCccccc-------------cc---cccc------CCCCccccccCCcccccccccccccc
Q psy10878          6 KKPILLPSASEDPSIDN-------------WD---KASW------ENVTPIVSEQGDGEIIEIIDPSLKLV   54 (131)
Q Consensus         6 ~kp~vlv~NK~Dl~~~~-------------~~---~~~~------~~~~~is~~~~~~~~~~~~~~~~~~~   54 (131)
                      +.|+++|+||+|+....             ..   ...+      ...+++||+++.| +.++++.+.+.+
T Consensus       124 ~~p~ilv~nK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~~~Sa~~g~g-i~~l~~~l~~~~  193 (201)
T 2q3h_A          124 KAPIILVGTQSDLREDVKVLIELDKCKEKPVPEEAAKLLAEEIKAASYIECSALTQKN-LKEVFDAAIVAG  193 (201)
T ss_dssp             SSCEEEEEECGGGGGCHHHHHHHHTTTCCCCCHHHHHHHHHHHTCSEEEECCTTTCTT-HHHHHHHHHHHH
T ss_pred             CCCEEEEEECHhhhhchhhhhhhcccccccCCHHHHHHHHHhcCCcEEEEEecCCCCC-HHHHHHHHHHHH
Confidence            78999999999996521             00   1111      2578999999999 999998876654

>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=96.30  E-value=0.0018  Score=42.24  Aligned_cols=21  Identities=24%  Similarity=0.438  Sum_probs=18.9

Q ss_pred             EEEEEcCCCCCchhhhhhhhh
Q psy10878         72 KVIVIGDPTVGKTSFVQRYVQ   92 (131)
Q Consensus        72 ki~vvG~~~vGKSsli~~~~~   92 (131)
                      -|++.|.+|+||||+.+.+..
T Consensus         5 ~i~l~G~~GsGKST~a~~La~   25 (178)
T 1qhx_A            5 MIILNGGSSAGKSGIVRCLQS   25 (178)
T ss_dssp             EEEEECCTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            589999999999999998774

>2fv8_A H6, RHO-related GTP-binding protein RHOB; GDP/GTP binding, GTP hydrolysis, structural genomics, structural genomics consortium, SGC; HET: GDP; 1.90A {Homo sapiens} SCOP: c.37.1.8

Probab=96.30  E-value=0.00056  Score=45.92  Aligned_cols=48  Identities=15%  Similarity=0.248  Sum_probs=35.8

Q ss_pred             CCcEEeeccCCCccccccc-----------c-----ccc------CCCCccccccCCcccccccccccccc
Q psy10878          6 KKPILLPSASEDPSIDNWD-----------K-----ASW------ENVTPIVSEQGDGEIIEIIDPSLKLV   54 (131)
Q Consensus         6 ~kp~vlv~NK~Dl~~~~~~-----------~-----~~~------~~~~~is~~~~~~~~~~~~~~~~~~~   54 (131)
                      ++|+++|+||+|+......           .     ..+      ..++++||+++.| +.++++.+.+.+
T Consensus       129 ~~piilv~nK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~~~SA~~g~g-i~el~~~l~~~i  198 (207)
T 2fv8_A          129 NVPIILVANKKDLRSDEHVRTELARMKQEPVRTDDGRAMAVRIQAYDYLECSAKTKEG-VREVFETATRAA  198 (207)
T ss_dssp             TCCEEEEEECGGGGGCHHHHHHHHHTTCCCCCHHHHHHHHHHTTCSEEEECCTTTCTT-HHHHHHHHHHHH
T ss_pred             CCCEEEEEEchhhhccccchhhhhhcccCCCCHHHHHHHHHhcCCCEEEEeeCCCCCC-HHHHHHHHHHHH
Confidence            7899999999999654210           0     011      1568899999999 999999887765

>4eun_A Thermoresistant glucokinase; putative sugar kinase, enzyme function initiative, EFI, STRU genomics, transferase; 1.60A {Janibacter SP}

Probab=96.29  E-value=0.0019  Score=43.34  Aligned_cols=22  Identities=27%  Similarity=0.407  Sum_probs=19.2

Q ss_pred             eEEEEEcCCCCCchhhhhhhhh
Q psy10878         71 FKVIVIGDPTVGKTSFVQRYVQ   92 (131)
Q Consensus        71 ~ki~vvG~~~vGKSsli~~~~~   92 (131)
                      ..++++|.+|+||||+++.+.+
T Consensus        30 ~~i~l~G~~GsGKSTl~~~L~~   51 (200)
T 4eun_A           30 RHVVVMGVSGSGKTTIAHGVAD   51 (200)
T ss_dssp             CEEEEECCTTSCHHHHHHHHHH
T ss_pred             cEEEEECCCCCCHHHHHHHHHH
Confidence            3589999999999999998764

>1uf9_A TT1252 protein; P-loop, nucleotide binding domain, structural genomics, riken structural genomics/proteomics initiative, RSGI; HET: ATP; 2.80A {Thermus thermophilus} SCOP: c.37.1.1

Probab=96.29  E-value=0.0023  Score=42.59  Aligned_cols=26  Identities=12%  Similarity=0.115  Sum_probs=21.8

Q ss_pred             ceeeEEEEEcCCCCCchhhhhhhhhC
Q psy10878         68 EKLFKVIVIGDPTVGKTSFVQRYVQN   93 (131)
Q Consensus        68 ~~~~ki~vvG~~~vGKSsli~~~~~~   93 (131)
                      .....|+++|.+|+||||+...+...
T Consensus         6 ~~~~~I~i~G~~GsGKST~~~~La~~   31 (203)
T 1uf9_A            6 KHPIIIGITGNIGSGKSTVAALLRSW   31 (203)
T ss_dssp             CCCEEEEEEECTTSCHHHHHHHHHHT
T ss_pred             cCceEEEEECCCCCCHHHHHHHHHHC
Confidence            34567999999999999999988753

>3vaa_A Shikimate kinase, SK; structural genomics, center for structural genomics of infec diseases, csgid, metal binding, transferase; 1.70A {Bacteroides thetaiotaomicron}

Probab=96.29  E-value=0.0021  Score=43.04  Aligned_cols=21  Identities=19%  Similarity=0.453  Sum_probs=19.0

Q ss_pred             EEEEEcCCCCCchhhhhhhhh
Q psy10878         72 KVIVIGDPTVGKTSFVQRYVQ   92 (131)
Q Consensus        72 ki~vvG~~~vGKSsli~~~~~   92 (131)
                      .++++|.+|+||||+...+..
T Consensus        27 ~i~l~G~~GsGKsTl~~~La~   47 (199)
T 3vaa_A           27 RIFLTGYMGAGKTTLGKAFAR   47 (199)
T ss_dssp             EEEEECCTTSCHHHHHHHHHH
T ss_pred             EEEEEcCCCCCHHHHHHHHHH
Confidence            699999999999999998763

>1nks_A Adenylate kinase; thermophilic, transferase; HET: AMP ADP; 2.57A {Sulfolobus acidocaldarius} SCOP: c.37.1.1

Probab=96.28  E-value=0.0022  Score=42.12  Aligned_cols=21  Identities=33%  Similarity=0.480  Sum_probs=18.7

Q ss_pred             EEEEEcCCCCCchhhhhhhhh
Q psy10878         72 KVIVIGDPTVGKTSFVQRYVQ   92 (131)
Q Consensus        72 ki~vvG~~~vGKSsli~~~~~   92 (131)
                      .|++.|.+|+||||+...+..
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            589999999999999988763

>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=96.26  E-value=0.0015  Score=42.91  Aligned_cols=21  Identities=29%  Similarity=0.537  Sum_probs=18.9

Q ss_pred             EEEEEcCCCCCchhhhhhhhh
Q psy10878         72 KVIVIGDPTVGKTSFVQRYVQ   92 (131)
Q Consensus        72 ki~vvG~~~vGKSsli~~~~~   92 (131)
                      .++++|++|+|||+|+..+++
T Consensus        40 ~~~l~G~~G~GKTtL~~~i~~   60 (180)
T 3ec2_A           40 GLTFVGSPGVGKTHLAVATLK   60 (180)
T ss_dssp             EEEECCSSSSSHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            589999999999999988764

>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=96.26  E-value=0.002  Score=42.13  Aligned_cols=22  Identities=32%  Similarity=0.445  Sum_probs=19.6

Q ss_pred             EEEEEcCCCCCchhhhhhhhhC
Q psy10878         72 KVIVIGDPTVGKTSFVQRYVQN   93 (131)
Q Consensus        72 ki~vvG~~~vGKSsli~~~~~~   93 (131)
                      -++++|+.|+|||||++.+++.
T Consensus        35 ~v~L~G~nGaGKTTLlr~l~g~   56 (158)
T 1htw_A           35 MVYLNGDLGAGKTTLTRGMLQG   56 (158)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHh
Confidence            5889999999999999988764

>2cdn_A Adenylate kinase; phosphoryl transfer, associative mechanism, ATP-binding, nucleotide biosynthesis, nucleotide-binding, transferase; HET: ADP; 1.9A {Mycobacterium tuberculosis} SCOP: c.37.1.1 PDB: 1p4s_A

Probab=96.26  E-value=0.0024  Score=42.68  Aligned_cols=25  Identities=20%  Similarity=0.477  Sum_probs=20.9

Q ss_pred             ceeeEEEEEcCCCCCchhhhhhhhh
Q psy10878         68 EKLFKVIVIGDPTVGKTSFVQRYVQ   92 (131)
Q Consensus        68 ~~~~ki~vvG~~~vGKSsli~~~~~   92 (131)
                      ...+.|+++|.+|+||||+...+..
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            3446799999999999999988763

>1jbk_A CLPB protein; beta barrel, chaperone; 1.80A {Escherichia coli} SCOP: c.37.1.20

Probab=96.24  E-value=0.0021  Score=41.78  Aligned_cols=21  Identities=43%  Similarity=0.768  Sum_probs=18.8

Q ss_pred             EEEEEcCCCCCchhhhhhhhh
Q psy10878         72 KVIVIGDPTVGKTSFVQRYVQ   92 (131)
Q Consensus        72 ki~vvG~~~vGKSsli~~~~~   92 (131)
                      .+++.|++|+|||+++..+..
T Consensus        45 ~~ll~G~~G~GKT~l~~~~~~   65 (195)
T 1jbk_A           45 NPVLIGEPGVGKTAIVEGLAQ   65 (195)
T ss_dssp             EEEEECCTTSCHHHHHHHHHH
T ss_pred             ceEEECCCCCCHHHHHHHHHH
Confidence            489999999999999988774

>3t61_A Gluconokinase; PSI-biology, structural genomics, protein structure initiati YORK structural genomics research consortium, nysgrc; 2.20A {Sinorhizobium meliloti}

Probab=96.23  E-value=0.0021  Score=43.07  Aligned_cols=22  Identities=23%  Similarity=0.327  Sum_probs=19.3

Q ss_pred             eEEEEEcCCCCCchhhhhhhhh
Q psy10878         71 FKVIVIGDPTVGKTSFVQRYVQ   92 (131)
Q Consensus        71 ~ki~vvG~~~vGKSsli~~~~~   92 (131)
                      ..|+++|.+|+||||++..+..
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            3699999999999999998764

>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=96.22  E-value=0.0039  Score=43.20  Aligned_cols=27  Identities=19%  Similarity=0.286  Sum_probs=23.1

Q ss_pred             CCCceeeEEEEEcCCCCCchhhhhhhh
Q psy10878         65 APPEKLFKVIVIGDPTVGKTSFVQRYV   91 (131)
Q Consensus        65 ~~~~~~~ki~vvG~~~vGKSsli~~~~   91 (131)
                      +.......++++|.+||||||+++.++
T Consensus         9 ~~~~~~~i~~~~GkgGvGKTTl~~~La   35 (262)
T 1yrb_A            9 HHGMASMIVVFVGTAGSGKTTLTGEFG   35 (262)
T ss_dssp             CTTCCCEEEEEECSTTSSHHHHHHHHH
T ss_pred             cCCcceEEEEEeCCCCCCHHHHHHHHH
Confidence            345566789999999999999999987

>3cm0_A Adenylate kinase; ATP-binding, cytoplasm, nucleotide biosynthesis, nucleotide-binding, transferase, structural genomics; 1.80A {Thermus thermophilus}

Probab=96.22  E-value=0.0028  Score=41.61  Aligned_cols=22  Identities=32%  Similarity=0.427  Sum_probs=19.5

Q ss_pred             eeEEEEEcCCCCCchhhhhhhh
Q psy10878         70 LFKVIVIGDPTVGKTSFVQRYV   91 (131)
Q Consensus        70 ~~ki~vvG~~~vGKSsli~~~~   91 (131)
                      ...|+++|.+|+||||+...+.
T Consensus         4 g~~I~l~G~~GsGKST~~~~La   25 (186)
T 3cm0_A            4 GQAVIFLGPPGAGKGTQASRLA   25 (186)
T ss_dssp             EEEEEEECCTTSCHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHH
Confidence            3579999999999999998876

>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=96.21  E-value=0.0019  Score=44.83  Aligned_cols=21  Identities=19%  Similarity=0.259  Sum_probs=18.9

Q ss_pred             EEEEEcCCCCCchhhhhhhhh
Q psy10878         72 KVIVIGDPTVGKTSFVQRYVQ   92 (131)
Q Consensus        72 ki~vvG~~~vGKSsli~~~~~   92 (131)
                      .++++|+.|+|||||++.+.+
T Consensus        33 ~~~iiG~nGsGKSTLl~~l~G   53 (235)
T 3tif_A           33 FVSIMGPSGSGKSTMLNIIGC   53 (235)
T ss_dssp             EEEEECSTTSSHHHHHHHHTT
T ss_pred             EEEEECCCCCcHHHHHHHHhc
Confidence            489999999999999998765

>2if2_A Dephospho-COA kinase; alpha-beta protein, structural genomics, PSI-2, protein STRU initiative, northeast structural genomics consortium, NESG; 3.00A {Aquifex aeolicus}

Probab=96.20  E-value=0.0022  Score=42.85  Aligned_cols=21  Identities=19%  Similarity=0.420  Sum_probs=19.1

Q ss_pred             EEEEEcCCCCCchhhhhhhhh
Q psy10878         72 KVIVIGDPTVGKTSFVQRYVQ   92 (131)
Q Consensus        72 ki~vvG~~~vGKSsli~~~~~   92 (131)
                      +|+++|.+|+||||+.+.+..
T Consensus         3 ~i~i~G~~GsGKSTl~~~L~~   23 (204)
T 2if2_A            3 RIGLTGNIGCGKSTVAQMFRE   23 (204)
T ss_dssp             EEEEEECTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCcCHHHHHHHHHH
Confidence            699999999999999998765

>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=96.19  E-value=0.0023  Score=42.49  Aligned_cols=21  Identities=14%  Similarity=0.279  Sum_probs=19.1

Q ss_pred             EEEEEcCCCCCchhhhhhhhh
Q psy10878         72 KVIVIGDPTVGKTSFVQRYVQ   92 (131)
Q Consensus        72 ki~vvG~~~vGKSsli~~~~~   92 (131)
                      -++++|.+|+|||||+++++.
T Consensus         8 ~i~i~G~sGsGKTTl~~~l~~   28 (174)
T 1np6_A            8 LLAFAAWSGTGKTTLLKKLIP   28 (174)
T ss_dssp             EEEEECCTTSCHHHHHHHHHH
T ss_pred             EEEEEeCCCCCHHHHHHHHHH
Confidence            488999999999999999875

>3asz_A Uridine kinase; cytidine phosphorylation, transferase; HET: C5P; 2.25A {Thermus thermophilus} PDB: 3asy_A*

Probab=96.16  E-value=0.0026  Score=42.73  Aligned_cols=22  Identities=27%  Similarity=0.489  Sum_probs=19.4

Q ss_pred             eEEEEEcCCCCCchhhhhhhhh
Q psy10878         71 FKVIVIGDPTVGKTSFVQRYVQ   92 (131)
Q Consensus        71 ~ki~vvG~~~vGKSsli~~~~~   92 (131)
                      ..+.++|.+|+|||||++.+.+
T Consensus         7 ~~i~i~G~~GsGKSTl~~~l~~   28 (211)
T 3asz_A            7 FVIGIAGGTASGKTTLAQALAR   28 (211)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHH
T ss_pred             EEEEEECCCCCCHHHHHHHHHH
Confidence            4699999999999999998764

>2i3b_A HCR-ntpase, human cancer-related ntpase; AAA, rossmann, hydrolase; NMR {Homo sapiens} SCOP: c.37.1.11

Probab=96.14  E-value=0.0021  Score=43.16  Aligned_cols=21  Identities=33%  Similarity=0.688  Sum_probs=18.8

Q ss_pred             EEEEEcCCCCCchhhhhhhhh
Q psy10878         72 KVIVIGDPTVGKTSFVQRYVQ   92 (131)
Q Consensus        72 ki~vvG~~~vGKSsli~~~~~   92 (131)
                      .++++|.+|+|||||++.+++
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            488999999999999998775

>1kht_A Adenylate kinase; phosphotransferase, signaling protein, transferase; HET: AMP; 2.50A {Methanococcus voltae} SCOP: c.37.1.1 PDB: 3h86_B* 1ki9_A

Probab=96.14  E-value=0.0028  Score=41.67  Aligned_cols=22  Identities=36%  Similarity=0.389  Sum_probs=19.2

Q ss_pred             eEEEEEcCCCCCchhhhhhhhh
Q psy10878         71 FKVIVIGDPTVGKTSFVQRYVQ   92 (131)
Q Consensus        71 ~ki~vvG~~~vGKSsli~~~~~   92 (131)
                      ..|++.|.+|+||||+.+.+..
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            4699999999999999988763

>3lnc_A Guanylate kinase, GMP kinase; ALS collaborative crystallography, emerald biostructures, ATP-binding, cytoplasm, nucleotide-binding; HET: 5GP; 1.95A {Anaplasma phagocytophilum}

Probab=96.14  E-value=0.0021  Score=44.04  Aligned_cols=20  Identities=15%  Similarity=0.351  Sum_probs=14.6

Q ss_pred             EEEEEcCCCCCchhhhhhhh
Q psy10878         72 KVIVIGDPTVGKTSFVQRYV   91 (131)
Q Consensus        72 ki~vvG~~~vGKSsli~~~~   91 (131)
                      -++++|.+|+||||+++.+.
T Consensus        29 ii~l~Gp~GsGKSTl~~~L~   48 (231)
T 3lnc_A           29 ILVLSSPSGCGKTTVANKLL   48 (231)
T ss_dssp             EEEEECSCC----CHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHH
Confidence            48999999999999999887

>1e4v_A Adenylate kinase; transferase(phosphotransferase); HET: AP5; 1.85A {Escherichia coli} SCOP: c.37.1.1 g.41.2.1 PDB: 1e4y_A* 1ake_A* 1ank_A* 2eck_A* 3hpq_A* 4ake_A 3hpr_A*

Probab=96.14  E-value=0.0024  Score=43.25  Aligned_cols=22  Identities=27%  Similarity=0.604  Sum_probs=19.3

Q ss_pred             eEEEEEcCCCCCchhhhhhhhh
Q psy10878         71 FKVIVIGDPTVGKTSFVQRYVQ   92 (131)
Q Consensus        71 ~ki~vvG~~~vGKSsli~~~~~   92 (131)
                      ++|++.|.+|+||||+...+..
T Consensus         1 m~I~l~G~~GsGKsT~a~~L~~   22 (214)
T 1e4v_A            1 MRIILLGAPVAGKGTQAQFIME   22 (214)
T ss_dssp             CEEEEEESTTSSHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHH
Confidence            3699999999999999988764

>2pcj_A ABC transporter, lipoprotein-releasing system ATP-binding protein; structural genomics; 1.70A {Aquifex aeolicus} PDB: 2pcl_A

Probab=96.13  E-value=0.0021  Score=44.20  Aligned_cols=22  Identities=23%  Similarity=0.223  Sum_probs=19.2

Q ss_pred             EEEEEcCCCCCchhhhhhhhhC
Q psy10878         72 KVIVIGDPTVGKTSFVQRYVQN   93 (131)
Q Consensus        72 ki~vvG~~~vGKSsli~~~~~~   93 (131)
                      .++++|+.|+|||||++.+.+-
T Consensus        32 ~~~iiG~nGsGKSTLl~~l~Gl   53 (224)
T 2pcj_A           32 FVSIIGASGSGKSTLLYILGLL   53 (224)
T ss_dssp             EEEEEECTTSCHHHHHHHHTTS
T ss_pred             EEEEECCCCCCHHHHHHHHhcC
Confidence            4889999999999999987753

>3uie_A Adenylyl-sulfate kinase 1, chloroplastic; rossmann fold, transferase-transferase complex; HET: ADX ANP; 1.79A {Arabidopsis thaliana} SCOP: c.37.1.0 PDB: 4fxp_A*

Probab=96.13  E-value=0.0024  Score=42.79  Aligned_cols=22  Identities=23%  Similarity=0.228  Sum_probs=19.1

Q ss_pred             eEEEEEcCCCCCchhhhhhhhh
Q psy10878         71 FKVIVIGDPTVGKTSFVQRYVQ   92 (131)
Q Consensus        71 ~ki~vvG~~~vGKSsli~~~~~   92 (131)
                      .-++++|.+|+||||+++.+..
T Consensus        26 ~~i~l~G~sGsGKSTl~~~La~   47 (200)
T 3uie_A           26 CVIWVTGLSGSGKSTLACALNQ   47 (200)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHH
Confidence            4699999999999999987764

>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=96.13  E-value=0.0026  Score=43.32  Aligned_cols=22  Identities=23%  Similarity=0.536  Sum_probs=19.3

Q ss_pred             eEEEEEcCCCCCchhhhhhhhh
Q psy10878         71 FKVIVIGDPTVGKTSFVQRYVQ   92 (131)
Q Consensus        71 ~ki~vvG~~~vGKSsli~~~~~   92 (131)
                      +.|+++|.||+||+|...+++.
T Consensus         1 M~Iil~GpPGsGKgTqa~~La~   22 (206)
T 3sr0_A            1 MILVFLGPPGAGKGTQAKRLAK   22 (206)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHH
Confidence            4689999999999999988764

>4a74_A DNA repair and recombination protein RADA; hydrolase, recombinase; HET: DNA ANP; 1.48A {Pyrococcus furiosus} PDB: 4a6x_A* 4a6p_A* 4a7o_A*

Probab=96.13  E-value=0.0023  Score=43.35  Aligned_cols=21  Identities=24%  Similarity=0.275  Sum_probs=19.4

Q ss_pred             EEEEEcCCCCCchhhhhhhhh
Q psy10878         72 KVIVIGDPTVGKTSFVQRYVQ   92 (131)
Q Consensus        72 ki~vvG~~~vGKSsli~~~~~   92 (131)
                      -++++|++|+|||||++.+++
T Consensus        27 ~~~l~G~nGsGKSTll~~l~g   47 (231)
T 4a74_A           27 ITEVFGEFGSGKTQLAHTLAV   47 (231)
T ss_dssp             EEEEEESTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            489999999999999999876

>1cke_A CK, MSSA, protein (cytidine monophosphate kinase); nucleotide monophosphate kinase,, transferase; 1.75A {Escherichia coli} SCOP: c.37.1.1 PDB: 1kdo_A* 1kdp_A* 1kdr_A* 1kdt_A* 2cmk_A* 2fem_A 2feo_A*

Probab=96.12  E-value=0.0027  Score=43.07  Aligned_cols=22  Identities=14%  Similarity=0.249  Sum_probs=19.4

Q ss_pred             eEEEEEcCCCCCchhhhhhhhh
Q psy10878         71 FKVIVIGDPTVGKTSFVQRYVQ   92 (131)
Q Consensus        71 ~ki~vvG~~~vGKSsli~~~~~   92 (131)
                      ..+.++|.+|+||||+++.+..
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            4799999999999999997764

>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=96.12  E-value=0.0029  Score=41.71  Aligned_cols=22  Identities=36%  Similarity=0.572  Sum_probs=19.3

Q ss_pred             eEEEEEcCCCCCchhhhhhhhh
Q psy10878         71 FKVIVIGDPTVGKTSFVQRYVQ   92 (131)
Q Consensus        71 ~ki~vvG~~~vGKSsli~~~~~   92 (131)
                      ..|++.|.+|+||||+...+..
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            4699999999999999988763

>2aka_B Dynamin-1; fusion protein, GTPase domain, myosin, contractIle protein; 1.90A {Rattus norvegicus} SCOP: c.37.1.8 PDB: 3l43_A*

Probab=96.12  E-value=0.0012  Score=46.62  Aligned_cols=48  Identities=13%  Similarity=0.004  Sum_probs=34.8

Q ss_pred             cCCCcEEeeccCCCcccccccc-----c---c----cCCCCccccccCCcccccccccccc
Q psy10878          4 KAKKPILLPSASEDPSIDNWDK-----A---S----WENVTPIVSEQGDGEIIEIIDPSLK   52 (131)
Q Consensus         4 ~~~kp~vlv~NK~Dl~~~~~~~-----~---~----~~~~~~is~~~~~~~~~~~~~~~~~   52 (131)
                      ..++|+++|+||+|+.+.....     .   .    |..++++||+++.| +.++++.+.+
T Consensus       190 ~~~~~~i~V~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~~v~~~SA~~~~g-i~~l~~~l~~  249 (299)
T 2aka_B          190 PQGQRTIGVITKLDLMDEGTDARDVLENKLLPLRRGYIGVVNRSQKDIDG-KKDITAALAA  249 (299)
T ss_dssp             TTCSSEEEEEECGGGSCTTCCCHHHHTTCSSCCTTCEEECCCCCCBCTTS-CBCHHHHHHH
T ss_pred             CCCCeEEEEEEccccCCCCchHHHHHhCCcCcCCCCcEEEECCChhhccc-cccHHHHHHH
Confidence            3578999999999996543211     1   1    23578899999999 9988877654

>3trf_A Shikimate kinase, SK; amino acid biosynthesis, transferase; 2.60A {Coxiella burnetii}

Probab=96.09  E-value=0.0029  Score=41.60  Aligned_cols=21  Identities=29%  Similarity=0.363  Sum_probs=18.9

Q ss_pred             EEEEEcCCCCCchhhhhhhhh
Q psy10878         72 KVIVIGDPTVGKTSFVQRYVQ   92 (131)
Q Consensus        72 ki~vvG~~~vGKSsli~~~~~   92 (131)
                      .|+++|.+|+||||+...+..
T Consensus         7 ~i~l~G~~GsGKst~a~~La~   27 (185)
T 3trf_A            7 NIYLIGLMGAGKTSVGSQLAK   27 (185)
T ss_dssp             EEEEECSTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            699999999999999998863

>2pt5_A Shikimate kinase, SK; aromatic amino acid biosynthesis, P-loop kinase, SHI kinase, shikimate pathway; 2.10A {Aquifex aeolicus}

Probab=96.08  E-value=0.0031  Score=40.72  Aligned_cols=21  Identities=19%  Similarity=0.275  Sum_probs=18.9

Q ss_pred             EEEEEcCCCCCchhhhhhhhh
Q psy10878         72 KVIVIGDPTVGKTSFVQRYVQ   92 (131)
Q Consensus        72 ki~vvG~~~vGKSsli~~~~~   92 (131)
                      +|++.|.+|+||||+...+..
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            699999999999999988764

>3b85_A Phosphate starvation-inducible protein; PHOH2, ATPase, PFAM: PF02562, ST genomics, PSI-2, protein structure initiative; 2.35A {Corynebacterium glutamicum atcc 13032}

Probab=96.06  E-value=0.003  Score=43.10  Aligned_cols=22  Identities=23%  Similarity=0.214  Sum_probs=19.6

Q ss_pred             EEEEEcCCCCCchhhhhhhhhC
Q psy10878         72 KVIVIGDPTVGKTSFVQRYVQN   93 (131)
Q Consensus        72 ki~vvG~~~vGKSsli~~~~~~   93 (131)
                      .++++|..|+|||||++.+++-
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            4889999999999999988764

>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=96.06  E-value=0.0011  Score=50.80  Aligned_cols=49  Identities=22%  Similarity=0.160  Sum_probs=38.2

Q ss_pred             CCcEEeeccCCCcccccccc----cc--cCCCCccccccCCccccccccccccccc
Q psy10878          6 KKPILLPSASEDPSIDNWDK----AS--WENVTPIVSEQGDGEIIEIIDPSLKLVR   55 (131)
Q Consensus         6 ~kp~vlv~NK~Dl~~~~~~~----~~--~~~~~~is~~~~~~~~~~~~~~~~~~~~   55 (131)
                      ++|+++|+||+|+.......    ..  +..++++|++++.| +.++++.+.+.+.
T Consensus       343 ~~piIvV~NK~Dl~~~~~~~~~~l~~~~~~~~i~vSAktg~G-I~eL~~~i~~~~~  397 (476)
T 3gee_A          343 AAKFLTVANKLDRAANADALIRAIADGTGTEVIGISALNGDG-IDTLKQHMGDLVK  397 (476)
T ss_dssp             TSEEEEEEECTTSCTTTHHHHHHHHHHHTSCEEECBTTTTBS-HHHHHHHHTHHHH
T ss_pred             CCCEEEEEECcCCCCccchhHHHHHhcCCCceEEEEECCCCC-HHHHHHHHHHHHh
Confidence            68999999999996554221    11  25678999999999 9999998887763

>3dpu_A RAB family protein; roccor, G-domain, COR, GTP-binding, nucleotide-binding, SIGN protein; 2.90A {Chlorobaculum tepidum}

Probab=96.06  E-value=0.0014  Score=50.69  Aligned_cols=49  Identities=18%  Similarity=0.224  Sum_probs=32.2

Q ss_pred             CCCcEEeeccCCCccccccc-cc---cc-----CCCCccccccCCcccccccccccccc
Q psy10878          5 AKKPILLPSASEDPSIDNWD-KA---SW-----ENVTPIVSEQGDGEIIEIIDPSLKLV   54 (131)
Q Consensus         5 ~~kp~vlv~NK~Dl~~~~~~-~~---~~-----~~~~~is~~~~~~~~~~~~~~~~~~~   54 (131)
                      .++|+++|+||+|+.+.... ..   .+     ..++++||+++.| +.++++.+.+.+
T Consensus       149 ~~~pvilV~NK~Dl~~~~~v~~~~~~~~~~~~~~~~~~vSA~~g~g-i~eL~~~l~~~~  206 (535)
T 3dpu_A          149 GKSPVIVVMNKIDENPSYNIEQKKINERFPAIENRFHRISCKNGDG-VESIAKSLKSAV  206 (535)
T ss_dssp             SSCCEEEEECCTTTCTTCCCCHHHHHHHCGGGTTCEEECCC------CTTHHHHHHHHH
T ss_pred             CCCCEEEEEECCCcccccccCHHHHHHHHHhcCCceEEEecCcccC-HHHHHHHHHHHH
Confidence            35899999999999654321 11   11     3489999999999 999999887765

>2onk_A Molybdate/tungstate ABC transporter, ATP-binding protein; membrane protein; 3.10A {Archaeoglobus fulgidus} SCOP: c.37.1.12

Probab=96.05  E-value=0.0028  Score=44.20  Aligned_cols=22  Identities=18%  Similarity=0.377  Sum_probs=19.5

Q ss_pred             EEEEEcCCCCCchhhhhhhhhC
Q psy10878         72 KVIVIGDPTVGKTSFVQRYVQN   93 (131)
Q Consensus        72 ki~vvG~~~vGKSsli~~~~~~   93 (131)
                      .++++|+.|+|||||++.+.+-
T Consensus        26 ~~~liG~nGsGKSTLl~~l~Gl   47 (240)
T 2onk_A           26 YCVLLGPTGAGKSVFLELIAGI   47 (240)
T ss_dssp             EEEEECCTTSSHHHHHHHHHTS
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            4889999999999999988753

>1b0u_A Histidine permease; ABC transporter, transport protein; HET: ATP; 1.50A {Salmonella typhimurium} SCOP: c.37.1.12

Probab=96.03  E-value=0.0026  Score=44.86  Aligned_cols=22  Identities=23%  Similarity=0.372  Sum_probs=19.3

Q ss_pred             EEEEEcCCCCCchhhhhhhhhC
Q psy10878         72 KVIVIGDPTVGKTSFVQRYVQN   93 (131)
Q Consensus        72 ki~vvG~~~vGKSsli~~~~~~   93 (131)
                      -++++|+.|+|||||++.+++-
T Consensus        34 ~~~liG~nGsGKSTLlk~l~Gl   55 (262)
T 1b0u_A           34 VISIIGSSGSGKSTFLRCINFL   55 (262)
T ss_dssp             EEEEECCTTSSHHHHHHHHTTS
T ss_pred             EEEEECCCCCCHHHHHHHHhcC
Confidence            4889999999999999987753

>2eyu_A Twitching motility protein PILT; pilus retraction motor, C-terminal domain PILT, protein transport; 1.87A {Aquifex aeolicus}

Probab=96.02  E-value=0.0029  Score=44.61  Aligned_cols=21  Identities=19%  Similarity=0.439  Sum_probs=19.1

Q ss_pred             EEEEEcCCCCCchhhhhhhhh
Q psy10878         72 KVIVIGDPTVGKTSFVQRYVQ   92 (131)
Q Consensus        72 ki~vvG~~~vGKSsli~~~~~   92 (131)
                      .++++|++|+||||+++.+++
T Consensus        27 ~v~i~Gp~GsGKSTll~~l~g   47 (261)
T 2eyu_A           27 LILVTGPTGSGKSTTIASMID   47 (261)
T ss_dssp             EEEEECSTTCSHHHHHHHHHH
T ss_pred             EEEEECCCCccHHHHHHHHHH
Confidence            599999999999999998774

>1ukz_A Uridylate kinase; transferase; HET: ADP AMP; 1.90A {Saccharomyces cerevisiae} SCOP: c.37.1.1 PDB: 1uky_A*

Probab=96.02  E-value=0.0047  Score=41.23  Aligned_cols=22  Identities=27%  Similarity=0.551  Sum_probs=19.4

Q ss_pred             eeEEEEEcCCCCCchhhhhhhh
Q psy10878         70 LFKVIVIGDPTVGKTSFVQRYV   91 (131)
Q Consensus        70 ~~ki~vvG~~~vGKSsli~~~~   91 (131)
                      ...|++.|.+|+||||+...+.
T Consensus        15 ~~~I~l~G~~GsGKsT~~~~L~   36 (203)
T 1ukz_A           15 VSVIFVLGGPGAGKGTQCEKLV   36 (203)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHH
T ss_pred             CcEEEEECCCCCCHHHHHHHHH
Confidence            4579999999999999998876

>1y63_A LMAJ004144AAA protein; structural genomics, protein structure initiative, PSI, SGPP structural genomics of pathogenic protozoa consortium; HET: ADP; 1.70A {Leishmania major} SCOP: c.37.1.1

Probab=96.01  E-value=0.0038  Score=41.31  Aligned_cols=23  Identities=26%  Similarity=0.498  Sum_probs=20.1

Q ss_pred             eeEEEEEcCCCCCchhhhhhhhh
Q psy10878         70 LFKVIVIGDPTVGKTSFVQRYVQ   92 (131)
Q Consensus        70 ~~ki~vvG~~~vGKSsli~~~~~   92 (131)
                      ...|+++|.+|+||||+.+.+..
T Consensus        10 ~~~I~l~G~~GsGKSTv~~~La~   32 (184)
T 1y63_A           10 GINILITGTPGTGKTSMAEMIAA   32 (184)
T ss_dssp             SCEEEEECSTTSSHHHHHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHHH
Confidence            34799999999999999988764

>2kjq_A DNAA-related protein; solution structure, NESG, structural genomics, PSI-2, protei structure initiative; NMR {Neisseria meningitidis serogroup B}

Probab=96.00  E-value=0.0032  Score=40.57  Aligned_cols=21  Identities=29%  Similarity=0.521  Sum_probs=19.0

Q ss_pred             EEEEEcCCCCCchhhhhhhhh
Q psy10878         72 KVIVIGDPTVGKTSFVQRYVQ   92 (131)
Q Consensus        72 ki~vvG~~~vGKSsli~~~~~   92 (131)
                      .++++|.+|+|||+|++.+.+
T Consensus        38 ~~~l~G~~G~GKTtL~~~i~~   58 (149)
T 2kjq_A           38 FIYVWGEEGAGKSHLLQAWVA   58 (149)
T ss_dssp             EEEEESSSTTTTCHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            588999999999999998775

>2e87_A Hypothetical protein PH1320; GTP-binding, GTPase, OBG, bundle, GDP, complex, structural G NPPSFA; HET: GDP; 2.35A {Pyrococcus horikoshii}

Probab=95.99  E-value=0.001  Score=48.85  Aligned_cols=48  Identities=19%  Similarity=0.117  Sum_probs=36.6

Q ss_pred             CCcEEeeccCCCccccccc--ccc----c-CCCCccccccCCcccccccccccccc
Q psy10878          6 KKPILLPSASEDPSIDNWD--KAS----W-ENVTPIVSEQGDGEIIEIIDPSLKLV   54 (131)
Q Consensus         6 ~kp~vlv~NK~Dl~~~~~~--~~~----~-~~~~~is~~~~~~~~~~~~~~~~~~~   54 (131)
                      ++|+++|+||+|+......  ...    . ..++++||.++.| +.++++.+.+.+
T Consensus       280 ~~piilV~NK~Dl~~~~~~~~~~~~~~~~~~~~~~iSA~~g~g-i~~l~~~i~~~l  334 (357)
T 2e87_A          280 DLPFLVVINKIDVADEENIKRLEKFVKEKGLNPIKISALKGTG-IDLVKEEIIKTL  334 (357)
T ss_dssp             TSCEEEEECCTTTCCHHHHHHHHHHHHHTTCCCEECBTTTTBT-HHHHHHHHHHHH
T ss_pred             CCCEEEEEECcccCChHHHHHHHHHHHhcCCCeEEEeCCCCcC-HHHHHHHHHHHH
Confidence            7999999999999754321  111    1 4578999999999 999998887665

>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=95.97  E-value=0.0032  Score=43.73  Aligned_cols=21  Identities=29%  Similarity=0.479  Sum_probs=19.1

Q ss_pred             EEEEEcCCCCCchhhhhhhhh
Q psy10878         72 KVIVIGDPTVGKTSFVQRYVQ   92 (131)
Q Consensus        72 ki~vvG~~~vGKSsli~~~~~   92 (131)
                      .++++|+.|+|||||++.+++
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            589999999999999998775

>3tr5_A RF-3, peptide chain release factor 3; protein synthesis, translation; HET: GDP; 2.11A {Coxiella burnetii}

Probab=95.97  E-value=0.0011  Score=51.31  Aligned_cols=60  Identities=18%  Similarity=0.160  Sum_probs=36.9

Q ss_pred             CCccccccCCcccccccccccccccCCCcccCC--------CCCCceeeEEEEEcCC-CCCchhhhhhhh
Q psy10878         31 VTPIVSEQGDGEIIEIIDPSLKLVRVPSIRKSF--------NAPPEKLFKVIVIGDP-TVGKTSFVQRYV   91 (131)
Q Consensus        31 ~~~is~~~~~~~~~~~~~~~~~~~~~~~~~~~~--------~~~~~~~~ki~vvG~~-~vGKSsli~~~~   91 (131)
                      +++.||.++.| +.++++.+.+.+..|..+...        ..-....||+...=++ .+|+-+++.-+.
T Consensus       253 V~~gSA~~~~G-V~~Lld~i~~~~p~p~~~~~~~~~~~~~~~~~~~~VFKi~~~~dp~~~g~l~~~RV~s  321 (528)
T 3tr5_A          253 IFFGSAINNFG-VGELLDAFVKEAPPPQGRETNSRLVKPEEEKFSGFVFKIQANMDPGHRDRIAFLRIAS  321 (528)
T ss_dssp             EEECBGGGTBS-HHHHHHHHHHHSCCCCCBCBSSSCBCTTSSSCEEEEEEEEECCC-CCCCEEEEEEEEE
T ss_pred             EEeccccCCcc-HHHHHHHHHHhCCCCCcccccceeeCCCcccceeEEEEEecccCccCCceEEEEEEec
Confidence            56779999999 999999998888444322110        0011224555543456 788877766443

>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=95.96  E-value=0.0032  Score=44.00  Aligned_cols=22  Identities=14%  Similarity=0.274  Sum_probs=19.4

Q ss_pred             EEEEEcCCCCCchhhhhhhhhC
Q psy10878         72 KVIVIGDPTVGKTSFVQRYVQN   93 (131)
Q Consensus        72 ki~vvG~~~vGKSsli~~~~~~   93 (131)
                      .++++|+.|+|||||++.+++-
T Consensus        37 ~~~i~G~nGsGKSTLl~~l~Gl   58 (247)
T 2ff7_A           37 VIGIVGRSGSGKSTLTKLIQRF   58 (247)
T ss_dssp             EEEEECSTTSSHHHHHHHHTTS
T ss_pred             EEEEECCCCCCHHHHHHHHhcC
Confidence            5899999999999999987753

>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=95.96  E-value=0.0029  Score=44.99  Aligned_cols=21  Identities=24%  Similarity=0.498  Sum_probs=18.9

Q ss_pred             EEEEEcCCCCCchhhhhhhhh
Q psy10878         72 KVIVIGDPTVGKTSFVQRYVQ   92 (131)
Q Consensus        72 ki~vvG~~~vGKSsli~~~~~   92 (131)
                      .++++|+.|+|||||++.+++
T Consensus        36 ~~~iiGpnGsGKSTLl~~l~G   56 (275)
T 3gfo_A           36 VTAILGGNGVGKSTLFQNFNG   56 (275)
T ss_dssp             EEEEECCTTSSHHHHHHHHTT
T ss_pred             EEEEECCCCCCHHHHHHHHHc
Confidence            489999999999999998775

>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=95.96  E-value=0.0054  Score=43.53  Aligned_cols=23  Identities=30%  Similarity=0.368  Sum_probs=20.4

Q ss_pred             eeeEEEEEcCCCCCchhhhhhhh
Q psy10878         69 KLFKVIVIGDPTVGKTSFVQRYV   91 (131)
Q Consensus        69 ~~~ki~vvG~~~vGKSsli~~~~   91 (131)
                      ..+.|++.|.+|+||||+.+.+.
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            45689999999999999998876

>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=95.95  E-value=0.0033  Score=43.72  Aligned_cols=22  Identities=14%  Similarity=0.151  Sum_probs=19.5

Q ss_pred             EEEEEcCCCCCchhhhhhhhhC
Q psy10878         72 KVIVIGDPTVGKTSFVQRYVQN   93 (131)
Q Consensus        72 ki~vvG~~~vGKSsli~~~~~~   93 (131)
                      .++++|..|+|||||++.+++-
T Consensus        30 ~~~i~G~nGsGKSTLl~~l~Gl   51 (243)
T 1mv5_A           30 IIAFAGPSGGGKSTIFSLLERF   51 (243)
T ss_dssp             EEEEECCTTSSHHHHHHHHTTS
T ss_pred             EEEEECCCCCCHHHHHHHHhcC
Confidence            5899999999999999987753

>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=95.95  E-value=0.0034  Score=45.39  Aligned_cols=21  Identities=24%  Similarity=0.525  Sum_probs=18.9

Q ss_pred             EEEEEcCCCCCchhhhhhhhh
Q psy10878         72 KVIVIGDPTVGKTSFVQRYVQ   92 (131)
Q Consensus        72 ki~vvG~~~vGKSsli~~~~~   92 (131)
                      .++++|++|+|||||++.+++
T Consensus       128 ~vaIvGpsGsGKSTLl~lL~g  148 (305)
T 2v9p_A          128 CLAFIGPPNTGKSMLCNSLIH  148 (305)
T ss_dssp             EEEEECSSSSSHHHHHHHHHH
T ss_pred             EEEEECCCCCcHHHHHHHHhh
Confidence            699999999999999998763

>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=95.95  E-value=0.0021  Score=43.11  Aligned_cols=17  Identities=12%  Similarity=0.325  Sum_probs=14.4

Q ss_pred             CCCcEEeeccCCCcccc
Q psy10878          5 AKKPILLPSASEDPSID   21 (131)
Q Consensus         5 ~~kp~vlv~NK~Dl~~~   21 (131)
                      .+.|+++|+||+|+...
T Consensus       114 ~~~piilv~nK~Dl~~~  130 (214)
T 2fh5_B          114 NSPSLLIACNKQDIAMA  130 (214)
T ss_dssp             TCCEEEEEEECTTSTTC
T ss_pred             cCCCEEEEEECCCCCCc
Confidence            46899999999999654

>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=95.94  E-value=0.0027  Score=49.91  Aligned_cols=52  Identities=17%  Similarity=0.145  Sum_probs=39.2

Q ss_pred             cCCCcEEeeccCCCcccccc--cccc----c----CCCCccccccCCcccccccccccccccC
Q psy10878          4 KAKKPILLPSASEDPSIDNW--DKAS----W----ENVTPIVSEQGDGEIIEIIDPSLKLVRV   56 (131)
Q Consensus         4 ~~~kp~vlv~NK~Dl~~~~~--~~~~----~----~~~~~is~~~~~~~~~~~~~~~~~~~~~   56 (131)
                      ..+.|+++|+||+|+.....  ...+    +    .+++++||+++.| +.++++.+.+.+..
T Consensus       123 ~~~ipiIvviNKiDl~~a~~~~v~~el~~~lg~~~~~vi~vSAktg~G-I~~Lle~I~~~lp~  184 (600)
T 2ywe_A          123 EQDLVIIPVINKIDLPSADVDRVKKQIEEVLGLDPEEAILASAKEGIG-IEEILEAIVNRIPP  184 (600)
T ss_dssp             HTTCEEEEEEECTTSTTCCHHHHHHHHHHTSCCCGGGCEECBTTTTBS-HHHHHHHHHHHSCC
T ss_pred             HCCCCEEEEEeccCccccCHHHHHHHHHHhhCCCcccEEEEEeecCCC-chHHHHHHHHhccc
Confidence            35789999999999965321  1111    1    3589999999999 99999999888743

>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=95.94  E-value=0.0031  Score=43.22  Aligned_cols=22  Identities=23%  Similarity=0.298  Sum_probs=19.2

Q ss_pred             EEEEEcCCCCCchhhhhhhhhC
Q psy10878         72 KVIVIGDPTVGKTSFVQRYVQN   93 (131)
Q Consensus        72 ki~vvG~~~vGKSsli~~~~~~   93 (131)
                      .++++|+.|+|||||++.+++-
T Consensus        37 ~~~iiG~NGsGKSTLlk~l~Gl   58 (214)
T 1sgw_A           37 VVNFHGPNGIGKTTLLKTISTY   58 (214)
T ss_dssp             CEEEECCTTSSHHHHHHHHTTS
T ss_pred             EEEEECCCCCCHHHHHHHHhcC
Confidence            3889999999999999987753

>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=95.93  E-value=0.0042  Score=41.61  Aligned_cols=22  Identities=23%  Similarity=0.373  Sum_probs=19.6

Q ss_pred             eEEEEEcCCCCCchhhhhhhhh
Q psy10878         71 FKVIVIGDPTVGKTSFVQRYVQ   92 (131)
Q Consensus        71 ~ki~vvG~~~vGKSsli~~~~~   92 (131)
                      +.+.++|.+|+||||+.+.+..
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

>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=95.93  E-value=0.003  Score=44.34  Aligned_cols=22  Identities=18%  Similarity=0.348  Sum_probs=19.4

Q ss_pred             EEEEEcCCCCCchhhhhhhhhC
Q psy10878         72 KVIVIGDPTVGKTSFVQRYVQN   93 (131)
Q Consensus        72 ki~vvG~~~vGKSsli~~~~~~   93 (131)
                      .++++|+.|+|||||++.+++-
T Consensus        35 ~~~liG~nGsGKSTLlk~l~Gl   56 (257)
T 1g6h_A           35 VTLIIGPNGSGKSTLINVITGF   56 (257)
T ss_dssp             EEEEECSTTSSHHHHHHHHTTS
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            4889999999999999988753

>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=95.93  E-value=0.0027  Score=46.64  Aligned_cols=23  Identities=22%  Similarity=0.433  Sum_probs=20.5

Q ss_pred             eeEEEEEcCCCCCchhhhhhhhh
Q psy10878         70 LFKVIVIGDPTVGKTSFVQRYVQ   92 (131)
Q Consensus        70 ~~ki~vvG~~~vGKSsli~~~~~   92 (131)
                      .-+++++|.+|+|||||++.+.+
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            45899999999999999998775

>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=95.92  E-value=0.0038  Score=42.32  Aligned_cols=22  Identities=23%  Similarity=0.527  Sum_probs=19.5

Q ss_pred             eEEEEEcCCCCCchhhhhhhhh
Q psy10878         71 FKVIVIGDPTVGKTSFVQRYVQ   92 (131)
Q Consensus        71 ~ki~vvG~~~vGKSsli~~~~~   92 (131)
                      +.|+++|.+|+||||+...+..
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            5799999999999999988763

>2plr_A DTMP kinase, probable thymidylate kinase; TMP-binding, ATP-binding, structural GEN NPPSFA; HET: 1PE PGE EPE PG4; 1.60A {Sulfolobus tokodaii}

Probab=95.91  E-value=0.0043  Score=41.42  Aligned_cols=22  Identities=18%  Similarity=0.089  Sum_probs=19.6

Q ss_pred             eEEEEEcCCCCCchhhhhhhhh
Q psy10878         71 FKVIVIGDPTVGKTSFVQRYVQ   92 (131)
Q Consensus        71 ~ki~vvG~~~vGKSsli~~~~~   92 (131)
                      ..|++.|.+|+||||++..+..
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            4699999999999999998764

>4fn5_A EF-G 1, elongation factor G 1; translation, translation-antibiotic compl; HET: 0UO; 2.90A {Pseudomonas aeruginosa}

Probab=95.91  E-value=0.012  Score=46.99  Aligned_cols=24  Identities=17%  Similarity=0.275  Sum_probs=20.9

Q ss_pred             ceeeEEEEEcCCCCCchhhhhhhh
Q psy10878         68 EKLFKVIVIGDPTVGKTSFVQRYV   91 (131)
Q Consensus        68 ~~~~ki~vvG~~~vGKSsli~~~~   91 (131)
                      ++.-+|+++|-...|||||.-+++
T Consensus        11 ~~IRNi~IiaHvd~GKTTL~d~LL   34 (709)
T 4fn5_A           11 NRYRNIGICAHVDAGKTTTTERVL   34 (709)
T ss_dssp             GGEEEEEEECCSSSCHHHHHHHHH
T ss_pred             HHCeEEEEEcCCCCCHHHHHHHHH
Confidence            345589999999999999999887

>1zd8_A GTP:AMP phosphotransferase mitochondrial; ATP:AMP phosphotransferase, myokinase, structural genomics, structural genomics consortium, SGC; 1.48A {Homo sapiens} PDB: 2ak3_A*

Probab=95.91  E-value=0.0035  Score=42.77  Aligned_cols=22  Identities=23%  Similarity=0.588  Sum_probs=19.6

Q ss_pred             eEEEEEcCCCCCchhhhhhhhh
Q psy10878         71 FKVIVIGDPTVGKTSFVQRYVQ   92 (131)
Q Consensus        71 ~ki~vvG~~~vGKSsli~~~~~   92 (131)
                      ..|+++|.+|+||||+.+.+..
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            5799999999999999998763

>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=95.91  E-value=0.0031  Score=44.57  Aligned_cols=22  Identities=23%  Similarity=0.392  Sum_probs=19.4

Q ss_pred             EEEEEcCCCCCchhhhhhhhhC
Q psy10878         72 KVIVIGDPTVGKTSFVQRYVQN   93 (131)
Q Consensus        72 ki~vvG~~~vGKSsli~~~~~~   93 (131)
                      .+.++|+.|+|||||++.+++-
T Consensus        39 ~~~liG~nGsGKSTLl~~l~Gl   60 (266)
T 4g1u_C           39 MVAIIGPNGAGKSTLLRLLTGY   60 (266)
T ss_dssp             EEEEECCTTSCHHHHHHHHTSS
T ss_pred             EEEEECCCCCcHHHHHHHHhcC
Confidence            4889999999999999988753

>3k53_A Ferrous iron transport protein B; GTPase fold, helical bundle, G-protein, prokaryote, GTP-BIND nucleotide-binding, metal transport; 2.70A {Pyrococcus furiosus}

Probab=95.90  E-value=0.00037  Score=49.10  Aligned_cols=47  Identities=21%  Similarity=0.188  Sum_probs=35.9

Q ss_pred             CcEEeeccCCCcccccc---ccccc-----CCCCccccccCCcccccccccccccc
Q psy10878          7 KPILLPSASEDPSIDNW---DKASW-----ENVTPIVSEQGDGEIIEIIDPSLKLV   54 (131)
Q Consensus         7 kp~vlv~NK~Dl~~~~~---~~~~~-----~~~~~is~~~~~~~~~~~~~~~~~~~   54 (131)
                      +|+++|+||+|+.+...   ....+     ..++++|+..+.| +.++++.+...+
T Consensus       110 ~p~ilv~NK~Dl~~~~~~~~~~~~l~~~lg~~~~~~Sa~~g~g-i~~l~~~i~~~~  164 (271)
T 3k53_A          110 KNIILVLNKFDLLKKKGAKIDIKKMRKELGVPVIPTNAKKGEG-VEELKRMIALMA  164 (271)
T ss_dssp             CSEEEEEECHHHHHHHTCCCCHHHHHHHHSSCEEECBGGGTBT-HHHHHHHHHHHH
T ss_pred             CCEEEEEEChhcCcccccHHHHHHHHHHcCCcEEEEEeCCCCC-HHHHHHHHHHHH
Confidence            89999999999854321   11222     5678999999999 999998887665

>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=95.90  E-value=0.0044  Score=42.99  Aligned_cols=23  Identities=22%  Similarity=0.237  Sum_probs=20.5

Q ss_pred             eeEEEEEcCCCCCchhhhhhhhh
Q psy10878         70 LFKVIVIGDPTVGKTSFVQRYVQ   92 (131)
Q Consensus        70 ~~ki~vvG~~~vGKSsli~~~~~   92 (131)
                      .+.|++.|.+|+||||+..++..
T Consensus        29 ~~~I~l~G~~GsGKsT~a~~L~~   51 (243)
T 3tlx_A           29 DGRYIFLGAPGSGKGTQSLNLKK   51 (243)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHH
T ss_pred             CcEEEEECCCCCCHHHHHHHHHH
Confidence            46899999999999999998863

>1tev_A UMP-CMP kinase; ploop, NMP binding region, LID region, conformational changes, transferase; 2.10A {Homo sapiens} SCOP: c.37.1.1

Probab=95.89  E-value=0.0045  Score=40.71  Aligned_cols=21  Identities=38%  Similarity=0.620  Sum_probs=18.7

Q ss_pred             eEEEEEcCCCCCchhhhhhhh
Q psy10878         71 FKVIVIGDPTVGKTSFVQRYV   91 (131)
Q Consensus        71 ~ki~vvG~~~vGKSsli~~~~   91 (131)
                      ..|++.|.+|+||||+...+.
T Consensus         4 ~~I~l~G~~GsGKsT~a~~L~   24 (196)
T 1tev_A            4 LVVFVLGGPGAGKGTQCARIV   24 (196)
T ss_dssp             EEEEEECCTTSSHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHH
Confidence            469999999999999998775

>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=95.89  E-value=0.0035  Score=43.84  Aligned_cols=22  Identities=14%  Similarity=0.240  Sum_probs=19.6

Q ss_pred             EEEEEcCCCCCchhhhhhhhhC
Q psy10878         72 KVIVIGDPTVGKTSFVQRYVQN   93 (131)
Q Consensus        72 ki~vvG~~~vGKSsli~~~~~~   93 (131)
                      .++++|+.|+|||||++.+++-
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            4889999999999999988763

>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=95.88  E-value=0.0036  Score=44.24  Aligned_cols=22  Identities=14%  Similarity=0.256  Sum_probs=19.6

Q ss_pred             EEEEEcCCCCCchhhhhhhhhC
Q psy10878         72 KVIVIGDPTVGKTSFVQRYVQN   93 (131)
Q Consensus        72 ki~vvG~~~vGKSsli~~~~~~   93 (131)
                      .++++|..|+|||||++.+++-
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            4889999999999999988764

>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=95.88  E-value=0.0034  Score=44.38  Aligned_cols=22  Identities=32%  Similarity=0.463  Sum_probs=19.3

Q ss_pred             EEEEEcCCCCCchhhhhhhhhC
Q psy10878         72 KVIVIGDPTVGKTSFVQRYVQN   93 (131)
Q Consensus        72 ki~vvG~~~vGKSsli~~~~~~   93 (131)
                      .++++|+.|+|||||++.+++-
T Consensus        52 i~~liG~NGsGKSTLlk~l~Gl   73 (263)
T 2olj_A           52 VVVVIGPSGSGKSTFLRCLNLL   73 (263)
T ss_dssp             EEEEECCTTSSHHHHHHHHTTS
T ss_pred             EEEEEcCCCCcHHHHHHHHHcC
Confidence            4889999999999999987753

>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=95.87  E-value=0.006  Score=40.89  Aligned_cols=23  Identities=22%  Similarity=0.356  Sum_probs=20.2

Q ss_pred             eeEEEEEcCCCCCchhhhhhhhh
Q psy10878         70 LFKVIVIGDPTVGKTSFVQRYVQ   92 (131)
Q Consensus        70 ~~ki~vvG~~~vGKSsli~~~~~   92 (131)
                      ...+.++|.+|+||||+++.+..
T Consensus        21 ~~~i~i~G~~GsGKSTl~~~L~~   43 (207)
T 2qt1_A           21 TFIIGISGVTNSGKTTLAKNLQK   43 (207)
T ss_dssp             CEEEEEEESTTSSHHHHHHHHHT
T ss_pred             CeEEEEECCCCCCHHHHHHHHHH
Confidence            45799999999999999998875

>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=95.87  E-value=0.0039  Score=43.05  Aligned_cols=22  Identities=27%  Similarity=0.366  Sum_probs=19.4

Q ss_pred             EEEEEcCCCCCchhhhhhhhhC
Q psy10878         72 KVIVIGDPTVGKTSFVQRYVQN   93 (131)
Q Consensus        72 ki~vvG~~~vGKSsli~~~~~~   93 (131)
                      .++++|+.|+|||||++.+++-
T Consensus        36 ~~~i~G~nGsGKSTLl~~l~Gl   57 (229)
T 2pze_A           36 LLAVAGSTGAGKTSLLMMIMGE   57 (229)
T ss_dssp             EEEEECCTTSSHHHHHHHHTTS
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            5899999999999999988753

>2vli_A Antibiotic resistance protein; transferase, tunicamycin, phosphotransferase; 1.95A {Deinococcus radiodurans}

Probab=95.86  E-value=0.0036  Score=40.93  Aligned_cols=21  Identities=24%  Similarity=0.146  Sum_probs=15.0

Q ss_pred             eEEEEEcCCCCCchhhhhhhh
Q psy10878         71 FKVIVIGDPTVGKTSFVQRYV   91 (131)
Q Consensus        71 ~ki~vvG~~~vGKSsli~~~~   91 (131)
                      ..|++.|.+|+||||+...+.
T Consensus         6 ~~I~l~G~~GsGKST~a~~La   26 (183)
T 2vli_A            6 PIIWINGPFGVGKTHTAHTLH   26 (183)
T ss_dssp             CEEEEECCC----CHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHH
Confidence            469999999999999999876

>1gvn_B Zeta; postsegregational killing system, plasmid; 1.95A {Streptococcus pyogenes} SCOP: c.37.1.21 PDB: 3q8x_B*

Probab=95.86  E-value=0.0055  Score=43.67  Aligned_cols=23  Identities=26%  Similarity=0.342  Sum_probs=20.2

Q ss_pred             eeEEEEEcCCCCCchhhhhhhhh
Q psy10878         70 LFKVIVIGDPTVGKTSFVQRYVQ   92 (131)
Q Consensus        70 ~~ki~vvG~~~vGKSsli~~~~~   92 (131)
                      ..-+++.|.+|+||||+..++..
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            45799999999999999998864

>2xb4_A Adenylate kinase; ATP-binding, nucleotide-binding, transferase; HET: SRT; 1.80A {Desulfovibrio gigas} PDB: 3l0s_A* 3l0p_A*

Probab=95.86  E-value=0.0042  Score=42.45  Aligned_cols=21  Identities=14%  Similarity=0.234  Sum_probs=18.8

Q ss_pred             EEEEEcCCCCCchhhhhhhhh
Q psy10878         72 KVIVIGDPTVGKTSFVQRYVQ   92 (131)
Q Consensus        72 ki~vvG~~~vGKSsli~~~~~   92 (131)
                      .|++.|.+|+||||+...+..
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            689999999999999998763

>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=95.86  E-value=0.00079  Score=47.09  Aligned_cols=48  Identities=17%  Similarity=0.284  Sum_probs=34.4

Q ss_pred             CCCcEEeeccCCCcccccc--ccccc------CCCCccccccCCccccccccccccc
Q psy10878          5 AKKPILLPSASEDPSIDNW--DKASW------ENVTPIVSEQGDGEIIEIIDPSLKL   53 (131)
Q Consensus         5 ~~kp~vlv~NK~Dl~~~~~--~~~~~------~~~~~is~~~~~~~~~~~~~~~~~~   53 (131)
                      .+.|+++|+||+|+.+...  ....+      ...+.+||+++.| +.++++.+.+.
T Consensus       197 ~~~piilV~NK~Dl~~~~~v~~~~~~~~~~~~~~~~e~SAk~g~g-v~elf~~l~~~  252 (255)
T 3c5h_A          197 TKKPIVVVLTKCDEGVERYIRDAHTFALSKKNLQVVETSARSNVN-VDLAFSTLVQL  252 (255)
T ss_dssp             TTCCEEEEEECGGGBCHHHHHHHHHHHHTSSSCCEEECBTTTTBS-HHHHHHHHHHH
T ss_pred             CCCCEEEEEEcccccccHHHHHHHHHHHhcCCCeEEEEECCCCCC-HHHHHHHHHHH
Confidence            4689999999999964321  11111      3467899999999 99988877654

>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=95.86  E-value=0.0013  Score=50.50  Aligned_cols=48  Identities=13%  Similarity=0.122  Sum_probs=35.9

Q ss_pred             CCcEEeeccCCCcccccc--ccccc----CCCCccccccCCcccccccccccccc
Q psy10878          6 KKPILLPSASEDPSIDNW--DKASW----ENVTPIVSEQGDGEIIEIIDPSLKLV   54 (131)
Q Consensus         6 ~kp~vlv~NK~Dl~~~~~--~~~~~----~~~~~is~~~~~~~~~~~~~~~~~~~   54 (131)
                      ++|+++|+||+|+.+...  ....+    ..++++|++++.| +.++++.+.+.+
T Consensus       350 ~~piivV~NK~DL~~~~~~~~~~~~~~~~~~~i~iSAktg~G-i~eL~~~l~~~~  403 (482)
T 1xzp_A          350 NKRYLVVINKVDVVEKINEEEIKNKLGTDRHMVKISALKGEG-LEKLEESIYRET  403 (482)
T ss_dssp             TSSEEEEEEECSSCCCCCHHHHHHHHTCSTTEEEEEGGGTCC-HHHHHHHHHHHT
T ss_pred             CCCEEEEEECcccccccCHHHHHHHhcCCCcEEEEECCCCCC-HHHHHHHHHHHH
Confidence            689999999999964311  11111    2578999999999 999998887754

>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=95.86  E-value=0.0034  Score=43.61  Aligned_cols=22  Identities=27%  Similarity=0.294  Sum_probs=19.4

Q ss_pred             EEEEEcCCCCCchhhhhhhhhC
Q psy10878         72 KVIVIGDPTVGKTSFVQRYVQN   93 (131)
Q Consensus        72 ki~vvG~~~vGKSsli~~~~~~   93 (131)
                      .++++|..|+|||||++.+++-
T Consensus        34 ~~~l~G~nGsGKSTLl~~l~Gl   55 (240)
T 1ji0_A           34 IVTLIGANGAGKTTTLSAIAGL   55 (240)
T ss_dssp             EEEEECSTTSSHHHHHHHHTTS
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            4889999999999999988753

>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=95.85  E-value=0.0038  Score=43.22  Aligned_cols=20  Identities=35%  Similarity=0.667  Sum_probs=18.6

Q ss_pred             EEEEcCCCCCchhhhhhhhh
Q psy10878         73 VIVIGDPTVGKTSFVQRYVQ   92 (131)
Q Consensus        73 i~vvG~~~vGKSsli~~~~~   92 (131)
                      ++++|++|+|||+|++.+.+
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            99999999999999998875

>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=95.84  E-value=0.0036  Score=43.88  Aligned_cols=22  Identities=18%  Similarity=0.368  Sum_probs=19.3

Q ss_pred             EEEEEcCCCCCchhhhhhhhhC
Q psy10878         72 KVIVIGDPTVGKTSFVQRYVQN   93 (131)
Q Consensus        72 ki~vvG~~~vGKSsli~~~~~~   93 (131)
                      .++++|+.|+|||||++.+++-
T Consensus        28 ~~~liG~NGsGKSTLlk~l~Gl   49 (249)
T 2qi9_C           28 ILHLVGPNGAGKSTLLARMAGM   49 (249)
T ss_dssp             EEEEECCTTSSHHHHHHHHTTS
T ss_pred             EEEEECCCCCcHHHHHHHHhCC
Confidence            4889999999999999987753

>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=95.83  E-value=0.0014  Score=49.00  Aligned_cols=48  Identities=13%  Similarity=0.210  Sum_probs=35.5

Q ss_pred             CcEEeeccCCCcccccc---c---cccc--------CCCCccccccCCccccccccccccccc
Q psy10878          7 KPILLPSASEDPSIDNW---D---KASW--------ENVTPIVSEQGDGEIIEIIDPSLKLVR   55 (131)
Q Consensus         7 kp~vlv~NK~Dl~~~~~---~---~~~~--------~~~~~is~~~~~~~~~~~~~~~~~~~~   55 (131)
                      +|+++|+||+|+.+.+.   .   ..++        ..++++|+.++.| +.++++.+.+.+.
T Consensus       138 ~~iivviNK~Dl~~~~~~~~~~~~i~~~l~~~~~~~~~~i~vSA~~g~g-i~~L~~~l~~~~~  199 (410)
T 1kk1_A          138 KNIIIAQNKIELVDKEKALENYRQIKEFIEGTVAENAPIIPISALHGAN-IDVLVKAIEDFIP  199 (410)
T ss_dssp             CCEEEEEECGGGSCHHHHHHHHHHHHHHHTTSTTTTCCEEECBTTTTBS-HHHHHHHHHHHSC
T ss_pred             CcEEEEEECccCCCHHHHHHHHHHHHHHHHhcCcCCCeEEEeeCCCCCC-HHHHHHHHHHhCC
Confidence            58899999999975431   1   1111        3468999999999 9999998877653

>2ixe_A Antigen peptide transporter 1; ABC ATPase, hydrolase; HET: ATP; 2.0A {Rattus norvegicus} PDB: 2ixg_A* 2ixf_A* 1jj7_A*

Probab=95.83  E-value=0.0035  Score=44.40  Aligned_cols=22  Identities=14%  Similarity=0.185  Sum_probs=19.4

Q ss_pred             EEEEEcCCCCCchhhhhhhhhC
Q psy10878         72 KVIVIGDPTVGKTSFVQRYVQN   93 (131)
Q Consensus        72 ki~vvG~~~vGKSsli~~~~~~   93 (131)
                      .++++|..|+|||||++.+++-
T Consensus        47 ~~~i~G~nGsGKSTLlk~l~Gl   68 (271)
T 2ixe_A           47 VTALVGPNGSGKSTVAALLQNL   68 (271)
T ss_dssp             EEEEECSTTSSHHHHHHHHTTS
T ss_pred             EEEEECCCCCCHHHHHHHHhcC
Confidence            4899999999999999987753

>2p65_A Hypothetical protein PF08_0063; CLPB, malaria, structural genomics, structural genomics consortium, SGC, unknown function; 1.70A {Plasmodium falciparum}

Probab=95.82  E-value=0.0032  Score=40.89  Aligned_cols=21  Identities=43%  Similarity=0.722  Sum_probs=18.7

Q ss_pred             EEEEEcCCCCCchhhhhhhhh
Q psy10878         72 KVIVIGDPTVGKTSFVQRYVQ   92 (131)
Q Consensus        72 ki~vvG~~~vGKSsli~~~~~   92 (131)
                      .+++.|++|+|||+++..+..
T Consensus        45 ~vll~G~~G~GKT~la~~~~~   65 (187)
T 2p65_A           45 NPILLGDPGVGKTAIVEGLAI   65 (187)
T ss_dssp             EEEEESCGGGCHHHHHHHHHH
T ss_pred             ceEEECCCCCCHHHHHHHHHH
Confidence            589999999999999988764

>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=95.82  E-value=0.0046  Score=45.12  Aligned_cols=23  Identities=26%  Similarity=0.583  Sum_probs=20.3

Q ss_pred             eeEEEEEcCCCCCchhhhhhhhh
Q psy10878         70 LFKVIVIGDPTVGKTSFVQRYVQ   92 (131)
Q Consensus        70 ~~ki~vvG~~~vGKSsli~~~~~   92 (131)
                      ...++++|.+|+||||+++.++.
T Consensus        56 ~~~i~i~G~~g~GKSTl~~~l~~   78 (341)
T 2p67_A           56 TLRLGVTGTPGAGKSTFLEAFGM   78 (341)
T ss_dssp             SEEEEEEECTTSCHHHHHHHHHH
T ss_pred             CEEEEEEcCCCCCHHHHHHHHHH
Confidence            45799999999999999999863

>2ghi_A Transport protein; multidrug resistance protein, MDR, structural genomics, structural genomics consortium, SGC; 2.20A {Plasmodium yoelii yoelii str}

Probab=95.82  E-value=0.004  Score=43.84  Aligned_cols=21  Identities=14%  Similarity=0.363  Sum_probs=19.2

Q ss_pred             EEEEEcCCCCCchhhhhhhhh
Q psy10878         72 KVIVIGDPTVGKTSFVQRYVQ   92 (131)
Q Consensus        72 ki~vvG~~~vGKSsli~~~~~   92 (131)
                      .++++|..|+|||||++.+++
T Consensus        48 ~~~i~G~nGsGKSTLl~~l~G   68 (260)
T 2ghi_A           48 TCALVGHTGSGKSTIAKLLYR   68 (260)
T ss_dssp             EEEEECSTTSSHHHHHHHHTT
T ss_pred             EEEEECCCCCCHHHHHHHHhc
Confidence            589999999999999998875

>1via_A Shikimate kinase; structural genomics, transferase; HET: MSE; 1.57A {Campylobacter jejuni} SCOP: c.37.1.2

Probab=95.81  E-value=0.0037  Score=40.81  Aligned_cols=21  Identities=19%  Similarity=0.415  Sum_probs=18.5

Q ss_pred             EEEEEcCCCCCchhhhhhhhh
Q psy10878         72 KVIVIGDPTVGKTSFVQRYVQ   92 (131)
Q Consensus        72 ki~vvG~~~vGKSsli~~~~~   92 (131)
                      +++++|.+|+||||+...+..
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            589999999999999987763

>2w0m_A SSO2452; RECA, SSPF, unknown FUN; 2.0A {Sulfolobus solfataricus P2}

Probab=95.79  E-value=0.0042  Score=41.94  Aligned_cols=21  Identities=29%  Similarity=0.627  Sum_probs=18.7

Q ss_pred             EEEEEcCCCCCchhhhhhhhh
Q psy10878         72 KVIVIGDPTVGKTSFVQRYVQ   92 (131)
Q Consensus        72 ki~vvG~~~vGKSsli~~~~~   92 (131)
                      -++++|++|+|||+|+..++.
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            488999999999999998874

>3be4_A Adenylate kinase; malaria, cryptosporidium parvum nonprotein inhibitors, nucleotide-binding, transferase; HET: AP5; 1.60A {Cryptosporidium parvum iowa II}

Probab=95.79  E-value=0.0043  Score=42.10  Aligned_cols=23  Identities=26%  Similarity=0.395  Sum_probs=19.8

Q ss_pred             eeEEEEEcCCCCCchhhhhhhhh
Q psy10878         70 LFKVIVIGDPTVGKTSFVQRYVQ   92 (131)
Q Consensus        70 ~~ki~vvG~~~vGKSsli~~~~~   92 (131)
                      .+.|+++|.+|+||||+...+..
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            35799999999999999988763

>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=95.79  E-value=0.0039  Score=43.88  Aligned_cols=22  Identities=23%  Similarity=0.170  Sum_probs=19.4

Q ss_pred             EEEEEcCCCCCchhhhhhhhhC
Q psy10878         72 KVIVIGDPTVGKTSFVQRYVQN   93 (131)
Q Consensus        72 ki~vvG~~~vGKSsli~~~~~~   93 (131)
                      .++++|+.|+|||||++.+++-
T Consensus        43 i~~l~G~NGsGKSTLlk~l~Gl   64 (256)
T 1vpl_A           43 IFGLIGPNGAGKTTTLRIISTL   64 (256)
T ss_dssp             EEEEECCTTSSHHHHHHHHTTS
T ss_pred             EEEEECCCCCCHHHHHHHHhcC
Confidence            4899999999999999988753

>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=95.78  E-value=0.005  Score=40.94  Aligned_cols=22  Identities=18%  Similarity=0.203  Sum_probs=19.8

Q ss_pred             eEEEEEcCCCCCchhhhhhhhh
Q psy10878         71 FKVIVIGDPTVGKTSFVQRYVQ   92 (131)
Q Consensus        71 ~ki~vvG~~~vGKSsli~~~~~   92 (131)
                      ..|++.|.+|+||||+.+.+..
T Consensus         5 ~~I~l~G~~GsGKsT~~~~L~~   26 (204)
T 2v54_A            5 ALIVFEGLDKSGKTTQCMNIME   26 (204)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHH
T ss_pred             cEEEEEcCCCCCHHHHHHHHHH
Confidence            4699999999999999998875

>4ido_A Atlastin-1; GTPase, GTP/GDP binding, hydrolase; HET: GDP; 2.09A {Homo sapiens} PDB: 4idn_A* 3q5d_A* 3q5e_A* 4idq_A* 4idp_A* 3qnu_A* 3qof_A*

Probab=95.77  E-value=0.013  Score=44.62  Aligned_cols=61  Identities=23%  Similarity=0.311  Sum_probs=38.4

Q ss_pred             eeEEEEEcCCCCCchhhhhhhh---h---------------CcCCC---CccCCceeEeEEEE--EEecCCeEEEEEEEe
Q psy10878         70 LFKVIVIGDPTVGKTSFVQRYV---Q---------------NTFKK---DYKGTVGVDFALKI--VKWRDQQKIKLQLWD  126 (131)
Q Consensus        70 ~~ki~vvG~~~vGKSsli~~~~---~---------------~~~~~---~~~~t~~~~~~~~~--~~~~~~~~~~l~i~D  126 (131)
                      ..=|.|+|..++|||+|+|.++   .               ..|..   ....|.|+..-...  +...+|..+.+-+.|
T Consensus        67 v~vvsv~G~~~~gks~l~N~ll~~~~~~~~~~w~~~~~~~~~gF~~~~~~~~~TkGIWmw~~p~~~~~~~g~~~~vlllD  146 (457)
T 4ido_A           67 VVAVSVAGAFRKGKSFLMDFMLRYMYNQESVDWVGDYNEPLTGFSWRGGSERETTGIQIWSEIFLINKPDGKKVAVLLMD  146 (457)
T ss_dssp             EEEEEEEEBTTSSHHHHHHHHHHHHHCTTCTTTTCCTTCCCCSSCCCCSSSCCCCSEEEESSCEEEECTTSCEEEEEEEE
T ss_pred             eEEEEEECCCCCchhHHHHHHHHHhhcccccccccccccCCCCceeCCCCCCcCceEEEecCcccccCCCCCeeEEEEEe
Confidence            4457799999999999999543   1               23322   12245565432111  122367778899999


Q ss_pred             CCCC
Q psy10878        127 IAGQ  130 (131)
Q Consensus       127 t~Gq  130 (131)
                      |.|.
T Consensus       147 TEG~  150 (457)
T 4ido_A          147 TQGT  150 (457)
T ss_dssp             ECCB
T ss_pred             ccCC
Confidence            9984

>2yvu_A Probable adenylyl-sulfate kinase; transferase, structural genomics, NPPSFA, national P protein structural and functional analyses; 2.10A {Aeropyrum pernix}

Probab=95.77  E-value=0.0067  Score=39.98  Aligned_cols=23  Identities=30%  Similarity=0.384  Sum_probs=19.7

Q ss_pred             eeEEEEEcCCCCCchhhhhhhhh
Q psy10878         70 LFKVIVIGDPTVGKTSFVQRYVQ   92 (131)
Q Consensus        70 ~~ki~vvG~~~vGKSsli~~~~~   92 (131)
                      ...++++|.+|+||||++..+..
T Consensus        13 ~~~i~l~G~~GsGKsT~~~~L~~   35 (186)
T 2yvu_A           13 GIVVWLTGLPGSGKTTIATRLAD   35 (186)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHH
T ss_pred             CcEEEEEcCCCCCHHHHHHHHHH
Confidence            45699999999999999987753

>2ihy_A ABC transporter, ATP-binding protein; ATPase, ABC cassette, hydrolase; HET: MSE; 1.90A {Staphylococcus aureus}

Probab=95.77  E-value=0.0044  Score=44.14  Aligned_cols=22  Identities=27%  Similarity=0.282  Sum_probs=19.4

Q ss_pred             EEEEEcCCCCCchhhhhhhhhC
Q psy10878         72 KVIVIGDPTVGKTSFVQRYVQN   93 (131)
Q Consensus        72 ki~vvG~~~vGKSsli~~~~~~   93 (131)
                      .++++|+.|+|||||++.+++-
T Consensus        49 ~~~liG~NGsGKSTLlk~l~Gl   70 (279)
T 2ihy_A           49 KWILYGLNGAGKTTLLNILNAY   70 (279)
T ss_dssp             EEEEECCTTSSHHHHHHHHTTS
T ss_pred             EEEEECCCCCcHHHHHHHHhCC
Confidence            5899999999999999987753

>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=95.74  E-value=0.0045  Score=40.56  Aligned_cols=21  Identities=29%  Similarity=0.621  Sum_probs=18.8

Q ss_pred             EEEEEcCCCCCchhhhhhhhh
Q psy10878         72 KVIVIGDPTVGKTSFVQRYVQ   92 (131)
Q Consensus        72 ki~vvG~~~vGKSsli~~~~~   92 (131)
                      .|++.|.+|+||||+...+..
T Consensus        13 ~i~i~G~~GsGKst~~~~l~~   33 (180)
T 3iij_A           13 NILLTGTPGVGKTTLGKELAS   33 (180)
T ss_dssp             CEEEECSTTSSHHHHHHHHHH
T ss_pred             eEEEEeCCCCCHHHHHHHHHH
Confidence            589999999999999998763

>2x8a_A Nuclear valosin-containing protein-like; nuclear protein; 2.60A {Homo sapiens}

Probab=95.73  E-value=0.0045  Score=43.81  Aligned_cols=20  Identities=30%  Similarity=0.542  Sum_probs=18.7

Q ss_pred             EEEEcCCCCCchhhhhhhhh
Q psy10878         73 VIVIGDPTVGKTSFVQRYVQ   92 (131)
Q Consensus        73 i~vvG~~~vGKSsli~~~~~   92 (131)
                      ++++|++|+|||+|++.+++
T Consensus        47 vlL~Gp~GtGKTtLakala~   66 (274)
T 2x8a_A           47 VLLAGPPGCGKTLLAKAVAN   66 (274)
T ss_dssp             EEEESSTTSCHHHHHHHHHH
T ss_pred             EEEECCCCCcHHHHHHHHHH
Confidence            99999999999999998875

>2f1r_A Molybdopterin-guanine dinucleotide biosynthesis protein B (MOBB); structural genomics, PSI, protein structure initiative; 2.10A {Archaeoglobus fulgidus}

Probab=95.73  E-value=0.0019  Score=42.76  Aligned_cols=21  Identities=24%  Similarity=0.555  Sum_probs=18.8

Q ss_pred             EEEEEcCCCCCchhhhhhhhh
Q psy10878         72 KVIVIGDPTVGKTSFVQRYVQ   92 (131)
Q Consensus        72 ki~vvG~~~vGKSsli~~~~~   92 (131)
                      .+.++|.+|+|||||++.+++
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            588999999999999998764

>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=95.73  E-value=0.0046  Score=44.73  Aligned_cols=24  Identities=25%  Similarity=0.278  Sum_probs=20.5

Q ss_pred             eeeEEEEEcCCCCCchhhhhhhhh
Q psy10878         69 KLFKVIVIGDPTVGKTSFVQRYVQ   92 (131)
Q Consensus        69 ~~~ki~vvG~~~vGKSsli~~~~~   92 (131)
                      ...-+.++|.+|+|||||++.+.+
T Consensus        89 ~g~ivgI~G~sGsGKSTL~~~L~g  112 (312)
T 3aez_A           89 VPFIIGVAGSVAVGKSTTARVLQA  112 (312)
T ss_dssp             CCEEEEEECCTTSCHHHHHHHHHH
T ss_pred             CCEEEEEECCCCchHHHHHHHHHh
Confidence            345799999999999999998764

>2pbr_A DTMP kinase, thymidylate kinase; transferase, nucleotide biosynthesis, TMP-binding, A binding, structural genomics, NPPSFA; 1.96A {Aquifex aeolicus}

Probab=95.71  E-value=0.0053  Score=40.36  Aligned_cols=21  Identities=19%  Similarity=0.219  Sum_probs=18.8

Q ss_pred             EEEEEcCCCCCchhhhhhhhh
Q psy10878         72 KVIVIGDPTVGKTSFVQRYVQ   92 (131)
Q Consensus        72 ki~vvG~~~vGKSsli~~~~~   92 (131)
                      .|++.|.+|+||||+...+..
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            589999999999999988764

>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=95.71  E-value=0.0052  Score=41.56  Aligned_cols=21  Identities=14%  Similarity=0.320  Sum_probs=18.9

Q ss_pred             EEEEEcCCCCCchhhhhhhhh
Q psy10878         72 KVIVIGDPTVGKTSFVQRYVQ   92 (131)
Q Consensus        72 ki~vvG~~~vGKSsli~~~~~   92 (131)
                      .+++.|++|+|||+++..+..
T Consensus        54 ~~ll~G~~G~GKT~la~~l~~   74 (242)
T 3bos_A           54 AIYLWGPVKSGRTHLIHAACA   74 (242)
T ss_dssp             EEEEECSTTSSHHHHHHHHHH
T ss_pred             eEEEECCCCCCHHHHHHHHHH
Confidence            599999999999999988764

>2nq2_C Hypothetical ABC transporter ATP-binding protein HI1470; putative iron chelatin ABC transporter, nucleotide binding domain; 2.40A {Haemophilus influenzae}

Probab=95.70  E-value=0.0043  Score=43.53  Aligned_cols=22  Identities=18%  Similarity=0.363  Sum_probs=19.4

Q ss_pred             EEEEEcCCCCCchhhhhhhhhC
Q psy10878         72 KVIVIGDPTVGKTSFVQRYVQN   93 (131)
Q Consensus        72 ki~vvG~~~vGKSsli~~~~~~   93 (131)
                      .++++|+.|+|||||++.+++-
T Consensus        33 ~~~l~G~nGsGKSTLl~~l~Gl   54 (253)
T 2nq2_C           33 ILAVLGQNGCGKSTLLDLLLGI   54 (253)
T ss_dssp             EEEEECCSSSSHHHHHHHHTTS
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            4889999999999999988753

>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=95.68  E-value=0.0047  Score=44.54  Aligned_cols=22  Identities=32%  Similarity=0.430  Sum_probs=19.3

Q ss_pred             eEEEEEcCCCCCchhhhhhhhh
Q psy10878         71 FKVIVIGDPTVGKTSFVQRYVQ   92 (131)
Q Consensus        71 ~ki~vvG~~~vGKSsli~~~~~   92 (131)
                      -.++++|.+|+||||+++.+.+
T Consensus       103 ~vi~lvG~nGsGKTTll~~Lag  124 (304)
T 1rj9_A          103 RVVLVVGVNGVGKTTTIAKLGR  124 (304)
T ss_dssp             SEEEEECSTTSSHHHHHHHHHH
T ss_pred             eEEEEECCCCCcHHHHHHHHHH
Confidence            4689999999999999998763

>2yz2_A Putative ABC transporter ATP-binding protein TM_0; cobalt transport, TM02 hydrolase, inner membrane, membrane, nucleotide-binding; 2.30A {Thermotoga maritima}

Probab=95.68  E-value=0.0044  Score=43.75  Aligned_cols=22  Identities=23%  Similarity=0.351  Sum_probs=19.3

Q ss_pred             EEEEEcCCCCCchhhhhhhhhC
Q psy10878         72 KVIVIGDPTVGKTSFVQRYVQN   93 (131)
Q Consensus        72 ki~vvG~~~vGKSsli~~~~~~   93 (131)
                      .++++|..|+|||||++.+++-
T Consensus        35 ~~~liG~nGsGKSTLl~~i~Gl   56 (266)
T 2yz2_A           35 CLLVAGNTGSGKSTLLQIVAGL   56 (266)
T ss_dssp             EEEEECSTTSSHHHHHHHHTTS
T ss_pred             EEEEECCCCCcHHHHHHHHhCC
Confidence            4889999999999999987753

>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=95.68  E-value=0.0026  Score=51.41  Aligned_cols=49  Identities=12%  Similarity=-0.017  Sum_probs=37.2

Q ss_pred             ccCCCcEEeeccCCCcccccccc------------cccCCCCccccccCCcccccccccccc
Q psy10878          3 YKAKKPILLPSASEDPSIDNWDK------------ASWENVTPIVSEQGDGEIIEIIDPSLK   52 (131)
Q Consensus         3 ~~~~kp~vlv~NK~Dl~~~~~~~------------~~~~~~~~is~~~~~~~~~~~~~~~~~   52 (131)
                      ...++|+++|+||+|+.+.....            ..|..++++||.++.| +.++++.+.+
T Consensus       214 ~~~g~pvIlVlNKiDlv~~~~~~~~il~~~~~~l~lg~~~VV~iSA~~G~G-vdeL~eaI~~  274 (772)
T 3zvr_A          214 DPQGQRTIGVITKLDLMDEGTDARDVLENKLLPLRRGYIGVVNRSQKDIDG-KKDITAALAA  274 (772)
T ss_dssp             CTTCSSEEEEEECTTSSCTTCCSHHHHTTCSSCCSSCEEECCCCCCEESSS-SEEHHHHHHH
T ss_pred             HhcCCCEEEEEeCcccCCcchhhHHHHHHHhhhhhccCCceEEeccccccc-chhHHHHHHH
Confidence            34579999999999997543211            0135689999999999 9999887765

>1zak_A Adenylate kinase; ATP:AMP-phosphotransferase, transferase; HET: AP5; 3.50A {Zea mays} SCOP: c.37.1.1 g.41.2.1

Probab=95.67  E-value=0.004  Score=42.30  Aligned_cols=22  Identities=27%  Similarity=0.465  Sum_probs=19.2

Q ss_pred             eEEEEEcCCCCCchhhhhhhhh
Q psy10878         71 FKVIVIGDPTVGKTSFVQRYVQ   92 (131)
Q Consensus        71 ~ki~vvG~~~vGKSsli~~~~~   92 (131)
                      ..|+++|.+|+||||+...+..
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            4699999999999999988763

>2ze6_A Isopentenyl transferase; crown GALL tumor, cytokinin biosynthesis; HET: DST AMP; 2.10A {Agrobacterium tumefaciens} PDB: 2ze5_A* 2ze7_A* 2ze8_A

Probab=95.66  E-value=0.0051  Score=43.00  Aligned_cols=21  Identities=24%  Similarity=0.347  Sum_probs=18.4

Q ss_pred             EEEEEcCCCCCchhhhhhhhh
Q psy10878         72 KVIVIGDPTVGKTSFVQRYVQ   92 (131)
Q Consensus        72 ki~vvG~~~vGKSsli~~~~~   92 (131)
                      -++++|.+|+|||||...++.
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            378999999999999998763

>2c95_A Adenylate kinase 1; transferase, AP4A, nucleotide kinase, transferase ATP-bindi; HET: B4P; 1.71A {Homo sapiens} PDB: 1z83_A* 3adk_A

Probab=95.62  E-value=0.0052  Score=40.55  Aligned_cols=22  Identities=32%  Similarity=0.531  Sum_probs=19.2

Q ss_pred             eEEEEEcCCCCCchhhhhhhhh
Q psy10878         71 FKVIVIGDPTVGKTSFVQRYVQ   92 (131)
Q Consensus        71 ~ki~vvG~~~vGKSsli~~~~~   92 (131)
                      ..|+++|.+|+||||+...+..
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            4699999999999999988763

>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=95.61  E-value=0.0061  Score=46.32  Aligned_cols=25  Identities=20%  Similarity=0.335  Sum_probs=21.8

Q ss_pred             eeeEEEEEcCCCCCchhhhhhhhhC
Q psy10878         69 KLFKVIVIGDPTVGKTSFVQRYVQN   93 (131)
Q Consensus        69 ~~~ki~vvG~~~vGKSsli~~~~~~   93 (131)
                      ..++|+++|.+|+||||+.+++...
T Consensus        38 ~~~~IvlvGlpGsGKSTia~~La~~   62 (469)
T 1bif_A           38 CPTLIVMVGLPARGKTYISKKLTRY   62 (469)
T ss_dssp             CCEEEEEECCTTSSHHHHHHHHHHH
T ss_pred             CcEEEEEECCCCCCHHHHHHHHHHH
Confidence            4578999999999999999998753

>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=95.61  E-value=0.0074  Score=39.56  Aligned_cols=22  Identities=32%  Similarity=0.454  Sum_probs=19.2

Q ss_pred             eEEEEEcCCCCCchhhhhhhhh
Q psy10878         71 FKVIVIGDPTVGKTSFVQRYVQ   92 (131)
Q Consensus        71 ~ki~vvG~~~vGKSsli~~~~~   92 (131)
                      ..|++.|.+|+||||+...+..
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            4699999999999999988763

>2pjz_A Hypothetical protein ST1066; ATP binding protein, structural genomics, NPPSFA; 1.90A {Sulfolobus tokodaii}

Probab=95.60  E-value=0.0056  Score=43.25  Aligned_cols=22  Identities=32%  Similarity=0.489  Sum_probs=19.6

Q ss_pred             EEEEEcCCCCCchhhhhhhhhC
Q psy10878         72 KVIVIGDPTVGKTSFVQRYVQN   93 (131)
Q Consensus        72 ki~vvG~~~vGKSsli~~~~~~   93 (131)
                      .++++|+.|+|||||++.+++-
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            5899999999999999988754

>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=95.60  E-value=0.006  Score=45.08  Aligned_cols=23  Identities=26%  Similarity=0.703  Sum_probs=19.8

Q ss_pred             ceeeEEEEEcCCCCCchhhhhhh
Q psy10878         68 EKLFKVIVIGDPTVGKTSFVQRY   90 (131)
Q Consensus        68 ~~~~ki~vvG~~~vGKSsli~~~   90 (131)
                      ....|++++|.+++|||||+.++
T Consensus        31 ~~~~killlG~~~SGKST~~kq~   53 (362)
T 1zcb_A           31 ARLVKILLLGAGESGKSTFLKQM   53 (362)
T ss_dssp             CCCEEEEEECSTTSSHHHHHHHH
T ss_pred             cCccEEEEECCCCCcHHHHHHHH
Confidence            45689999999999999998753

>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=95.59  E-value=0.0057  Score=40.94  Aligned_cols=23  Identities=17%  Similarity=0.261  Sum_probs=20.0

Q ss_pred             eeEEEEEcCCCCCchhhhhhhhh
Q psy10878         70 LFKVIVIGDPTVGKTSFVQRYVQ   92 (131)
Q Consensus        70 ~~ki~vvG~~~vGKSsli~~~~~   92 (131)
                      ...|++.|.+|+||||+.+.+..
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            34799999999999999998763

>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=95.59  E-value=0.0064  Score=41.71  Aligned_cols=23  Identities=17%  Similarity=0.443  Sum_probs=20.0

Q ss_pred             eeEEEEEcCCCCCchhhhhhhhh
Q psy10878         70 LFKVIVIGDPTVGKTSFVQRYVQ   92 (131)
Q Consensus        70 ~~ki~vvG~~~vGKSsli~~~~~   92 (131)
                      ...|+++|.+|+||||+...+..
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            45799999999999999988763

>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=95.58  E-value=0.0053  Score=44.51  Aligned_cols=21  Identities=29%  Similarity=0.577  Sum_probs=18.9

Q ss_pred             EEEEEcCCCCCchhhhhhhhh
Q psy10878         72 KVIVIGDPTVGKTSFVQRYVQ   92 (131)
Q Consensus        72 ki~vvG~~~vGKSsli~~~~~   92 (131)
                      .++++|++|+|||||++.+++
T Consensus        53 ~~ll~Gp~G~GKTTLa~~ia~   73 (334)
T 1in4_A           53 HVLLAGPPGLGKTTLAHIIAS   73 (334)
T ss_dssp             CEEEESSTTSSHHHHHHHHHH
T ss_pred             eEEEECCCCCcHHHHHHHHHH
Confidence            389999999999999998875

>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=95.57  E-value=0.0057  Score=41.05  Aligned_cols=21  Identities=24%  Similarity=0.162  Sum_probs=19.3

Q ss_pred             EEEEEcCCCCCchhhhhhhhh
Q psy10878         72 KVIVIGDPTVGKTSFVQRYVQ   92 (131)
Q Consensus        72 ki~vvG~~~vGKSsli~~~~~   92 (131)
                      -++++|.+|+|||+|+..++.
T Consensus        22 ~~~i~G~~GsGKTtl~~~l~~   42 (220)
T 2cvh_A           22 LTQVYGPYASGKTTLALQTGL   42 (220)
T ss_dssp             EEEEECSTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            489999999999999999876

>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=95.57  E-value=0.0076  Score=46.44  Aligned_cols=49  Identities=22%  Similarity=0.404  Sum_probs=35.6

Q ss_pred             cCCCcEEeeccCCCccccc--cccc----------cc---CCCCccccccCCccccccccccccc
Q psy10878          4 KAKKPILLPSASEDPSIDN--WDKA----------SW---ENVTPIVSEQGDGEIIEIIDPSLKL   53 (131)
Q Consensus         4 ~~~kp~vlv~NK~Dl~~~~--~~~~----------~~---~~~~~is~~~~~~~~~~~~~~~~~~   53 (131)
                      ..+.|+++++||+|+....  ....          .|   ...+++||+++.| +.++++.+...
T Consensus       101 ~~~vPiIVviNKiDl~~~~~~~v~~~l~~~~~~~~~~~~~~~~v~vSAktG~g-I~eLle~I~~~  164 (501)
T 1zo1_I          101 AAQVPVVVAVNKIDKPEADPDRVKNELSQYGILPEEWGGESQFVHVSAKAGTG-IDELLDAILLQ  164 (501)
T ss_dssp             HTTCCEEEEEECSSSSTTCCCCTTCCCCCCCCCTTCCSSSCEEEECCTTTCTT-CTTHHHHTTTT
T ss_pred             hcCceEEEEEEeccccccCHHHHHHHHHHhhhhHHHhCCCccEEEEeeeeccC-cchhhhhhhhh
Confidence            3578999999999996421  1111          11   1468899999999 99999987654

>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=95.57  E-value=0.0035  Score=47.79  Aligned_cols=49  Identities=16%  Similarity=0.172  Sum_probs=37.5

Q ss_pred             CCcEEeeccCCCccccccc--cccc---CCCCccccccCCccccccccccccccc
Q psy10878          6 KKPILLPSASEDPSIDNWD--KASW---ENVTPIVSEQGDGEIIEIIDPSLKLVR   55 (131)
Q Consensus         6 ~kp~vlv~NK~Dl~~~~~~--~~~~---~~~~~is~~~~~~~~~~~~~~~~~~~~   55 (131)
                      ++|+++|+||+|+......  ...+   ..++++|++++.| +.++++.+.+.+.
T Consensus       330 ~~piivV~NK~Dl~~~~~~~~~~~~~~~~~~i~iSAktg~G-i~eL~~~i~~~~~  383 (462)
T 3geh_A          330 HRPLILVMNKIDLVEKQLITSLEYPENITQIVHTAAAQKQG-IDSLETAILEIVQ  383 (462)
T ss_dssp             TSCEEEEEECTTSSCGGGSTTCCCCTTCCCEEEEBTTTTBS-HHHHHHHHHHHHT
T ss_pred             CCcEEEEEECCCCCcchhhHHHHHhccCCcEEEEECCCCCC-HHHHHHHHHHHHh
Confidence            4799999999999654321  1222   4578999999999 9999998877763

>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=95.55  E-value=0.0074  Score=44.45  Aligned_cols=36  Identities=17%  Similarity=0.077  Sum_probs=0.0

Q ss_pred             CCCCccCCc---------eeEeEEEEEEecCC----eEEEEEEEeCCCCC
Q psy10878         95 FKKDYKGTV---------GVDFALKIVKWRDQ----QKIKLQLWDIAGQN  131 (131)
Q Consensus        95 ~~~~~~~t~---------~~~~~~~~~~~~~~----~~~~l~i~Dt~Gqe  131 (131)
                      +...|.||.         ........+.+ ++    ..+.++||||+|||
T Consensus       146 ~~~~Y~PT~~D~~~~r~~T~Gi~e~~f~~-~~~~~~~~v~l~iwDtaGQe  194 (354)
T 2xtz_A          146 SDINYIPTKEDVLYARVRTTGVVEIQFSP-VGENKKSGEVYRLFDVGGQR  194 (354)
T ss_dssp             HSTTCCCCHHHHHHCCCCCCSEEEEEECC-CCE------EEEEEEECCST
T ss_pred             hcCCCCCCchheeeecccccceeeEEEEe-ccCccccceeeEEEECCCch

>1iy2_A ATP-dependent metalloprotease FTSH; AAA domain fold, hydrolase; 3.20A {Thermus thermophilus} SCOP: c.37.1.20

Probab=95.55  E-value=0.0058  Score=42.98  Aligned_cols=20  Identities=35%  Similarity=0.667  Sum_probs=18.6

Q ss_pred             EEEEcCCCCCchhhhhhhhh
Q psy10878         73 VIVIGDPTVGKTSFVQRYVQ   92 (131)
Q Consensus        73 i~vvG~~~vGKSsli~~~~~   92 (131)
                      ++++|++|+|||+|++.+.+
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            99999999999999998875

>2bwj_A Adenylate kinase 5; phosphoryl transfer reaction, transferase; HET: AMP; 2.3A {Homo sapiens}

Probab=95.54  E-value=0.0063  Score=40.23  Aligned_cols=22  Identities=27%  Similarity=0.533  Sum_probs=19.3

Q ss_pred             eEEEEEcCCCCCchhhhhhhhh
Q psy10878         71 FKVIVIGDPTVGKTSFVQRYVQ   92 (131)
Q Consensus        71 ~ki~vvG~~~vGKSsli~~~~~   92 (131)
                      ..|++.|.+|+||||+...+..
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            4699999999999999987764

>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=95.54  E-value=0.0061  Score=40.91  Aligned_cols=21  Identities=29%  Similarity=0.384  Sum_probs=18.7

Q ss_pred             EEEEEcCCCCCchhhhhhhhh
Q psy10878         72 KVIVIGDPTVGKTSFVQRYVQ   92 (131)
Q Consensus        72 ki~vvG~~~vGKSsli~~~~~   92 (131)
                      -+++.|++|+|||+++..+..
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            489999999999999988764

>3b9q_A Chloroplast SRP receptor homolog, alpha subunit CPFTSY; protein translocation, GTP-binding, nucleotide-binding, protein transport; 1.75A {Arabidopsis thaliana}

Probab=95.54  E-value=0.006  Score=43.94  Aligned_cols=22  Identities=18%  Similarity=0.335  Sum_probs=19.3

Q ss_pred             eEEEEEcCCCCCchhhhhhhhh
Q psy10878         71 FKVIVIGDPTVGKTSFVQRYVQ   92 (131)
Q Consensus        71 ~ki~vvG~~~vGKSsli~~~~~   92 (131)
                      --++++|..|+||||++..+++
T Consensus       101 ~vi~lvG~nGsGKTTll~~Lag  122 (302)
T 3b9q_A          101 AVIMIVGVNGGGKTTSLGKLAH  122 (302)
T ss_dssp             EEEEEECCTTSCHHHHHHHHHH
T ss_pred             cEEEEEcCCCCCHHHHHHHHHH
Confidence            4689999999999999998764

>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=95.54  E-value=0.0082  Score=42.96  Aligned_cols=23  Identities=13%  Similarity=0.041  Sum_probs=19.8

Q ss_pred             eeeEEEEEcCCCCCchhhhhhhh
Q psy10878         69 KLFKVIVIGDPTVGKTSFVQRYV   91 (131)
Q Consensus        69 ~~~ki~vvG~~~vGKSsli~~~~   91 (131)
                      ....|.++|.+|+|||||++.+.
T Consensus        30 ~~~ii~I~G~sGsGKSTla~~L~   52 (290)
T 1odf_A           30 CPLFIFFSGPQGSGKSFTSIQIY   52 (290)
T ss_dssp             SCEEEEEECCTTSSHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHH
Confidence            35679999999999999998765

>2jeo_A Uridine-cytidine kinase 1; UCK, transferase, ATP-binding, nucleoside kinase, nucleotide-binding; 2.50A {Homo sapiens} PDB: 2uvq_A*

Probab=95.50  E-value=0.0076  Score=41.68  Aligned_cols=22  Identities=23%  Similarity=0.477  Sum_probs=19.7

Q ss_pred             eEEEEEcCCCCCchhhhhhhhh
Q psy10878         71 FKVIVIGDPTVGKTSFVQRYVQ   92 (131)
Q Consensus        71 ~ki~vvG~~~vGKSsli~~~~~   92 (131)
                      ..+.++|..|+|||||++.+.+
T Consensus        26 ~iigI~G~~GsGKSTl~k~L~~   47 (245)
T 2jeo_A           26 FLIGVSGGTASGKSTVCEKIME   47 (245)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHH
T ss_pred             EEEEEECCCCCCHHHHHHHHHH
Confidence            4699999999999999998775

>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=95.50  E-value=0.0063  Score=40.40  Aligned_cols=20  Identities=25%  Similarity=0.429  Sum_probs=18.3

Q ss_pred             EEEEcCCCCCchhhhhhhhh
Q psy10878         73 VIVIGDPTVGKTSFVQRYVQ   92 (131)
Q Consensus        73 i~vvG~~~vGKSsli~~~~~   92 (131)
                      +++.|++|+|||+++..+..
T Consensus        41 ~ll~G~~G~GKT~l~~~l~~   60 (226)
T 2chg_A           41 LLFSGPPGTGKTATAIALAR   60 (226)
T ss_dssp             EEEECSTTSSHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHH
Confidence            99999999999999988764

>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=95.50  E-value=0.0057  Score=43.40  Aligned_cols=22  Identities=23%  Similarity=0.483  Sum_probs=19.3

Q ss_pred             EEEEEcCCCCCchhhhhhhhhC
Q psy10878         72 KVIVIGDPTVGKTSFVQRYVQN   93 (131)
Q Consensus        72 ki~vvG~~~vGKSsli~~~~~~   93 (131)
                      -++++|.+|+|||||+..++..
T Consensus        37 ~~~i~G~~G~GKTTl~~~ia~~   58 (296)
T 1cr0_A           37 VIMVTSGSGMGKSTFVRQQALQ   58 (296)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHH
T ss_pred             EEEEEeCCCCCHHHHHHHHHHH
Confidence            4889999999999999988753

>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=95.50  E-value=0.0055  Score=45.28  Aligned_cols=22  Identities=23%  Similarity=0.400  Sum_probs=19.4

Q ss_pred             EEEEEcCCCCCchhhhhhhhhC
Q psy10878         72 KVIVIGDPTVGKTSFVQRYVQN   93 (131)
Q Consensus        72 ki~vvG~~~vGKSsli~~~~~~   93 (131)
                      -++++|++|+|||||++.+++-
T Consensus        32 ~~~llGpsGsGKSTLLr~iaGl   53 (359)
T 3fvq_A           32 ILFIIGASGCGKTTLLRCLAGF   53 (359)
T ss_dssp             EEEEEESTTSSHHHHHHHHHTS
T ss_pred             EEEEECCCCchHHHHHHHHhcC
Confidence            4889999999999999988764

>2w58_A DNAI, primosome component (helicase loader); ATP-binding, nucleotide-binding, hydrolase; HET: ADP; 2.50A {Geobacillus kaustophilus HTA426}

Probab=95.50  E-value=0.0063  Score=40.53  Aligned_cols=22  Identities=23%  Similarity=0.235  Sum_probs=19.2

Q ss_pred             eEEEEEcCCCCCchhhhhhhhh
Q psy10878         71 FKVIVIGDPTVGKTSFVQRYVQ   92 (131)
Q Consensus        71 ~ki~vvG~~~vGKSsli~~~~~   92 (131)
                      -.+++.|++|+|||+|+..+..
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            3699999999999999987764

>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=95.50  E-value=0.0061  Score=44.44  Aligned_cols=23  Identities=17%  Similarity=0.392  Sum_probs=20.0

Q ss_pred             eeEEEEEcCCCCCchhhhhhhhh
Q psy10878         70 LFKVIVIGDPTVGKTSFVQRYVQ   92 (131)
Q Consensus        70 ~~ki~vvG~~~vGKSsli~~~~~   92 (131)
                      .--++++|.+|+||||+++.+.+
T Consensus       129 g~vi~lvG~nGaGKTTll~~Lag  151 (328)
T 3e70_C          129 PYVIMFVGFNGSGKTTTIAKLAN  151 (328)
T ss_dssp             SEEEEEECCTTSSHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHH
Confidence            44699999999999999998774

>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=95.50  E-value=0.0066  Score=39.26  Aligned_cols=21  Identities=14%  Similarity=0.351  Sum_probs=18.6

Q ss_pred             EEEEEcCCCCCchhhhhhhhh
Q psy10878         72 KVIVIGDPTVGKTSFVQRYVQ   92 (131)
Q Consensus        72 ki~vvG~~~vGKSsli~~~~~   92 (131)
                      .|++.|.+|+||||+...+..
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            489999999999999988764

>1lv7_A FTSH; alpha/beta domain, four helix bundle, hydrolase; 1.50A {Escherichia coli} SCOP: c.37.1.20

Probab=95.50  E-value=0.0065  Score=42.13  Aligned_cols=21  Identities=29%  Similarity=0.537  Sum_probs=18.9

Q ss_pred             EEEEEcCCCCCchhhhhhhhh
Q psy10878         72 KVIVIGDPTVGKTSFVQRYVQ   92 (131)
Q Consensus        72 ki~vvG~~~vGKSsli~~~~~   92 (131)
                      .+++.|++|+|||+++..+.+
T Consensus        47 ~vll~G~~GtGKT~la~~la~   67 (257)
T 1lv7_A           47 GVLMVGPPGTGKTLLAKAIAG   67 (257)
T ss_dssp             EEEEECCTTSCHHHHHHHHHH
T ss_pred             eEEEECcCCCCHHHHHHHHHH
Confidence            499999999999999998774

>1rz3_A Hypothetical protein rbstp0775; MCSG, structural genomics, PSI, protein structure initiative; 1.90A {Geobacillus stearothermophilus} SCOP: c.37.1.6

Probab=95.48  E-value=0.0081  Score=40.27  Aligned_cols=23  Identities=22%  Similarity=0.238  Sum_probs=19.7

Q ss_pred             eeEEEEEcCCCCCchhhhhhhhh
Q psy10878         70 LFKVIVIGDPTVGKTSFVQRYVQ   92 (131)
Q Consensus        70 ~~ki~vvG~~~vGKSsli~~~~~   92 (131)
                      ...+.++|.+|+||||+++.+..
T Consensus        22 ~~~i~i~G~~GsGKstl~~~l~~   44 (201)
T 1rz3_A           22 RLVLGIDGLSRSGKTTLANQLSQ   44 (201)
T ss_dssp             SEEEEEEECTTSSHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHH
Confidence            35699999999999999987763

>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=95.48  E-value=0.0065  Score=41.41  Aligned_cols=21  Identities=19%  Similarity=0.259  Sum_probs=19.4

Q ss_pred             EEEEEcCCCCCchhhhhhhhh
Q psy10878         72 KVIVIGDPTVGKTSFVQRYVQ   92 (131)
Q Consensus        72 ki~vvG~~~vGKSsli~~~~~   92 (131)
                      -++++|++|+|||+|+..++.
T Consensus        26 ~~~i~G~~GsGKTtl~~~l~~   46 (243)
T 1n0w_A           26 ITEMFGEFRTGKTQICHTLAV   46 (243)
T ss_dssp             EEEEECCTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCCcHHHHHHHHHH
Confidence            489999999999999999886

>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=95.48  E-value=0.0014  Score=48.03  Aligned_cols=48  Identities=17%  Similarity=0.209  Sum_probs=35.7

Q ss_pred             CCcEEeeccCCCccccccc------c-c----------cc-CCCCccccccCCcccccccccccccc
Q psy10878          6 KKPILLPSASEDPSIDNWD------K-A----------SW-ENVTPIVSEQGDGEIIEIIDPSLKLV   54 (131)
Q Consensus         6 ~kp~vlv~NK~Dl~~~~~~------~-~----------~~-~~~~~is~~~~~~~~~~~~~~~~~~~   54 (131)
                      ++|+++|+||+|+......      . .          .| ..++++|+.++.| +.++++.+.+.+
T Consensus       217 ~~p~ivVlNK~Dl~~~~~~~~~~~~l~~~l~~~~~~~~~~~~~vi~iSA~~g~G-i~~L~~~i~~~~  282 (355)
T 3p32_A          217 ELADIVVVNKADGEHHKEARLAARELSAAIRLIYPREALWRPPVLTMSAVEGRG-LAELWDTVERHR  282 (355)
T ss_dssp             GGCSEEEEECCCGGGHHHHHHHHHHHHHHHHHHSTTCCSCCCCEEEEBGGGTBS-HHHHHHHHHHHH
T ss_pred             hcCCEEEEECCCCcChhHHHHHHHHHHHHHhhccccccCCCCceEEEEcCCCCC-HHHHHHHHHHHH
Confidence            4699999999998643110      0 0          22 3578999999999 999999887765

>2p5t_B PEZT; postsegregational killing system, phosphoryltransferase, HEL helix motif, transcription regulator; 3.20A {Streptococcus pneumoniae}

Probab=95.48  E-value=0.0066  Score=42.27  Aligned_cols=23  Identities=17%  Similarity=0.265  Sum_probs=19.9

Q ss_pred             eeEEEEEcCCCCCchhhhhhhhh
Q psy10878         70 LFKVIVIGDPTVGKTSFVQRYVQ   92 (131)
Q Consensus        70 ~~ki~vvG~~~vGKSsli~~~~~   92 (131)
                      ...++++|.+|+||||+...+..
T Consensus        32 ~~~i~l~G~~GsGKSTla~~L~~   54 (253)
T 2p5t_B           32 PIAILLGGQSGAGKTTIHRIKQK   54 (253)
T ss_dssp             CEEEEEESCGGGTTHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHH
Confidence            35799999999999999988763

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

Probab=95.47  E-value=0.0056  Score=46.23  Aligned_cols=43  Identities=21%  Similarity=0.310  Sum_probs=29.2

Q ss_pred             CCCc-EEeeccCCCccccccc-------cc---cc-----------CCCCccccccCCcccccccc
Q psy10878          5 AKKP-ILLPSASEDPSIDNWD-------KA---SW-----------ENVTPIVSEQGDGEIIEIID   48 (131)
Q Consensus         5 ~~kp-~vlv~NK~Dl~~~~~~-------~~---~~-----------~~~~~is~~~~~~~~~~~~~   48 (131)
                      .+.| +++|+||+|+...++.       ..   .+           ..++++||.+|.| +.++.+
T Consensus       153 ~~v~~iIvviNK~Dl~~~~~~~~~~~~i~~~~~~~l~~~g~~~~~~~~~i~iSA~~G~n-i~~l~~  217 (439)
T 3j2k_7          153 AGVKHLIVLINKMDDPTVNWSNERYEECKEKLVPFLKKVGFNPKKDIHFMPCSGLTGAN-LKEQSD  217 (439)
T ss_pred             cCCCeEEEEeecCCCcccchHHHHHHHHHHHHHHHHHHhcccccCCeeEEEeeccCCcc-cccccc
Confidence            4566 8999999999542110       01   11           1368999999999 888655

>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=95.46  E-value=0.0063  Score=44.84  Aligned_cols=21  Identities=24%  Similarity=0.396  Sum_probs=19.3

Q ss_pred             EEEEEcCCCCCchhhhhhhhh
Q psy10878         72 KVIVIGDPTVGKTSFVQRYVQ   92 (131)
Q Consensus        72 ki~vvG~~~vGKSsli~~~~~   92 (131)
                      .++++|.+|+||||+++.+++
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            799999999999999998764

>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=95.45  E-value=0.0078  Score=42.09  Aligned_cols=22  Identities=32%  Similarity=0.644  Sum_probs=19.3

Q ss_pred             eEEEEEcCCCCCchhhhhhhhh
Q psy10878         71 FKVIVIGDPTVGKTSFVQRYVQ   92 (131)
Q Consensus        71 ~ki~vvG~~~vGKSsli~~~~~   92 (131)
                      ..|++.|.+|+||||+...+..
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            4699999999999999988764

>1z47_A CYSA, putative ABC-transporter ATP-binding protein; alpha/beta motif, beta sandwich, ligand binding protein; 1.90A {Alicyclobacillus acidocaldarius}

Probab=95.43  E-value=0.0063  Score=44.88  Aligned_cols=22  Identities=23%  Similarity=0.268  Sum_probs=19.4

Q ss_pred             EEEEEcCCCCCchhhhhhhhhC
Q psy10878         72 KVIVIGDPTVGKTSFVQRYVQN   93 (131)
Q Consensus        72 ki~vvG~~~vGKSsli~~~~~~   93 (131)
                      -++++|++|+|||||++.+++-
T Consensus        43 ~~~llGpnGsGKSTLLr~iaGl   64 (355)
T 1z47_A           43 MVGLLGPSGSGKTTILRLIAGL   64 (355)
T ss_dssp             EEEEECSTTSSHHHHHHHHHTS
T ss_pred             EEEEECCCCCcHHHHHHHHhCC
Confidence            4889999999999999988754

>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=95.43  E-value=0.0064  Score=43.58  Aligned_cols=22  Identities=27%  Similarity=0.366  Sum_probs=19.4

Q ss_pred             EEEEEcCCCCCchhhhhhhhhC
Q psy10878         72 KVIVIGDPTVGKTSFVQRYVQN   93 (131)
Q Consensus        72 ki~vvG~~~vGKSsli~~~~~~   93 (131)
                      .++++|..|+|||||++.+++-
T Consensus        66 ~~~i~G~NGsGKSTLlk~l~Gl   87 (290)
T 2bbs_A           66 LLAVAGSTGAGKTSLLMMIMGE   87 (290)
T ss_dssp             EEEEEESTTSSHHHHHHHHTTS
T ss_pred             EEEEECCCCCcHHHHHHHHhcC
Confidence            5899999999999999987753

>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=95.41  E-value=0.0075  Score=39.91  Aligned_cols=21  Identities=29%  Similarity=0.498  Sum_probs=18.8

Q ss_pred             EEEEEcCCCCCchhhhhhhhh
Q psy10878         72 KVIVIGDPTVGKTSFVQRYVQ   92 (131)
Q Consensus        72 ki~vvG~~~vGKSsli~~~~~   92 (131)
                      -+.++|.+|+|||||+.+++.
T Consensus         6 ~i~i~G~sGsGKTTl~~~L~~   26 (169)
T 1xjc_A            6 VWQVVGYKHSGKTTLMEKWVA   26 (169)
T ss_dssp             EEEEECCTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            488999999999999998774

>2j37_W Signal recognition particle 54 kDa protein (SRP54); ribosome, SRP, translation/RNA; 8.00A {Canis SP} PDB: 1wgw_A

Probab=95.40  E-value=0.0088  Score=46.12  Aligned_cols=23  Identities=22%  Similarity=0.299  Sum_probs=19.7

Q ss_pred             eeeEEEEEcCCCCCchhhhhhhh
Q psy10878         69 KLFKVIVIGDPTVGKTSFVQRYV   91 (131)
Q Consensus        69 ~~~ki~vvG~~~vGKSsli~~~~   91 (131)
                      ....|+++|.+||||||++++++
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            45679999999999999999988

>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=95.40  E-value=0.0068  Score=45.17  Aligned_cols=22  Identities=18%  Similarity=0.356  Sum_probs=19.4

Q ss_pred             EEEEEcCCCCCchhhhhhhhhC
Q psy10878         72 KVIVIGDPTVGKTSFVQRYVQN   93 (131)
Q Consensus        72 ki~vvG~~~vGKSsli~~~~~~   93 (131)
                      -++++|++|+|||||++.+.+-
T Consensus        31 ~~~llGpsGsGKSTLLr~iaGl   52 (381)
T 3rlf_A           31 FVVFVGPSGCGKSTLLRMIAGL   52 (381)
T ss_dssp             EEEEECCTTSSHHHHHHHHHTS
T ss_pred             EEEEEcCCCchHHHHHHHHHcC
Confidence            4889999999999999988753

>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=95.39  E-value=0.0071  Score=39.68  Aligned_cols=21  Identities=29%  Similarity=0.599  Sum_probs=18.5

Q ss_pred             EEEEEcCCCCCchhhhhhhhh
Q psy10878         72 KVIVIGDPTVGKTSFVQRYVQ   92 (131)
Q Consensus        72 ki~vvG~~~vGKSsli~~~~~   92 (131)
                      .|+++|.+|+||||+...+..
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            489999999999999987764

>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=95.39  E-value=0.0067  Score=44.80  Aligned_cols=22  Identities=23%  Similarity=0.237  Sum_probs=19.4

Q ss_pred             EEEEEcCCCCCchhhhhhhhhC
Q psy10878         72 KVIVIGDPTVGKTSFVQRYVQN   93 (131)
Q Consensus        72 ki~vvG~~~vGKSsli~~~~~~   93 (131)
                      -++++|++|+|||||++.+++-
T Consensus        31 ~~~llGpnGsGKSTLLr~iaGl   52 (359)
T 2yyz_A           31 FVALLGPSGCGKTTTLLMLAGI   52 (359)
T ss_dssp             EEEEECSTTSSHHHHHHHHHTS
T ss_pred             EEEEEcCCCchHHHHHHHHHCC
Confidence            4889999999999999988753

>2it1_A 362AA long hypothetical maltose/maltodextrin transport ATP-binding protein; structural genomics, NPPSFA; 1.94A {Pyrococcus horikoshii}

Probab=95.39  E-value=0.0069  Score=44.80  Aligned_cols=22  Identities=14%  Similarity=0.253  Sum_probs=19.4

Q ss_pred             EEEEEcCCCCCchhhhhhhhhC
Q psy10878         72 KVIVIGDPTVGKTSFVQRYVQN   93 (131)
Q Consensus        72 ki~vvG~~~vGKSsli~~~~~~   93 (131)
                      -++++|++|+|||||++.+++-
T Consensus        31 ~~~llGpnGsGKSTLLr~iaGl   52 (362)
T 2it1_A           31 FMALLGPSGSGKSTLLYTIAGI   52 (362)
T ss_dssp             EEEEECCTTSSHHHHHHHHHTS
T ss_pred             EEEEECCCCchHHHHHHHHhcC
Confidence            4889999999999999988753

>2hf9_A Probable hydrogenase nickel incorporation protein HYPB; alpha and beta protein; HET: GSP; 1.90A {Methanocaldococcus jannaschii} PDB: 2hf8_A*

Probab=95.39  E-value=0.001  Score=45.15  Aligned_cols=48  Identities=17%  Similarity=0.042  Sum_probs=33.5

Q ss_pred             CCcEEeeccCCCccccc-cccc-------cc---CCCCccccccCCcccccccccccccc
Q psy10878          6 KKPILLPSASEDPSIDN-WDKA-------SW---ENVTPIVSEQGDGEIIEIIDPSLKLV   54 (131)
Q Consensus         6 ~kp~vlv~NK~Dl~~~~-~~~~-------~~---~~~~~is~~~~~~~~~~~~~~~~~~~   54 (131)
                      ++|.++|+||+|+.+.. ....       .+   ..++++|++++.| +.++++.+.+.+
T Consensus       164 ~~~~iiv~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~g~g-v~~l~~~l~~~~  222 (226)
T 2hf9_A          164 KTADLIVINKIDLADAVGADIKKMENDAKRINPDAEVVLLSLKTMEG-FDKVLEFIEKSV  222 (226)
T ss_dssp             TTCSEEEEECGGGHHHHTCCHHHHHHHHHHHCTTSEEEECCTTTCTT-HHHHHHHHHHHH
T ss_pred             hcCCEEEEeccccCchhHHHHHHHHHHHHHhCCCCeEEEEEecCCCC-HHHHHHHHHHHH
Confidence            35669999999986531 1111       11   3568899999999 999988776543

>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=95.36  E-value=0.0096  Score=38.95  Aligned_cols=22  Identities=23%  Similarity=0.232  Sum_probs=19.3

Q ss_pred             eEEEEEcCCCCCchhhhhhhhh
Q psy10878         71 FKVIVIGDPTVGKTSFVQRYVQ   92 (131)
Q Consensus        71 ~ki~vvG~~~vGKSsli~~~~~   92 (131)
                      ..++++|.+|+||||+.+.+..
T Consensus         6 ~~i~l~G~~GsGKST~~~~L~~   27 (179)
T 2pez_A            6 CTVWLTGLSGAGKTTVSMALEE   27 (179)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHH
T ss_pred             cEEEEECCCCCCHHHHHHHHHH
Confidence            4689999999999999988764

>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=95.34  E-value=0.0071  Score=44.87  Aligned_cols=22  Identities=23%  Similarity=0.315  Sum_probs=19.4

Q ss_pred             EEEEEcCCCCCchhhhhhhhhC
Q psy10878         72 KVIVIGDPTVGKTSFVQRYVQN   93 (131)
Q Consensus        72 ki~vvG~~~vGKSsli~~~~~~   93 (131)
                      -++++|++|+|||||++.+++-
T Consensus        31 ~~~llGpnGsGKSTLLr~iaGl   52 (372)
T 1g29_1           31 FMILLGPSGCGKTTTLRMIAGL   52 (372)
T ss_dssp             EEEEECSTTSSHHHHHHHHHTS
T ss_pred             EEEEECCCCcHHHHHHHHHHcC
Confidence            4889999999999999988754

---

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	131
d2ew1a1	171	c.37.1.8 (A:4-174) Rab30 {Human (Homo sapiens) [Ta	4e-19
d1g16a_	166	c.37.1.8 (A:) Rab-related protein Sec4 {Baker's ye	4e-19
d2fu5c1	173	c.37.1.8 (C:3-175) Rab8a {Mouse (Mus musculus) [Ta	9e-19
d2bcgy1	194	c.37.1.8 (Y:3-196) GTPase Ytp1 {Baker's yeast (Sac	2e-17
d3raba_	169	c.37.1.8 (A:) Rab3a {Rat (Rattus norvegicus) [TaxI	1e-16
d2f7sa1	186	c.37.1.8 (A:5-190) Rab27b {Human (Homo sapiens) [T	6e-16
d2bmea1	174	c.37.1.8 (A:6-179) Rab4a {Human (Homo sapiens) [Ta	2e-15
d1x3sa1	177	c.37.1.8 (A:2-178) Rab18 {Human (Homo sapiens) [Ta	3e-15
d1ky3a_	175	c.37.1.8 (A:) Rab-related protein ypt7p {Baker's y	1e-14
d2g6ba1	170	c.37.1.8 (A:58-227) Rab26 {Human (Homo sapiens) [T	2e-14
d1wmsa_	174	c.37.1.8 (A:) Rab9a {Human (Homo sapiens) [TaxId:	2e-13
d1z0fa1	166	c.37.1.8 (A:8-173) Rab14 {Human (Homo sapiens) [Ta	3e-13
d1vg8a_	184	c.37.1.8 (A:) Rab7 {Rat (Rattus norvegicus) [TaxId	6e-13
d2f9la1	175	c.37.1.8 (A:8-182) Rab11b {Human (Homo sapiens) [T	7e-13
d1z06a1	165	c.37.1.8 (A:32-196) Rab-33b {Mouse (Mus musculus)	1e-12
d1yzqa1	164	c.37.1.8 (A:14-177) Rab6 {Human (Homo sapiens) [Ta	2e-12
d2atxa1	185	c.37.1.8 (A:9-193) RhoQ {Human (Homo sapiens) [Tax	2e-12
d2a5ja1	173	c.37.1.8 (A:9-181) Rab2b {Human (Homo sapiens) [Ta	3e-12
d2fn4a1	173	c.37.1.8 (A:24-196) r-Ras {Human (Homo sapiens) [T	7e-12
d1z08a1	167	c.37.1.8 (A:17-183) Rab21 {Human (Homo sapiens) [T	1e-11
d1kmqa_	177	c.37.1.8 (A:) RhoA {Human (Homo sapiens) [TaxId: 9	3e-11
d1ctqa_	166	c.37.1.8 (A:) cH-p21 Ras protein {Human (Homo sapi	5e-11
d2ngra_	191	c.37.1.8 (A:) CDC42 {Human (Homo sapiens) [TaxId:	5e-11
d1r2qa_	170	c.37.1.8 (A:) Rab5a {Human (Homo sapiens) [TaxId:	6e-11
d1c1ya_	167	c.37.1.8 (A:) Rap1A {Human (Homo sapiens) [TaxId:	7e-11
d1kaoa_	167	c.37.1.8 (A:) Rap2a {Human (Homo sapiens) [TaxId:	8e-11
d2erxa1	171	c.37.1.8 (A:6-176) di-Ras2 {Human (Homo sapiens) [	1e-10
d2atva1	168	c.37.1.8 (A:5-172) Ras-like estrogen-regulated gro	1e-10
d1u8za_	168	c.37.1.8 (A:) Ras-related protein RalA {Cotton-top	3e-10
d1i2ma_	170	c.37.1.8 (A:) Ran {Human (Homo sapiens) [TaxId: 96	5e-10
d1mh1a_	183	c.37.1.8 (A:) Rac {Human (Homo sapiens) [TaxId: 96	6e-10
d1z0ja1	167	c.37.1.8 (A:2-168) Rab-22a {Mouse (Mus musculus) [	7e-10
d1xtqa1	167	c.37.1.8 (A:3-169) GTP-binding protein RheB {Human	1e-09
d2erya1	171	c.37.1.8 (A:10-180) r-Ras2 {Human (Homo sapiens) [	1e-09
d1x1ra1	169	c.37.1.8 (A:10-178) Ras-related protein M-Ras (XRa	1e-09
d2g3ya1	172	c.37.1.8 (A:73-244) GTP-binding protein GEM {Human	3e-09
d1m7ba_	179	c.37.1.8 (A:) RhoE (RND3) {Mouse (Mus musculus) [T	3e-09
d1ek0a_	170	c.37.1.8 (A:) Ypt51 {Baker's yeast (Saccharomyces	4e-09
d1z2aa1	164	c.37.1.8 (A:8-171) Rab23 {Mouse (Mus musculus) [Ta	6e-09
d2bcjq2	200	c.37.1.8 (Q:38-66,Q:184-354) Transducin (alpha sub	8e-09
d1azta2	221	c.37.1.8 (A:35-65,A:202-391) Transducin (alpha sub	1e-08
d2bmja1	175	c.37.1.8 (A:66-240) Centaurin gamma 1, G domain {H	4e-08
d1r8sa_	160	c.37.1.8 (A:) ADP-ribosylation factor {Human (Homo	6e-08
d2gjsa1	168	c.37.1.8 (A:91-258) Rad {Human (Homo sapiens) [Tax	2e-07
d1moza_	182	c.37.1.8 (A:) ADP-ribosylation factor {Baker's yea	2e-07
d1fzqa_	176	c.37.1.8 (A:) ADP-ribosylation factor {Mouse (Mus	2e-07
d1zcba2	200	c.37.1.8 (A:47-75,A:202-372) Transducin (alpha sub	4e-07
d1zd9a1	164	c.37.1.8 (A:18-181) ADP-ribosylation factor {Human	1e-06
d2fh5b1	207	c.37.1.8 (B:63-269) Signal recognition particle re	1e-06
d1e0sa_	173	c.37.1.8 (A:) ADP-ribosylation factor {Human (Homo	2e-06
d2qtvb1	166	c.37.1.8 (B:24-189) SAR1 {Baker's yeast (Saccharom	7e-06
d1zj6a1	177	c.37.1.8 (A:2-178) ADP-ribosylation factor {Human	1e-05
d1ksha_	165	c.37.1.8 (A:) ADP-ribosylation factor {Mouse (Mus	1e-05
d1upta_	169	c.37.1.8 (A:) ADP-ribosylation factor {Human (Homo	1e-05
d1f6ba_	186	c.37.1.8 (A:) SAR1 {Chinese hamster (Cricetulus gr	3e-05
d1svsa1	195	c.37.1.8 (A:32-60,A:182-347) Transducin (alpha sub	9e-05
d1nrjb_	209	c.37.1.8 (B:) Signal recognition particle receptor	0.002
d1puia_	188	c.37.1.8 (A:) Probable GTPase EngB {Escherichia co	0.003
d2gj8a1	161	c.37.1.8 (A:216-376) Probable tRNA modification GT	0.004

>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 = 76.4 bits (187), Expect = 4e-19
 Identities = 29/61 (47%), Positives = 42/61 (68%), Gaps = 1/61 (1%)

Query: 70  LFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAG 129
           LFK+++IG+  VGKT  V+R+ Q  F      T+GVDF +K V+  + +K+KLQ+WD AG
Sbjct: 5   LFKIVLIGNAGVGKTCLVRRFTQGLFPPGQGATIGVDFMIKTVEI-NGEKVKLQIWDTAG 63

Query: 130 Q 130
           Q
Sbjct: 64  Q 64

>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 = 76.0 bits (186), Expect = 4e-19
 Identities = 25/61 (40%), Positives = 41/61 (67%), Gaps = 1/61 (1%)

Query: 70  LFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAG 129
           + K+++IGD  VGK+  + R+V++ F   +  T+G+DF +K V     +K+KLQ+WD AG
Sbjct: 2   IMKILLIGDSGVGKSCLLVRFVEDKFNPSFITTIGIDFKIKTVDING-KKVKLQIWDTAG 60

Query: 130 Q 130
           Q
Sbjct: 61  Q 61

>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 = 75.2 bits (184), Expect = 9e-19
 Identities = 26/61 (42%), Positives = 43/61 (70%), Gaps = 1/61 (1%)

Query: 70  LFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAG 129
           LFK+++IGD  VGKT  + R+ ++ F   +  T+G+DF ++ ++  D ++IKLQ+WD AG
Sbjct: 6   LFKLLLIGDSGVGKTCVLFRFSEDAFNSTFISTIGIDFKIRTIEL-DGKRIKLQIWDTAG 64

Query: 130 Q 130
           Q
Sbjct: 65  Q 65

>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 = 72.6 bits (177), Expect = 2e-17
 Identities = 27/61 (44%), Positives = 42/61 (68%), Gaps = 1/61 (1%)

Query: 70  LFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAG 129
           LFK+++IG+  VGK+  + R+  +T+  DY  T+GVDF +K V+    + +KLQ+WD AG
Sbjct: 6   LFKLLLIGNSGVGKSCLLLRFSDDTYTNDYISTIGVDFKIKTVELD-GKTVKLQIWDTAG 64

Query: 130 Q 130
           Q
Sbjct: 65  Q 65

>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 = 69.9 bits (170), Expect = 1e-16
 Identities = 29/61 (47%), Positives = 47/61 (77%), Gaps = 1/61 (1%)

Query: 70  LFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAG 129
           +FK+++IG+ +VGKTSF+ RY  ++F   +  TVG+DF +K + +R+ ++IKLQ+WD AG
Sbjct: 5   MFKILIIGNSSVGKTSFLFRYADDSFTPAFVSTVGIDFKVKTI-YRNDKRIKLQIWDTAG 63

Query: 130 Q 130
           Q
Sbjct: 64  Q 64

>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 = 68.4 bits (166), Expect = 6e-16
 Identities = 30/70 (42%), Positives = 39/70 (55%), Gaps = 9/70 (12%)

Query: 70  LFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQ---------KI 120
           L K++ +GD  VGKT+F+ RY  N F   +  TVG+DF  K V +  Q          K+
Sbjct: 5   LIKLLALGDSGVGKTTFLYRYTDNKFNPKFITTVGIDFREKRVVYNAQGPNGSSGKAFKV 64

Query: 121 KLQLWDIAGQ 130
            LQLWD AGQ
Sbjct: 65  HLQLWDTAGQ 74

>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 = 66.9 bits (162), Expect = 2e-15
 Identities = 25/61 (40%), Positives = 39/61 (63%), Gaps = 1/61 (1%)

Query: 70  LFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAG 129
           LFK +VIG+   GK+  + ++++  FK D   T+GV+F  KI+     + +KLQ+WD AG
Sbjct: 5   LFKFLVIGNAGTGKSCLLHQFIEKKFKDDSNHTIGVEFGSKIINV-GGKYVKLQIWDTAG 63

Query: 130 Q 130
           Q
Sbjct: 64  Q 64

>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 = 66.0 bits (160), Expect = 3e-15
 Identities = 25/60 (41%), Positives = 38/60 (63%), Gaps = 1/60 (1%)

Query: 71  FKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQ 130
            K+++IG+  VGK+S + R+  +TF  +   T+GVDF +K +   D  K KL +WD AGQ
Sbjct: 8   LKILIIGESGVGKSSLLLRFTDDTFDPELAATIGVDFKVKTISV-DGNKAKLAIWDTAGQ 66

>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 = 64.7 bits (156), Expect = 1e-14
 Identities = 27/61 (44%), Positives = 38/61 (62%)

Query: 70  LFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAG 129
           + KVI++GD  VGKTS + RYV + + + YK T+G DF  K V     +   +Q+WD AG
Sbjct: 2   ILKVIILGDSGVGKTSLMHRYVNDKYSQQYKATIGADFLTKEVTVDGDKVATMQVWDTAG 61

Query: 130 Q 130
           Q
Sbjct: 62  Q 62

>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 = 64.1 bits (155), Expect = 2e-14
 Identities = 26/62 (41%), Positives = 37/62 (59%), Gaps = 2/62 (3%)

Query: 70  LFKVIVIGDPTVGKTSFVQRYVQNTFKKD-YKGTVGVDFALKIVKWRDQQKIKLQLWDIA 128
            FKV+++GD  VGKT  + R+    F    +  TVG+DF  K++      K+KLQ+WD A
Sbjct: 6   AFKVMLVGDSGVGKTCLLVRFKDGAFLAGTFISTVGIDFRNKVLDVDG-VKVKLQMWDTA 64

Query: 129 GQ 130
           GQ
Sbjct: 65  GQ 66

>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 = 61.5 bits (148), Expect = 2e-13
 Identities = 27/64 (42%), Positives = 38/64 (59%), Gaps = 1/64 (1%)

Query: 68  EKLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDI 127
             LFKVI++GD  VGK+S + RYV N F      T+GV+F  K ++      + +Q+WD 
Sbjct: 4   SSLFKVILLGDGGVGKSSLMNRYVTNKFDTQLFHTIGVEFLNKDLEVDGHF-VTMQIWDT 62

Query: 128 AGQN 131
           AGQ 
Sbjct: 63  AGQE 66

>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 = 60.7 bits (146), Expect = 3e-13
 Identities = 27/61 (44%), Positives = 40/61 (65%), Gaps = 1/61 (1%)

Query: 70  LFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAG 129
           +FK I+IGD  VGK+  + ++ +  F  D   T+GV+F  +I++    QKIKLQ+WD AG
Sbjct: 4   IFKYIIIGDMGVGKSCLLHQFTEKKFMADCPHTIGVEFGTRIIEV-SGQKIKLQIWDTAG 62

Query: 130 Q 130
           Q
Sbjct: 63  Q 63

>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 = 60.5 bits (145), Expect = 6e-13
 Identities = 29/62 (46%), Positives = 38/62 (61%), Gaps = 1/62 (1%)

Query: 70  LFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAG 129
           L KVI++GD  VGKTS + +YV   F   YK T+G DF  K V   D+  + +Q+WD AG
Sbjct: 2   LLKVIILGDSGVGKTSLMNQYVNKKFSNQYKATIGADFLTKEVMVDDRL-VTMQIWDTAG 60

Query: 130 QN 131
           Q 
Sbjct: 61  QE 62

>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 = 59.9 bits (144), Expect = 7e-13
 Identities = 28/61 (45%), Positives = 43/61 (70%), Gaps = 1/61 (1%)

Query: 70  LFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAG 129
           LFKV++IGD  VGK++ + R+ +N F  + K T+GV+FA + ++  D + IK Q+WD AG
Sbjct: 4   LFKVVLIGDSGVGKSNLLSRFTRNEFNLESKSTIGVEFATRSIQV-DGKTIKAQIWDTAG 62

Query: 130 Q 130
           Q
Sbjct: 63  Q 63

>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 = 58.9 bits (141), Expect = 1e-12
 Identities = 28/62 (45%), Positives = 38/62 (61%), Gaps = 1/62 (1%)

Query: 69  KLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIA 128
           ++FK+IVIGD  VGKT    R+    F    + T+GVDF  +     D ++IK+QLWD A
Sbjct: 1   RIFKIIVIGDSNVGKTCLTYRFCAGRFPDRTEATIGVDFR-ERAVDIDGERIKIQLWDTA 59

Query: 129 GQ 130
           GQ
Sbjct: 60  GQ 61

>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 = 58.4 bits (140), Expect = 2e-12
 Identities = 24/60 (40%), Positives = 41/60 (68%), Gaps = 1/60 (1%)

Query: 71  FKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQ 130
           FK++ +G+ +VGKTS + R++ ++F   Y+ T+G+DF      + + + I+LQLWD AGQ
Sbjct: 1   FKLVFLGEQSVGKTSLITRFMYDSFDNTYQATIGIDFL-SKTMYLEDRTIRLQLWDTAGQ 59

>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 = 58.8 bits (141), Expect = 2e-12
 Identities = 17/55 (30%), Positives = 26/55 (47%), Gaps = 1/55 (1%)

Query: 64  NAPPEKLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQ 118
           + P   + K +V+GD  VGKT  +  Y  + F ++Y  TV  D     V    +Q
Sbjct: 3   HGPGALMLKCVVVGDGAVGKTCLLMSYANDAFPEEYVPTV-FDHYAVSVTVGGKQ 56

>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 = 58.0 bits (139), Expect = 3e-12
 Identities = 25/62 (40%), Positives = 38/62 (61%), Gaps = 1/62 (1%)

Query: 70  LFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAG 129
           LFK I+IGD  VGK+  + ++    F+  +  T+GV+F    +   D ++IKLQ+WD AG
Sbjct: 3   LFKYIIIGDTGVGKSCLLLQFTDKRFQPVHDLTIGVEFG-ARMVNIDGKQIKLQIWDTAG 61

Query: 130 QN 131
           Q 
Sbjct: 62  QE 63

>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 = 57.4 bits (137), Expect = 7e-12
 Identities = 16/60 (26%), Positives = 26/60 (43%), Gaps = 1/60 (1%)

Query: 66  PPEKLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLW 125
           PP +  K++V+G   VGK++   +++Q+ F  DY      D   KI            L 
Sbjct: 2   PPSETHKLVVVGGGGVGKSALTIQFIQSYFVSDYD-PTIEDSYTKICSVDGIPARLDILD 60

>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 = 56.5 bits (135), Expect = 1e-11
 Identities = 24/62 (38%), Positives = 36/62 (58%), Gaps = 1/62 (1%)

Query: 70  LFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAG 129
            FKV+++G+  VGKTS V RY +N F   +  T+G  F  K +    ++ + L +WD AG
Sbjct: 3   SFKVVLLGEGCVGKTSLVLRYCENKFNDKHITTLGASFLTKKLNIGGKR-VNLAIWDTAG 61

Query: 130 QN 131
           Q 
Sbjct: 62  QE 63

>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 = 55.8 bits (133), Expect = 3e-11
 Identities = 17/60 (28%), Positives = 31/60 (51%), Gaps = 2/60 (3%)

Query: 71  FKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQ 130
            K++++GD   GKT  +    ++ F + Y  TV  ++        D ++++L LWD AG 
Sbjct: 3   KKLVIVGDGACGKTCLLIVNSKDQFPEVYVPTVFENY--VADIEVDGKQVELALWDTAGL 60

>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 = 55.0 bits (131), Expect = 5e-11
 Identities = 17/61 (27%), Positives = 32/61 (52%), Gaps = 2/61 (3%)

Query: 71  FKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQ 130
           +K++V+G   VGK++   + +QN F  +Y  T+   +  ++V     +   L + D AGQ
Sbjct: 4   YKLVVVGAGGVGKSALTIQLIQNHFVDEYDPTIEDSYRKQVVID--GETCLLDILDTAGQ 61

Query: 131 N 131
            
Sbjct: 62  E 62

>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 = 55.0 bits (131), Expect = 5e-11
 Identities = 16/58 (27%), Positives = 28/58 (48%)

Query: 69  KLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWD 126
           +  K +V+GD  VGKT  +  Y  N F  +Y  TV  ++A+ ++   +   + L    
Sbjct: 2   QTIKCVVVGDGAVGKTCLLISYTTNKFPSEYVPTVFDNYAVTVMIGGEPYTLGLFDTA 59

>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 = 54.6 bits (130), Expect = 6e-11
 Identities = 21/60 (35%), Positives = 35/60 (58%), Gaps = 1/60 (1%)

Query: 71  FKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQ 130
           FK++++G+  VGK+S V R+V+  F +  + T+G  F        D   +K ++WD AGQ
Sbjct: 7   FKLVLLGESAVGKSSLVLRFVKGQFHEFQESTIGAAFL-TQTVCLDDTTVKFEIWDTAGQ 65

>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 = 54.6 bits (130), Expect = 7e-11
 Identities = 16/63 (25%), Positives = 33/63 (52%), Gaps = 2/63 (3%)

Query: 69  KLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIA 128
           + +K++V+G   VGK++   ++VQ  F + Y  T+   +  ++      Q+  L++ D A
Sbjct: 2   REYKLVVLGSGGVGKSALTVQFVQGIFVEKYDPTIEDSYRKQVEVD--CQQCMLEILDTA 59

Query: 129 GQN 131
           G  
Sbjct: 60  GTE 62

>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 = 54.5 bits (130), Expect = 8e-11
 Identities = 17/63 (26%), Positives = 31/63 (49%), Gaps = 2/63 (3%)

Query: 69  KLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIA 128
           + +KV+V+G   VGK++   ++V  TF + Y  T+   +  +     D     L++ D A
Sbjct: 2   REYKVVVLGSGGVGKSALTVQFVTGTFIEKYDPTIEDFY--RKEIEVDSSPSVLEILDTA 59

Query: 129 GQN 131
           G  
Sbjct: 60  GTE 62

>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 = 54.2 bits (129), Expect = 1e-10
 Identities = 16/55 (29%), Positives = 28/55 (50%)

Query: 71  FKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLW 125
           ++V V G   VGK+S V R+V+ TF++ Y  TV   +   I   +    +++   
Sbjct: 3   YRVAVFGAGGVGKSSLVLRFVKGTFRESYIPTVEDTYRQVISCDKSICTLQITDT 57

>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 = 53.9 bits (128), Expect = 1e-10
 Identities = 11/55 (20%), Positives = 26/55 (47%), Gaps = 2/55 (3%)

Query: 71  FKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLW 125
            K+ + G   VGK++ V R++   F  +Y  T+   +  +     D + + +++ 
Sbjct: 3   VKLAIFGRAGVGKSALVVRFLTKRFIWEYDPTLESTY--RHQATIDDEVVSMEIL 55

>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 = 53.0 bits (126), Expect = 3e-10
 Identities = 12/38 (31%), Positives = 23/38 (60%)

Query: 70  LFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDF 107
           L KVI++G   VGK++   +++ + F +DY+ T    +
Sbjct: 4   LHKVIMVGSGGVGKSALTLQFMYDEFVEDYEPTKADSY 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 = 52.3 bits (124), Expect = 5e-10
 Identities = 16/48 (33%), Positives = 28/48 (58%)

Query: 71  FKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQ 118
           FK++++GD   GKT+FV+R++   F+K Y  T+GV+    +       
Sbjct: 4   FKLVLVGDGGTGKTTFVKRHLTGEFEKKYVATLGVEVHPLVFHTNRGP 51

>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 = 52.3 bits (124), Expect = 6e-10
 Identities = 22/63 (34%), Positives = 31/63 (49%), Gaps = 2/63 (3%)

Query: 68  EKLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDI 127
            +  K +V+GD  VGKT  +  Y  N F  +Y  TV  ++        D + + L LWD 
Sbjct: 3   PQAIKCVVVGDGAVGKTCLLISYTTNAFPGEYIPTVFDNY--SANVMVDGKPVNLGLWDT 60

Query: 128 AGQ 130
           AGQ
Sbjct: 61  AGQ 63

>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 = 51.9 bits (123), Expect = 7e-10
 Identities = 20/62 (32%), Positives = 37/62 (59%), Gaps = 1/62 (1%)

Query: 69  KLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIA 128
           +  KV ++GD  VGK+S + R+V+++F  +   T+G  F  K V+++++      +WD A
Sbjct: 3   RELKVCLLGDTGVGKSSIMWRFVEDSFDPNINPTIGASFMTKTVQYQNELHKF-LIWDTA 61

Query: 129 GQ 130
           G 
Sbjct: 62  GL 63

>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 = 51.3 bits (121), Expect = 1e-09
 Identities = 21/62 (33%), Positives = 32/62 (51%), Gaps = 2/62 (3%)

Query: 69  KLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIA 128
           K  K+ ++G  +VGK+S   ++V+  F   Y  T+   F   I    + Q+  LQL D A
Sbjct: 3   KSRKIAILGYRSVGKSSLTIQFVEGQFVDSYDPTIENTFTKLI--TVNGQEYHLQLVDTA 60

Query: 129 GQ 130
           GQ
Sbjct: 61  GQ 62

>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 = 51.2 bits (121), Expect = 1e-09
 Identities = 11/55 (20%), Positives = 28/55 (50%)

Query: 71  FKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLW 125
           ++++V+G   VGK++   +++Q+ F  DY  T+   +  + V      ++ +   
Sbjct: 6   YRLVVVGGGGVGKSALTIQFIQSYFVTDYDPTIEDSYTKQCVIDDRAARLDILDT 60

>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 = 51.2 bits (121), Expect = 1e-09
 Identities = 19/60 (31%), Positives = 30/60 (50%), Gaps = 2/60 (3%)

Query: 71  FKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQ 130
           +K++V+GD  VGK++   ++ Q  F  DY  T+   +        D Q   L + D AGQ
Sbjct: 5   YKLVVVGDGGVGKSALTIQFFQKIFVPDYDPTIEDSY--LKHTEIDNQWAILDVLDTAGQ 62

>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 = 50.1 bits (118), Expect = 3e-09
 Identities = 10/56 (17%), Positives = 22/56 (39%)

Query: 70  LFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLW 125
            ++V++IG+  VGK++    +       D    V  +   +     D +   + L 
Sbjct: 3   YYRVVLIGEQGVGKSTLANIFAGVHDSMDSDCEVLGEDTYERTLMVDGESATIILL 58

>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 = 50.0 bits (118), Expect = 3e-09
 Identities = 11/36 (30%), Positives = 23/36 (63%)

Query: 72  KVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDF 107
           K++V+GD   GKT+ +  + ++ F ++Y  TV  ++
Sbjct: 4   KIVVVGDSQCGKTALLHVFAKDCFPENYVPTVFENY 39

>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 = 50.1 bits (118), Expect = 4e-09
 Identities = 20/59 (33%), Positives = 36/59 (61%), Gaps = 1/59 (1%)

Query: 72  KVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQ 130
           K++++G+  VGK+S V R+V N F ++ + T+G  F        ++  +K ++WD AGQ
Sbjct: 5   KLVLLGEAAVGKSSIVLRFVSNDFAENKEPTIGAAFL-TQRVTINEHTVKFEIWDTAGQ 62

>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 = 49.3 bits (116), Expect = 6e-09
 Identities = 28/60 (46%), Positives = 42/60 (70%), Gaps = 1/60 (1%)

Query: 72  KVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQN 131
           K++V+G+  VGK+S +QRY +  F KDYK T+GVDF  + ++  D+  ++L LWD AGQ 
Sbjct: 4   KMVVVGNGAVGKSSMIQRYCKGIFTKDYKKTIGVDFLERQIQVNDED-VRLMLWDTAGQE 62

>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 = 49.6 bits (117), Expect = 8e-09
 Identities = 7/59 (11%), Positives = 23/59 (38%), Gaps = 2/59 (3%)

Query: 69  KLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDI 127
           +  K++++G    GK++F+++            T G+      ++    + + +     
Sbjct: 1   RELKLLLLGTGESGKSTFIKQMRIIHG--SGVPTTGIIEYPFDLQSVIFRMVDVGGQRS 57

>d1azta2 c.37.1.8 (A:35-65,A:202-391) Transducin (alpha subunit) {Cow (Bos taurus) [TaxId: 9913]} Length = 221

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Transducin (alpha subunit)
species: Cow (Bos taurus) [TaxId: 9913]

 Score = 49.4 bits (117), Expect = 1e-08
 Identities = 10/64 (15%), Positives = 24/64 (37%), Gaps = 9/64 (14%)

Query: 68  EKLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDI 127
               +++++G    GK++ V++            T G+             K+   ++D+
Sbjct: 4   RATHRLLLLGAGESGKSTIVKQMRILHVVL----TSGIF-----ETKFQVDKVNFHMFDV 54

Query: 128 AGQN 131
            GQ 
Sbjct: 55  GGQR 58

>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 = 47.3 bits (111), Expect = 4e-08
 Identities = 12/58 (20%), Positives = 25/58 (43%), Gaps = 3/58 (5%)

Query: 71  FKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIA 128
            ++ V+GD   GK+S + R++  +++   K         K     D Q   + + + A
Sbjct: 6   LRLGVLGDARSGKSSLIHRFLTGSYQVLEKTE---SEQYKKEMLVDGQTHLVLIREEA 60

>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 = 46.6 bits (109), Expect = 6e-08
 Identities = 10/59 (16%), Positives = 22/59 (37%), Gaps = 6/59 (10%)

Query: 72  KVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQ 130
           +++++G    GKT+ + +            T        +      + I   +WD+ GQ
Sbjct: 2   RILMVGLDAAGKTTILYKLKLGEI-----VTTIPTIGFNVETVE-YKNISFTVWDVGGQ 54

>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 = 45.1 bits (105), Expect = 2e-07
 Identities = 9/55 (16%), Positives = 23/55 (41%)

Query: 71  FKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLW 125
           +KV+++G P VGK++  + +       + +          +V   +   +   +W
Sbjct: 2   YKVLLLGAPGVGKSALARIFGGVEDGPEAEAAGHTYDRSIVVDGEEASLMVYDIW 56

>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 = 45.4 bits (106), Expect = 2e-07
 Identities = 13/61 (21%), Positives = 27/61 (44%), Gaps = 6/61 (9%)

Query: 68  EKLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDI 127
            K  +++++G    GKT+ + R          K T+G +      +    + +KL +WD+
Sbjct: 15  NKELRILILGLDGAGKTTILYRLQIGEV-VTTKPTIGFNV-----ETLSYKNLKLNVWDL 68

Query: 128 A 128
            
Sbjct: 69  G 69

>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 = 44.9 bits (105), Expect = 2e-07
 Identities = 7/45 (15%), Positives = 20/45 (44%)

Query: 58  SIRKSFNAPPEKLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGT 102
           SI +   + P++  +++++G    GKT+ +++             
Sbjct: 4   SILRKLKSAPDQEVRILLLGLDNAGKTTLLKQLASEDISHITPTQ 48

>d1zcba2 c.37.1.8 (A:47-75,A:202-372) Transducin (alpha subunit) {Mouse (Mus musculus) [TaxId: 10090]} Length = 200

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Transducin (alpha subunit)
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 44.9 bits (105), Expect = 4e-07
 Identities = 11/63 (17%), Positives = 28/63 (44%), Gaps = 8/63 (12%)

Query: 69  KLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIA 128
           +L K++++G    GK++F+++            T G+          + + +  ++ D+ 
Sbjct: 1   RLVKILLLGAGESGKSTFLKQM---RIIHGQDPTKGIH-----EYDFEIKNVPFKMVDVG 52

Query: 129 GQN 131
           GQ 
Sbjct: 53  GQR 55

>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 = 1e-06
 Identities = 11/48 (22%), Positives = 19/48 (39%)

Query: 71  FKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQ 118
            ++ ++G    GKT+FV       F +D   TVG +           +
Sbjct: 3   MELTLVGLQYSGKTTFVNVIASGQFNEDMIPTVGFNMRKITKGNVTIK 50

>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 = 43.5 bits (101), Expect = 1e-06
 Identities = 9/54 (16%), Positives = 18/54 (33%), Gaps = 1/54 (1%)

Query: 72  KVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLW 125
            V+ +G    GKT    R +   ++     ++    A+  V       + L   
Sbjct: 2   AVLFVGLCDSGKTLLFVRLLTGQYRDTQT-SITDSSAIYKVNNNRGNSLTLIDL 54

>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 = 42.2 bits (98), Expect = 2e-06
 Identities = 11/62 (17%), Positives = 24/62 (38%), Gaps = 6/62 (9%)

Query: 69  KLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIA 128
           K  +++++G    GKT+ + +                      V+    + +K  +WD+ 
Sbjct: 11  KEMRILMLGLDAAGKTTILYKLKLGQSVTTIPTVG------FNVETVTYKNVKFNVWDVG 64

Query: 129 GQ 130
           GQ
Sbjct: 65  GQ 66

>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 = 41.2 bits (95), Expect = 7e-06
 Identities = 6/56 (10%), Positives = 15/56 (26%), Gaps = 5/56 (8%)

Query: 72  KVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDI 127
           K++ +G    GKT+ +     +        T+   +     +              
Sbjct: 2   KLLFLGLDNAGKTTLLHMLKNDRLA-----TLQPTWHPTSEELAIGNIKFTTFDLG 52

>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 = 40.8 bits (94), Expect = 1e-05
 Identities = 12/60 (20%), Positives = 22/60 (36%), Gaps = 6/60 (10%)

Query: 69  KLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIA 128
           +  KVI++G    GKT+ + ++  N                  V+       +  +WDI 
Sbjct: 14  QEHKVIIVGLDNAGKTTILYQFSMNEVVHTS------PTIGSNVEEIVINNTRFLMWDIG 67

>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 = 40.4 bits (93), Expect = 1e-05
 Identities = 12/62 (19%), Positives = 29/62 (46%), Gaps = 6/62 (9%)

Query: 69  KLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIA 128
           +  +++++G    GKT+ ++++           T+        +K  + +  KL +WD+ 
Sbjct: 1   RELRLLMLGLDNAGKTTILKKFNGEDVD-----TISPTLG-FNIKTLEHRGFKLNIWDVG 54

Query: 129 GQ 130
           GQ
Sbjct: 55  GQ 56

>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 = 40.5 bits (93), Expect = 1e-05
 Identities = 5/27 (18%), Positives = 13/27 (48%)

Query: 69 KLFKVIVIGDPTVGKTSFVQRYVQNTF 95
          +  +++++G    GKT+ + R      
Sbjct: 4  REMRILILGLDGAGKTTILYRLQVGEV 30

>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 = 39.7 bits (91), Expect = 3e-05
 Identities = 6/32 (18%), Positives = 14/32 (43%)

Query: 68 EKLFKVIVIGDPTVGKTSFVQRYVQNTFKKDY 99
          +K  K++ +G    GKT+ +     +   +  
Sbjct: 11 KKTGKLVFLGLDNAGKTTLLHMLKDDRLGQHV 42

>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 = 38.0 bits (87), Expect = 9e-05
 Identities = 8/49 (16%), Positives = 17/49 (34%)

Query: 69  KLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQ 117
           +  K++++G    GK++ V++                 F     K  D 
Sbjct: 1   REVKLLLLGAGESGKSTIVKQMKIIHEAGTGIVETHFTFKDLHFKMFDV 49

>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 = 34.2 bits (77), Expect = 0.002
 Identities = 9/46 (19%), Positives = 16/46 (34%), Gaps = 4/46 (8%)

Query: 73  VIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQ 118
           +I+ G    GKTS +     ++     + TV     L    +    
Sbjct: 6   IIIAGPQNSGKTSLLTLLTTDSV----RPTVVSQEPLSAADYDGSG 47

>d1puia_ c.37.1.8 (A:) Probable GTPase EngB {Escherichia coli [TaxId: 562]} Length = 188

class: 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]

 Score = 33.6 bits (75), Expect = 0.003
 Identities = 9/59 (15%), Positives = 20/59 (33%)

Query: 64  NAPPEKLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKL 122
           + P +   +V   G    GK+S +              T G    + + +  D +++  
Sbjct: 10  HLPSDTGIEVAFAGRSNAGKSSALNTLTNQKSLARTSKTPGRTQLINLFEVADGKRLVD 68

>d2gj8a1 c.37.1.8 (A:216-376) Probable tRNA modification GTPase TrmE (MnmE), G domain {Escherichia coli [TaxId: 562]} Length = 161

class: 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]

 Score = 33.2 bits (74), Expect = 0.004
 Identities = 7/22 (31%), Positives = 11/22 (50%)

Query: 71 FKVIVIGDPTVGKTSFVQRYVQ 92
           KV++ G P  GK+S +     
Sbjct: 2  MKVVIAGRPNAGKSSLLNALAG 23

Homologous Domains Detected by HHsearch

Original result of HHsearch against SCOP70(version1.75) database

ID	Length	Definition	Probability
Query	131
d2ew1a1	171	Rab30 {Human (Homo sapiens) [TaxId: 9606]}	99.73
d1g16a_	166	Rab-related protein Sec4 {Baker's yeast (Saccharom	99.72
d3raba_	169	Rab3a {Rat (Rattus norvegicus) [TaxId: 10116]}	99.72
d2atva1	168	Ras-like estrogen-regulated growth inhibitor, RERG	99.71
d1ek0a_	170	Ypt51 {Baker's yeast (Saccharomyces cerevisiae) [T	99.71
d1puja_	273	Probable GTPase YlqF {Bacillus subtilis [TaxId: 14	99.7
d1z0fa1	166	Rab14 {Human (Homo sapiens) [TaxId: 9606]}	99.7
d2bcgy1	194	GTPase Ytp1 {Baker's yeast (Saccharomyces cerevisi	99.7
d2g6ba1	170	Rab26 {Human (Homo sapiens) [TaxId: 9606]}	99.69
d1z08a1	167	Rab21 {Human (Homo sapiens) [TaxId: 9606]}	99.69
d2fu5c1	173	Rab8a {Mouse (Mus musculus) [TaxId: 10090]}	99.69
d1xtqa1	167	GTP-binding protein RheB {Human (Homo sapiens) [Ta	99.68
d1i2ma_	170	Ran {Human (Homo sapiens) [TaxId: 9606]}	99.68
d2fn4a1	173	r-Ras {Human (Homo sapiens) [TaxId: 9606]}	99.68
d2atxa1	185	RhoQ {Human (Homo sapiens) [TaxId: 9606]}	99.67
d2bmea1	174	Rab4a {Human (Homo sapiens) [TaxId: 9606]}	99.67
d2erxa1	171	di-Ras2 {Human (Homo sapiens) [TaxId: 9606]}	99.67
d1yzqa1	164	Rab6 {Human (Homo sapiens) [TaxId: 9606]}	99.67
d1u8za_	168	Ras-related protein RalA {Cotton-top tamarin (Sagu	99.66
d1z2aa1	164	Rab23 {Mouse (Mus musculus) [TaxId: 10090]}	99.66
d1x3sa1	177	Rab18 {Human (Homo sapiens) [TaxId: 9606]}	99.66
d1kaoa_	167	Rap2a {Human (Homo sapiens) [TaxId: 9606]}	99.65
d2ngra_	191	CDC42 {Human (Homo sapiens) [TaxId: 9606]}	99.65
d1c1ya_	167	Rap1A {Human (Homo sapiens) [TaxId: 9606]}	99.65
d1kmqa_	177	RhoA {Human (Homo sapiens) [TaxId: 9606]}	99.65
d1z0ja1	167	Rab-22a {Mouse (Mus musculus) [TaxId: 10090]}	99.65
d2f9la1	175	Rab11b {Human (Homo sapiens) [TaxId: 9606]}	99.65
d1mh1a_	183	Rac {Human (Homo sapiens) [TaxId: 9606]}	99.65
d1r2qa_	170	Rab5a {Human (Homo sapiens) [TaxId: 9606]}	99.63
d2erya1	171	r-Ras2 {Human (Homo sapiens) [TaxId: 9606]}	99.63
d1x1ra1	169	Ras-related protein M-Ras (XRas) {Mouse (Mus muscu	99.63
d1m7ba_	179	RhoE (RND3) {Mouse (Mus musculus) [TaxId: 10090]}	99.62
d1wmsa_	174	Rab9a {Human (Homo sapiens) [TaxId: 9606]}	99.61
d1ctqa_	166	cH-p21 Ras protein {Human (Homo sapiens) [TaxId: 9	99.6
d2a5ja1	173	Rab2b {Human (Homo sapiens) [TaxId: 9606]}	99.59
d1vg8a_	184	Rab7 {Rat (Rattus norvegicus) [TaxId: 10116]}	99.59
d2gjsa1	168	Rad {Human (Homo sapiens) [TaxId: 9606]}	99.59
d2bmja1	175	Centaurin gamma 1, G domain {Human (Homo sapiens)	99.58
d1ky3a_	175	Rab-related protein ypt7p {Baker's yeast (Saccharo	99.56
d2f7sa1	186	Rab27b {Human (Homo sapiens) [TaxId: 9606]}	99.55
d1zd9a1	164	ADP-ribosylation factor {Human (Homo sapiens), ARL	99.53
d1u0la2	225	Probable GTPase EngC (YjeQ), C-terminal domain {Th	99.49
d2bcjq2	200	Transducin (alpha subunit) {Mouse (Mus musculus) [	99.48
d1z06a1	165	Rab-33b {Mouse (Mus musculus) [TaxId: 10090]}	99.48
d1ksha_	165	ADP-ribosylation factor {Mouse (Mus musculus), ARL	99.45
d1zcba2	200	Transducin (alpha subunit) {Mouse (Mus musculus) [	99.43
d1svsa1	195	Transducin (alpha subunit) {Rat (Rattus norvegicus	99.42
d1t9ha2	231	Probable GTPase EngC (YjeQ), C-terminal domain {Ba	99.42
d2g3ya1	172	GTP-binding protein GEM {Human (Homo sapiens) [Tax	99.38
d1fzqa_	176	ADP-ribosylation factor {Mouse (Mus musculus), ARL	99.36
d1r8sa_	160	ADP-ribosylation factor {Human (Homo sapiens), ARF	99.33
d1moza_	182	ADP-ribosylation factor {Baker's yeast (Saccharomy	99.31
d1e0sa_	173	ADP-ribosylation factor {Human (Homo sapiens), ARF	99.3
d1azta2	221	Transducin (alpha subunit) {Cow (Bos taurus) [TaxI	99.24
d2fh5b1	207	Signal recognition particle receptor beta-subunit	99.21
d1upta_	169	ADP-ribosylation factor {Human (Homo sapiens), ARL	99.11
d1nrjb_	209	Signal recognition particle receptor beta-subunit	99.1
d1wf3a1	178	GTPase Era, N-terminal domain {Thermus thermophilu	99.09
d2qtvb1	166	SAR1 {Baker's yeast (Saccharomyces cerevisiae) [Ta	99.09
d2gj8a1	161	Probable tRNA modification GTPase TrmE (MnmE), G d	99.07
d1xzpa2	160	TrmE GTPase domain {Thermotoga maritima [TaxId: 23	99.04
d1zj6a1	177	ADP-ribosylation factor {Human (Homo sapiens), ARL	99.01
d1udxa2	180	Obg GTP-binding protein middle domain {Thermus the	99.0
d1lnza2	185	Obg GTP-binding protein middle domain {Bacillus su	98.96
d1f6ba_	186	SAR1 {Chinese hamster (Cricetulus griseus) [TaxId:	98.93
d2cxxa1	184	GTP-binding protein engB {Pyrococcus horikoshii [T	98.9
d1h65a_	257	Chloroplast protein translocon GTPase Toc34 {Garde	98.86
d1mkya2	186	Probable GTPase Der, N-terminal and middle domains	98.77
d1mkya1	171	Probable GTPase Der, N-terminal and middle domains	98.75
d1tq4a_	400	Interferon-inducible GTPase {Mouse (Mus musculus)	98.69
d1puia_	188	Probable GTPase EngB {Escherichia coli [TaxId: 562	98.53
d1egaa1	179	GTPase Era, N-terminal domain {Escherichia coli [T	98.52
d1wb1a4	179	Elongation factor SelB, N-terminal domain {Methano	98.49
d1wxqa1	319	GTP-binding protein PH0525 {Pyrococcus horikoshii	98.47
d1svia_	195	Probable GTPase EngB {Bacillus subtilis [TaxId: 14	98.32
d1jala1	278	YchF GTP-binding protein N-terminal domain {Haemop	98.3
d1g7sa4	227	Initiation factor IF2/eIF5b, N-terminal (G) domain	98.28
d2c78a3	204	Elongation factor Tu (EF-Tu), N-terminal (G) domai	98.21
d2gj8a1	161	Probable tRNA modification GTPase TrmE (MnmE), G d	98.17
d1mkya1	171	Probable GTPase Der, N-terminal and middle domains	98.17
d1ni3a1	296	YchF GTP-binding protein N-terminal domain {Fissio	98.15
d1lnza2	185	Obg GTP-binding protein middle domain {Bacillus su	98.1
d1wf3a1	178	GTPase Era, N-terminal domain {Thermus thermophilu	98.07
d1kk1a3	195	Initiation factor eIF2 gamma subunit, N-terminal (	97.99
d1wb1a4	179	Elongation factor SelB, N-terminal domain {Methano	97.98
d1d2ea3	196	Elongation factor Tu (EF-Tu), N-terminal (G) domai	97.96
d1udxa2	180	Obg GTP-binding protein middle domain {Thermus the	97.85
d2cxxa1	184	GTP-binding protein engB {Pyrococcus horikoshii [T	97.79
d1zunb3	222	Sulfate adenylate transferase subunit cysN/C, EF-T	97.72
d1ye8a1	178	Hypothetical kinase-like protein Aq_1292 {Aquifex	97.69
d1svia_	195	Probable GTPase EngB {Bacillus subtilis [TaxId: 14	97.58
d2dy1a2	267	Elongation factor G (EF-G), N-terminal (G) domain	97.58
d1f60a3	239	Elongation factor eEF-1alpha, N-terminal (G) domai	97.55
d1egaa1	179	GTPase Era, N-terminal domain {Escherichia coli [T	97.52
d2bv3a2	276	Elongation factor G (EF-G), N-terminal (G) domain	97.5
d1y63a_	174	Probable kinase LmjF30.1890 {Leishmania major [Tax	97.5
d2qn6a3	205	Initiation factor eIF2 gamma subunit, N-terminal (	97.49
d1lw7a2	192	Transcriptional regulator NadR, ribosylnicotinamid	97.42
d2akab1	299	Dynamin G domain {Rat (Rattus norvegicus) [TaxId:	97.41
d1f5na2	277	Interferon-induced guanylate-binding protein 1 (GB	97.38
d2qn6a3	205	Initiation factor eIF2 gamma subunit, N-terminal (	97.37
d1jnya3	224	Elongation factor eEF-1alpha, N-terminal (G) domai	97.33
d1rkba_	173	Adenylate kinase {Human (Homo sapiens), isoenzyme	97.33
d1fzqa_	176	ADP-ribosylation factor {Mouse (Mus musculus), ARL	97.32
d1g7sa4	227	Initiation factor IF2/eIF5b, N-terminal (G) domain	97.23
d1np6a_	170	Molybdopterin-guanine dinucleotide biosynthesis pr	97.23
d1ctqa_	166	cH-p21 Ras protein {Human (Homo sapiens) [TaxId: 9	97.21
d1ky3a_	175	Rab-related protein ypt7p {Baker's yeast (Saccharo	97.19
d1kk1a3	195	Initiation factor eIF2 gamma subunit, N-terminal (	97.19
d1n0ua2	341	Elongation factor 2 (eEF-2), N-terminal (G) domain	97.16
d1ksha_	165	ADP-ribosylation factor {Mouse (Mus musculus), ARL	97.15
d1zina1	182	Adenylate kinase {Bacillus stearothermophilus [Tax	97.14
d2ak3a1	189	Adenylate kinase {Cow (Bos taurus), mitochondrial	97.13
d1jwyb_	306	Dynamin G domain {Dictyostelium discoideum [TaxId:	97.13
d2f9la1	175	Rab11b {Human (Homo sapiens) [TaxId: 9606]}	97.11
d1ak2a1	190	Adenylate kinase {Cow (Bos taurus), mitochondrial	97.1
d1s3ga1	182	Adenylate kinase {Bacillus globisporus [TaxId: 145	97.08
d1kaoa_	167	Rap2a {Human (Homo sapiens) [TaxId: 9606]}	97.07
d1vg8a_	184	Rab7 {Rat (Rattus norvegicus) [TaxId: 10116]}	97.06
d1mkya2	186	Probable GTPase Der, N-terminal and middle domains	97.06
d1z2aa1	164	Rab23 {Mouse (Mus musculus) [TaxId: 10090]}	97.05
d2cdna1	181	Adenylate kinase {Mycobacterium tuberculosis [TaxI	97.04
d1ly1a_	152	Polynucleotide kinase, kinase domain {Bacteriophag	97.04
d1wmsa_	174	Rab9a {Human (Homo sapiens) [TaxId: 9606]}	97.04
d1xjca_	165	Molybdopterin-guanine dinucleotide biosynthesis pr	97.02
d1moza_	182	ADP-ribosylation factor {Baker's yeast (Saccharomy	97.0
d1zj6a1	177	ADP-ribosylation factor {Human (Homo sapiens), ARL	97.0
d2bdta1	176	Hypothetical protein BH3686 {Bacillus halodurans [	96.99
d1kaga_	169	Shikimate kinase (AroK) {Escherichia coli [TaxId:	96.99
d1yzqa1	164	Rab6 {Human (Homo sapiens) [TaxId: 9606]}	96.99
d1akya1	180	Adenylate kinase {Baker's yeast (Saccharomyces cer	96.97
d1bifa1	213	6-phosphofructo-2-kinase/fructose-2,6-bisphosphata	96.96
d1e4va1	179	Adenylate kinase {Escherichia coli [TaxId: 562]}	96.94
d1e0sa_	173	ADP-ribosylation factor {Human (Homo sapiens), ARF	96.94
d1zaka1	189	Adenylate kinase {Maize (Zea mays) [TaxId: 4577]}	96.93
d1z0ja1	167	Rab-22a {Mouse (Mus musculus) [TaxId: 10090]}	96.93
d1i2ma_	170	Ran {Human (Homo sapiens) [TaxId: 9606]}	96.93
d2i3ba1	189	Cancer-related NTPase, C1orf57 {Human (Homo sapien	96.93
d1r5ba3	245	Eukaryotic peptide chain release factor ERF2, G do	96.91
d1u8za_	168	Ras-related protein RalA {Cotton-top tamarin (Sagu	96.9
d1qf9a_	194	UMP/CMP kinase {Dictyostelium discoideum [TaxId: 4	96.88
d2erxa1	171	di-Ras2 {Human (Homo sapiens) [TaxId: 9606]}	96.88
d2g3ya1	172	GTP-binding protein GEM {Human (Homo sapiens) [Tax	96.82
d2fn4a1	173	r-Ras {Human (Homo sapiens) [TaxId: 9606]}	96.81
d2gjsa1	168	Rad {Human (Homo sapiens) [TaxId: 9606]}	96.8
d1yj5a2	172	5' polynucleotide kinase-3' phosphatase, C-termina	96.8
d1nksa_	194	Adenylate kinase {Archaeon Sulfolobus acidocaldari	96.79
d1m8pa3	183	ATP sulfurylase C-terminal domain {Fungus (Penicil	96.76
d2p67a1	327	LAO/AO transport system kinase ArgK {Escherichia c	96.74
d1jbka_	195	ClpB, AAA+ modules {Escherichia coli [TaxId: 562]}	96.74
d1yrba1	244	ATP(GTP)-binding protein PAB0955 {Pyrococcus abyss	96.73
d2iyva1	165	Shikimate kinase (AroK) {Mycobacterium tuberculosi	96.7
d1gkya_	186	Guanylate kinase {Baker's yeast (Saccharomyces cer	96.69
d1zd9a1	164	ADP-ribosylation factor {Human (Homo sapiens), ARL	96.68
d2a5ja1	173	Rab2b {Human (Homo sapiens) [TaxId: 9606]}	96.67
d1r6bx2	268	ClpA, an Hsp100 chaperone, AAA+ modules {Escherich	96.66
d1r2qa_	170	Rab5a {Human (Homo sapiens) [TaxId: 9606]}	96.62
d2erya1	171	r-Ras2 {Human (Homo sapiens) [TaxId: 9606]}	96.58
d1gvnb_	273	Plasmid maintenance system epsilon/zeta, toxin zet	96.57
d1viaa_	161	Shikimate kinase (AroK) {Campylobacter jejuni [Tax	96.56
d1znwa1	182	Guanylate kinase {Mycobacterium tuberculosis [TaxI	96.56
d1khta_	190	Adenylate kinase {Archaeon Methanococcus voltae [T	96.56
d1xzpa2	160	TrmE GTPase domain {Thermotoga maritima [TaxId: 23	96.54
d1knqa_	171	Gluconate kinase {Escherichia coli [TaxId: 562]}	96.54
d2ew1a1	171	Rab30 {Human (Homo sapiens) [TaxId: 9606]}	96.53
d1teva_	194	UMP/CMP kinase {Human (Homo sapiens) [TaxId: 9606]	96.51
d1kgda_	178	Guanylate kinase-like domain of Cask {Human (Homo	96.51
d2bmea1	174	Rab4a {Human (Homo sapiens) [TaxId: 9606]}	96.48
d1zp6a1	176	Hypothetical protein Atu3015 {Agrobacterium tumefa	96.48
d1s96a_	205	Guanylate kinase {Escherichia coli [TaxId: 562]}	96.47
d2f7sa1	186	Rab27b {Human (Homo sapiens) [TaxId: 9606]}	96.43
d1lvga_	190	Guanylate kinase {Mouse (Mus musculus) [TaxId: 100	96.42
d1c1ya_	167	Rap1A {Human (Homo sapiens) [TaxId: 9606]}	96.4
d2qm8a1	323	Metallochaperone MeaB {Methylobacterium extorquens	96.39
d1z0fa1	166	Rab14 {Human (Homo sapiens) [TaxId: 9606]}	96.38
d1qhxa_	178	Chloramphenicol phosphotransferase {Streptomyces v	96.38
d1ixsb2	239	Holliday junction helicase RuvB {Thermus thermophi	96.35
d1e6ca_	170	Shikimate kinase (AroK) {Erwinia chrysanthemi [Tax	96.35
d2pmka1	241	Haemolysin B ATP-binding protein {Escherichia coli	96.32
d3raba_	169	Rab3a {Rat (Rattus norvegicus) [TaxId: 10116]}	96.3
d1in4a2	238	Holliday junction helicase RuvB {Thermotoga mariti	96.29
d1x1ra1	169	Ras-related protein M-Ras (XRas) {Mouse (Mus muscu	96.28
d2fnaa2	283	Archaeal ATPase SSO1545 {Sulfolobus solfataricus [	96.27
d1r8sa_	160	ADP-ribosylation factor {Human (Homo sapiens), ARF	96.26
d1mh1a_	183	Rac {Human (Homo sapiens) [TaxId: 9606]}	96.24
d3b60a1	253	Multidrug resistance ABC transporter MsbA, C-termi	96.23
d1mv5a_	242	Multidrug resistance ABC transporter LmrA, C-termi	96.22
d2atva1	168	Ras-like estrogen-regulated growth inhibitor, RERG	96.19
d1xtqa1	167	GTP-binding protein RheB {Human (Homo sapiens) [Ta	96.19
d1l2ta_	230	MJ0796 {Archaeon Methanococcus jannaschii [TaxId:	96.17
d1jj7a_	251	Peptide transporter Tap1, C-terminal ABC domain {H	96.15
d1kmqa_	177	RhoA {Human (Homo sapiens) [TaxId: 9606]}	96.15
d2bcgy1	194	GTPase Ytp1 {Baker's yeast (Saccharomyces cerevisi	96.14
d3adka_	194	Adenylate kinase {Pig (Sus scrofa) [TaxId: 9823]}	96.11
d2awna2	232	Maltose transport protein MalK, N-terminal domain	96.1
d1upta_	169	ADP-ribosylation factor {Human (Homo sapiens), ARL	96.09
d1x6va3	195	Adenosine-5'phosphosulfate kinase (APS kinase) {Hu	96.09
d1sgwa_	200	Putative ABC transporter PF0895 {Pyrococcus furios	96.07
d1ukza_	196	Uridylate kinase {Baker's yeast (Saccharomyces cer	96.06
d1r0wa_	281	Cystic fibrosis transmembrane conductance regulato	96.05
d2hyda1	255	Putative multidrug export ATP-binding/permease pro	96.05
d1puia_	188	Probable GTPase EngB {Escherichia coli [TaxId: 562	96.05
d2onka1	240	Molybdate/tungstate import ATP-binding protein Wtp	96.01
d1rz3a_	198	Hypothetical protein rbstp0775 {Bacillus stearothe	95.99
d1ofha_	309	HslU {Haemophilus influenzae [TaxId: 727]}	95.99
d1fnna2	276	CDC6, N-domain {Archaeon Pyrobaculum aerophilum [T	95.94
d2atxa1	185	RhoQ {Human (Homo sapiens) [TaxId: 9606]}	95.92
d1q3ta_	223	CMP kinase {Streptococcus pneumoniae [TaxId: 1313]	95.91
d1v43a3	239	Hypothetical protein PH0022, N-terminal domain {Py	95.91
d1qvra2	387	ClpB, AAA+ modules {Thermus thermophilus [TaxId: 2	95.84
d3dhwc1	240	Methionine import ATP-binding protein MetN {Escher	95.78
d1d2na_	246	Hexamerization domain of N-ethylmalemide-sensitive	95.77
d1vmaa2	213	GTPase domain of the signal recognition particle r	95.76
d1g2912	240	Maltose transport protein MalK, N-terminal domain	95.73
d1sxja2	253	Replication factor C1 {Baker's yeast (Saccharomyce	95.72
d1iqpa2	231	Replication factor C {Archaeon Pyrococcus furiosus	95.71
d1w5sa2	287	CDC6-like protein APE0152, N-terminal domain {Aero	95.67
d1z06a1	165	Rab-33b {Mouse (Mus musculus) [TaxId: 10090]}	95.65
d1l7vc_	231	ABC transporter involved in vitamin B12 uptake, Bt	95.64
d1z08a1	167	Rab21 {Human (Homo sapiens) [TaxId: 9606]}	95.6
d3d31a2	229	Sulfate/molybdate ABC transporter, ATP-binding pro	95.59
d1j8yf2	211	GTPase domain of the signal sequence recognition p	95.52
d1sxje2	252	Replication factor C5 {Baker's yeast (Saccharomyce	95.47
d1ji0a_	240	Branched chain aminoacid ABC transporter {Thermoto	95.46
d2vp4a1	197	Deoxyribonucleoside kinase {Fruit fly (Drosophila	95.45
d1n0wa_	242	DNA repair protein Rad51, catalytic domain {Human	95.4
d1vpla_	238	Putative ABC transporter TM0544 {Thermotoga mariti	95.37
d2g6ba1	170	Rab26 {Human (Homo sapiens) [TaxId: 9606]}	95.35
d1okkd2	207	GTPase domain of the signal recognition particle r	95.31
d1ixza_	247	AAA domain of cell division protein FtsH {Thermus	95.31
d1b0ua_	258	ATP-binding subunit of the histidine permease {Sal	95.3
d2qy9a2	211	GTPase domain of the signal recognition particle r	95.28
d1sxjd2	237	Replication factor C2 {Baker's yeast (Saccharomyce	95.27
d1sxjb2	224	Replication factor C4 {Baker's yeast (Saccharomyce	95.26
d1d2ea3	196	Elongation factor Tu (EF-Tu), N-terminal (G) domai	95.25
d1x3sa1	177	Rab18 {Human (Homo sapiens) [TaxId: 9606]}	95.19
d1m7ga_	208	Adenosine-5'phosphosulfate kinase (APS kinase) {Fu	95.19
d1r5ba3	245	Eukaryotic peptide chain release factor ERF2, G do	95.16
d1ls1a2	207	GTPase domain of the signal sequence recognition p	95.14
d1pzna2	254	DNA repair protein Rad51, catalytic domain {Archae	95.14
d2qtvb1	166	SAR1 {Baker's yeast (Saccharomyces cerevisiae) [Ta	95.14
d1g6ha_	254	MJ1267 {Archaeon Methanococcus jannaschii [TaxId:	95.13
d1g41a_	443	HslU {Haemophilus influenzae [TaxId: 727]}	95.08
d1sxjc2	227	Replication factor C3 {Baker's yeast (Saccharomyce	95.07
d2ngra_	191	CDC42 {Human (Homo sapiens) [TaxId: 9606]}	95.06
d1g6oa_	323	Hexameric traffic ATPase, HP0525 {Helicobacter pyl	95.06
d2fu5c1	173	Rab8a {Mouse (Mus musculus) [TaxId: 10090]}	95.05
d1uj2a_	213	Uridine-cytidine kinase 2 {Human (Homo sapiens) [T	95.01
d1lv7a_	256	AAA domain of cell division protein FtsH {Escheric	95.01
d1oxxk2	242	Glucose transport protein GlcV, N-terminal domain	95.0
d1ckea_	225	CMP kinase {Escherichia coli [TaxId: 562]}	94.99
d1ek0a_	170	Ypt51 {Baker's yeast (Saccharomyces cerevisiae) [T	94.98
d1szpa2	251	DNA repair protein Rad51, catalytic domain {Baker'	94.97
d1g8pa_	333	ATPase subunit of magnesium chelatase, BchI {Rhodo	94.96
d1e32a2	258	Membrane fusion ATPase VCP/p97 {Mouse (Mus musculu	94.94
d1nija1	222	Hypothetical protein YjiA, N-terminal domain {Esch	94.93
g1f2t.1	292	Rad50 {Archaeon Pyrococcus furiosus [TaxId: 2261]}	94.76
d1yrba1	244	ATP(GTP)-binding protein PAB0955 {Pyrococcus abyss	94.76
d2a5yb3	277	CED-4, NB-ARC domain {Caenorhabditis elegans [TaxI	94.74
d1gsia_	208	Thymidylate kinase {Mycobacterium tuberculosis [Ta	94.71
d1kkma_	176	HPr kinase HprK C-terminal domain {Lactobacillus c	94.66
d1tf7a2	242	Circadian clock protein KaiC {Synechococcus sp. st	94.64
d2i1qa2	258	DNA repair protein Rad51, catalytic domain {Archae	94.57
d1uf9a_	191	Dephospho-CoA kinase {Thermus thermophilus [TaxId:	94.54
d1f6ba_	186	SAR1 {Chinese hamster (Cricetulus griseus) [TaxId:	94.54
d1jnya3	224	Elongation factor eEF-1alpha, N-terminal (G) domai	94.43
d1v5wa_	258	Meiotic recombination protein DMC1/LIM15 homolog {	94.37
d1r7ra3	265	Membrane fusion ATPase VCP/p97 {Mouse (Mus musculu	94.35
d1um8a_	364	ClpX {Helicobacter pylori [TaxId: 210]}	94.28
d1htwa_	158	Hypothetical protein HI0065 {Haemophilus influenza	94.28
d1knxa2	177	HPr kinase HprK C-terminal domain {Mycoplasma pneu	94.16
d1svma_	362	Papillomavirus large T antigen helicase domain {Si	93.97
d1tf7a1	242	Circadian clock protein KaiC {Synechococcus sp. st	93.93
d1ko7a2	169	HPr kinase HprK C-terminal domain {Staphylococcus	93.88
d1r6bx3	315	ClpA, an Hsp100 chaperone, AAA+ modules {Escherich	93.87
d1l8qa2	213	Chromosomal replication initiation factor DnaA {Aq	93.77
d1p5zb_	241	Deoxycytidine kinase {Human (Homo sapiens) [TaxId:	93.7
d1e69a_	308	Smc head domain {Thermotoga maritima [TaxId: 2336]	93.57
d1w44a_	321	NTPase P4 {Bacteriophage phi-12 [TaxId: 161736]}	93.52
g1xew.1	329	Smc head domain {Pyrococcus furiosus [TaxId: 2261]	93.43
d4tmka_	210	Thymidylate kinase {Escherichia coli [TaxId: 562]}	93.34
g1ii8.1	369	Rad50 {Archaeon Pyrococcus furiosus [TaxId: 2261]}	93.32
d1zunb3	222	Sulfate adenylate transferase subunit cysN/C, EF-T	93.13
d1vhta_	208	Dephospho-CoA kinase {Escherichia coli [TaxId: 562	93.07
d1sq5a_	308	Pantothenate kinase PanK {Escherichia coli [TaxId:	93.03
d1a7ja_	288	Phosphoribulokinase {Rhodobacter sphaeroides [TaxI	92.97
d1nlfa_	274	Hexameric replicative helicase repA {Escherichia c	92.86
d1g16a_	166	Rab-related protein Sec4 {Baker's yeast (Saccharom	92.79
d1cr2a_	277	Gene 4 protein (g4p, DNA primase), helicase domain	92.78
d1a5ta2	207	delta prime subunit of DNA polymerase III, N-domai	92.77
d1osna_	331	Thymidine kinase {Varicella-zoster virus [TaxId: 1	92.71
d1qhla_	222	Cell division protein MukB {Escherichia coli [TaxI	92.59
d1njfa_	239	delta prime subunit of DNA polymerase III, N-domai	92.55
d1jjva_	205	Dephospho-CoA kinase {Haemophilus influenzae [TaxI	92.5
d1nn5a_	209	Thymidylate kinase {Human (Homo sapiens) [TaxId: 9	92.34
d1zcba2	200	Transducin (alpha subunit) {Mouse (Mus musculus) [	91.68
d2ocpa1	241	Deoxyguanosine kinase {Human (Homo sapiens) [TaxId	91.62
d1m7ba_	179	RhoE (RND3) {Mouse (Mus musculus) [TaxId: 10090]}	91.38
d2qm8a1	323	Metallochaperone MeaB {Methylobacterium extorquens	91.31
d1uaaa1	306	DEXX box DNA helicase {Escherichia coli, RepD [Tax	91.05
d1w1wa_	427	Smc head domain {Baker's yeast (Saccharomyces cere	91.01
d1xpua3	289	Transcription termination factor Rho, ATPase domai	90.88
d1tuea_	205	Replication protein E1 helicase domain {Human papi	90.87
d1pjra1	318	DEXX box DNA helicase {Bacillus stearothermophilus	90.75
d1p9ra_	401	Extracellular secretion NTPase EpsE {Vibrio choler	90.72
d1e9ra_	433	Bacterial conjugative coupling protein TrwB {Esche	90.65
d2p67a1	327	LAO/AO transport system kinase ArgK {Escherichia c	90.64
d1nrjb_	209	Signal recognition particle receptor beta-subunit	90.53
d1p6xa_	333	Thymidine kinase {Equine herpesvirus type 4 [TaxId	90.43
d1qvra3	315	ClpB, AAA+ modules {Thermus thermophilus [TaxId: 2	90.29
d1odfa_	286	Hypothetical protein Ygr205W {Baker's yeast (Sacch	90.2
d1tmka_	214	Thymidylate kinase {Baker's yeast (Saccharomyces c	90.16
d1cp2a_	269	Nitrogenase iron protein {Clostridium pasteurianum	90.12
d2fh5b1	207	Signal recognition particle receptor beta-subunit	90.02
d2bmja1	175	Centaurin gamma 1, G domain {Human (Homo sapiens)	89.54
d1e2ka_	329	Thymidine kinase {Herpes simplex virus type 1, dif	88.93
d1deka_	241	Deoxynucleoside monophosphate kinase {Bacteriophag	88.77
d2jdid3	276	Central domain of beta subunit of F1 ATP synthase	88.28
d1byia_	224	Dethiobiotin synthetase {Escherichia coli [TaxId:	88.24
d1ihua1	296	Arsenite-translocating ATPase ArsA {Escherichia co	87.92
d1f60a3	239	Elongation factor eEF-1alpha, N-terminal (G) domai	87.57
d2afhe1	289	Nitrogenase iron protein {Azotobacter vinelandii [	87.48
d1u94a1	263	RecA protein, ATPase-domain {Escherichia coli [Tax	86.97
d1ihua2	279	Arsenite-translocating ATPase ArsA {Escherichia co	86.91
d1w36d1	359	Exodeoxyribonuclease V alpha chain (RecD) {Escheri	86.84
d1u0ja_	267	Rep 40 protein helicase domain {Adeno-associated v	86.67
d1a1va1	136	HCV helicase domain {Human hepatitis C virus (HCV)	84.58
d1ny5a2	247	Transcriptional activator sigm54 (NtrC1), C-termin	84.24
d1g8fa3	122	ATP sulfurylase C-terminal domain {Baker's yeast (	84.1
d2jdia3	285	Central domain of alpha subunit of F1 ATP synthase	81.34

>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=99.73  E-value=5.4e-18  Score=111.70  Aligned_cols=63  Identities=46%  Similarity=0.841  Sum_probs=58.7

Q ss_pred             ceeeEEEEEcCCCCCchhhhhhhhhCcCCCCccCCceeEeEEEEEEecCCeEEEEEEEeCCCCC
Q psy10878         68 EKLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQN  131 (131)
Q Consensus        68 ~~~~ki~vvG~~~vGKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gqe  131 (131)
                      .+.+||+++|++|||||||+++|+++.|...+.++++.++..+.+.+ ++..+.+++|||+|||
T Consensus         3 ~~~~Ki~lvG~~~vGKTsLi~~l~~~~f~~~~~~~~~~~~~~~~~~~-~~~~~~l~i~Dt~G~e   65 (171)
T d2ew1a1           3 DFLFKIVLIGNAGVGKTCLVRRFTQGLFPPGQGATIGVDFMIKTVEI-NGEKVKLQIWDTAGQE   65 (171)
T ss_dssp             SEEEEEEEEESTTSSHHHHHHHHHHSSCCTTCCCCCSEEEEEEEEEE-TTEEEEEEEEEECCSG
T ss_pred             CEEEEEEEECCCCcCHHHHHHHHHhCCCCCcccccccceEEEEEEEE-CCEEEEEEEEECCCch
Confidence            46799999999999999999999999999899999999998899988 8899999999999986

>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=99.72  E-value=2.7e-18  Score=112.57  Aligned_cols=61  Identities=41%  Similarity=0.877  Sum_probs=50.6

Q ss_pred             eeEEEEEcCCCCCchhhhhhhhhCcCCCCccCCceeEeEEEEEEecCCeEEEEEEEeCCCCC
Q psy10878         70 LFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQN  131 (131)
Q Consensus        70 ~~ki~vvG~~~vGKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gqe  131 (131)
                      -+||+++|++|||||||+++|+++++...+.||++.++....+.+ ++..+.+.+|||||||
T Consensus         2 ~~Ki~vvG~~~vGKTSli~~l~~~~~~~~~~~t~~~~~~~~~i~~-~~~~~~~~i~Dt~G~~   62 (166)
T d1g16a_           2 IMKILLIGDSGVGKSCLLVRFVEDKFNPSFITTIGIDFKIKTVDI-NGKKVKLQIWDTAGQE   62 (166)
T ss_dssp             EEEEEEEESTTSSHHHHHHHHHHCCCCC-------CCEEEEEEES-SSCEEEEEEECCTTGG
T ss_pred             EEEEEEECCCCcCHHHHHHHHHhCCCCCccCCccceeEEEEEEEE-CCEEEEEEEEECCCch
Confidence            479999999999999999999999999999999999998899987 8889999999999986

>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=99.72  E-value=1.2e-17  Score=109.87  Aligned_cols=63  Identities=44%  Similarity=0.921  Sum_probs=58.0

Q ss_pred             ceeeEEEEEcCCCCCchhhhhhhhhCcCCCCccCCceeEeEEEEEEecCCeEEEEEEEeCCCCC
Q psy10878         68 EKLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQN  131 (131)
Q Consensus        68 ~~~~ki~vvG~~~vGKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gqe  131 (131)
                      .+.+||+++|++|||||||+++|.+++|...+.++.+.++....+.. ++..+.+++|||||||
T Consensus         3 ~~~~Ki~vvG~~~vGKTsLi~~l~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~l~~wDt~G~e   65 (169)
T d3raba_           3 DYMFKILIIGNSSVGKTSFLFRYADDSFTPAFVSTVGIDFKVKTIYR-NDKRIKLQIWDTAGQE   65 (169)
T ss_dssp             SEEEEEEEECSTTSSHHHHHHHHHHSCCCSSCCCCCSEEEEEEEEEE-TTEEEEEEEEEECCSG
T ss_pred             CeEEEEEEECCCCcCHHHHHHHHHcCCCCcccccccccceeeEEEEe-ecceEEEEEEECCCch
Confidence            46799999999999999999999999999899999998888888887 8888999999999986

>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=99.71  E-value=2.3e-17  Score=108.52  Aligned_cols=60  Identities=25%  Similarity=0.487  Sum_probs=54.0

Q ss_pred             eeEEEEEcCCCCCchhhhhhhhhCcCCCCccCCceeEeEEEEEEecCCeEEEEEEEeCCCCC
Q psy10878         70 LFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQN  131 (131)
Q Consensus        70 ~~ki~vvG~~~vGKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gqe  131 (131)
                      .+||+++|++|||||||++||+++.|...|.||++.+|.. .+.. ++..+.+++|||+|++
T Consensus         2 eiKi~lvG~~~vGKTsli~r~~~~~f~~~~~pTi~~~~~~-~~~~-~~~~~~l~i~D~~g~~   61 (168)
T d2atva1           2 EVKLAIFGRAGVGKSALVVRFLTKRFIWEYDPTLESTYRH-QATI-DDEVVSMEILDTAGQE   61 (168)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHHSCCCSCCCTTCCEEEEE-EEEE-TTEEEEEEEEECCCCC
T ss_pred             cEEEEEECCCCCCHHHHHHHHHhCCCCCccCCceeccccc-cccc-cccceEEEEeeccccc
Confidence            5799999999999999999999999999999999988854 4445 8899999999999985

>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=99.71  E-value=1.7e-17  Score=109.11  Aligned_cols=61  Identities=34%  Similarity=0.724  Sum_probs=57.5

Q ss_pred             eeEEEEEcCCCCCchhhhhhhhhCcCCCCccCCceeEeEEEEEEecCCeEEEEEEEeCCCCC
Q psy10878         70 LFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQN  131 (131)
Q Consensus        70 ~~ki~vvG~~~vGKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gqe  131 (131)
                      .+||+++|++|||||||++||.+++|...+.||.+.++..+.+.. ++..+.+++|||+|++
T Consensus         3 ~iKi~vvG~~~vGKTsLi~~~~~~~f~~~~~~t~~~~~~~~~i~~-~~~~~~l~i~d~~g~~   63 (170)
T d1ek0a_           3 SIKLVLLGEAAVGKSSIVLRFVSNDFAENKEPTIGAAFLTQRVTI-NEHTVKFEIWDTAGQE   63 (170)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHSCCCTTCCCCSSEEEEEEEEEE-TTEEEEEEEEEECCSG
T ss_pred             EEEEEEECCCCcCHHHHHHHHHhCCCCccccccccceeecccccc-ccccccccccccCCch
Confidence            589999999999999999999999999999999999998888887 8999999999999985

>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=99.70  E-value=8.6e-19  Score=123.99  Aligned_cols=119  Identities=20%  Similarity=0.326  Sum_probs=74.7

Q ss_pred             CCcEEeeccCCCcccccccc---ccc----CCCCccccccCCcccccccccccccccCCCcccCCCCCCceeeEEEEEcC
Q psy10878          6 KKPILLPSASEDPSIDNWDK---ASW----ENVTPIVSEQGDGEIIEIIDPSLKLVRVPSIRKSFNAPPEKLFKVIVIGD   78 (131)
Q Consensus         6 ~kp~vlv~NK~Dl~~~~~~~---~~~----~~~~~is~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ki~vvG~   78 (131)
                      +||+++|+||+|+++.+...   ..|    ...+++|+.++.+ ...+.+.+.+.+................++++|+|.
T Consensus        42 ~Kp~IlVlNK~DLv~~~~~~~w~~~f~~~~~~~i~isa~~~~~-~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~v~vvG~  120 (273)
T d1puja_          42 NKPRIMLLNKADKADAAVTQQWKEHFENQGIRSLSINSVNGQG-LNQIVPASKEILQEKFDRMRAKGVKPRAIRALIIGI  120 (273)
T ss_dssp             SSCEEEEEECGGGSCHHHHHHHHHHHHTTTCCEEECCTTTCTT-GGGHHHHHHHHHHHHHHHHHHTTCCCCCEEEEEEES
T ss_pred             CCCeEEEEECccCCchHHHHHHHHHHHhcCCccceeecccCCC-ccccchhhhhhhhhhhhhhhhccCCCCceEEEEEec
Confidence            79999999999998764221   122    4577899999999 888777665544211111111223456789999999


Q ss_pred             CCCCchhhhhhhhhCcCCCCccCCceeEeEEEEEEecCCeEEEEEEEeCCCC
Q psy10878         79 PTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQ  130 (131)
Q Consensus        79 ~~vGKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gq  130 (131)
                      ||||||||+|++.+.... ...++.|.+-....+.. +..   +.++||||-
T Consensus       121 PNvGKSsliN~L~~~~~~-~~~~~pG~Tr~~~~i~~-~~~---~~l~DTPGi  167 (273)
T d1puja_         121 PNVGKSTLINRLAKKNIA-KTGDRPGITTSQQWVKV-GKE---LELLDTPGI  167 (273)
T ss_dssp             TTSSHHHHHHHHHTSCCC-------------CCEEE-TTT---EEEEECCCC
T ss_pred             CccchhhhhhhhhccceE-EECCcccccccceEEEC-CCC---eEEecCCCc
Confidence            999999999999976543 22344443333344444 332   789999994

>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=99.70  E-value=2.2e-17  Score=108.20  Aligned_cols=63  Identities=43%  Similarity=0.800  Sum_probs=58.0

Q ss_pred             ceeeEEEEEcCCCCCchhhhhhhhhCcCCCCccCCceeEeEEEEEEecCCeEEEEEEEeCCCCC
Q psy10878         68 EKLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQN  131 (131)
Q Consensus        68 ~~~~ki~vvG~~~vGKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gqe  131 (131)
                      .+.+||+++|+++||||||++||++++|...+.++.+.++....+.+ ++..+.+++|||+|||
T Consensus         2 ~y~~KivlvG~~~vGKTsli~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~l~i~D~~g~~   64 (166)
T d1z0fa1           2 SYIFKYIIIGDMGVGKSCLLHQFTEKKFMADCPHTIGVEFGTRIIEV-SGQKIKLQIWDTAGQE   64 (166)
T ss_dssp             SEEEEEEEECSTTSSHHHHHHHHHHSCCCSSCTTSCCCCEEEEEEEE-TTEEEEEEEEECTTGG
T ss_pred             cEEEEEEEECCCCcCHHHHHHHHHhCCCCCcccccccccceeEEEEE-CCEEEEEEEeccCCch
Confidence            35789999999999999999999999999999999998888888887 8999999999999986

>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=99.70  E-value=2.7e-17  Score=110.49  Aligned_cols=64  Identities=44%  Similarity=0.867  Sum_probs=59.0

Q ss_pred             CceeeEEEEEcCCCCCchhhhhhhhhCcCCCCccCCceeEeEEEEEEecCCeEEEEEEEeCCCCC
Q psy10878         67 PEKLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQN  131 (131)
Q Consensus        67 ~~~~~ki~vvG~~~vGKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gqe  131 (131)
                      ..+.+||+|+|++|||||||+++|.++.|...+.||.+..+....+.+ ++..+.++||||+|||
T Consensus         3 ~~~~~KivvvG~~~vGKTsli~~l~~~~~~~~~~~t~~~~~~~~~i~~-~~~~~~l~i~Dt~G~e   66 (194)
T d2bcgy1           3 YDYLFKLLLIGNSGVGKSCLLLRFSDDTYTNDYISTIGVDFKIKTVEL-DGKTVKLQIWDTAGQE   66 (194)
T ss_dssp             CSEEEEEEEEESTTSSHHHHHHHHHHCCCCTTCCCSSCCCEEEEEEEE-TTEEEEEEEECCTTTT
T ss_pred             CCEEEEEEEECCCCcCHHHHHHHHhhCCCCCCcCCccceeEEEEEEEE-eeEEEEEEEEECCCch
Confidence            456799999999999999999999999999999999999888888887 8889999999999987

>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=99.69  E-value=5e-17  Score=106.89  Aligned_cols=64  Identities=42%  Similarity=0.761  Sum_probs=54.4

Q ss_pred             CceeeEEEEEcCCCCCchhhhhhhhhCcCCCC-ccCCceeEeEEEEEEecCCeEEEEEEEeCCCCC
Q psy10878         67 PEKLFKVIVIGDPTVGKTSFVQRYVQNTFKKD-YKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQN  131 (131)
Q Consensus        67 ~~~~~ki~vvG~~~vGKSsli~~~~~~~~~~~-~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gqe  131 (131)
                      .+..+||+++|+++||||||+++|++++|... +.++++.++....+.. ++..+.++||||+|||
T Consensus         3 ~d~~fKi~vvG~~~vGKTsli~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~l~i~Dt~G~e   67 (170)
T d2g6ba1           3 YDVAFKVMLVGDSGVGKTCLLVRFKDGAFLAGTFISTVGIDFRNKVLDV-DGVKVKLQMWDTAGQE   67 (170)
T ss_dssp             CSEEEEEEEECSTTSSHHHHHHHHHHSCCCCCCCCCCCSCEEEEEEEEE-TTEEEEEEEEECCCC-
T ss_pred             CceEEEEEEECCCCcCHHHHHHHHHhCCCCcccccceeeeeeEEEEEEe-cCcEEEEEEEECCCch
Confidence            34678999999999999999999999988544 4566788887777877 8899999999999986

>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=99.69  E-value=3.9e-17  Score=107.10  Aligned_cols=62  Identities=39%  Similarity=0.700  Sum_probs=57.4

Q ss_pred             eeeEEEEEcCCCCCchhhhhhhhhCcCCCCccCCceeEeEEEEEEecCCeEEEEEEEeCCCCC
Q psy10878         69 KLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQN  131 (131)
Q Consensus        69 ~~~ki~vvG~~~vGKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gqe  131 (131)
                      +.+||+++|++|||||||++||+++.|...+.||.+.++..+.+.. ++..+.+++|||+||+
T Consensus         2 y~fKivlvG~~~vGKTsLi~r~~~~~f~~~~~~t~~~~~~~~~~~~-~~~~~~~~~~d~~g~~   63 (167)
T d1z08a1           2 YSFKVVLLGEGCVGKTSLVLRYCENKFNDKHITTLGASFLTKKLNI-GGKRVNLAIWDTAGQE   63 (167)
T ss_dssp             EEEEEEEECCTTSCHHHHHHHHHHCCCCSSCCCCCSCEEEEEEEES-SSCEEEEEEEECCCC-
T ss_pred             ceEEEEEECCCCcCHHHHHHHHHhCCCCcccccccccchheeeecc-CCccceeeeeccCCcc
Confidence            6789999999999999999999999999999999999998888887 8889999999999985

>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=99.69  E-value=1.5e-17  Score=109.77  Aligned_cols=64  Identities=41%  Similarity=0.849  Sum_probs=40.2

Q ss_pred             CceeeEEEEEcCCCCCchhhhhhhhhCcCCCCccCCceeEeEEEEEEecCCeEEEEEEEeCCCCC
Q psy10878         67 PEKLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQN  131 (131)
Q Consensus        67 ~~~~~ki~vvG~~~vGKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gqe  131 (131)
                      ..+.+||+++|+++||||||+++|+++.+...+.+|++.++..+.+.+ ++..+.+++|||+|||
T Consensus         3 ~~~~~Ki~vvG~~~vGKTsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~-~~~~~~l~i~D~~G~e   66 (173)
T d2fu5c1           3 YDYLFKLLLIGDSGVGKTCVLFRFSEDAFNSTFISTIGIDFKIRTIEL-DGKRIKLQIWDTAGQE   66 (173)
T ss_dssp             CSEEEEEEEECCCCC----------------CHHHHHCEEEEEEEEEE-TTEEEEEEEEEC----
T ss_pred             ccEEEEEEEECCCCcCHHHHHHHHHhCCCCCccCccccceEEEEEEEE-CCEEEEEEEEECCCch
Confidence            456789999999999999999999999998889999999998899988 8889999999999986

>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=99.68  E-value=8.8e-17  Score=105.32  Aligned_cols=62  Identities=34%  Similarity=0.549  Sum_probs=56.2

Q ss_pred             ceeeEEEEEcCCCCCchhhhhhhhhCcCCCCccCCceeEeEEEEEEecCCeEEEEEEEeCCCCC
Q psy10878         68 EKLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQN  131 (131)
Q Consensus        68 ~~~~ki~vvG~~~vGKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gqe  131 (131)
                      .+.+||+++|++|||||||++||+++.|...+.||++.++ .+.+.+ ++..+.+++|||+|++
T Consensus         2 ~k~~Kv~liG~~~vGKTsLl~~~~~~~f~~~~~~t~~~~~-~~~~~~-~~~~~~l~i~d~~g~~   63 (167)
T d1xtqa1           2 SKSRKIAILGYRSVGKSSLTIQFVEGQFVDSYDPTIENTF-TKLITV-NGQEYHLQLVDTAGQD   63 (167)
T ss_dssp             CEEEEEEEEESTTSSHHHHHHHHHHSCCCSCCCSSCCEEE-EEEEEE-TTEEEEEEEEECCCCC
T ss_pred             CcceEEEEECCCCcCHHHHHHHHHhCCCCcccCcceeccc-ceEEec-CcEEEEeeeccccccc
Confidence            4568999999999999999999999999999999999887 567777 8999999999999985

>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=99.68  E-value=7.4e-18  Score=111.15  Aligned_cols=62  Identities=37%  Similarity=0.704  Sum_probs=52.3

Q ss_pred             eeeEEEEEcCCCCCchhhhhhhhhCcCCCCccCCceeEeEEEEEEecCCeEEEEEEEeCCCCC
Q psy10878         69 KLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQN  131 (131)
Q Consensus        69 ~~~ki~vvG~~~vGKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gqe  131 (131)
                      -++|++++|++|||||||+++|+++.|...+.||++.++..+.+.. ++..+.+.+|||+||+
T Consensus         2 ~~~Ki~vvG~~~vGKTsli~~~~~~~f~~~~~~Ti~~~~~~~~~~~-~~~~~~l~i~D~~g~~   63 (170)
T d1i2ma_           2 VQFKLVLVGDGGTGKTTFVKRHLTGEFEKKYVATLGVEVHPLVFHT-NRGPIKFNVWDTAGQE   63 (170)
T ss_dssp             EEEEEEEEECTTSSHHHHHHTTC-----CCEEEETTEEEEEEEECB-TTCCEEEEEEECTTHH
T ss_pred             eeEEEEEECCCCcCHHHHHHHHHhCCCCcccccceecccccccccc-cccccccccccccccc
Confidence            3689999999999999999999999999999999999998888877 8889999999999974

>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=99.68  E-value=1e-16  Score=105.81  Aligned_cols=63  Identities=33%  Similarity=0.556  Sum_probs=55.6

Q ss_pred             CceeeEEEEEcCCCCCchhhhhhhhhCcCCCCccCCceeEeEEEEEEecCCeEEEEEEEeCCCCC
Q psy10878         67 PEKLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQN  131 (131)
Q Consensus        67 ~~~~~ki~vvG~~~vGKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gqe  131 (131)
                      +...+||+++|++|||||||++||++++|...+.||.. ++..+.+.+ ++..+.+.+|||+|++
T Consensus         3 ~~~~~Kv~lvG~~~vGKTsLi~r~~~~~f~~~~~~t~~-~~~~~~~~~-~~~~~~l~~~d~~g~~   65 (173)
T d2fn4a1           3 PSETHKLVVVGGGGVGKSALTIQFIQSYFVSDYDPTIE-DSYTKICSV-DGIPARLDILDTAGQE   65 (173)
T ss_dssp             SSCEEEEEEEECTTSSHHHHHHHHHHSSCCSSCCTTCC-EEEEEEEEE-TTEEEEEEEEECCCTT
T ss_pred             CCCeEEEEEECCCCcCHHHHHHHHHhCCCCcccccccc-cceeeEecc-CCeeeeeecccccccc
Confidence            55679999999999999999999999999988888866 444677887 8999999999999986

>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=99.67  E-value=6e-17  Score=108.01  Aligned_cols=63  Identities=32%  Similarity=0.467  Sum_probs=55.9

Q ss_pred             CceeeEEEEEcCCCCCchhhhhhhhhCcCCCCccCCceeEeEEEEEEecCCeEEEEEEEeCCCCC
Q psy10878         67 PEKLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQN  131 (131)
Q Consensus        67 ~~~~~ki~vvG~~~vGKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gqe  131 (131)
                      ....+||+++|++|||||||++||+.+.|...+.||++.. ..+.+.. ++..+.+++|||+|||
T Consensus         6 ~~~~~Ki~lvG~~~vGKTsLi~r~~~~~f~~~~~~Ti~~~-~~~~~~~-~~~~~~l~i~D~~g~e   68 (185)
T d2atxa1           6 GALMLKCVVVGDGAVGKTCLLMSYANDAFPEEYVPTVFDH-YAVSVTV-GGKQYLLGLYDTAGQE   68 (185)
T ss_dssp             EEEEEEEEEEECTTSSHHHHHHHHHHSSCCCSCCCSSCCC-EEEEEES-SSCEEEEEEECCCCSS
T ss_pred             CCcEEEEEEECCCCCCHHHHHHHHhhCCCCCcCCCceeee-eeEEEee-CCceEEeecccccccc
Confidence            5567899999999999999999999999999999999854 4666666 8889999999999996

>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=99.67  E-value=1.1e-16  Score=105.46  Aligned_cols=63  Identities=40%  Similarity=0.798  Sum_probs=57.4

Q ss_pred             ceeeEEEEEcCCCCCchhhhhhhhhCcCCCCccCCceeEeEEEEEEecCCeEEEEEEEeCCCCC
Q psy10878         68 EKLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQN  131 (131)
Q Consensus        68 ~~~~ki~vvG~~~vGKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gqe  131 (131)
                      .+.+||+++|++|||||||++||..++|...+.+|.+..+....+.. ++..+.+++|||+|||
T Consensus         3 ~~~~KI~lvG~~~vGKTsll~~~~~~~~~~~~~~t~~~~~~~~~~~~-~~~~~~~~i~D~~G~~   65 (174)
T d2bmea1           3 DFLFKFLVIGNAGTGKSCLLHQFIEKKFKDDSNHTIGVEFGSKIINV-GGKYVKLQIWDTAGQE   65 (174)
T ss_dssp             SEEEEEEEEESTTSSHHHHHHHHHHSSCCTTCCCCSEEEEEEEEEEE-TTEEEEEEEEEECCSG
T ss_pred             cEEEEEEEECCCCcCHHHHHHHHHhCCCCcccccccccceeeEEEEe-cCcceeEEEEECCCch
Confidence            46789999999999999999999999999999999998887777776 8889999999999985

>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=99.67  E-value=1.3e-16  Score=104.83  Aligned_cols=60  Identities=33%  Similarity=0.568  Sum_probs=53.8

Q ss_pred             eeEEEEEcCCCCCchhhhhhhhhCcCCCCccCCceeEeEEEEEEecCCeEEEEEEEeCCCCC
Q psy10878         70 LFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQN  131 (131)
Q Consensus        70 ~~ki~vvG~~~vGKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gqe  131 (131)
                      .+||+++|++|||||||++||+++.|...+.||++..+ .....+ ++..+.+.+|||+|++
T Consensus         2 ~~Ki~viG~~~vGKTsLi~r~~~~~f~~~~~~T~~~~~-~~~~~~-~~~~~~l~~~d~~g~~   61 (171)
T d2erxa1           2 DYRVAVFGAGGVGKSSLVLRFVKGTFRESYIPTVEDTY-RQVISC-DKSICTLQITDTTGSH   61 (171)
T ss_dssp             EEEEEEECCTTSSHHHHHHHHHTCCCCSSCCCCSCEEE-EEEEEE-TTEEEEEEEEECCSCS
T ss_pred             CeEEEEECCCCCCHHHHHHHHHhCCCCCccCcceeecc-ccceee-ccccceeccccccccc
Confidence            68999999999999999999999999999999999776 445566 8899999999999986

>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=99.67  E-value=7e-17  Score=105.45  Aligned_cols=60  Identities=42%  Similarity=0.898  Sum_probs=55.4

Q ss_pred             eEEEEEcCCCCCchhhhhhhhhCcCCCCccCCceeEeEEEEEEecCCeEEEEEEEeCCCCC
Q psy10878         71 FKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQN  131 (131)
Q Consensus        71 ~ki~vvG~~~vGKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gqe  131 (131)
                      |||+++|++|||||||++||.+++|...+.|+++.++....... ++..+.+.+|||+|||
T Consensus         1 fKv~vvG~~~vGKTsLi~r~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~i~d~~g~~   60 (164)
T d1yzqa1           1 FKLVFLGEQSVGKTSLITRFMYDSFDNTYQATIGIDFLSKTMYL-EDRTIRLQLWDTAGQE   60 (164)
T ss_dssp             CEEEEEESTTSSHHHHHHHHHHSCCCSSCCCCCSEEEEEEEEEC-SSCEEEEEEEEECCSG
T ss_pred             CEEEEECCCCcCHHHHHHHHHhCCCCCccccceeeeccceeecc-CCCceeeeecccCCcc
Confidence            68999999999999999999999999999999998887777776 8889999999999986

>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=99.66  E-value=1.6e-16  Score=104.46  Aligned_cols=60  Identities=32%  Similarity=0.591  Sum_probs=53.1

Q ss_pred             eeEEEEEcCCCCCchhhhhhhhhCcCCCCccCCceeEeEEEEEEecCCeEEEEEEEeCCCCC
Q psy10878         70 LFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQN  131 (131)
Q Consensus        70 ~~ki~vvG~~~vGKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gqe  131 (131)
                      .+||+++|++|||||||++||+.++|...|.||++.++. +.+.+ ++..+.+++||++|++
T Consensus         4 ~~KivlvG~~~vGKTsli~~~~~~~f~~~~~~T~~~~~~-~~~~~-~~~~~~l~i~d~~g~~   63 (168)
T d1u8za_           4 LHKVIMVGSGGVGKSALTLQFMYDEFVEDYEPTKADSYR-KKVVL-DGEEVQIDILDTAGQE   63 (168)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHSCCCSCCCTTCCEEEE-EEEEE-TTEEEEEEEEECCC--
T ss_pred             eeEEEEECCCCcCHHHHHHHHHhCCCCcccCCccccccc-ccccc-cccccccccccccccc
Confidence            579999999999999999999999999999999998874 56666 8999999999999985

>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=99.66  E-value=9.5e-17  Score=104.95  Aligned_cols=61  Identities=44%  Similarity=0.874  Sum_probs=56.2

Q ss_pred             eeEEEEEcCCCCCchhhhhhhhhCcCCCCccCCceeEeEEEEEEecCCeEEEEEEEeCCCCC
Q psy10878         70 LFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQN  131 (131)
Q Consensus        70 ~~ki~vvG~~~vGKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gqe  131 (131)
                      .+||+++|++|||||||++||..+.|...+.||++.++....... ++..+.+.+|||+|++
T Consensus         2 ~iKv~liG~~~vGKSsLi~rl~~~~~~~~~~~ti~~~~~~~~~~~-~~~~~~~~i~d~~g~~   62 (164)
T d1z2aa1           2 AIKMVVVGNGAVGKSSMIQRYCKGIFTKDYKKTIGVDFLERQIQV-NDEDVRLMLWDTAGQE   62 (164)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHCCCCCCSSCCCSSSEEEEEEEE-TTEEEEEEEECCTTGG
T ss_pred             eEEEEEECCCCcCHHHHHHHHHhCCCCcccccccccccceeeeee-cCceeeeeeeccCCcc
Confidence            479999999999999999999999999999999998888888877 8899999999999975

>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=99.66  E-value=1.4e-16  Score=105.34  Aligned_cols=62  Identities=40%  Similarity=0.802  Sum_probs=57.0

Q ss_pred             eeeEEEEEcCCCCCchhhhhhhhhCcCCCCccCCceeEeEEEEEEecCCeEEEEEEEeCCCCC
Q psy10878         69 KLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQN  131 (131)
Q Consensus        69 ~~~ki~vvG~~~vGKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gqe  131 (131)
                      ..+||+++|++|||||||+++|.+++|...+.++.+..+..+.+.+ ++..+.+.||||+|+|
T Consensus         6 ~~iKi~vvG~~~vGKTsli~~l~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~i~Dt~G~~   67 (177)
T d1x3sa1           6 TTLKILIIGESGVGKSSLLLRFTDDTFDPELAATIGVDFKVKTISV-DGNKAKLAIWDTAGQE   67 (177)
T ss_dssp             EEEEEEEECSTTSSHHHHHHHHHHSCCCTTCCCCCSEEEEEEEEEE-TTEEEEEEEEEECSSG
T ss_pred             ceeEEEEECCCCcCHHHHHHHHHhCCCCCccccceeecceeEEEEE-eccccEEEEEECCCch
Confidence            4689999999999999999999999999999999988888888887 8899999999999985

>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=99.65  E-value=2.6e-16  Score=103.06  Aligned_cols=61  Identities=30%  Similarity=0.510  Sum_probs=54.3

Q ss_pred             eeeEEEEEcCCCCCchhhhhhhhhCcCCCCccCCceeEeEEEEEEecCCeEEEEEEEeCCCCC
Q psy10878         69 KLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQN  131 (131)
Q Consensus        69 ~~~ki~vvG~~~vGKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gqe  131 (131)
                      +.+||+++|++|||||||++||+++.|...+.||++..+ .....+ ++..+.+++||++||+
T Consensus         2 k~~Ki~lvG~~~vGKTsLi~r~~~~~f~~~~~~t~~~~~-~~~~~~-~~~~~~l~~~d~~g~~   62 (167)
T d1kaoa_           2 REYKVVVLGSGGVGKSALTVQFVTGTFIEKYDPTIEDFY-RKEIEV-DSSPSVLEILDTAGTE   62 (167)
T ss_dssp             CEEEEEEECCTTSSHHHHHHHHHHSCCCSCCCTTCCEEE-EEEEEE-TTEEEEEEEEECCCTT
T ss_pred             ceeEEEEECCCCcCHHHHHHHHHhCCCCCccCCceeeee-eeeeec-CcceEeeccccCCCcc
Confidence            478999999999999999999999999999999988544 566666 8889999999999986

>d2ngra_ c.37.1.8 (A:) CDC42 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: CDC42
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.65  E-value=2.1e-16  Score=105.79  Aligned_cols=61  Identities=34%  Similarity=0.525  Sum_probs=54.1

Q ss_pred             eeeEEEEEcCCCCCchhhhhhhhhCcCCCCccCCceeEeEEEEEEecCCeEEEEEEEeCCCCC
Q psy10878         69 KLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQN  131 (131)
Q Consensus        69 ~~~ki~vvG~~~vGKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gqe  131 (131)
                      ..+||+++|++|||||||++||+.+.|...+.||++..+ ...... ++..+.+++|||+|||
T Consensus         2 ~~iKvvllG~~~vGKTSli~r~~~~~f~~~~~~t~~~~~-~~~~~~-~~~~~~l~i~D~~g~~   62 (191)
T d2ngra_           2 QTIKCVVVGDGAVGKTCLLISYTTNKFPSEYVPTVFDNY-AVTVMI-GGEPYTLGLFDTAGQE   62 (191)
T ss_dssp             EEEEEEEEESTTSSHHHHHHHHHHSCCCSSCCCCSEEEE-EEEEEE-TTEEEEEEEEEECCSG
T ss_pred             CceEEEEECCCCcCHHHHHHHHHhCCCCCCcCCceeeec-ceeEee-CCceeeeeccccccch
Confidence            468999999999999999999999999999999998655 556666 8889999999999986

>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=99.65  E-value=2e-16  Score=103.66  Aligned_cols=61  Identities=31%  Similarity=0.550  Sum_probs=54.7

Q ss_pred             eeeEEEEEcCCCCCchhhhhhhhhCcCCCCccCCceeEeEEEEEEecCCeEEEEEEEeCCCCC
Q psy10878         69 KLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQN  131 (131)
Q Consensus        69 ~~~ki~vvG~~~vGKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gqe  131 (131)
                      +.+||+++|++|||||||++||..++|...+.||++..+ ...+.. ++..+.+++||++|++
T Consensus         2 r~~KivvvG~~~vGKTsli~r~~~~~f~~~~~~t~~~~~-~~~~~~-~~~~~~~~~~d~~g~~   62 (167)
T d1c1ya_           2 REYKLVVLGSGGVGKSALTVQFVQGIFVEKYDPTIEDSY-RKQVEV-DCQQCMLEILDTAGTE   62 (167)
T ss_dssp             CEEEEEEECSTTSSHHHHHHHHHHCCCCCSCCCCSEEEE-EEEEES-SSCEEEEEEEEECSSC
T ss_pred             ceeEEEEECCCCCCHHHHHHHHHcCCCCCccCCcccccc-ceeEEe-eeeEEEeccccccCcc
Confidence            468999999999999999999999999999999999777 456666 8889999999999986

>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=99.65  E-value=2e-16  Score=104.57  Aligned_cols=60  Identities=28%  Similarity=0.516  Sum_probs=53.3

Q ss_pred             eeEEEEEcCCCCCchhhhhhhhhCcCCCCccCCceeEeEEEEEEecCCeEEEEEEEeCCCCC
Q psy10878         70 LFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQN  131 (131)
Q Consensus        70 ~~ki~vvG~~~vGKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gqe  131 (131)
                      ..||+++|++|||||||++||..+.|...+.||++..+ ...... ++..+.++||||+|||
T Consensus         2 r~KivvvG~~~vGKTsLi~~~~~~~f~~~~~~t~~~~~-~~~~~~-~~~~~~l~i~D~~g~~   61 (177)
T d1kmqa_           2 RKKLVIVGDGACGKTCLLIVNSKDQFPEVYVPTVFENY-VADIEV-DGKQVELALWDTAGLE   61 (177)
T ss_dssp             EEEEEEEESTTSSHHHHHHHHHHSCCCSSCCCCSEEEE-EEEEEE-TTEEEEEEEEEECCSG
T ss_pred             cEEEEEECCCCcCHHHHHHHHHhCCCCCCcCCceeeec-cccccc-cccceeeeccccCccc
Confidence            46999999999999999999999999999999988554 566666 8889999999999986

>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=99.65  E-value=2.6e-16  Score=103.14  Aligned_cols=62  Identities=34%  Similarity=0.681  Sum_probs=56.6

Q ss_pred             eeeEEEEEcCCCCCchhhhhhhhhCcCCCCccCCceeEeEEEEEEecCCeEEEEEEEeCCCCC
Q psy10878         69 KLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQN  131 (131)
Q Consensus        69 ~~~ki~vvG~~~vGKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gqe  131 (131)
                      +.+||+++|++|||||||++||.+++|...+.||.+..+....... ++..+.+++|||+||+
T Consensus         3 k~~Ki~lvG~~~vGKTsli~rl~~~~f~~~~~~t~~~~~~~~~~~~-~~~~~~~~i~d~~g~~   64 (167)
T d1z0ja1           3 RELKVCLLGDTGVGKSSIMWRFVEDSFDPNINPTIGASFMTKTVQY-QNELHKFLIWDTAGLE   64 (167)
T ss_dssp             EEEEEEEECCTTSSHHHHHHHHHHSCCCTTCCCCCSEEEEEEEEEE-TTEEEEEEEEEECCSG
T ss_pred             ceeEEEEECCCCcCHHHHHHHHHhCCCCcccccccccccccccccc-cccccceeeeecCCch
Confidence            5789999999999999999999999999999999998887777776 7888999999999985

>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=99.65  E-value=2.3e-16  Score=104.15  Aligned_cols=63  Identities=44%  Similarity=0.843  Sum_probs=54.9

Q ss_pred             ceeeEEEEEcCCCCCchhhhhhhhhCcCCCCccCCceeEeEEEEEEecCCeEEEEEEEeCCCCC
Q psy10878         68 EKLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQN  131 (131)
Q Consensus        68 ~~~~ki~vvG~~~vGKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gqe  131 (131)
                      ++.+||+++|++|||||||++||.++.+...+.++.+.+.....+.+ ++..+.+.+|||+|+|
T Consensus         2 ~~~~Ki~vvG~~~vGKTsLi~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~i~d~~g~e   64 (175)
T d2f9la1           2 DYLFKVVLIGDSGVGKSNLLSRFTRNEFNLESKSTIGVEFATRSIQV-DGKTIKAQIWDTAGQE   64 (175)
T ss_dssp             SEEEEEEEESSTTSSHHHHHHHHHHSCCCC---CCCSCEEEEEEEEE-TTEEEEEEEEECSSGG
T ss_pred             CEEEEEEEECCCCcCHHHHHHHHHhCCCCCcccccccceeeeEEEEE-CCEEEEEEecccCCcH
Confidence            45789999999999999999999999999888899888888888888 8899999999999985

>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=99.65  E-value=2.9e-16  Score=104.34  Aligned_cols=62  Identities=37%  Similarity=0.599  Sum_probs=55.2

Q ss_pred             ceeeEEEEEcCCCCCchhhhhhhhhCcCCCCccCCceeEeEEEEEEecCCeEEEEEEEeCCCCC
Q psy10878         68 EKLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQN  131 (131)
Q Consensus        68 ~~~~ki~vvG~~~vGKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gqe  131 (131)
                      ++.+||+++|++|||||||++||+++.|...+.||++..+ .+.+.. ++..+.+++||++||+
T Consensus         3 p~~iKivviG~~~vGKTsli~~~~~~~f~~~~~~ti~~~~-~~~~~~-~~~~~~~~~~d~~g~~   64 (183)
T d1mh1a_           3 PQAIKCVVVGDGAVGKTCLLISYTTNAFPGEYIPTVFDNY-SANVMV-DGKPVNLGLWDTAGQE   64 (183)
T ss_dssp             CEEEEEEEECSTTSSHHHHHHHHHHSSCCSSCCCCSCCEE-EEEEEE-TTEEEEEEEECCCCSG
T ss_pred             ceeEEEEEECCCCCCHHHHHHHHHhCCCCcccccceeece-eeeeec-cCcceEEEeecccccc
Confidence            4679999999999999999999999999999999998554 566666 8899999999999985

>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=99.63  E-value=3.9e-16  Score=102.53  Aligned_cols=62  Identities=35%  Similarity=0.711  Sum_probs=57.0

Q ss_pred             eeeEEEEEcCCCCCchhhhhhhhhCcCCCCccCCceeEeEEEEEEecCCeEEEEEEEeCCCCC
Q psy10878         69 KLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQN  131 (131)
Q Consensus        69 ~~~ki~vvG~~~vGKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gqe  131 (131)
                      -.+||+++|++|||||||++||.++.|...+.||.+.++....+.. ++..+.+.+|||+|||
T Consensus         5 ~~~Ki~vvG~~~vGKTsLi~~l~~~~f~~~~~~t~~~~~~~~~~~~-~~~~~~~~~~d~~g~~   66 (170)
T d1r2qa_           5 CQFKLVLLGESAVGKSSLVLRFVKGQFHEFQESTIGAAFLTQTVCL-DDTTVKFEIWDTAGQE   66 (170)
T ss_dssp             EEEEEEEECSTTSSHHHHHHHHHHSCCCTTCCCCSSEEEEEEEEEE-TTEEEEEEEEEECCSG
T ss_pred             eEEEEEEECCCCcCHHHHHHHHHhCCCCcccccccccccccceeec-cceEEEEEeccCCCch
Confidence            4689999999999999999999999999999999999888777777 8889999999999986

>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=99.63  E-value=4.5e-16  Score=102.29  Aligned_cols=61  Identities=28%  Similarity=0.562  Sum_probs=52.0

Q ss_pred             eeeEEEEEcCCCCCchhhhhhhhhCcCCCCccCCceeEeEEEEEEecCCeEEEEEEEeCCCCC
Q psy10878         69 KLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQN  131 (131)
Q Consensus        69 ~~~ki~vvG~~~vGKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gqe  131 (131)
                      ..+||+++|++|||||||++||+++.|...+.||.+..+ .+.+.+ ++..+.+++|||+|++
T Consensus         4 ~~~Ki~lvG~~~vGKTsLi~r~~~~~f~~~~~~t~~~~~-~~~~~~-~~~~~~~~~~d~~g~~   64 (171)
T d2erya1           4 EKYRLVVVGGGGVGKSALTIQFIQSYFVTDYDPTIEDSY-TKQCVI-DDRAARLDILDTAGQE   64 (171)
T ss_dssp             CEEEEEEEECTTSSHHHHHHHHHHSCCCSSCCTTCCEEE-EEEEEE-TTEEEEEEEEECC---
T ss_pred             cceEEEEECCCCCCHHHHHHHHHhCCCCcccCcccccce-eeeeee-cccccccccccccccc
Confidence            458999999999999999999999999999999988544 677777 8999999999999975

>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=99.63  E-value=5.7e-16  Score=101.81  Aligned_cols=60  Identities=35%  Similarity=0.583  Sum_probs=54.2

Q ss_pred             eeEEEEEcCCCCCchhhhhhhhhCcCCCCccCCceeEeEEEEEEecCCeEEEEEEEeCCCCC
Q psy10878         70 LFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQN  131 (131)
Q Consensus        70 ~~ki~vvG~~~vGKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gqe  131 (131)
                      .+||+++|+++||||||+++|+++.|...+.||++..+ .+.+.+ ++..+.+++||++|++
T Consensus         4 t~Ki~lvG~~~vGKTsll~~~~~~~~~~~~~~t~~~~~-~~~~~~-~~~~~~~~i~d~~g~~   63 (169)
T d1x1ra1           4 TYKLVVVGDGGVGKSALTIQFFQKIFVPDYDPTIEDSY-LKHTEI-DNQWAILDVLDTAGQE   63 (169)
T ss_dssp             EEEEEEECCTTSSHHHHHHHHHHSSCCTTCCTTCCEEE-EEEEEE-TTEEEEEEEEECCSCG
T ss_pred             cEEEEEECCCCcCHHHHHHHHHhCCCCcccCcceeecc-cccccc-cccccccccccccccc
Confidence            58999999999999999999999999999999998766 566666 8899999999999985

>d1m7ba_ c.37.1.8 (A:) RhoE (RND3) {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: RhoE (RND3)
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.62  E-value=4.7e-16  Score=103.20  Aligned_cols=60  Identities=32%  Similarity=0.638  Sum_probs=53.5

Q ss_pred             eeEEEEEcCCCCCchhhhhhhhhCcCCCCccCCceeEeEEEEEEecCCeEEEEEEEeCCCCC
Q psy10878         70 LFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQN  131 (131)
Q Consensus        70 ~~ki~vvG~~~vGKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gqe  131 (131)
                      .+||+++|+++||||||++||+.+.|...+.||++..+ .+.+.+ ++..+.+++|||+|||
T Consensus         2 ~~KivliG~~~vGKTsli~r~~~~~f~~~~~~t~~~~~-~~~~~~-~~~~~~~~i~D~~g~~   61 (179)
T d1m7ba_           2 KCKIVVVGDSQCGKTALLHVFAKDCFPENYVPTVFENY-TASFEI-DTQRIELSLWDTSGSP   61 (179)
T ss_dssp             EEEEEEEESTTSSHHHHHHHHHHSCCCSSCCCCSEEEE-EEEEEC-SSCEEEEEEEEECCSG
T ss_pred             ceEEEEECCCCcCHHHHHHHHHhCCCCCccCCceeecc-cccccc-cceEEeeccccccccc
Confidence            47999999999999999999999999999999988555 566666 8899999999999986

>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=99.61  E-value=1.2e-15  Score=100.53  Aligned_cols=64  Identities=44%  Similarity=0.751  Sum_probs=54.4

Q ss_pred             CceeeEEEEEcCCCCCchhhhhhhhhCcCCCCccCCceeEeEEEEEEecCCeEEEEEEEeCCCCC
Q psy10878         67 PEKLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQN  131 (131)
Q Consensus        67 ~~~~~ki~vvG~~~vGKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gqe  131 (131)
                      +...+||+++|++|||||||++||..++|...+.+|++..+..+.+.. ++..+.+++|||+|++
T Consensus         3 ~~~~~KI~vvG~~~vGKSSli~~~~~~~~~~~~~~t~~~~~~~~~~~~-~~~~~~~~i~d~~g~~   66 (174)
T d1wmsa_           3 KSSLFKVILLGDGGVGKSSLMNRYVTNKFDTQLFHTIGVEFLNKDLEV-DGHFVTMQIWDTAGQE   66 (174)
T ss_dssp             CEEEEEEEEECCTTSSHHHHHHHHHHSCCCC----CCSEEEEEEEEEE-TTEEEEEEEEECCCCG
T ss_pred             CCceEEEEEECCCCCCHHHHHHHHHhCCCCCccccceeeeeeeeeeee-cCceeeEeeecccCcc
Confidence            456789999999999999999999999999999999999888888877 8889999999999974

>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=99.60  E-value=1.4e-15  Score=99.43  Aligned_cols=61  Identities=30%  Similarity=0.518  Sum_probs=54.0

Q ss_pred             eeeEEEEEcCCCCCchhhhhhhhhCcCCCCccCCceeEeEEEEEEecCCeEEEEEEEeCCCCC
Q psy10878         69 KLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQN  131 (131)
Q Consensus        69 ~~~ki~vvG~~~vGKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gqe  131 (131)
                      ..+||+++|++|||||||++||+++.|...+.|+++..+... +.. ++..+.+.+||++|++
T Consensus         2 ~e~Ki~viG~~~vGKTsli~~l~~~~~~~~~~~~~~~~~~~~-~~~-~~~~~~l~~~d~~~~~   62 (166)
T d1ctqa_           2 TEYKLVVVGAGGVGKSALTIQLIQNHFVDEYDPTIEDSYRKQ-VVI-DGETCLLDILDTAGQE   62 (166)
T ss_dssp             EEEEEEEEESTTSSHHHHHHHHHHCCCCCSCCCCSEEEEEEE-EEE-TTEEEEEEEEEECCCG
T ss_pred             CeeEEEEECCCCCCHHHHHHHHHhCCCCCccCCccceeeccc-eee-eceeeeeeeeeccCcc
Confidence            468999999999999999999999999999999999887544 555 7888999999999985

>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=99.59  E-value=1.1e-15  Score=100.69  Aligned_cols=62  Identities=42%  Similarity=0.768  Sum_probs=51.4

Q ss_pred             eeeEEEEEcCCCCCchhhhhhhhhCcCCCCccCCceeEeEEEEEEecCCeEEEEEEEeCCCCC
Q psy10878         69 KLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQN  131 (131)
Q Consensus        69 ~~~ki~vvG~~~vGKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gqe  131 (131)
                      +.+||+++|++|||||||++||++++|...+.++.+.......... ++..+.+.+||++||+
T Consensus         2 y~~KivvvG~~~vGKTsli~r~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~i~d~~g~~   63 (173)
T d2a5ja1           2 YLFKYIIIGDTGVGKSCLLLQFTDKRFQPVHDLTIGVEFGARMVNI-DGKQIKLQIWDTAGQE   63 (173)
T ss_dssp             EEEEEEEESSTTSSHHHHHHHHHHSCCCC-----CCSSEEEEEEEE-TTEEEEEEEECCTTGG
T ss_pred             eeEEEEEECCCCcCHHHHHHHHhcCCCCCCcccceeeccceeeeee-eeeEEEEEeecccCcc
Confidence            5689999999999999999999999999888888888777777776 7888999999999985

>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=99.59  E-value=1.4e-15  Score=100.96  Aligned_cols=61  Identities=48%  Similarity=0.867  Sum_probs=56.0

Q ss_pred             eeEEEEEcCCCCCchhhhhhhhhCcCCCCccCCceeEeEEEEEEecCCeEEEEEEEeCCCCC
Q psy10878         70 LFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQN  131 (131)
Q Consensus        70 ~~ki~vvG~~~vGKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gqe  131 (131)
                      -+||+++|++|||||||+++|++++|...+.||++.++..+.+.. .+..+.+.+|||+|++
T Consensus         2 ~~Kv~vvG~~~vGKSSLi~~l~~~~f~~~~~~t~~~~~~~~~~~~-~~~~~~~~~~d~~g~~   62 (184)
T d1vg8a_           2 LLKVIILGDSGVGKTSLMNQYVNKKFSNQYKATIGADFLTKEVMV-DDRLVTMQIWDTAGQE   62 (184)
T ss_dssp             EEEEEEECCTTSSHHHHHHHHHHSCCCSSCCCCCSEEEEEEEEES-SSCEEEEEEEEECSSG
T ss_pred             EEEEEEECCCCcCHHHHHHHHHhCCCCCCcCCccceeeeeeeeee-CCceEEEEeeecCCcc
Confidence            379999999999999999999999999999999999888888877 7888999999999974

>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=99.59  E-value=1.5e-15  Score=99.62  Aligned_cols=58  Identities=22%  Similarity=0.388  Sum_probs=41.2

Q ss_pred             eEEEEEcCCCCCchhhhhhhhhCcCCCCccCCceeEeEEEEEEecCCeEEEEEEEeCCCCC
Q psy10878         71 FKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQN  131 (131)
Q Consensus        71 ~ki~vvG~~~vGKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gqe  131 (131)
                      |||+++|++|||||||+++|.+..+. .+.++.+..+ .+.+.+ ++..+.+++|||+|||
T Consensus         2 fKi~lvG~~~vGKTsLi~~~~~~~~~-~~~~~~~~~~-~~~i~~-~~~~~~l~i~D~~g~e   59 (168)
T d2gjsa1           2 YKVLLLGAPGVGKSALARIFGGVEDG-PEAEAAGHTY-DRSIVV-DGEEASLMVYDIWEQD   59 (168)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHTC----------CEEE-EEEEEE-TTEEEEEEEEECC---
T ss_pred             eEEEEECCCCcCHHHHHHHHhCCccC-CcCCeeeeee-cceeec-cccccceeeeeccccc
Confidence            79999999999999999999987765 3446666555 567777 8999999999999986

>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=99.58  E-value=3.2e-15  Score=98.93  Aligned_cols=59  Identities=22%  Similarity=0.367  Sum_probs=51.6

Q ss_pred             eeEEEEEcCCCCCchhhhhhhhhCcCCCCccCCceeEeEEEEEEecCCeEEEEEEEeCCCCC
Q psy10878         70 LFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQN  131 (131)
Q Consensus        70 ~~ki~vvG~~~vGKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gqe  131 (131)
                      .+|++++|+++||||||+++|++++|. .+.++.+..+ .+.+.+ +|+.+.++||||+||+
T Consensus         5 ~~ki~vlG~~~vGKTsLi~~~~~~~f~-~~~~t~~~~~-~~~i~v-~~~~~~l~i~Dt~g~~   63 (175)
T d2bmja1           5 ELRLGVLGDARSGKSSLIHRFLTGSYQ-VLEKTESEQY-KKEMLV-DGQTHLVLIREEAGAP   63 (175)
T ss_dssp             EEEEEEECCTTTTHHHHHHHHHHSCCC-CCCCSSCEEE-EEEEEE-TTEEEEEEEEECSSCC
T ss_pred             cEEEEEECCCCCCHHHHHHHHHhCCCC-CcCCccceeE-EEEeec-CceEEEEEEeeccccc
Confidence            689999999999999999999999986 4567777666 567777 9999999999999985

>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=99.56  E-value=1.5e-15  Score=99.92  Aligned_cols=62  Identities=44%  Similarity=0.825  Sum_probs=48.1

Q ss_pred             eeEEEEEcCCCCCchhhhhhhhhCcCCCCccCCceeEeEEEEEEecCCeEEEEEEEeCCCCC
Q psy10878         70 LFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQN  131 (131)
Q Consensus        70 ~~ki~vvG~~~vGKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gqe  131 (131)
                      .+||+++|++|||||||+++|.+++|...+.||.+..+........+...+.+.+|||+|+|
T Consensus         2 ~~Ki~~vG~~~vGKSsLi~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~~~d~~g~~   63 (175)
T d1ky3a_           2 ILKVIILGDSGVGKTSLMHRYVNDKYSQQYKATIGADFLTKEVTVDGDKVATMQVWDTAGQE   63 (175)
T ss_dssp             EEEEEEECCTTSSHHHHHHHHHHSCCCTTC---CCCSCEEEEECCSSSCCEEEEEECCC---
T ss_pred             eEEEEEECCCCcCHHHHHHHHHcCCCCCccCcccccceeeeeeeecCcccccceeeccCCch
Confidence            47999999999999999999999999988989888777666665435566889999999985

>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=99.55  E-value=2e-15  Score=100.35  Aligned_cols=64  Identities=45%  Similarity=0.803  Sum_probs=54.3

Q ss_pred             ceeeEEEEEcCCCCCchhhhhhhhhCcCCCCccCCceeEeEEEEEEecC---------CeEEEEEEEeCCCCC
Q psy10878         68 EKLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRD---------QQKIKLQLWDIAGQN  131 (131)
Q Consensus        68 ~~~~ki~vvG~~~vGKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~---------~~~~~l~i~Dt~Gqe  131 (131)
                      .+.+||+++|++|||||||+++|++++|...+.++.+.++..+.+.+.+         +..+.+++|||+|||
T Consensus         3 d~~~Ki~ivG~~~vGKTsLi~~l~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~~~i~dt~G~e   75 (186)
T d2f7sa1           3 DYLIKLLALGDSGVGKTTFLYRYTDNKFNPKFITTVGIDFREKRVVYNAQGPNGSSGKAFKVHLQLWDTAGQE   75 (186)
T ss_dssp             SEEEEEEEESCTTSSHHHHHHHHHCSCCCCEEEEEEEEEEEEEEEEEEC-------CCEEEEEEEEEEEESHH
T ss_pred             CEEEEEEEECCCCcCHHHHHHHHhcCCCCCccCCcccceeeEEEEEEecccccccccccceEEeccccCCcch
Confidence            4679999999999999999999999999989999999888777776521         234789999999985

>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=99.53  E-value=6.2e-15  Score=96.13  Aligned_cols=57  Identities=30%  Similarity=0.561  Sum_probs=48.7

Q ss_pred             eeEEEEEcCCCCCchhhhhhhhhCcCCCCccCCceeEeEEEEEEecCCeEEEEEEEeCCCCC
Q psy10878         70 LFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQN  131 (131)
Q Consensus        70 ~~ki~vvG~~~vGKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gqe  131 (131)
                      ++||+++|+++||||||+++|.++++...+.||++.++.  .+.. +  .+.+++||++||+
T Consensus         2 e~ki~i~G~~~~GKTsLl~~l~~~~~~~~~~~T~~~~~~--~~~~-~--~~~~~i~D~~G~~   58 (164)
T d1zd9a1           2 EMELTLVGLQYSGKTTFVNVIASGQFNEDMIPTVGFNMR--KITK-G--NVTIKLWDIGGQP   58 (164)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHSCCCCSCCCCCSEEEE--EEEE-T--TEEEEEEEECCSH
T ss_pred             eEEEEEECCCCCCHHHHHHHHHcCCCCCcccccceeeee--eeee-e--eEEEEEeeccccc
Confidence            689999999999999999999999999889999987653  3444 3  3679999999984

>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=99.49  E-value=2.4e-15  Score=103.16  Aligned_cols=71  Identities=15%  Similarity=0.089  Sum_probs=53.0

Q ss_pred             cCCCcEEeeccCCCcccccccc--ccc-------CCCCccccccCCcccccccccccccccCCCcccCCCCCCceeeEEE
Q psy10878          4 KAKKPILLPSASEDPSIDNWDK--ASW-------ENVTPIVSEQGDGEIIEIIDPSLKLVRVPSIRKSFNAPPEKLFKVI   74 (131)
Q Consensus         4 ~~~kp~vlv~NK~Dl~~~~~~~--~~~-------~~~~~is~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ki~   74 (131)
                      ..+.|+++|+||+||.+.+...  ..+       ..++.+|+..+.| +..+.+.+...                  ..+
T Consensus        39 ~~~i~pvIvlnK~DL~~~~~~~~~~~~~~~~~~~~~v~~vSa~~~~g-~~~L~~~l~~k------------------t~~   99 (225)
T d1u0la2          39 KNELETVMVINKMDLYDEDDLRKVRELEEIYSGLYPIVKTSAKTGMG-IEELKEYLKGK------------------IST   99 (225)
T ss_dssp             HTTCEEEEEECCGGGCCHHHHHHHHHHHHHHTTTSCEEECCTTTCTT-HHHHHHHHSSS------------------EEE
T ss_pred             HcCCCEEEEEeCcccCCHHHHHHHHHhhcccccceeEEEeccccchh-HhhHHHHhcCC------------------eEE
Confidence            4688999999999997644211  111       5678899999999 77764433221                  479


Q ss_pred             EEcCCCCCchhhhhhhhhC
Q psy10878         75 VIGDPTVGKTSFVQRYVQN   93 (131)
Q Consensus        75 vvG~~~vGKSsli~~~~~~   93 (131)
                      ++|.+|||||||+|++..+
T Consensus       100 ~~G~SGVGKSTLiN~L~~~  118 (225)
T d1u0la2         100 MAGLSGVGKSSLLNAINPG  118 (225)
T ss_dssp             EECSTTSSHHHHHHHHSTT
T ss_pred             EECCCCCCHHHHHHhhcch
Confidence            9999999999999999864

>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=99.48  E-value=1.2e-14  Score=96.72  Aligned_cols=56  Identities=20%  Similarity=0.299  Sum_probs=46.4

Q ss_pred             eeeEEEEEcCCCCCchhhhhhhhhCcCCCCccCCceeEeEEEEEEecCCeEEEEEEEeCCCCC
Q psy10878         69 KLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQN  131 (131)
Q Consensus        69 ~~~ki~vvG~~~vGKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gqe  131 (131)
                      +++||+++|+++||||||++||..+.|  .+.||+|.++.  .+..   ..+.+++||++||+
T Consensus         1 ke~Kiv~lG~~~vGKTsll~r~~~~~~--~~~pTiG~~~~--~~~~---~~~~~~~~d~~g~~   56 (200)
T d2bcjq2           1 RELKLLLLGTGESGKSTFIKQMRIIHG--SGVPTTGIIEY--PFDL---QSVIFRMVDVGGQR   56 (200)
T ss_dssp             CEEEEEEEESTTSSHHHHHHHHHHHTS--SCCCCCSCEEE--EEEC---SSCEEEEEECCCST
T ss_pred             CeeEEEEECCCCCCHHHHHHHHhCCCC--CCCceeeEEEE--EEec---cceeeeeccccccc
Confidence            368999999999999999999998887  46799997753  3333   45778999999996

>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=99.48  E-value=5.2e-14  Score=91.49  Aligned_cols=61  Identities=48%  Similarity=0.850  Sum_probs=55.2

Q ss_pred             eeEEEEEcCCCCCchhhhhhhhhCcCCCCccCCceeEeEEEEEEecCCeEEEEEEEeCCCCC
Q psy10878         70 LFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQN  131 (131)
Q Consensus        70 ~~ki~vvG~~~vGKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gqe  131 (131)
                      .+||+++|++|||||||++||++++|...+.++.+..+..+...+ .+....+.+||++|++
T Consensus         2 ~~Kv~liG~~~vGKTsLl~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~   62 (165)
T d1z06a1           2 IFKIIVIGDSNVGKTCLTYRFCAGRFPDRTEATIGVDFRERAVDI-DGERIKIQLWDTAGQE   62 (165)
T ss_dssp             EEEEEEECCTTSSHHHHHHHHHHSSCCSSCCCCCSCCEEEEEEEE-TTEEEEEEEEECCCSH
T ss_pred             EEEEEEECCCCcCHHHHHHHHHhCCCCCccCcccccccceeeeee-eccceEEEEEeccCch
Confidence            589999999999999999999999999999999998887777777 7888999999999863

>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=99.45  E-value=3.7e-14  Score=92.21  Aligned_cols=56  Identities=23%  Similarity=0.580  Sum_probs=45.0

Q ss_pred             eeEEEEEcCCCCCchhhhhhhhhCcCCCCccCCceeEeEEEEEEecCCeEEEEEEEeCCCCC
Q psy10878         70 LFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQN  131 (131)
Q Consensus        70 ~~ki~vvG~~~vGKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gqe  131 (131)
                      .+||+++|++|||||||+++|.++.+. .+.||.+...  ..+.. +  .+.+.+|||+||+
T Consensus         2 ~~ki~ivG~~~~GKTsLi~~l~~~~~~-~~~~t~~~~~--~~~~~-~--~~~~~~~D~~G~~   57 (165)
T d1ksha_           2 ELRLLMLGLDNAGKTTILKKFNGEDVD-TISPTLGFNI--KTLEH-R--GFKLNIWDVGGQK   57 (165)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHTTCCCS-SCCCCSSEEE--EEEEE-T--TEEEEEEEECCSH
T ss_pred             cEEEEEECCCCCCHHHHHHHHcCCCCC-cccceEeeee--eeccc-c--ccceeeeecCcch
Confidence            589999999999999999999987764 6778887543  34444 3  4778999999985

>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=99.43  E-value=3.3e-14  Score=94.78  Aligned_cols=54  Identities=20%  Similarity=0.418  Sum_probs=42.8

Q ss_pred             eeEEEEEcCCCCCchhhhhhhhhCcCCCCccCCceeEeEEEEEEecCCeEEEEEEEeCCCCC
Q psy10878         70 LFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQN  131 (131)
Q Consensus        70 ~~ki~vvG~~~vGKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gqe  131 (131)
                      .+|++++|++|||||||++||.   |...+.||+|...  ..+.+   +.+.+++||++||+
T Consensus         2 ~iKivllG~~~vGKTsll~r~~---f~~~~~pTiG~~~--~~~~~---~~~~~~~~D~~gq~   55 (200)
T d1zcba2           2 LVKILLLGAGESGKSTFLKQMR---IIHGQDPTKGIHE--YDFEI---KNVPFKMVDVGGQR   55 (200)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHH---HHHSCCCCSSEEE--EEEEE---TTEEEEEEEECC--
T ss_pred             eEEEEEECCCCCCHHHHHHHHh---cCCCCCCeeeeEE--EEEee---eeeeeeeeccccee
Confidence            5899999999999999999993   5667889999654  34544   45778999999986

>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=99.42  E-value=2.9e-14  Score=94.44  Aligned_cols=53  Identities=17%  Similarity=0.415  Sum_probs=40.7

Q ss_pred             eeeEEEEEcCCCCCchhhhhhhhhCcCCCCccCCceeEeEEEEEEecCCeEEEEEEEeCCCCC
Q psy10878         69 KLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQN  131 (131)
Q Consensus        69 ~~~ki~vvG~~~vGKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gqe  131 (131)
                      +++|++++|+.|||||||++||..+.++     |.+.  ....+..   ..+.+++|||+|||
T Consensus         1 ~e~KivllG~~~vGKTsl~~r~~~~~~~-----t~~~--~~~~~~~---~~~~~~i~D~~Gq~   53 (195)
T d1svsa1           1 REVKLLLLGAGESGKSTIVKQMKIIHEA-----GTGI--VETHFTF---KDLHFKMFDVGGQR   53 (195)
T ss_dssp             CEEEEEEECSTTSSHHHHHHHHHHHHSC-----CCSE--EEEEEEE---TTEEEEEEEECCSG
T ss_pred             CceEEEEECCCCCCHHHHHHHHhhCCCC-----CccE--EEEEEEe---eeeeeeeecccccc
Confidence            3689999999999999999999977664     4442  2233333   45789999999996

>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=99.42  E-value=2.6e-15  Score=103.27  Aligned_cols=71  Identities=17%  Similarity=0.181  Sum_probs=52.6

Q ss_pred             cCCCcEEeeccCCCcccccccc---cc----c----CCCCccccccCCcccccccccccccccCCCcccCCCCCCceeeE
Q psy10878          4 KAKKPILLPSASEDPSIDNWDK---AS----W----ENVTPIVSEQGDGEIIEIIDPSLKLVRVPSIRKSFNAPPEKLFK   72 (131)
Q Consensus         4 ~~~kp~vlv~NK~Dl~~~~~~~---~~----~----~~~~~is~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~k   72 (131)
                      ..+.+++||+||+||.++....   ..    +    .+++.+|+..+.| +.++.+.+...                  .
T Consensus        39 ~~~i~pvIvlnK~DL~~~~~~~~~~~~~~~~y~~~g~~v~~~Sa~~~~g-l~~L~~~l~~~------------------~   99 (231)
T d1t9ha2          39 ANDIQPIICITKMDLIEDQDTEDTIQAYAEDYRNIGYDVYLTSSKDQDS-LADIIPHFQDK------------------T   99 (231)
T ss_dssp             TTTCEEEEEEECGGGCCCHHHHHHHHHHHHHHHHHTCCEEECCHHHHTT-CTTTGGGGTTS------------------E
T ss_pred             HcCCCEEEEEecccccccHHHHHHHHHHHHHHhhccccceeeecCChhH-HHHHHHhhccc------------------e
Confidence            4688999999999997653211   11    1    5788999998888 77665443221                  3


Q ss_pred             EEEEcCCCCCchhhhhhhhhC
Q psy10878         73 VIVIGDPTVGKTSFVQRYVQN   93 (131)
Q Consensus        73 i~vvG~~~vGKSsli~~~~~~   93 (131)
                      .+++|.+|||||||+|++.++
T Consensus       100 ~vl~G~SGVGKSSLiN~L~~~  120 (231)
T d1t9ha2         100 TVFAGQSGVGKSSLLNAISPE  120 (231)
T ss_dssp             EEEEESHHHHHHHHHHHHCC-
T ss_pred             EEEECCCCccHHHHHHhhccH
Confidence            679999999999999999864

>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=99.38  E-value=5.5e-13  Score=87.48  Aligned_cols=60  Identities=18%  Similarity=0.282  Sum_probs=47.6

Q ss_pred             eeeEEEEEcCCCCCchhhhhhhhhCcCCC-CccCCceeEeEEEEEEecCCeEEEEEEEeCCC
Q psy10878         69 KLFKVIVIGDPTVGKTSFVQRYVQNTFKK-DYKGTVGVDFALKIVKWRDQQKIKLQLWDIAG  129 (131)
Q Consensus        69 ~~~ki~vvG~~~vGKSsli~~~~~~~~~~-~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~G  129 (131)
                      ..|||+++|++|||||||++||.+..+.. .+.++++.++..+.+.+ +++.+.+.+||++|
T Consensus         2 ~~~Kv~lvG~~~vGKTsLi~~~~~~~~~~~~~~~t~~~~~~~~~~~~-~~~~~~~~~~d~~~   62 (172)
T d2g3ya1           2 TYYRVVLIGEQGVGKSTLANIFAGVHDSMDSDCEVLGEDTYERTLMV-DGESATIILLDMWE   62 (172)
T ss_dssp             CEEEEEEECCTTSSHHHHHHHHHCCCCTTCCC---CCTTEEEEEEEE-TTEEEEEEEECCTT
T ss_pred             CEEEEEEECCCCcCHHHHHHHHHhCcCCccccccceeeecceeeecc-CCceeeeeeecccc
Confidence            35899999999999999999999776643 44567777787888888 89999999999654

>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=99.36  E-value=1.9e-13  Score=89.53  Aligned_cols=59  Identities=27%  Similarity=0.595  Sum_probs=46.1

Q ss_pred             CceeeEEEEEcCCCCCchhhhhhhhhCcCCCCccCCceeEeEEEEEEecCCeEEEEEEEeCCCCC
Q psy10878         67 PEKLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQN  131 (131)
Q Consensus        67 ~~~~~ki~vvG~~~vGKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gqe  131 (131)
                      +.+.+||+++|++|||||||+++|.++++.. +.++.+.+  ...+.+ .  .+.+++||++|++
T Consensus        13 ~~~~~kI~vvG~~~vGKSsLi~~l~~~~~~~-~~~~~~~~--~~~i~~-~--~~~~~i~d~~g~~   71 (176)
T d1fzqa_          13 PDQEVRILLLGLDNAGKTTLLKQLASEDISH-ITPTQGFN--IKSVQS-Q--GFKLNVWDIGGQR   71 (176)
T ss_dssp             CSSCEEEEEEESTTSSHHHHHHHHCCSCCEE-EEEETTEE--EEEEEE-T--TEEEEEEECSSCG
T ss_pred             CCCEEEEEEECCCCCCHHHHHHHHhcCCCCc-ceeeeeee--EEEecc-C--CeeEeEeeccccc
Confidence            4567999999999999999999999888863 44666644  344544 3  3778999999985

>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=99.33  E-value=3.9e-13  Score=86.18  Aligned_cols=55  Identities=18%  Similarity=0.390  Sum_probs=42.0

Q ss_pred             eEEEEEcCCCCCchhhhhhhhhCcCCCCccCCceeEeEEEEEEecCCeEEEEEEEeCCCCC
Q psy10878         71 FKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQN  131 (131)
Q Consensus        71 ~ki~vvG~~~vGKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gqe  131 (131)
                      +||+++|++|||||||++++.++++...+..+....   ...   +...+.+.+||++|++
T Consensus         1 ikivlvG~~~vGKSsLi~~l~~~~~~~~~~~~~~~~---~~~---~~~~~~~~~~d~~g~~   55 (160)
T d1r8sa_           1 MRILMVGLDAAGKTTILYKLKLGEIVTTIPTIGFNV---ETV---EYKNISFTVWDVGGQD   55 (160)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHHHCSSCCCCCSSCCE---EEE---ECSSCEEEEEECCCCG
T ss_pred             CEEEEECCCCCCHHHHHHHHhcCCCCccccceeeEE---EEE---eeeeEEEEEecCCCcc
Confidence            589999999999999999999888876554433211   222   4466889999999974

>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=99.31  E-value=3.2e-13  Score=89.11  Aligned_cols=59  Identities=25%  Similarity=0.563  Sum_probs=43.6

Q ss_pred             CceeeEEEEEcCCCCCchhhhhhhhhCcCCCCccCCceeEeEEEEEEecCCeEEEEEEEeCCCCC
Q psy10878         67 PEKLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQN  131 (131)
Q Consensus        67 ~~~~~ki~vvG~~~vGKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gqe  131 (131)
                      ..+.+||+++|++|||||||+++|..+.+. ...||.+....  .... +  .+.+.+|||+|++
T Consensus        14 ~~k~~KI~lvG~~~vGKTsLi~~l~~~~~~-~~~~t~~~~~~--~~~~-~--~~~~~i~D~~g~~   72 (182)
T d1moza_          14 SNKELRILILGLDGAGKTTILYRLQIGEVV-TTKPTIGFNVE--TLSY-K--NLKLNVWDLGGQT   72 (182)
T ss_dssp             CSSCEEEEEEEETTSSHHHHHHHTCCSEEE-EECSSTTCCEE--EEEE-T--TEEEEEEEEC---
T ss_pred             CCceEEEEEECCCCCCHHHHHHHHhcCCCC-ccccccceEEE--EEee-C--CEEEEEEeccccc
Confidence            445799999999999999999999988776 45578775543  3333 3  3778999999985

>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=99.30  E-value=4.9e-13  Score=87.59  Aligned_cols=57  Identities=25%  Similarity=0.535  Sum_probs=43.8

Q ss_pred             eeeEEEEEcCCCCCchhhhhhhhhCcCCCCccCCceeEeEEEEEEecCCeEEEEEEEeCCCCC
Q psy10878         69 KLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQN  131 (131)
Q Consensus        69 ~~~ki~vvG~~~vGKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gqe  131 (131)
                      +.+||+++|++|||||||++||..+.+.. ..+|.+..+.  ....   ..+.+.+||++|++
T Consensus        11 k~~kIvlvG~~~vGKTSli~rl~~~~~~~-~~~t~~~~~~--~~~~---~~~~~~i~D~~g~~   67 (173)
T d1e0sa_          11 KEMRILMLGLDAAGKTTILYKLKLGQSVT-TIPTVGFNVE--TVTY---KNVKFNVWDVGGQD   67 (173)
T ss_dssp             CCEEEEEEEETTSSHHHHHHHTTCCCCEE-EEEETTEEEE--EEEE---TTEEEEEEEESCCG
T ss_pred             CeEEEEEECCCCCCHHHHHHHHhcCCCCC-ccceeeeeEE--Eeec---cceeeEEecCCCcc
Confidence            46899999999999999999999887764 4466665443  2323   34778999999985

>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=99.24  E-value=2.7e-12  Score=87.43  Aligned_cols=54  Identities=19%  Similarity=0.365  Sum_probs=43.8

Q ss_pred             eeeEEEEEcCCCCCchhhhhhhhhCcCCCCccCCceeEeEEEEEEecCCeEEEEEEEeCCCCC
Q psy10878         69 KLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQN  131 (131)
Q Consensus        69 ~~~ki~vvG~~~vGKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gqe  131 (131)
                      +.+||+++|++|||||||++||..+++    .||+|..  ...+.+ ++  +.+++||++||+
T Consensus         5 ~~~KilllG~~~vGKTsll~~~~~~~~----~pTiG~~--~~~~~~-~~--~~~~~~D~~Gq~   58 (221)
T d1azta2           5 ATHRLLLLGAGESGKSTIVKQMRILHV----VLTSGIF--ETKFQV-DK--VNFHMFDVGGQR   58 (221)
T ss_dssp             HSEEEEEECSTTSSHHHHHHHHHHHHC----CCCCSCE--EEEEEE-TT--EEEEEEECCCST
T ss_pred             hcCEEEEECCCCCCHHHHHHHHhcCCc----CCCCCeE--EEEEEE-Cc--EEEEEEecCccc
Confidence            568999999999999999999986644    4899954  455655 44  678999999986

>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=99.21  E-value=6.8e-12  Score=84.13  Aligned_cols=57  Identities=21%  Similarity=0.349  Sum_probs=45.3

Q ss_pred             EEEEEcCCCCCchhhhhhhhhCcCCCCccCCceeEeEEEEEEecCCeEEEEEEEeCCCCC
Q psy10878         72 KVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQN  131 (131)
Q Consensus        72 ki~vvG~~~vGKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gqe  131 (131)
                      +|+++|.+|||||||+++|.++++... .||++.++...  .+.++..+.+.+||++|++
T Consensus         2 ~V~ivG~~~~GKTsLl~~l~~~~~~~~-~~t~~~~~~~~--~~~~~~~~~~~~~d~~g~~   58 (207)
T d2fh5b1           2 AVLFVGLCDSGKTLLFVRLLTGQYRDT-QTSITDSSAIY--KVNNNRGNSLTLIDLPGHE   58 (207)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHSCCCCB-CCCCSCEEEEE--ECSSTTCCEEEEEECCCCH
T ss_pred             EEEEECCCCCCHHHHHHHHHcCCCCcc-cCCeeEEEEEE--EEeeeeeeeeeeeeccccc
Confidence            699999999999999999999888654 47777665433  3335567889999999984

>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=99.11  E-value=5.5e-11  Score=76.26  Aligned_cols=57  Identities=23%  Similarity=0.544  Sum_probs=42.4

Q ss_pred             eeeEEEEEcCCCCCchhhhhhhhhCcCCCCccCCceeEeEEEEEEecCCeEEEEEEEeCCCCC
Q psy10878         69 KLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQN  131 (131)
Q Consensus        69 ~~~ki~vvG~~~vGKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gqe  131 (131)
                      +.+||+++|++|||||||+++|.+++|... .++.+..+  ..... +  .+.+.+||++|.+
T Consensus         4 ke~kI~ivG~~~vGKSSLi~~~~~~~~~~~-~~~~~~~~--~~~~~-~--~~~~~~~~~~~~~   60 (169)
T d1upta_           4 REMRILILGLDGAGKTTILYRLQVGEVVTT-IPTIGFNV--ETVTY-K--NLKFQVWDLGGLT   60 (169)
T ss_dssp             SCEEEEEECSTTSSHHHHHHHHHHSSCCCC-CCCSSEEE--EEEEE-T--TEEEEEEEECCCG
T ss_pred             cceEEEEECCCCCCHHHHHHHHhCCCCcce-ecccceee--eeecc-C--ceEEEEeeccccc
Confidence            458999999999999999999999988753 46666433  23333 3  3567899988763

>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=99.10  E-value=6.8e-12  Score=83.81  Aligned_cols=55  Identities=22%  Similarity=0.298  Sum_probs=39.7

Q ss_pred             eeEEEEEcCCCCCchhhhhhhhhCcCCCCccCCceeEeEEEEEEecCCeEEEEEEEeCCCCC
Q psy10878         70 LFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQN  131 (131)
Q Consensus        70 ~~ki~vvG~~~vGKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gqe  131 (131)
                      +-.|+++|.+|||||||+|+++++++.    ++++.+.....+..   ....+.+|||+|++
T Consensus         3 ~p~V~lvG~~n~GKTSLln~l~~~~~~----~~tt~~~~~~~~~~---~~~~~~l~D~~g~~   57 (209)
T d1nrjb_           3 QPSIIIAGPQNSGKTSLLTLLTTDSVR----PTVVSQEPLSAADY---DGSGVTLVDFPGHV   57 (209)
T ss_dssp             CCEEEEECSTTSSHHHHHHHHHHSSCC----CBCCCSSCEEETTG---GGSSCEEEECCCCG
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCCCCC----CeEEecceEEEEEe---CCeEEEEEeccccc
Confidence            347999999999999999999987654    34443343444433   33457899999984

>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=99.09  E-value=1.2e-10  Score=76.17  Aligned_cols=61  Identities=15%  Similarity=0.168  Sum_probs=40.4

Q ss_pred             ceeeEEEEEcCCCCCchhhhhhhhhCcCC-CCccCCceeEeEEEEEEecCCeEEEEEEEeCCCCC
Q psy10878         68 EKLFKVIVIGDPTVGKTSFVQRYVQNTFK-KDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQN  131 (131)
Q Consensus        68 ~~~~ki~vvG~~~vGKSsli~~~~~~~~~-~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gqe  131 (131)
                      .+.-+|+++|.+|||||||+|++++.+.. ....+....+........ .+  ..+.+|||+|++
T Consensus         3 ~~~~~I~lvG~~~~GKSSLin~l~~~~~~~~~~~~~tt~~~~~~~~~~-~~--~~~~~~DtpG~~   64 (178)
T d1wf3a1           3 TYSGFVAIVGKPNVGKSTLLNNLLGVKVAPISPRPQTTRKRLRGILTE-GR--RQIVFVDTPGLH   64 (178)
T ss_dssp             CEEEEEEEECSTTSSHHHHHHHHHTSCCSCCCSSSCCCCSCEEEEEEE-TT--EEEEEEECCCCC
T ss_pred             ccCcEEEEECCCCCCHHHHHHHHhCCCceeecccCCcccccccceeee-ee--eeeeeccccccc
Confidence            34557999999999999999999976542 122232222333333433 34  457899999973

>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=99.09  E-value=3.8e-11  Score=76.52  Aligned_cols=53  Identities=19%  Similarity=0.320  Sum_probs=41.1

Q ss_pred             EEEEEcCCCCCchhhhhhhhhCcCCCCccCCceeEeEEEEEEecCCeEEEEEEEeCCCC
Q psy10878         72 KVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQ  130 (131)
Q Consensus        72 ki~vvG~~~vGKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gq  130 (131)
                      ||+++|++|||||||++++.++.+. .+.||.+....  ...+   ..+...+||+.|+
T Consensus         2 KI~liG~~nvGKSSLln~l~~~~~~-~~~~t~~~~~~--~~~~---~~~~~~~~~~~~~   54 (166)
T d2qtvb1           2 KLLFLGLDNAGKTTLLHMLKNDRLA-TLQPTWHPTSE--ELAI---GNIKFTTFDLGGH   54 (166)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHSCCC-CCCCCCSCEEE--EECC---TTCCEEEEECCCS
T ss_pred             EEEEECCCCCCHHHHHHHHhCCCCC-eeeceeeEeEE--Eecc---CCeeEEEEeeccc
Confidence            7999999999999999999998876 56788775543  3322   2345789999886

>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=99.07  E-value=1.2e-10  Score=74.69  Aligned_cols=57  Identities=23%  Similarity=0.337  Sum_probs=41.0

Q ss_pred             eEEEEEcCCCCCchhhhhhhhhCcCC-CCccCCceeEeEEEEEEecCCeEEEEEEEeCCCC
Q psy10878         71 FKVIVIGDPTVGKTSFVQRYVQNTFK-KDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQ  130 (131)
Q Consensus        71 ~ki~vvG~~~vGKSsli~~~~~~~~~-~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gq  130 (131)
                      +||+++|.+|||||||+|++++.+.. ..+.|+...+.....+.. .+  ..+.+|||+|.
T Consensus         2 ~kI~lvG~~nvGKSsLin~l~~~~~~~~~~~~~~~~~~~~~~~~~-~~--~~~~~~d~~g~   59 (161)
T d2gj8a1           2 MKVVIAGRPNAGKSSLLNALAGREAAIVTDIAGTTRDVLREHIHI-DG--MPLHIIDTAGL   59 (161)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHTSCCSCCCSSTTCCCSCEEEEEEE-TT--EEEEEEECCCC
T ss_pred             CEEEEECCCCCCHHHHHHHHhCCCceEeecccccccceEeeeeec-cC--ceeeecccccc
Confidence            79999999999999999999976543 233344444444445555 44  45789999995

>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=99.04  E-value=2.7e-11  Score=77.76  Aligned_cols=57  Identities=19%  Similarity=0.349  Sum_probs=38.4

Q ss_pred             eEEEEEcCCCCCchhhhhhhhhCcCC-CCccCCceeEeEEEEEEecCCeEEEEEEEeCCCC
Q psy10878         71 FKVIVIGDPTVGKTSFVQRYVQNTFK-KDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQ  130 (131)
Q Consensus        71 ~ki~vvG~~~vGKSsli~~~~~~~~~-~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gq  130 (131)
                      +||+++|.+|||||||+|++.+.+.. ....+..........+.. ++  ..+.+|||+|.
T Consensus         1 ikI~liG~~n~GKSSLin~l~g~~~~~~~~~~~~~~~~~~~~~~~-~~--~~~~~~Dt~G~   58 (160)
T d1xzpa2           1 LRMVIVGKPNVGKSTLLNRLLNEDRAIVTDIPGTTRDVISEEIVI-RG--ILFRIVDTAGV   58 (160)
T ss_dssp             EEEEEECCHHHHTCHHHHHHHHHTBCCCCCSSCCSSCSCCEEEEE-TT--EEEEEEESSCC
T ss_pred             CEEEEECCCCCCHHHHHHHHhCCCceeeeccccccccceeEEEEe-CC--eeEEecccccc
Confidence            58999999999999999999865432 222233332232334444 44  45789999994

>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=99.01  E-value=1.3e-10  Score=75.54  Aligned_cols=58  Identities=26%  Similarity=0.524  Sum_probs=41.2

Q ss_pred             ceeeEEEEEcCCCCCchhhhhhhhhCcCCCCccCCceeEeEEEEEEecCCeEEEEEEEeCCCCC
Q psy10878         68 EKLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQN  131 (131)
Q Consensus        68 ~~~~ki~vvG~~~vGKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gqe  131 (131)
                      .+.+||+++|.+|||||||++|+.++++... .++.+...  .....   ..+.+.+||++|++
T Consensus        13 ~k~~kI~vvG~~~~GKSsLi~rl~~~~~~~~-~~~~~~~~--~~~~~---~~~~~~~~d~~~~~   70 (177)
T d1zj6a1          13 HQEHKVIIVGLDNAGKTTILYQFSMNEVVHT-SPTIGSNV--EEIVI---NNTRFLMWDIGGQE   70 (177)
T ss_dssp             TSCEEEEEEESTTSSHHHHHHHHHTTSCEEE-ECCSCSSC--EEEEE---TTEEEEEEECCC--
T ss_pred             CCeEEEEEECCCCCCHHHHHHHHhcCCCCcc-ccccceeE--EEEee---cceEEEEecccccc
Confidence            3568999999999999999999998887643 34544332  23333   23668999999874

>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=99.00  E-value=7.8e-11  Score=77.22  Aligned_cols=57  Identities=23%  Similarity=0.269  Sum_probs=35.6

Q ss_pred             EEEEEcCCCCCchhhhhhhhhCcCCCCccCCceeEeEEEEEEecCCeEEEEEEEeCCCC
Q psy10878         72 KVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQ  130 (131)
Q Consensus        72 ki~vvG~~~vGKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gq  130 (131)
                      .|+++|.+|||||||+|++.+........+..+..........  .....+.+|||||.
T Consensus         3 ~VaivG~~nvGKSTLin~L~~~~~~~~~~~~~t~~~~~~~~~~--~~~~~~~~~DtpG~   59 (180)
T d1udxa2           3 DVGLVGYPNAGKSSLLAAMTRAHPKIAPYPFTTLSPNLGVVEV--SEEERFTLADIPGI   59 (180)
T ss_dssp             SEEEECCGGGCHHHHHHHHCSSCCEECCCTTCSSCCEEEEEEC--SSSCEEEEEECCCC
T ss_pred             EEEEECCCCCCHHHHHHHHhCCCCceeccCCCceeeeeceeee--cCCCeEEEcCCCee
Confidence            3899999999999999999865443222222222222222222  22345789999995

>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=98.96  E-value=6e-11  Score=78.03  Aligned_cols=56  Identities=27%  Similarity=0.320  Sum_probs=36.1

Q ss_pred             EEEEEcCCCCCchhhhhhhhhCcCC-CCccCCceeEeEEEEEEecCCeEEEEEEEeCCCC
Q psy10878         72 KVIVIGDPTVGKTSFVQRYVQNTFK-KDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQ  130 (131)
Q Consensus        72 ki~vvG~~~vGKSsli~~~~~~~~~-~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gq  130 (131)
                      .|+++|.+|||||||+|++.+.... ..+.+++. +.......+.++.  .+.+|||||+
T Consensus         3 ~VaiiG~~nvGKSSLin~L~~~~~~~~~~~~~T~-~~~~~~~~~~~~~--~~~~~DtpG~   59 (185)
T d1lnza2           3 DVGLVGFPSVGKSTLLSVVSSAKPKIADYHFTTL-VPNLGMVETDDGR--SFVMADLPGL   59 (185)
T ss_dssp             CEEEESSTTSSHHHHHHHSEEECCEESSTTSSCC-CCCEEEEECSSSC--EEEEEEHHHH
T ss_pred             eEEEECCCCCCHHHHHHHHhCCCCceecCCCceE-eeeeceeEecCCc--EEEEecCCCc
Confidence            4899999999999999999865432 22323222 2222333333444  3679999984

>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=98.93  E-value=2.6e-10  Score=74.07  Aligned_cols=58  Identities=16%  Similarity=0.237  Sum_probs=38.3

Q ss_pred             ceeeEEEEEcCCCCCchhhhhhhhhCcCCCCccCCceeEeEEEEEEecCCeEEEEEEEeCCCCC
Q psy10878         68 EKLFKVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQN  131 (131)
Q Consensus        68 ~~~~ki~vvG~~~vGKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gqe  131 (131)
                      .+..||+++|++|||||||++++.++.+.. ..|+.+....  .+.+ ++  ..+.+||+.|++
T Consensus        11 ~k~~kI~lvG~~~vGKTsLl~~l~~~~~~~-~~~~~~~~~~--~~~~-~~--~~~~~~~~~~~~   68 (186)
T d1f6ba_          11 KKTGKLVFLGLDNAGKTTLLHMLKDDRLGQ-HVPTLHPTSE--ELTI-AG--MTFTTFDLGGHI   68 (186)
T ss_dssp             TCCEEEEEEEETTSSHHHHHHHHSCC-------CCCCCSCE--EEEE-TT--EEEEEEEECC--
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHhCCCCcc-eeccccccee--EEEe-cc--cccccccccchh
Confidence            456899999999999999999999888764 3466665443  3444 44  346789988763

>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=98.90  E-value=8.4e-10  Score=72.03  Aligned_cols=52  Identities=19%  Similarity=0.451  Sum_probs=36.0

Q ss_pred             EEEEEcCCCCCchhhhhhhhhCcCCCCccCCceeEeEEEEEEecCCeEEEEEEEeCCCC
Q psy10878         72 KVIVIGDPTVGKTSFVQRYVQNTFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQ  130 (131)
Q Consensus        72 ki~vvG~~~vGKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gq  130 (131)
                      .|+++|.+|||||||+|++.+.+......|.+..+.  ..+.+ .+    +.+|||||-
T Consensus         2 ~I~lvG~~nvGKSsLin~l~~~~~~~~~~~g~T~~~--~~~~~-~~----~~ivDtpG~   53 (184)
T d2cxxa1           2 TIIFAGRSNVGKSTLIYRLTGKKVRRGKRPGVTRKI--IEIEW-KN----HKIIDMPGF   53 (184)
T ss_dssp             EEEEEEBTTSSHHHHHHHHHSCCCSSSSSTTCTTSC--EEEEE-TT----EEEEECCCB
T ss_pred             EEEEECCCCCCHHHHHHHHhCCCceeeCCCCEeecc--ccccc-cc----ceecccCCc
Confidence            589999999999999999997766544444332222  22333 33    578999993

>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=98.86  E-value=3.2e-09  Score=73.56  Aligned_cols=59  Identities=17%  Similarity=0.179  Sum_probs=40.1

Q ss_pred             ceeeEEEEEcCCCCCchhhhhhhhhCcC-CCCc-cCCceeEeEEEEEEecCCeEEEEEEEeCCCC
Q psy10878         68 EKLFKVIVIGDPTVGKTSFVQRYVQNTF-KKDY-KGTVGVDFALKIVKWRDQQKIKLQLWDIAGQ  130 (131)
Q Consensus        68 ~~~~ki~vvG~~~vGKSsli~~~~~~~~-~~~~-~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gq  130 (131)
                      ...++|+++|.+|+|||||+|.+++... .... .+++. +.......+ +|.  .+.++||||-
T Consensus        30 ~~~l~I~LvG~tg~GKSSliN~ilg~~~~~vs~~~~~T~-~~~~~~~~~-~g~--~i~viDTPGl   90 (257)
T d1h65a_          30 VNSLTILVMGKGGVGKSSTVNSIIGERVVSISPFQSEGP-RPVMVSRSR-AGF--TLNIIDTPGL   90 (257)
T ss_dssp             CCEEEEEEEESTTSSHHHHHHHHHTSCCSCCCSSSCCCS-SCEEEEEEE-TTE--EEEEEECCCS
T ss_pred             CCCcEEEEECCCCCcHHHHHHHHhCCCceeecCCCCcce-eEEEEEEEe-ccE--EEEEEeeecc
Confidence            3578999999999999999999997543 2222 22322 222333444 564  5789999993

>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=98.77  E-value=5e-09  Score=68.46  Aligned_cols=58  Identities=26%  Similarity=0.309  Sum_probs=37.1

Q ss_pred             eeeEEEEEcCCCCCchhhhhhhhhCcCC--CCccCCceeEeEEEEEEecCCeEEEEEEEeCCCC
Q psy10878         69 KLFKVIVIGDPTVGKTSFVQRYVQNTFK--KDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQ  130 (131)
Q Consensus        69 ~~~ki~vvG~~~vGKSsli~~~~~~~~~--~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gq  130 (131)
                      ..+||+++|.+|||||||+|++++....  ..+..+... .....+.+ ++.  .+.++||+|.
T Consensus         7 ~~~kV~iiG~~~~GKSTLin~l~~~~~~~~~~~~~t~~~-~~~~~~~~-~~~--~~~~~d~~g~   66 (186)
T d1mkya2           7 DAIKVAIVGRPNVGKSTLFNAILNKERALVSPIPGTTRD-PVDDEVFI-DGR--KYVFVDTAGL   66 (186)
T ss_dssp             SCEEEEEECSTTSSHHHHHHHHHTSTTEEECCCC-------CCEEEEE-TTE--EEEESSCSCC
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHCCCcceeecccccccc-cceeeecc-CCc--eeeeeccCCc
Confidence            3689999999999999999999975431  222222222 21223444 554  4689999986

>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=98.75  E-value=1.5e-09  Score=70.35  Aligned_cols=56  Identities=25%  Similarity=0.456  Sum_probs=32.2

Q ss_pred             EEEEEcCCCCCchhhhhhhhhCcCC-CCccCCceeEeEEEEEEecCCeEEEEEEEeCCCC
Q psy10878         72 KVIVIGDPTVGKTSFVQRYVQNTFK-KDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQ  130 (131)
Q Consensus        72 ki~vvG~~~vGKSsli~~~~~~~~~-~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gq  130 (131)
                      .|+++|.+|||||||++++++.... ....+..........+..   ....+.+|||+|.
T Consensus         2 ~V~liG~~n~GKSsLi~~L~~~~~~~~~~~~~~t~~~~~~~~~~---~~~~~~~~d~~g~   58 (171)
T d1mkya1           2 TVLIVGRPNVGKSTLFNKLVKKKKAIVEDEEGVTRDPVQDTVEW---YGKTFKLVDTCGV   58 (171)
T ss_dssp             EEEEECCTTSSHHHHHHHHHC--------------CCSEEEEEE---TTEEEEEEECTTT
T ss_pred             EEEEECCCCCCHHHHHHHHhCCCcceecccCceeeccccccccc---cccccccccccce
Confidence            5899999999999999999865442 111122111122233332   3356889999984

>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=98.69  E-value=5.2e-09  Score=76.77  Aligned_cols=26  Identities=27%  Similarity=0.445  Sum_probs=23.1

Q ss_pred             eeeEEEEEcCCCCCchhhhhhhhhCc
Q psy10878         69 KLFKVIVIGDPTVGKTSFVQRYVQNT   94 (131)
Q Consensus        69 ~~~ki~vvG~~~vGKSsli~~~~~~~   94 (131)
                      ..++|+++|.+|||||||+|.+++..
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            35899999999999999999998744

>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=98.53  E-value=2.8e-08  Score=64.30  Aligned_cols=29  Identities=17%  Similarity=0.259  Sum_probs=24.2

Q ss_pred             CceeeEEEEEcCCCCCchhhhhhhhhCcC
Q psy10878         67 PEKLFKVIVIGDPTVGKTSFVQRYVQNTF   95 (131)
Q Consensus        67 ~~~~~ki~vvG~~~vGKSsli~~~~~~~~   95 (131)
                      .....+|+++|.+|||||||+|++.+...
T Consensus        13 ~~~~~~I~lvG~~NvGKSSL~n~L~~~~~   41 (188)
T d1puia_          13 SDTGIEVAFAGRSNAGKSSALNTLTNQKS   41 (188)
T ss_dssp             CSCSEEEEEEECTTSSHHHHHTTTCCC--
T ss_pred             CccCCEEEEECCCCCCHHHHHHHHhCCCc
Confidence            44578999999999999999999987654

>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=98.52  E-value=9e-08  Score=61.76  Aligned_cols=59  Identities=15%  Similarity=0.197  Sum_probs=35.7

Q ss_pred             eeeEEEEEcCCCCCchhhhhhhhhCcCC-CCccCCceeEeEEEEEEecCCeEEEEEEEeCCCC
Q psy10878         69 KLFKVIVIGDPTVGKTSFVQRYVQNTFK-KDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQ  130 (131)
Q Consensus        69 ~~~ki~vvG~~~vGKSsli~~~~~~~~~-~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gq  130 (131)
                      +.-.|+++|.+|||||||+|++.+.... ..+.++............ +..  .+..||++|.
T Consensus         4 ~~~~I~iiG~~nvGKSSLin~L~~~~~~~~~~~~~t~~~~~~~~~~~-~~~--~~~~~~~~~~   63 (179)
T d1egaa1           4 YCGFIAIVGRPNVGKSTLLNKLLGQKISITSRKAQTTRHRIVGIHTE-GAY--QAIYVDTPGL   63 (179)
T ss_dssp             EEEEEEEECSSSSSHHHHHHHHHTCSEEECCCCSSCCSSCEEEEEEE-TTE--EEEEESSSSC
T ss_pred             cccEEEEECCCCCCHHHHHHHHhCCCceeeccCCCceEEEEEeeeec-CCc--eeEeecCCCc
Confidence            4456999999999999999999975442 222233222222222222 333  3456888774

>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=98.49  E-value=6.2e-08  Score=63.16  Aligned_cols=26  Identities=19%  Similarity=0.195  Sum_probs=23.2

Q ss_pred             ceeeEEEEEcCCCCCchhhhhhhhhC
Q psy10878         68 EKLFKVIVIGDPTVGKTSFVQRYVQN   93 (131)
Q Consensus        68 ~~~~ki~vvG~~~vGKSsli~~~~~~   93 (131)
                      .+.++|+++|.+|+|||||+|++++.
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            46789999999999999999999853

>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=98.47  E-value=9e-08  Score=67.68  Aligned_cols=25  Identities=28%  Similarity=0.535  Sum_probs=20.5

Q ss_pred             eEEEEEcCCCCCchhhhhhhhhCcC
Q psy10878         71 FKVIVIGDPTVGKTSFVQRYVQNTF   95 (131)
Q Consensus        71 ~ki~vvG~~~vGKSsli~~~~~~~~   95 (131)
                      +||.++|.||||||||+|.+.+.+.
T Consensus         1 ~~v~lvG~pn~GKStlfn~lt~~~~   25 (319)
T d1wxqa1           1 MEIGVVGKPNVGKSTFFSAATLVDV   25 (319)
T ss_dssp             CEEEEEECTTSSHHHHHHHHHC---
T ss_pred             CcEeEECCCCCCHHHHHHHHHCCCC
Confidence            5899999999999999999985433

>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=98.32  E-value=3.3e-07  Score=60.08  Aligned_cols=25  Identities=24%  Similarity=0.488  Sum_probs=21.3

Q ss_pred             eEEEEEcCCCCCchhhhhhhhhCcC
Q psy10878         71 FKVIVIGDPTVGKTSFVQRYVQNTF   95 (131)
Q Consensus        71 ~ki~vvG~~~vGKSsli~~~~~~~~   95 (131)
                      .+|+++|.+|||||||+|++.+.+.
T Consensus        24 ~~I~lvG~~n~GKSTLin~L~g~~~   48 (195)
T d1svia_          24 PEIALAGRSNVGKSSFINSLINRKN   48 (195)
T ss_dssp             CEEEEEEBTTSSHHHHHHHHHTC--
T ss_pred             CEEEEECCCCCCHHHHHHHhcCCCc
Confidence            3799999999999999999987543

>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=98.30  E-value=1.4e-07  Score=65.60  Aligned_cols=26  Identities=27%  Similarity=0.484  Sum_probs=22.4

Q ss_pred             eeEEEEEcCCCCCchhhhhhhhhCcC
Q psy10878         70 LFKVIVIGDPTVGKTSFVQRYVQNTF   95 (131)
Q Consensus        70 ~~ki~vvG~~~vGKSsli~~~~~~~~   95 (131)
                      .+||-+||.||||||||++++.....
T Consensus         2 ~~~~GivG~Pn~GKSTlf~~lt~~~~   27 (278)
T d1jala1           2 GFKCGIVGLPNVGKSTLFNALTKAGI   27 (278)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHHTC-
T ss_pred             CceEEEECCCCCCHHHHHHHHHCCCC
Confidence            47999999999999999999986544

>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=98.28  E-value=1.1e-07  Score=64.29  Aligned_cols=21  Identities=29%  Similarity=0.434  Sum_probs=19.5

Q ss_pred             EEEEcCCCCCchhhhhhhhhC
Q psy10878         73 VIVIGDPTVGKTSFVQRYVQN   93 (131)
Q Consensus        73 i~vvG~~~vGKSsli~~~~~~   93 (131)
                      |+++|.+++|||||+++++..
T Consensus         8 IaIiGh~d~GKSTL~~~L~~~   28 (227)
T d1g7sa4           8 VSVLGHVDHGKTTLLDHIRGS   28 (227)
T ss_dssp             EEEECSTTSSHHHHHHHHHHH
T ss_pred             EEEEeCCCccHHHHHHHHHhh
Confidence            999999999999999999854

>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=98.21  E-value=3.3e-07  Score=61.14  Aligned_cols=59  Identities=19%  Similarity=0.161  Sum_probs=38.0

Q ss_pred             eeEEEEEcCCCCCchhhhhhhhhC--------cCCC----Cc-----cCCceeEeEEEEEEecCCeEEEEEEEeCCCCC
Q psy10878         70 LFKVIVIGDPTVGKTSFVQRYVQN--------TFKK----DY-----KGTVGVDFALKIVKWRDQQKIKLQLWDIAGQN  131 (131)
Q Consensus        70 ~~ki~vvG~~~vGKSsli~~~~~~--------~~~~----~~-----~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gqe  131 (131)
                      .++|+++|-.++|||||+++++..        ++..    .+     ...+..+.....+.+ ++.  ++.|+||||.+
T Consensus         3 ~ini~iiGhvd~GKSTL~~~Ll~~~g~~~~~~~~~~~~~~d~~~eE~~rgiTi~~~~~~~~~-~~~--~i~iiDtPGh~   78 (204)
T d2c78a3           3 HVNVGTIGHVDHGKTTLTAALTYVAAAENPNVEVKDYGDIDKAPEERARGITINTAHVEYET-AKR--HYSHVDCPGHA   78 (204)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHHHHHSCTTSCCCCHHHHSCSHHHHHHTCCCSCEEEEEEC-SSC--EEEEEECCCSG
T ss_pred             CeEEEEEeCCCCcHHHHHHHHHHHhhhccCCcchhhhhhcccchHHhcCCeEEEeeEEEEEe-CCe--EEEEEeCCCch
Confidence            579999999999999999998631        0000    00     012233334445666 554  57899999964

>d2gj8a1 c.37.1.8 (A:216-376) Probable tRNA modification GTPase TrmE (MnmE), G domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Probable tRNA modification GTPase TrmE (MnmE), G domain
species: Escherichia coli [TaxId: 562]

Probab=98.17  E-value=5.6e-08  Score=61.82  Aligned_cols=48  Identities=15%  Similarity=0.183  Sum_probs=39.1

Q ss_pred             CCCcEEeeccCCCccccccccccc--CCCCccccccCCccccccccccccc
Q psy10878          5 AKKPILLPSASEDPSIDNWDKASW--ENVTPIVSEQGDGEIIEIIDPSLKL   53 (131)
Q Consensus         5 ~~kp~vlv~NK~Dl~~~~~~~~~~--~~~~~is~~~~~~~~~~~~~~~~~~   53 (131)
                      .++|+++|+||+|+........++  .+++++||+++.| +.++++.+.+.
T Consensus       111 ~~~~iilv~NK~Dl~~~~~~~~~~~~~~~~~iSAk~~~g-i~~L~~~l~~~  160 (161)
T d2gj8a1         111 AKLPITVVRNKADITGETLGMSEVNGHALIRLSARTGEG-VDVLRNHLKQS  160 (161)
T ss_dssp             TTCCEEEEEECHHHHCCCCEEEEETTEEEEECCTTTCTT-HHHHHHHHHHH
T ss_pred             cccceeeccchhhhhhhHHHHHHhCCCcEEEEECCCCCC-HHHHHHHHHhh
Confidence            479999999999997766555554  6789999999999 99988876543

>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=98.17  E-value=3.1e-08  Score=63.87  Aligned_cols=51  Identities=12%  Similarity=0.158  Sum_probs=39.6

Q ss_pred             ccCCCcEEeeccCCCcccccc--ccc-----ccCCCCccccccCCcccccccccccccc
Q psy10878          3 YKAKKPILLPSASEDPSIDNW--DKA-----SWENVTPIVSEQGDGEIIEIIDPSLKLV   54 (131)
Q Consensus         3 ~~~~kp~vlv~NK~Dl~~~~~--~~~-----~~~~~~~is~~~~~~~~~~~~~~~~~~~   54 (131)
                      ++.++|+++|+||+|+.+...  ...     .+.+++++||+++.| +.++++.+.+.+
T Consensus       106 ~~~~~pviiv~NK~Dl~~~~~~~~~~~~~~~~~~~~i~iSAk~g~g-id~L~~~i~~~l  163 (171)
T d1mkya1         106 RKSTVDTILVANKAENLREFEREVKPELYSLGFGEPIPVSAEHNIN-LDTMLETIIKKL  163 (171)
T ss_dssp             HHHTCCEEEEEESCCSHHHHHHHTHHHHGGGSSCSCEECBTTTTBS-HHHHHHHHHHHH
T ss_pred             ccccccccccchhhhhhhhhhhHHHHHHHhcCCCCeEEEecCCCCC-HHHHHHHHHHhC
Confidence            456899999999999954321  111     127789999999999 999999888776

>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=98.15  E-value=7.7e-07  Score=62.36  Aligned_cols=26  Identities=27%  Similarity=0.543  Sum_probs=23.0

Q ss_pred             eeeEEEEEcCCCCCchhhhhhhhhCc
Q psy10878         69 KLFKVIVIGDPTVGKTSFVQRYVQNT   94 (131)
Q Consensus        69 ~~~ki~vvG~~~vGKSsli~~~~~~~   94 (131)
                      ..+||.+||.||||||||+|.+.+..
T Consensus         9 ~~~kiGivG~Pn~GKSTlfnalT~~~   34 (296)
T d1ni3a1           9 NNLKTGIVGMPNVGKSTFFRAITKSV   34 (296)
T ss_dssp             SCCEEEEEECSSSSHHHHHHHHHHST
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHCCC
Confidence            45899999999999999999998653

>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=98.10  E-value=2.3e-07  Score=60.27  Aligned_cols=49  Identities=14%  Similarity=0.190  Sum_probs=38.8

Q ss_pred             CCCcEEeeccCCCcccccccccc----c---CCCCccccccCCcccccccccccccc
Q psy10878          5 AKKPILLPSASEDPSIDNWDKAS----W---ENVTPIVSEQGDGEIIEIIDPSLKLV   54 (131)
Q Consensus         5 ~~kp~vlv~NK~Dl~~~~~~~~~----~---~~~~~is~~~~~~~~~~~~~~~~~~~   54 (131)
                      .++|+++|+||+|+.+.......    +   ..++++||.++.| +.++++.+.+.+
T Consensus       116 ~~kp~ivv~NK~Dl~~~~~~~~~~~~~~~~~~~v~~iSA~~g~G-i~~L~~~i~~~L  171 (185)
T d1lnza2         116 TERPQIIVANKMDMPEAAENLEAFKEKLTDDYPVFPISAVTREG-LRELLFEVANQL  171 (185)
T ss_dssp             TTSCBCBEEECTTSTTHHHHHHHHHHHCCSCCCBCCCSSCCSST-THHHHHHHHHHH
T ss_pred             cCCcchhhccccchHhHHHHHHHHHHHhccCCcEEEEECCCCCC-HHHHHHHHHHhh
Confidence            47899999999999765322221    2   5578999999999 999999988876

>d1wf3a1 c.37.1.8 (A:3-180) GTPase Era, N-terminal domain {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: GTPase Era, N-terminal domain
species: Thermus thermophilus [TaxId: 274]

Probab=98.07  E-value=1.4e-07  Score=61.18  Aligned_cols=49  Identities=18%  Similarity=0.195  Sum_probs=39.0

Q ss_pred             CCCcEEeeccCCCcccccccc-ccc------CCCCccccccCCcccccccccccccc
Q psy10878          5 AKKPILLPSASEDPSIDNWDK-ASW------ENVTPIVSEQGDGEIIEIIDPSLKLV   54 (131)
Q Consensus         5 ~~kp~vlv~NK~Dl~~~~~~~-~~~------~~~~~is~~~~~~~~~~~~~~~~~~~   54 (131)
                      .++|+++|+||+|+.+..... ..+      .+++++||+++.| +.++++.+.+.+
T Consensus       114 ~~~piilv~NK~Dl~~~~~~~~~~~~~~~~~~~~~~iSA~~~~g-i~~L~~~i~~~l  169 (178)
T d1wf3a1         114 GKVPILLVGNKLDAAKYPEEAMKAYHELLPEAEPRMLSALDERQ-VAELKADLLALM  169 (178)
T ss_dssp             TTSCEEEEEECGGGCSSHHHHHHHHHHTSTTSEEEECCTTCHHH-HHHHHHHHHTTC
T ss_pred             cchhhhhhhcccccccCHHHHHHHHHhhcccCceEEEecCCCCC-HHHHHHHHHHhC
Confidence            478999999999996543222 222      6788999999999 999999998887

>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=97.99  E-value=4.8e-06  Score=54.59  Aligned_cols=25  Identities=16%  Similarity=0.290  Sum_probs=22.4

Q ss_pred             ceeeEEEEEcCCCCCchhhhhhhhh
Q psy10878         68 EKLFKVIVIGDPTVGKTSFVQRYVQ   92 (131)
Q Consensus        68 ~~~~ki~vvG~~~vGKSsli~~~~~   92 (131)
                      ...++|+++|..++|||||++++.+
T Consensus         3 ~~~inIaiiGhvd~GKSTL~~~L~g   27 (195)
T d1kk1a3           3 QAEVNIGMVGHVDHGKTTLTKALTG   27 (195)
T ss_dssp             SEEEEEEEECSTTSSHHHHHHHHHT
T ss_pred             CCcEEEEEEeccCCcHHHHHHHHHh
Confidence            4567999999999999999999975

>d1wb1a4 c.37.1.8 (A:1-179) Elongation factor SelB, N-terminal domain {Methanococcus maripaludis [TaxId: 39152]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Elongation factor SelB, N-terminal domain
species: Methanococcus maripaludis [TaxId: 39152]

Probab=97.98  E-value=1.2e-07  Score=61.70  Aligned_cols=51  Identities=20%  Similarity=0.234  Sum_probs=39.0

Q ss_pred             ccCCCcEEeeccCCCcccccccc------cc-------c--CCCCccccccCCcccccccccccccc
Q psy10878          3 YKAKKPILLPSASEDPSIDNWDK------AS-------W--ENVTPIVSEQGDGEIIEIIDPSLKLV   54 (131)
Q Consensus         3 ~~~~kp~vlv~NK~Dl~~~~~~~------~~-------~--~~~~~is~~~~~~~~~~~~~~~~~~~   54 (131)
                      +..++|+++|+||+|+...+...      ..       +  .+++|+||++|.| +.++++.+.+.+
T Consensus       108 ~~~~~p~iiv~NKiD~~~~~~~~~~~~~~~~~~~~~~~~~~~~iv~iSA~~g~g-i~eL~~~I~~~l  173 (179)
T d1wb1a4         108 DHFNIPIIVVITKSDNAGTEEIKRTEMIMKSILQSTHNLKNSSIIPISAKTGFG-VDELKNLIITTL  173 (179)
T ss_dssp             HHTTCCBCEEEECTTSSCHHHHHHHHHHHHHHHHHSSSGGGCCEEECCTTTCTT-HHHHHHHHHHHH
T ss_pred             hhcCCcceeccccccccCHHHHHHHHHHHHHHHHHhhcCCCCeEEEEEccCCcC-HHHHHHHHHhcC
Confidence            35689999999999997643210      11       1  3678999999999 999999888776

>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=97.96  E-value=4.8e-06  Score=55.02  Aligned_cols=58  Identities=16%  Similarity=0.091  Sum_probs=37.7

Q ss_pred             eeEEEEEcCCCCCchhhhhhhhhC----------------cCCCCccCCceeEeEEEEEEecCCeEEEEEEEeCCCC
Q psy10878         70 LFKVIVIGDPTVGKTSFVQRYVQN----------------TFKKDYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQ  130 (131)
Q Consensus        70 ~~ki~vvG~~~vGKSsli~~~~~~----------------~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gq  130 (131)
                      .++|+++|-.+.|||||+++++..                ....+....+..+.....+.+ .  ...+.+.||||.
T Consensus         3 ~ini~iiGHvd~GKSTL~~~l~~~~~~~~~~~~~~~~~~~~~~~Er~rgiTi~~~~~~~~~-~--~~~~~~iDtPGh   76 (196)
T d1d2ea3           3 HVNVGTIGHVDHGKTTLTAAITKILAEGGGAKFKKYEEIDNAPEERARGITINAAHVEYST-A--ARHYAHTDCPGH   76 (196)
T ss_dssp             EEEEEEESSTTSSHHHHHHHHHHHHHHTTSBCCCCHHHHHSCCEEEETTEEEECEEEEEEC-S--SCEEEEEECSSH
T ss_pred             CcEEEEEeCCCCcHHHHHHHHHHHHHHcCcchhhhhhhcccchhhcCCCccCCcceEEEEe-c--eeeEEeecCcch
Confidence            478999999999999999998741                111222233333333344444 3  345789999995

>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=97.85  E-value=1.1e-06  Score=56.72  Aligned_cols=49  Identities=20%  Similarity=0.251  Sum_probs=37.8

Q ss_pred             CCCcEEeeccCCCcccccccc---ccc----CCCCccccccCCcccccccccccccc
Q psy10878          5 AKKPILLPSASEDPSIDNWDK---ASW----ENVTPIVSEQGDGEIIEIIDPSLKLV   54 (131)
Q Consensus         5 ~~kp~vlv~NK~Dl~~~~~~~---~~~----~~~~~is~~~~~~~~~~~~~~~~~~~   54 (131)
                      .++|+++|+||+|+.+.+...   ..+    ..++++||+++.| +.+|++.+.+.+
T Consensus       112 ~~~p~iiv~NK~D~~~~~~~~~~~~~~~~~~~~~~~iSA~tg~g-id~L~~~i~~~l  167 (180)
T d1udxa2         112 LRRPSLVALNKVDLLEEEAVKALADALAREGLAVLPVSALTGAG-LPALKEALHALV  167 (180)
T ss_dssp             HHSCEEEEEECCTTSCHHHHHHHHHHHHTTTSCEEECCTTTCTT-HHHHHHHHHHHH
T ss_pred             chhhhhhhhhhhhhhhHHHHHHHHHHHHhcCCeEEEEEcCCCCC-HHHHHHHHHHHH
Confidence            368999999999997654222   111    5678999999999 999999886666

>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=97.79  E-value=2.8e-07  Score=59.62  Aligned_cols=51  Identities=14%  Similarity=0.224  Sum_probs=37.5

Q ss_pred             ccCCCcEEeeccCCCcccccccc-cc----c--------CCCCccccccCCcccccccccccccc
Q psy10878          3 YKAKKPILLPSASEDPSIDNWDK-AS----W--------ENVTPIVSEQGDGEIIEIIDPSLKLV   54 (131)
Q Consensus         3 ~~~~kp~vlv~NK~Dl~~~~~~~-~~----~--------~~~~~is~~~~~~~~~~~~~~~~~~~   54 (131)
                      +..++|+++|+||+|+.+..... ..    +        ..++|+||+++.| +.++++.+.+.+
T Consensus       118 ~~~~~p~iiv~NK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~vSA~~g~g-i~~L~~~i~~~l  181 (184)
T d2cxxa1         118 RELDIPTIVAVNKLDKIKNVQEVINFLAEKFEVPLSEIDKVFIPISAKFGDN-IERLKNRIFEVI  181 (184)
T ss_dssp             HHTTCCEEEEEECGGGCSCHHHHHHHHHHHHTCCGGGHHHHEEECCTTTCTT-HHHHHHHHHHHH
T ss_pred             HHcCCCEEEEEeeeehhhhHHHHHHHHHHHhcccccccCCeEEEEECCCCCC-HHHHHHHHHHHc
Confidence            45689999999999986542211 11    1        3367899999999 999998887765

>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=97.72  E-value=3.3e-05  Score=51.80  Aligned_cols=26  Identities=15%  Similarity=0.485  Sum_probs=23.1

Q ss_pred             CCceeeEEEEEcCCCCCchhhhhhhh
Q psy10878         66 PPEKLFKVIVIGDPTVGKTSFVQRYV   91 (131)
Q Consensus        66 ~~~~~~ki~vvG~~~vGKSsli~~~~   91 (131)
                      .....++++++|-..+|||||+.+++
T Consensus         5 ~~~~~~~i~viGHVd~GKSTL~~~Ll   30 (222)
T d1zunb3           5 ERKEMLRFLTCGNVDDGKSTLIGRLL   30 (222)
T ss_dssp             TSCEEEEEEEECCTTSSHHHHHHHHH
T ss_pred             ccCCcceEEEEcCCCCCHHHHHHHHH
Confidence            45567899999999999999999986

>d1ye8a1 c.37.1.11 (A:1-178) Hypothetical kinase-like protein Aq_1292 {Aquifex aeolicus [TaxId: 63363]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Hypothetical kinase-like protein Aq 1292
species: Aquifex aeolicus [TaxId: 63363]

Probab=97.69  E-value=7.7e-06  Score=52.17  Aligned_cols=22  Identities=45%  Similarity=0.930  Sum_probs=20.3

Q ss_pred             eEEEEEcCCCCCchhhhhhhhh
Q psy10878         71 FKVIVIGDPTVGKTSFVQRYVQ   92 (131)
Q Consensus        71 ~ki~vvG~~~vGKSsli~~~~~   92 (131)
                      +||+++|++|+|||||++.+++
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            5899999999999999998885

>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=97.58  E-value=1.6e-06  Score=56.69  Aligned_cols=51  Identities=14%  Similarity=0.077  Sum_probs=37.4

Q ss_pred             ccCCCcEEeeccCCCcccccccc---c---c-c-----CCCCccccccCCcccccccccccccc
Q psy10878          3 YKAKKPILLPSASEDPSIDNWDK---A---S-W-----ENVTPIVSEQGDGEIIEIIDPSLKLV   54 (131)
Q Consensus         3 ~~~~kp~vlv~NK~Dl~~~~~~~---~---~-~-----~~~~~is~~~~~~~~~~~~~~~~~~~   54 (131)
                      +..++|+++|+||+|+.......   .   + +     ..++++||+++.| +.++++.+.+.+
T Consensus       131 ~~~~~piivv~NK~D~~~~~~~~~~~~~~~~~l~~~~~~~~~~~SA~~~~g-i~el~~~i~~~l  193 (195)
T d1svia_         131 KYYGIPVIVIATKADKIPKGKWDKHAKVVRQTLNIDPEDELILFSSETKKG-KDEAWGAIKKMI  193 (195)
T ss_dssp             HHTTCCEEEEEECGGGSCGGGHHHHHHHHHHHHTCCTTSEEEECCTTTCTT-HHHHHHHHHHHH
T ss_pred             ccccCcceechhhccccCHHHHHHHHHHHHHHhcccCCCCEEEEeCCCCCC-HHHHHHHHHHHh
Confidence            45689999999999985432111   1   1 1     4578999999999 999988776654

>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=97.58  E-value=2.3e-05  Score=54.12  Aligned_cols=56  Identities=18%  Similarity=0.283  Sum_probs=35.8

Q ss_pred             EEEEEcCCCCCchhhhhhhhhC--cCCC-----------C-----ccCCceeEeEEEEEEecCCeEEEEEEEeCCCC
Q psy10878         72 KVIVIGDPTVGKTSFVQRYVQN--TFKK-----------D-----YKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQ  130 (131)
Q Consensus        72 ki~vvG~~~vGKSsli~~~~~~--~~~~-----------~-----~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gq  130 (131)
                      +++++|..++|||||+.+++..  ....           .     ....+........+.+ ++.  +++++||||.
T Consensus         4 Nv~iiGh~~~GKTtL~e~ll~~~g~~~~~g~v~~g~~~~D~~~~E~~r~~ti~~~~~~~~~-~~~--~~n~iDtPGh   77 (267)
T d2dy1a2           4 TVALVGHAGSGKTTLTEALLYKTGAKERRGRVEEGTTTTDYTPEAKLHRTTVRTGVAPLLF-RGH--RVFLLDAPGY   77 (267)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHHTTSSSSCCCGGGTCCSSCCSHHHHHTTSCCSCEEEEEEE-TTE--EEEEEECCCS
T ss_pred             EEEEEcCCCCcHHHHHHHHHHHcCCchhhccchhccccccchHHHHHhCCeEEeecccccc-ccc--ceeEEccCch
Confidence            6999999999999999998621  1100           0     0011122233455667 554  5789999996

>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=97.55  E-value=1.4e-05  Score=54.24  Aligned_cols=23  Identities=26%  Similarity=0.456  Sum_probs=20.9

Q ss_pred             eeeEEEEEcCCCCCchhhhhhhh
Q psy10878         69 KLFKVIVIGDPTVGKTSFVQRYV   91 (131)
Q Consensus        69 ~~~ki~vvG~~~vGKSsli~~~~   91 (131)
                      ..++|+++|-...|||||+-+++
T Consensus         5 ~~iNi~iiGHvD~GKsTl~~~ll   27 (239)
T d1f60a3           5 SHINVVVIGHVDSGKSTTTGHLI   27 (239)
T ss_dssp             EEEEEEEEECTTSCHHHHHHHHH
T ss_pred             CccEEEEEeCCCCCHHHHHHHHH
Confidence            45899999999999999999886

>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=97.52  E-value=7.7e-06  Score=52.27  Aligned_cols=56  Identities=21%  Similarity=0.279  Sum_probs=42.2

Q ss_pred             ccCCCcEEeeccCCCcccccccccc--------c--CCCCccccccCCcccccccccccccccCCCccc
Q psy10878          3 YKAKKPILLPSASEDPSIDNWDKAS--------W--ENVTPIVSEQGDGEIIEIIDPSLKLVRVPSIRK   61 (131)
Q Consensus         3 ~~~~kp~vlv~NK~Dl~~~~~~~~~--------~--~~~~~is~~~~~~~~~~~~~~~~~~~~~~~~~~   61 (131)
                      +....|+++|+||+|......+...        +  .+++++||+++.| +.+|++.+.+.+  |+.+.
T Consensus       110 ~~~~~~~i~v~~k~d~~~~~~~~~~~~~~~~~~~~~~~~~~vSA~~g~g-i~~L~~~i~~~l--pe~~~  175 (179)
T d1egaa1         110 REGKAPVILAVNKVDNVQEKADLLPHLQFLASQMNFLDIVPISAETGLN-VDTIAAIVRKHL--PEATH  175 (179)
T ss_dssp             HSSSSCEEEEEESTTTCCCHHHHHHHHHHHHTTSCCSEEEECCTTTTTT-HHHHHHHHHTTC--CBCCC
T ss_pred             hhccCceeeeeeeeeccchhhhhhhHhhhhhhhcCCCCEEEEeCcCCCC-HHHHHHHHHHhC--CCCCC
Confidence            3456789999999998665332211        1  5789999999999 999999998887  55443

>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=97.50  E-value=5.3e-05  Score=52.45  Aligned_cols=57  Identities=16%  Similarity=0.324  Sum_probs=35.7

Q ss_pred             eEEEEEcCCCCCchhhhhhhhh--CcCCC----------------CccCCceeEeEEEEEEecCCeEEEEEEEeCCCC
Q psy10878         71 FKVIVIGDPTVGKTSFVQRYVQ--NTFKK----------------DYKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQ  130 (131)
Q Consensus        71 ~ki~vvG~~~vGKSsli~~~~~--~~~~~----------------~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gq  130 (131)
                      -+|+++|-.++|||||+.+++.  +....                +....+........+.+ ++  .+++|+||||.
T Consensus         7 Rni~i~gh~~~GKTtL~e~ll~~~g~~~~~g~v~~~~~~~D~~~~E~~r~~si~~~~~~~~~-~~--~~~n~iDtPG~   81 (276)
T d2bv3a2           7 RNIGIAAHIDAGKTTTTERILYYTGRIHKIGEVHEGAATMDFMEQERERGITITAAVTTCFW-KD--HRINIIDAPGH   81 (276)
T ss_dssp             EEEEEEECTTSCHHHHHHHHHHHHTSSCC-------------------CCCCCCCSEEEEEE-TT--EEEEEECCCSS
T ss_pred             eEEEEEeCCCCCHHHHHHHHHHhcCccccccceecCceEEeccHHHHhcCCccccceeeecc-CC--eEEEEecCCch
Confidence            3799999999999999999873  21110                00011112222345666 54  46899999996

>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=97.50  E-value=2.3e-05  Score=49.51  Aligned_cols=26  Identities=27%  Similarity=0.473  Sum_probs=22.4

Q ss_pred             CceeeEEEEEcCCCCCchhhhhhhhh
Q psy10878         67 PEKLFKVIVIGDPTVGKTSFVQRYVQ   92 (131)
Q Consensus        67 ~~~~~ki~vvG~~~vGKSsli~~~~~   92 (131)
                      ++..++|++.|.+|+||||+.+.+..
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            34568999999999999999998764

>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=97.49  E-value=4.8e-06  Score=55.08  Aligned_cols=47  Identities=11%  Similarity=0.138  Sum_probs=34.9

Q ss_pred             CcEEeeccCCCcccccccccc------c--------CCCCccccccCCcccccccccccccc
Q psy10878          7 KPILLPSASEDPSIDNWDKAS------W--------ENVTPIVSEQGDGEIIEIIDPSLKLV   54 (131)
Q Consensus         7 kp~vlv~NK~Dl~~~~~~~~~------~--------~~~~~is~~~~~~~~~~~~~~~~~~~   54 (131)
                      +|+++++||+|+.+.......      +        -.++|+||.+|.| +.++++.+..+.
T Consensus       141 ~~iIV~vNK~Dl~~~~~~~~~~~~~~~~l~~~~~~~~p~ipiSA~~g~n-I~~L~e~i~~~i  201 (205)
T d2qn6a3         141 KNLIIVQNKVDVVSKEEALSQYRQIKQFTKGTWAENVPIIPVSALHKIN-IDSLIEGIEEYI  201 (205)
T ss_dssp             CCEEEEEECGGGSCHHHHHHHHHHHHHHHTTSTTTTCCEEECBTTTTBS-HHHHHHHHHHHS
T ss_pred             ceeeeccccCCCccchHHHHHHHHHHHHhccccCCCCeEEEEeCCCCCC-hHHHHHHHHhhC
Confidence            578888999999764322211      1        2357899999999 999999887776

>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=97.42  E-value=2.2e-05  Score=49.73  Aligned_cols=22  Identities=23%  Similarity=0.471  Sum_probs=19.9

Q ss_pred             eEEEEEcCCCCCchhhhhhhhh
Q psy10878         71 FKVIVIGDPTVGKTSFVQRYVQ   92 (131)
Q Consensus        71 ~ki~vvG~~~vGKSsli~~~~~   92 (131)
                      -+|+|.|.+|+|||||++++..
T Consensus         8 K~I~i~G~~GsGKTTla~~La~   29 (192)
T d1lw7a2           8 KTVAILGGESSGKSVLVNKLAA   29 (192)
T ss_dssp             EEEEEECCTTSHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHH
Confidence            3799999999999999999874

>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=97.41  E-value=5.8e-05  Score=52.20  Aligned_cols=33  Identities=21%  Similarity=0.448  Sum_probs=27.0

Q ss_pred             EEEEEcCCCCCchhhhhhhhhCcC-CCCccCCce
Q psy10878         72 KVIVIGDPTVGKTSFVQRYVQNTF-KKDYKGTVG  104 (131)
Q Consensus        72 ki~vvG~~~vGKSsli~~~~~~~~-~~~~~~t~~  104 (131)
                      +++|+|+-++|||||+|.+++..+ +....|++.
T Consensus        28 ~ivvvG~~SsGKSsliNaLlg~~~lP~~~~~~T~   61 (299)
T d2akab1          28 QIAVVGGQSAGKSSVLENFVGRDFLPRGSGIVTR   61 (299)
T ss_dssp             EEEEEEBTTSCHHHHHHHHHTSCCSCCCSSCSCS
T ss_pred             eEEEEcCCCCCHHHHHHHHhCCCcCCCCCCcccc
Confidence            699999999999999999998886 444445543

>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=97.38  E-value=8.1e-05  Score=51.49  Aligned_cols=59  Identities=17%  Similarity=0.123  Sum_probs=40.5

Q ss_pred             eeEEEEEcCCCCCchhhhhhhhhCcCCCC-----ccCCceeEeEEEEEEecCCeEEEEEEEeCCCC
Q psy10878         70 LFKVIVIGDPTVGKTSFVQRYVQNTFKKD-----YKGTVGVDFALKIVKWRDQQKIKLQLWDIAGQ  130 (131)
Q Consensus        70 ~~ki~vvG~~~vGKSsli~~~~~~~~~~~-----~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~Gq  130 (131)
                      ..=|.++|...+|||+|+|++++..+.-.     ...|.|+......+  .++....+-++||.|.
T Consensus        32 v~vvsi~G~~~sGKS~llN~l~~~~~~f~~~~~~~~~T~Giw~~~~~~--~~~~~~~~~~lDteG~   95 (277)
T d1f5na2          32 MVVVAIVGLYRTGKSYLMNKLAGKKKGFSLGSTVQSHTKGIWMWCVPH--PKKPGHILVLLDTEGL   95 (277)
T ss_dssp             EEEEEEEEBTTSSHHHHHHHHTTCSSCSCCCCSSSCCCCSEEEEEEEC--SSSTTCEEEEEEECCB
T ss_pred             EEEEEEECCCCCCHHHHHHHHcCCCCCCccCCCCCCCCCceEEEEeec--cCCCCceEEEEecccc
Confidence            34588999999999999999997653211     23566655433333  3555566789999884

>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=97.37  E-value=0.00025  Score=46.46  Aligned_cols=24  Identities=29%  Similarity=0.354  Sum_probs=21.4

Q ss_pred             eeeEEEEEcCCCCCchhhhhhhhh
Q psy10878         69 KLFKVIVIGDPTVGKTSFVQRYVQ   92 (131)
Q Consensus        69 ~~~ki~vvG~~~vGKSsli~~~~~   92 (131)
                      ..++++++|..+.|||||++++++
T Consensus         7 p~ini~iiGhVd~GKSTL~~~L~~   30 (205)
T d2qn6a3           7 PEVNIGVVGHVDHGKTTLVQAITG   30 (205)
T ss_dssp             CCEEEEEECSTTSSHHHHHHHHHS
T ss_pred             CCeEEEEEEccCCcHHHHHHHHHh
Confidence            357999999999999999999985

>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=97.33  E-value=3e-05  Score=51.90  Aligned_cols=22  Identities=36%  Similarity=0.622  Sum_probs=20.1

Q ss_pred             eeEEEEEcCCCCCchhhhhhhh
Q psy10878         70 LFKVIVIGDPTVGKTSFVQRYV   91 (131)
Q Consensus        70 ~~ki~vvG~~~vGKSsli~~~~   91 (131)
                      .++|+++|--..|||||+-+++
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

>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=97.33  E-value=3.3e-05  Score=48.58  Aligned_cols=22  Identities=27%  Similarity=0.536  Sum_probs=19.6

Q ss_pred             eEEEEEcCCCCCchhhhhhhhh
Q psy10878         71 FKVIVIGDPTVGKTSFVQRYVQ   92 (131)
Q Consensus        71 ~ki~vvG~~~vGKSsli~~~~~   92 (131)
                      .+|+++|.||+||||+.+++..
T Consensus         5 ~~I~i~G~pGsGKTTia~~La~   26 (173)
T d1rkba_           5 PNILLTGTPGVGKTTLGKELAS   26 (173)
T ss_dssp             CCEEEECSTTSSHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHH
Confidence            4799999999999999998864

>d1fzqa_ c.37.1.8 (A:) ADP-ribosylation factor {Mouse (Mus musculus), ARL3 [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Mouse (Mus musculus), ARL3 [TaxId: 10090]

Probab=97.32  E-value=1.8e-05  Score=50.49  Aligned_cols=48  Identities=15%  Similarity=0.086  Sum_probs=34.3

Q ss_pred             CCCcEEeeccCCCccccccc--cc-----cc-----CCCCccccccCCccccccccccccc
Q psy10878          5 AKKPILLPSASEDPSIDNWD--KA-----SW-----ENVTPIVSEQGDGEIIEIIDPSLKL   53 (131)
Q Consensus         5 ~~kp~vlv~NK~Dl~~~~~~--~~-----~~-----~~~~~is~~~~~~~~~~~~~~~~~~   53 (131)
                      .++|+++|.||+|+.+....  ..     .+     ...+++||++|.| +.++++.+.+.
T Consensus       116 ~~~pillv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~SA~tg~g-v~e~~~~l~~~  175 (176)
T d1fzqa_         116 SCVPVLIFANKQDLLTAAPASEIAEGLNLHTIRDRVWQIQSCSALTGEG-VQDGMNWVCKN  175 (176)
T ss_dssp             TTCCEEEEEECTTSTTCCCHHHHHHHTTGGGCCSSCEEEEECCTTTCTT-HHHHHHHHHHT
T ss_pred             CCCeEEEEEEeccccccccHHHHHHHHHHHHHHhcCCEEEEEeCCCCCC-HHHHHHHHHhc
Confidence            47899999999999653211  00     11     2367899999999 99998876553

>d1g7sa4 c.37.1.8 (A:1-227) Initiation factor IF2/eIF5b, N-terminal (G) domain {Archaeon Methanobacterium thermoautotrophicum [TaxId: 145262]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Initiation factor IF2/eIF5b, N-terminal (G) domain
species: Archaeon Methanobacterium thermoautotrophicum [TaxId: 145262]

Probab=97.23  E-value=1.1e-05  Score=54.06  Aligned_cols=24  Identities=29%  Similarity=0.559  Sum_probs=19.7

Q ss_pred             CCCccccccCCcccccccccccccc
Q psy10878         30 NVTPIVSEQGDGEIIEIIDPSLKLV   54 (131)
Q Consensus        30 ~~~~is~~~~~~~~~~~~~~~~~~~   54 (131)
                      .++|+|+.+|.| +.+|++.+....
T Consensus       193 ~i~pvSa~~G~g-id~Ll~~l~~l~  216 (227)
T d1g7sa4         193 SIIPISAITGEG-IPELLTMLMGLA  216 (227)
T ss_dssp             EEEECCTTTCTT-HHHHHHHHHHHH
T ss_pred             eEEEeeCCCCCC-HHHHHHHHHHHH
Confidence            468999999999 999998776543

>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=97.23  E-value=6.5e-05  Score=47.08  Aligned_cols=20  Identities=15%  Similarity=0.328  Sum_probs=18.5

Q ss_pred             EEEEcCCCCCchhhhhhhhh
Q psy10878         73 VIVIGDPTVGKTSFVQRYVQ   92 (131)
Q Consensus        73 i~vvG~~~vGKSsli~~~~~   92 (131)
                      ++|+|.+|+|||||+++++.
T Consensus         5 i~itG~~GSGKTTL~~~L~~   24 (170)
T d1np6a_           5 LAFAAWSGTGKTTLLKKLIP   24 (170)
T ss_dssp             EEEECCTTSCHHHHHHHHHH
T ss_pred             EEEEcCCCCCHHHHHHHHHH
Confidence            78999999999999999874

>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=97.21  E-value=3.7e-05  Score=48.66  Aligned_cols=49  Identities=8%  Similarity=0.119  Sum_probs=36.9

Q ss_pred             CCCcEEeeccCCCcccccccc---ccc-----CCCCccccccCCcccccccccccccc
Q psy10878          5 AKKPILLPSASEDPSIDNWDK---ASW-----ENVTPIVSEQGDGEIIEIIDPSLKLV   54 (131)
Q Consensus         5 ~~kp~vlv~NK~Dl~~~~~~~---~~~-----~~~~~is~~~~~~~~~~~~~~~~~~~   54 (131)
                      .+.|+++|.||+|+.......   ..|     -..+.+||+++.| +.++++.+.+.+
T Consensus       107 ~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~e~Sak~g~g-i~e~f~~i~~~i  163 (166)
T d1ctqa_         107 DDVPMVLVGNKCDLAARTVESRQAQDLARSYGIPYIETSAKTRQG-VEDAFYTLVREI  163 (166)
T ss_dssp             SSCCEEEEEECTTCSCCCSCHHHHHHHHHHHTCCEEECCTTTCTT-HHHHHHHHHHHH
T ss_pred             CCCeEEEEecccccccccccHHHHHHHHHHhCCeEEEEcCCCCcC-HHHHHHHHHHHH
Confidence            468999999999996543222   223     4567899999999 999998876544

>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=97.19  E-value=3.5e-05  Score=49.05  Aligned_cols=48  Identities=4%  Similarity=-0.053  Sum_probs=34.5

Q ss_pred             CCCcEEeeccCCCccccccc-----cccc------CCCCccccccCCccccccccccccc
Q psy10878          5 AKKPILLPSASEDPSIDNWD-----KASW------ENVTPIVSEQGDGEIIEIIDPSLKL   53 (131)
Q Consensus         5 ~~kp~vlv~NK~Dl~~~~~~-----~~~~------~~~~~is~~~~~~~~~~~~~~~~~~   53 (131)
                      .+.|+++|.||+|+.+....     ..+|      ...+++||+++.| +.++++.+.+.
T Consensus       111 ~~~piilv~nK~Dl~~~~~~v~~~~~~~~~~~~~~~~~~e~SA~~g~g-v~e~f~~l~~~  169 (175)
T d1ky3a_         111 ETFPFVILGNKIDAEESKKIVSEKSAQELAKSLGDIPLFLTSAKNAIN-VDTAFEEIARS  169 (175)
T ss_dssp             TTCCEEEEEECTTSCGGGCCSCHHHHHHHHHHTTSCCEEEEBTTTTBS-HHHHHHHHHHH
T ss_pred             ccCcEEEEecccchhhhhcchhHHHHHHHHHHcCCCeEEEEeCCCCcC-HHHHHHHHHHH
Confidence            36799999999998654321     1122      3357799999999 99988776543

>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=97.19  E-value=1.6e-05  Score=51.92  Aligned_cols=47  Identities=15%  Similarity=0.237  Sum_probs=34.0

Q ss_pred             CcEEeeccCCCcccccccccc------c------C--CCCccccccCCcccccccccccccc
Q psy10878          7 KPILLPSASEDPSIDNWDKAS------W------E--NVTPIVSEQGDGEIIEIIDPSLKLV   54 (131)
Q Consensus         7 kp~vlv~NK~Dl~~~~~~~~~------~------~--~~~~is~~~~~~~~~~~~~~~~~~~   54 (131)
                      +++++++||+|+.+.......      +      +  .++|+||.+|.| +.+|++.+.+++
T Consensus       133 ~~iiv~inK~D~~d~~~~~~~~~~~~~~~~~~~~~~~~iIpiSA~~G~n-i~~Ll~~I~~~i  193 (195)
T d1kk1a3         133 KNIIIAQNKIELVDKEKALENYRQIKEFIEGTVAENAPIIPISALHGAN-IDVLVKAIEDFI  193 (195)
T ss_dssp             CCEEEEEECGGGSCHHHHHHHHHHHHHHHTTSTTTTCCEEECBTTTTBS-HHHHHHHHHHHS
T ss_pred             ccceeeeecccchhhHHHHHHHHHHHHHhccccCCCCeEEEEECCCCCC-HHHHHHHHHHHC
Confidence            447888999999765322111      1      2  347999999999 999998887765

>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=97.16  E-value=0.00032  Score=49.81  Aligned_cols=20  Identities=25%  Similarity=0.401  Sum_probs=19.0

Q ss_pred             EEEEEcCCCCCchhhhhhhh
Q psy10878         72 KVIVIGDPTVGKTSFVQRYV   91 (131)
Q Consensus        72 ki~vvG~~~vGKSsli~~~~   91 (131)
                      +|+++|..+.|||||+.+++
T Consensus        19 NI~iiGhvd~GKTTL~d~Ll   38 (341)
T d1n0ua2          19 NMSVIAHVDHGKSTLTDSLV   38 (341)
T ss_dssp             EEEEECCGGGTHHHHHHHHH
T ss_pred             EEEEEeCCCCcHHHHHHHHH
Confidence            69999999999999999987

>d1ksha_ c.37.1.8 (A:) ADP-ribosylation factor {Mouse (Mus musculus), ARL2 [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Mouse (Mus musculus), ARL2 [TaxId: 10090]

Probab=97.15  E-value=2.3e-05  Score=49.50  Aligned_cols=49  Identities=14%  Similarity=0.056  Sum_probs=34.9

Q ss_pred             CCCcEEeeccCCCcccccc---cccc-----c----CCCCccccccCCcccccccccccccc
Q psy10878          5 AKKPILLPSASEDPSIDNW---DKAS-----W----ENVTPIVSEQGDGEIIEIIDPSLKLV   54 (131)
Q Consensus         5 ~~kp~vlv~NK~Dl~~~~~---~~~~-----~----~~~~~is~~~~~~~~~~~~~~~~~~~   54 (131)
                      .+.|+++|.||+|+.+...   ....     .    -.++++||++|.| +.++++.+.+..
T Consensus       102 ~~~p~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~g~g-v~e~~~~l~~~i  162 (165)
T d1ksha_         102 AGATLLIFANKQDLPGALSCNAIQEALELDSIRSHHWRIQGCSAVTGED-LLPGIDWLLDDI  162 (165)
T ss_dssp             TTCEEEEEEECTTSTTCCCHHHHHHHTTGGGCCSSCEEEEECCTTTCTT-HHHHHHHHHHHH
T ss_pred             CCCceEEEEeccccccccCHHHHHHHHHhhhhhcCCCEEEEEECCCCCC-HHHHHHHHHHHH
Confidence            5689999999999854311   1111     1    1357899999999 999998876654

>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=97.14  E-value=9.3e-05  Score=47.15  Aligned_cols=22  Identities=23%  Similarity=0.537  Sum_probs=19.3

Q ss_pred             eEEEEEcCCCCCchhhhhhhhh
Q psy10878         71 FKVIVIGDPTVGKTSFVQRYVQ   92 (131)
Q Consensus        71 ~ki~vvG~~~vGKSsli~~~~~   92 (131)
                      ++|+++|.||+||||+...++.
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            4799999999999999987753

>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=97.13  E-value=0.00012  Score=47.59  Aligned_cols=25  Identities=24%  Similarity=0.575  Sum_probs=22.0

Q ss_pred             ceeeEEEEEcCCCCCchhhhhhhhh
Q psy10878         68 EKLFKVIVIGDPTVGKTSFVQRYVQ   92 (131)
Q Consensus        68 ~~~~ki~vvG~~~vGKSsli~~~~~   92 (131)
                      .+.++|+++|.||+||||+...++.
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            4567999999999999999998874

>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=97.13  E-value=0.00017  Score=49.94  Aligned_cols=32  Identities=22%  Similarity=0.446  Sum_probs=23.4

Q ss_pred             EEEEEcCCCCCchhhhhhhhhCcC-CCCccCCc
Q psy10878         72 KVIVIGDPTVGKTSFVQRYVQNTF-KKDYKGTV  103 (131)
Q Consensus        72 ki~vvG~~~vGKSsli~~~~~~~~-~~~~~~t~  103 (131)
                      +++|+|+.++|||||+|.+++..+ +....|++
T Consensus        26 ~ivVvG~~ssGKSSliNaLlG~~~lP~~~~~~T   58 (306)
T d1jwyb_          26 QIVVVGSQSSGKSSVLENIVGRDFLPRGSGIVT   58 (306)
T ss_dssp             EEEEEECSSSSHHHHHHHHHTSCCCCC------
T ss_pred             eEEEEeCCCCCHHHHHHHHhCCCCCCCCCCccc
Confidence            699999999999999999998876 43333433

>d2f9la1 c.37.1.8 (A:8-182) Rab11b {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab11b
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.11  E-value=3.6e-05  Score=49.18  Aligned_cols=48  Identities=10%  Similarity=0.003  Sum_probs=35.2

Q ss_pred             CCCcEEeeccCCCcccccccccc----c-----CCCCccccccCCccccccccccccc
Q psy10878          5 AKKPILLPSASEDPSIDNWDKAS----W-----ENVTPIVSEQGDGEIIEIIDPSLKL   53 (131)
Q Consensus         5 ~~kp~vlv~NK~Dl~~~~~~~~~----~-----~~~~~is~~~~~~~~~~~~~~~~~~   53 (131)
                      .+.|+++|.||+|+.+......+    +     ...+.+||+++.| +.++++.+.+.
T Consensus       108 ~~~piilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~g~~-i~e~f~~l~~~  164 (175)
T d2f9la1         108 SNIVIMLVGNKSDLRHLRAVPTDEARAFAEKNNLSFIETSALDSTN-VEEAFKNILTE  164 (175)
T ss_dssp             TTCEEEEEEECTTCGGGCCSCHHHHHHHHHHTTCEEEECCTTTCTT-HHHHHHHHHHH
T ss_pred             CCCcEEEEEeeecccccccchHHHHHHhhcccCceEEEEecCCCcC-HHHHHHHHHHH
Confidence            35799999999999764322211    1     5567899999999 99988776654

>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=97.10  E-value=0.00011  Score=47.39  Aligned_cols=24  Identities=21%  Similarity=0.469  Sum_probs=20.8

Q ss_pred             eeeEEEEEcCCCCCchhhhhhhhh
Q psy10878         69 KLFKVIVIGDPTVGKTSFVQRYVQ   92 (131)
Q Consensus        69 ~~~ki~vvG~~~vGKSsli~~~~~   92 (131)
                      ..++|+++|.||+||||+...++.
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            356899999999999999998773

>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=97.08  E-value=0.00012  Score=47.00  Aligned_cols=22  Identities=27%  Similarity=0.604  Sum_probs=19.6

Q ss_pred             eEEEEEcCCCCCchhhhhhhhh
Q psy10878         71 FKVIVIGDPTVGKTSFVQRYVQ   92 (131)
Q Consensus        71 ~ki~vvG~~~vGKSsli~~~~~   92 (131)
                      ++|+++|.||+||||++..++.
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            5799999999999999988774

>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=97.07  E-value=1.9e-05  Score=50.11  Aligned_cols=49  Identities=10%  Similarity=0.084  Sum_probs=35.4

Q ss_pred             CCCcEEeeccCCCcccccccc----ccc-----CCCCccccccCCcccccccccccccc
Q psy10878          5 AKKPILLPSASEDPSIDNWDK----ASW-----ENVTPIVSEQGDGEIIEIIDPSLKLV   54 (131)
Q Consensus         5 ~~kp~vlv~NK~Dl~~~~~~~----~~~-----~~~~~is~~~~~~~~~~~~~~~~~~~   54 (131)
                      .+.|++||.||+|+.+.....    ..+     ...+.+||+++.| +.++++.+.+.+
T Consensus       107 ~~~piilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~e~Sak~g~~-i~e~f~~i~~~i  164 (167)
T d1kaoa_         107 EKVPVILVGNKVDLESEREVSSSEGRALAEEWGCPFMETSAKSKTM-VDELFAEIVRQM  164 (167)
T ss_dssp             SCCCEEEEEECGGGGGGCCSCHHHHHHHHHHHTSCEEEECTTCHHH-HHHHHHHHHHHH
T ss_pred             CCCCEEEEEEccchhhcccchHHHHHHHHHHcCCeEEEECCCCCcC-HHHHHHHHHHHH
Confidence            468999999999986543211    122     4567899999999 999888776543

>d1vg8a_ c.37.1.8 (A:) Rab7 {Rat (Rattus norvegicus) [TaxId: 10116]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab7
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=97.06  E-value=4.8e-05  Score=48.91  Aligned_cols=47  Identities=6%  Similarity=0.068  Sum_probs=34.3

Q ss_pred             CCcEEeeccCCCccccccccc---cc------CCCCccccccCCccccccccccccc
Q psy10878          6 KKPILLPSASEDPSIDNWDKA---SW------ENVTPIVSEQGDGEIIEIIDPSLKL   53 (131)
Q Consensus         6 ~kp~vlv~NK~Dl~~~~~~~~---~~------~~~~~is~~~~~~~~~~~~~~~~~~   53 (131)
                      +.|+++|.||+|+.+.+....   .+      ...+.+||+++.| +.++++.+.+.
T Consensus       111 ~ip~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~e~Sak~~~g-I~e~f~~l~~~  166 (184)
T d1vg8a_         111 NFPFVVLGNKIDLENRQVATKRAQAWCYSKNNIPYFETSAKEAIN-VEQAFQTIARN  166 (184)
T ss_dssp             GSCEEEEEECTTSSCCCSCHHHHHHHHHHTTSCCEEECBTTTTBS-HHHHHHHHHHH
T ss_pred             CCCEEEEEEeecccccchhHHHHHHHHHHhcCCeEEEEcCCCCcC-HHHHHHHHHHH
Confidence            579999999999966432221   12      3346799999999 99998876554

>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=97.06  E-value=1.8e-05  Score=50.87  Aligned_cols=51  Identities=10%  Similarity=0.013  Sum_probs=36.9

Q ss_pred             ccCCCcEEeeccCCCcccccc-ccccc-------------CCCCccccccCCcccccccccccccc
Q psy10878          3 YKAKKPILLPSASEDPSIDNW-DKASW-------------ENVTPIVSEQGDGEIIEIIDPSLKLV   54 (131)
Q Consensus         3 ~~~~kp~vlv~NK~Dl~~~~~-~~~~~-------------~~~~~is~~~~~~~~~~~~~~~~~~~   54 (131)
                      ++.++|+++|+||+|+..... ...++             .+++++||+++.| +.+|++.+...+
T Consensus       117 ~~~~~~~i~v~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~vSa~~g~g-v~~L~~~i~~~~  181 (186)
T d1mkya2         117 ERRGRASVVVFNKWDLVVHREKRYDEFTKLFREKLYFIDYSPLIFTSADKGWN-IDRMIDAMNLAY  181 (186)
T ss_dssp             HHTTCEEEEEEECGGGSTTGGGCHHHHHHHHHHHCGGGTTSCEEECBTTTTBS-HHHHHHHHHHHH
T ss_pred             HHcCCceeeeccchhhhcchhhhhhhHHHHHHHHhcccCCCeEEEEeCCCCCC-HHHHHHHHHHHH
Confidence            456899999999999854332 11111             4578999999999 999988775543

>d1z2aa1 c.37.1.8 (A:8-171) Rab23 {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab23
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=97.05  E-value=3.7e-05  Score=48.58  Aligned_cols=48  Identities=10%  Similarity=-0.035  Sum_probs=35.0

Q ss_pred             CCCcEEeeccCCCccccccc----cccc-----CCCCccccccCCccccccccccccc
Q psy10878          5 AKKPILLPSASEDPSIDNWD----KASW-----ENVTPIVSEQGDGEIIEIIDPSLKL   53 (131)
Q Consensus         5 ~~kp~vlv~NK~Dl~~~~~~----~~~~-----~~~~~is~~~~~~~~~~~~~~~~~~   53 (131)
                      .+.|++||.||+|+.+....    ...|     ...+.+||+++.| +.++++.+.+.
T Consensus       105 ~~~~iilVgnK~Dl~~~~~v~~~~~~~~~~~~~~~~~e~Sak~g~~-v~e~f~~l~~~  161 (164)
T d1z2aa1         105 GDIPTALVQNKIDLLDDSCIKNEEAEGLAKRLKLRFYRTSVKEDLN-VSEVFKYLAEK  161 (164)
T ss_dssp             CSCCEEEEEECGGGGGGCSSCHHHHHHHHHHHTCEEEECBTTTTBS-SHHHHHHHHHH
T ss_pred             CCceEEEeeccCCcccceeeeehhhHHHHHHcCCEEEEeccCCCcC-HHHHHHHHHHH
Confidence            47899999999999654321    1222     3567899999999 99988766543

>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=97.04  E-value=0.00013  Score=46.62  Aligned_cols=22  Identities=23%  Similarity=0.581  Sum_probs=19.7

Q ss_pred             eEEEEEcCCCCCchhhhhhhhh
Q psy10878         71 FKVIVIGDPTVGKTSFVQRYVQ   92 (131)
Q Consensus        71 ~ki~vvG~~~vGKSsli~~~~~   92 (131)
                      ++|+++|.||+||||+...+..
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            5899999999999999998763

>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=97.04  E-value=0.00012  Score=45.16  Aligned_cols=20  Identities=25%  Similarity=0.753  Sum_probs=18.0

Q ss_pred             EEEEcCCCCCchhhhhhhhh
Q psy10878         73 VIVIGDPTVGKTSFVQRYVQ   92 (131)
Q Consensus        73 i~vvG~~~vGKSsli~~~~~   92 (131)
                      |++.|.||+||||+++++..
T Consensus         5 Iii~G~pGsGKTTla~~L~~   24 (152)
T d1ly1a_           5 ILTIGCPGSGKSTWAREFIA   24 (152)
T ss_dssp             EEEECCTTSSHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHH
Confidence            78899999999999998864

>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=97.04  E-value=6.1e-05  Score=47.98  Aligned_cols=48  Identities=8%  Similarity=0.162  Sum_probs=34.6

Q ss_pred             CCCcEEeeccCCCccccccc---cccc------CCCCccccccCCccccccccccccc
Q psy10878          5 AKKPILLPSASEDPSIDNWD---KASW------ENVTPIVSEQGDGEIIEIIDPSLKL   53 (131)
Q Consensus         5 ~~kp~vlv~NK~Dl~~~~~~---~~~~------~~~~~is~~~~~~~~~~~~~~~~~~   53 (131)
                      .+.|++||.||+|+.+.+..   ..+|      -..+.+||+++.| +.++++.+.+.
T Consensus       114 ~~~piilVgnK~Dl~~~~v~~~~~~~~~~~~~~~~~~e~Sak~~~g-I~e~f~~l~~~  170 (174)
T d1wmsa_         114 ESFPFVILGNKIDISERQVSTEEAQAWCRDNGDYPYFETSAKDATN-VAAAFEEAVRR  170 (174)
T ss_dssp             TTSCEEEEEECTTCSSCSSCHHHHHHHHHHTTCCCEEECCTTTCTT-HHHHHHHHHHH
T ss_pred             CCceEEEeccccchhhccCcHHHHHHHHHHcCCCeEEEEcCCCCcC-HHHHHHHHHHH
Confidence            36899999999999654311   1223      2346799999999 99998776554

>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=97.02  E-value=0.00011  Score=46.42  Aligned_cols=20  Identities=30%  Similarity=0.551  Sum_probs=17.6

Q ss_pred             EEEEcCCCCCchhhhhhhhh
Q psy10878         73 VIVIGDPTVGKTSFVQRYVQ   92 (131)
Q Consensus        73 i~vvG~~~vGKSsli~~~~~   92 (131)
                      +.|+|.+|+|||||+.+++.
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            35999999999999998874

>d1moza_ c.37.1.8 (A:) ADP-ribosylation factor {Baker's yeast (Saccharomyces cerevisiae), ARL1 [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Baker's yeast (Saccharomyces cerevisiae), ARL1 [TaxId: 4932]

Probab=97.00  E-value=4.6e-05  Score=48.87  Aligned_cols=49  Identities=14%  Similarity=0.144  Sum_probs=35.0

Q ss_pred             CCCcEEeeccCCCccccc---cccccc---------CCCCccccccCCcccccccccccccc
Q psy10878          5 AKKPILLPSASEDPSIDN---WDKASW---------ENVTPIVSEQGDGEIIEIIDPSLKLV   54 (131)
Q Consensus         5 ~~kp~vlv~NK~Dl~~~~---~~~~~~---------~~~~~is~~~~~~~~~~~~~~~~~~~   54 (131)
                      .+.|+++|.||+|+.+..   .....+         -.++++||++|.| +.++++.+.+.+
T Consensus       117 ~~~piliv~NK~Dl~~~~~~~~i~~~~~~~~~~~~~~~~~e~SA~~g~g-v~e~~~~l~~~i  177 (182)
T d1moza_         117 QDAALLVFANKQDQPGALSASEVSKELNLVELKDRSWSIVASSAIKGEG-ITEGLDWLIDVI  177 (182)
T ss_dssp             SSCEEEEEEECTTSTTCCCHHHHHHHTTTTTCCSSCEEEEEEBGGGTBT-HHHHHHHHHHHH
T ss_pred             CCcceEEEEEeeccccccCHHHHHHHHHHHHHhhCCCEEEEEECCCCCC-HHHHHHHHHHHH
Confidence            468999999999995421   111111         2357899999999 999988776654

>d1zj6a1 c.37.1.8 (A:2-178) ADP-ribosylation factor {Human (Homo sapiens), ARL5A [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Human (Homo sapiens), ARL5A [TaxId: 9606]

Probab=97.00  E-value=4e-05  Score=48.65  Aligned_cols=50  Identities=10%  Similarity=0.083  Sum_probs=36.1

Q ss_pred             cCCCcEEeeccCCCccccccc--cccc----------CCCCccccccCCcccccccccccccc
Q psy10878          4 KAKKPILLPSASEDPSIDNWD--KASW----------ENVTPIVSEQGDGEIIEIIDPSLKLV   54 (131)
Q Consensus         4 ~~~kp~vlv~NK~Dl~~~~~~--~~~~----------~~~~~is~~~~~~~~~~~~~~~~~~~   54 (131)
                      ..+.|+++|+||+|+......  .++.          ..++++||++|.| +.++++.+.+.+
T Consensus       114 ~~~~p~iiv~nK~Dl~~~~~~~~i~~~~~~~~~~~~~~~~~~~Sa~tg~G-i~e~~~~L~~~l  175 (177)
T d1zj6a1         114 LRKAGLLIFANKQDVKECMTVAEISQFLKLTSIKDHQWHIQACCALTGEG-LCQGLEWMMSRL  175 (177)
T ss_dssp             GTTCEEEEEEECTTSTTCCCHHHHHHHHTGGGCCSSCEEEEECBTTTTBT-HHHHHHHHHHHH
T ss_pred             ccceEEEEEEEcccccccCcHHHHHHHHHHHhhHhcCCEEEEEeCCCCCC-HHHHHHHHHHHh
Confidence            357899999999998543211  1111          2467899999999 999988776654

>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=96.99  E-value=0.00014  Score=45.43  Aligned_cols=20  Identities=30%  Similarity=0.511  Sum_probs=18.3

Q ss_pred             EEEEcCCCCCchhhhhhhhh
Q psy10878         73 VIVIGDPTVGKTSFVQRYVQ   92 (131)
Q Consensus        73 i~vvG~~~vGKSsli~~~~~   92 (131)
                      |++.|.+|+||||+++++..
T Consensus         5 I~i~G~~GsGKTTva~~L~~   24 (176)
T d2bdta1           5 YIITGPAGVGKSTTCKRLAA   24 (176)
T ss_dssp             EEEECSTTSSHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHH
Confidence            88999999999999998874

>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=96.99  E-value=0.00013  Score=45.09  Aligned_cols=21  Identities=19%  Similarity=0.455  Sum_probs=18.7

Q ss_pred             EEEEEcCCCCCchhhhhhhhh
Q psy10878         72 KVIVIGDPTVGKTSFVQRYVQ   92 (131)
Q Consensus        72 ki~vvG~~~vGKSsli~~~~~   92 (131)
                      .|+++|.+|+||||+...+..
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            499999999999999988764

>d1yzqa1 c.37.1.8 (A:14-177) Rab6 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab6
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.99  E-value=7.6e-05  Score=46.96  Aligned_cols=49  Identities=8%  Similarity=0.007  Sum_probs=36.5

Q ss_pred             CCCcEEeeccCCCcccccccc----ccc-----CCCCccccccCCcccccccccccccc
Q psy10878          5 AKKPILLPSASEDPSIDNWDK----ASW-----ENVTPIVSEQGDGEIIEIIDPSLKLV   54 (131)
Q Consensus         5 ~~kp~vlv~NK~Dl~~~~~~~----~~~-----~~~~~is~~~~~~~~~~~~~~~~~~~   54 (131)
                      .+.|+++|.||+|+.+.....    ..+     ...+.+||+++.| +.+++..+.+.+
T Consensus       104 ~~~~iilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~e~SAk~g~~-v~e~f~~i~~~l  161 (164)
T d1yzqa1         104 SDVIIMLVGNKTDLADKRQVSIEEGERKAKELNVMFIETSAKAGYN-VKQLFRRVAAAL  161 (164)
T ss_dssp             TSSEEEEEEECTTCGGGCCSCHHHHHHHHHHTTCEEEECCTTTCTT-HHHHHHHHHHHS
T ss_pred             CCceEEEEecccchhhhhhhhHHHHHHHHHHcCCEEEEecCCCCcC-HHHHHHHHHHhh
Confidence            468899999999996543222    122     3457899999999 999998887765

>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=96.97  E-value=0.00017  Score=46.17  Aligned_cols=23  Identities=22%  Similarity=0.473  Sum_probs=20.4

Q ss_pred             eeEEEEEcCCCCCchhhhhhhhh
Q psy10878         70 LFKVIVIGDPTVGKTSFVQRYVQ   92 (131)
Q Consensus        70 ~~ki~vvG~~~vGKSsli~~~~~   92 (131)
                      .++|+++|.||+||||+...+..
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            46899999999999999988764

>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=96.96  E-value=0.00015  Score=46.99  Aligned_cols=20  Identities=25%  Similarity=0.537  Sum_probs=18.2

Q ss_pred             EEEEEcCCCCCchhhhhhhh
Q psy10878         72 KVIVIGDPTVGKTSFVQRYV   91 (131)
Q Consensus        72 ki~vvG~~~vGKSsli~~~~   91 (131)
                      =|+++|.||+||||+.+++.
T Consensus         4 li~l~GlpgsGKSTla~~L~   23 (213)
T d1bifa1           4 LIVMVGLPARGKTYISKKLT   23 (213)
T ss_dssp             EEEEECCTTSSHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHH
Confidence            48999999999999999876

>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=96.94  E-value=0.00016  Score=46.09  Aligned_cols=22  Identities=27%  Similarity=0.604  Sum_probs=19.4

Q ss_pred             eEEEEEcCCCCCchhhhhhhhh
Q psy10878         71 FKVIVIGDPTVGKTSFVQRYVQ   92 (131)
Q Consensus        71 ~ki~vvG~~~vGKSsli~~~~~   92 (131)
                      ++|+++|.||+||||...++..
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            5899999999999999987763

>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=96.94  E-value=4.9e-05  Score=48.38  Aligned_cols=49  Identities=18%  Similarity=0.076  Sum_probs=35.0

Q ss_pred             CCCcEEeeccCCCcccccc---ccccc---------CCCCccccccCCcccccccccccccc
Q psy10878          5 AKKPILLPSASEDPSIDNW---DKASW---------ENVTPIVSEQGDGEIIEIIDPSLKLV   54 (131)
Q Consensus         5 ~~kp~vlv~NK~Dl~~~~~---~~~~~---------~~~~~is~~~~~~~~~~~~~~~~~~~   54 (131)
                      .++|+++|.||+|+.+...   ....+         ...+++||+.|.| +.++++.+.+.+
T Consensus       112 ~~~piiiv~NK~Dl~~~~~~~~i~~~~~~~~~~~~~~~~~e~SA~tg~g-v~e~~~~l~~~~  172 (173)
T d1e0sa_         112 RDAIILIFANKQDLPDAMKPHEIQEKLGLTRIRDRNWYVQPSCATSGDG-LYEGLTWLTSNY  172 (173)
T ss_dssp             TTCEEEEEEECTTSTTCCCHHHHHHHTTGGGCCSSCEEEEECBTTTTBT-HHHHHHHHHHHC
T ss_pred             ccceeeeeeecccccccccHHHHHHHHHHHHHHhCCCEEEEeeCCCCcC-HHHHHHHHHHhc
Confidence            4789999999999964311   11111         1256899999999 999988876654

>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=96.93  E-value=0.00014  Score=46.94  Aligned_cols=23  Identities=26%  Similarity=0.411  Sum_probs=19.9

Q ss_pred             eeEEEEEcCCCCCchhhhhhhhh
Q psy10878         70 LFKVIVIGDPTVGKTSFVQRYVQ   92 (131)
Q Consensus        70 ~~ki~vvG~~~vGKSsli~~~~~   92 (131)
                      .++|+++|.+|+||||++..+..
T Consensus         3 Pm~I~i~GppGsGKsT~a~~La~   25 (189)
T d1zaka1           3 PLKVMISGAPASGKGTQCELIKT   25 (189)
T ss_dssp             SCCEEEEESTTSSHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHH
Confidence            35799999999999999987763

>d1z0ja1 c.37.1.8 (A:2-168) Rab-22a {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab-22a
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=96.93  E-value=9.3e-05  Score=46.77  Aligned_cols=49  Identities=6%  Similarity=-0.058  Sum_probs=36.0

Q ss_pred             CCCcEEeeccCCCcccccccc----ccc-----CCCCccccccCCcccccccccccccc
Q psy10878          5 AKKPILLPSASEDPSIDNWDK----ASW-----ENVTPIVSEQGDGEIIEIIDPSLKLV   54 (131)
Q Consensus         5 ~~kp~vlv~NK~Dl~~~~~~~----~~~-----~~~~~is~~~~~~~~~~~~~~~~~~~   54 (131)
                      .+.|+++|.||+|+.+.....    ..|     ...+.+||+.+.| +.+++..+.+.+
T Consensus       108 ~~~~iilvgnK~Dl~~~~~v~~~~~~~~~~~~~~~~~e~SAk~~~n-V~e~f~~l~~~i  165 (167)
T d1z0ja1         108 PSIVVAIAGNKCDLTDVREVMERDAKDYADSIHAIFVETSAKNAIN-INELFIEISRRI  165 (167)
T ss_dssp             TTSEEEEEEECTTCGGGCCSCHHHHHHHHHHTTCEEEECBTTTTBS-HHHHHHHHHHHC
T ss_pred             CcceEEEecccchhccccchhHHHHHHHHHHcCCEEEEEecCCCCC-HHHHHHHHHHhC
Confidence            468999999999996543221    122     3347899999999 999988776655

>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=96.93  E-value=9.6e-05  Score=46.97  Aligned_cols=49  Identities=10%  Similarity=-0.027  Sum_probs=35.9

Q ss_pred             CCCcEEeeccCCCccccccccc--cc-----CCCCccccccCCcccccccccccccc
Q psy10878          5 AKKPILLPSASEDPSIDNWDKA--SW-----ENVTPIVSEQGDGEIIEIIDPSLKLV   54 (131)
Q Consensus         5 ~~kp~vlv~NK~Dl~~~~~~~~--~~-----~~~~~is~~~~~~~~~~~~~~~~~~~   54 (131)
                      .+.|+++|.||+|+........  .+     -..+.+||+.+.| +.++++.+.+.+
T Consensus       106 ~~~piilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~e~Sak~~~~-v~e~f~~l~~~l  161 (170)
T d1i2ma_         106 ENIPIVLCGNKVDIKDRKVKAKSIVFHRKKNLQYYDISAKSNYN-FEKPFLWLARKL  161 (170)
T ss_dssp             CSCCEEEEEECCCCSCSCCTTTSHHHHSSCSSEEEEEBTTTTBT-TTHHHHHHHHHH
T ss_pred             CCCceeeecchhhhhhhhhhhHHHHHHHHcCCEEEEEeCCCCCC-HHHHHHHHHHHH
Confidence            3689999999999965432211  12     3357899999999 999988776654

>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=96.93  E-value=0.00018  Score=45.22  Aligned_cols=21  Identities=33%  Similarity=0.688  Sum_probs=18.8

Q ss_pred             EEEEEcCCCCCchhhhhhhhh
Q psy10878         72 KVIVIGDPTVGKTSFVQRYVQ   92 (131)
Q Consensus        72 ki~vvG~~~vGKSsli~~~~~   92 (131)
                      .|++.|++|+|||+|+..++.
T Consensus         3 ~v~ItG~~GtGKTtl~~~i~~   23 (189)
T d2i3ba1           3 HVFLTGPPGVGKTTLIHKASE   23 (189)
T ss_dssp             CEEEESCCSSCHHHHHHHHHH
T ss_pred             EEEEECCCCCcHHHHHHHHHH
Confidence            388999999999999998874

>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=96.91  E-value=0.00022  Score=48.33  Aligned_cols=23  Identities=17%  Similarity=0.403  Sum_probs=20.7

Q ss_pred             eeeEEEEEcCCCCCchhhhhhhh
Q psy10878         69 KLFKVIVIGDPTVGKTSFVQRYV   91 (131)
Q Consensus        69 ~~~ki~vvG~~~vGKSsli~~~~   91 (131)
                      ..++|+++|-...|||||+.+++
T Consensus        23 ~~iNi~iiGHVD~GKSTL~~~Ll   45 (245)
T d1r5ba3          23 EHVNIVFIGHVDAGKSTLGGNIL   45 (245)
T ss_dssp             EEEEEEEEECGGGTHHHHHHHHH
T ss_pred             CceEEEEEeeCCCCHHHHHHHHH
Confidence            36789999999999999999985

>d1u8za_ c.37.1.8 (A:) Ras-related protein RalA {Cotton-top tamarin (Saguinus oedipus) [TaxId: 9490]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Ras-related protein RalA
species: Cotton-top tamarin (Saguinus oedipus) [TaxId: 9490]

Probab=96.90  E-value=6.4e-05  Score=47.73  Aligned_cols=49  Identities=10%  Similarity=0.070  Sum_probs=35.4

Q ss_pred             CCCcEEeeccCCCccccccc----cccc-----CCCCccccccCCcccccccccccccc
Q psy10878          5 AKKPILLPSASEDPSIDNWD----KASW-----ENVTPIVSEQGDGEIIEIIDPSLKLV   54 (131)
Q Consensus         5 ~~kp~vlv~NK~Dl~~~~~~----~~~~-----~~~~~is~~~~~~~~~~~~~~~~~~~   54 (131)
                      .+.|+++|.||+|+.+....    ...+     ...+.+||+++.| +.++++.+.+.+
T Consensus       108 ~~~piiivgnK~Dl~~~~~v~~~~~~~~~~~~~~~~~e~Sak~g~g-v~e~f~~l~~~i  165 (168)
T d1u8za_         108 ENVPFLLVGNKSDLEDKRQVSVEEAKNRADQWNVNYVETSAKTRAN-VDKVFFDLMREI  165 (168)
T ss_dssp             TTSCEEEEEECGGGGGGCCSCHHHHHHHHHHHTCEEEECCTTTCTT-HHHHHHHHHHHH
T ss_pred             CCCcEEEEeccccccccccccHHHHHHHHHHcCCeEEEEcCCCCcC-HHHHHHHHHHHH
Confidence            46899999999998654221    1122     3458899999999 999887766543

>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=96.88  E-value=0.00027  Score=45.58  Aligned_cols=22  Identities=32%  Similarity=0.454  Sum_probs=19.4

Q ss_pred             eEEEEEcCCCCCchhhhhhhhh
Q psy10878         71 FKVIVIGDPTVGKTSFVQRYVQ   92 (131)
Q Consensus        71 ~ki~vvG~~~vGKSsli~~~~~   92 (131)
                      .-|+++|.||+||||++.+++.
T Consensus         7 ~iI~i~G~pGSGKsT~a~~La~   28 (194)
T d1qf9a_           7 NVVFVLGGPGSGKGTQCANIVR   28 (194)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHH
T ss_pred             cEEEEECCCCCCHHHHHHHHHH
Confidence            4689999999999999998874

>d2erxa1 c.37.1.8 (A:6-176) di-Ras2 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: di-Ras2
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.88  E-value=7.3e-05  Score=47.36  Aligned_cols=49  Identities=16%  Similarity=0.130  Sum_probs=35.9

Q ss_pred             CCCcEEeeccCCCccccccc----cccc-----CCCCccccccCCcccccccccccccc
Q psy10878          5 AKKPILLPSASEDPSIDNWD----KASW-----ENVTPIVSEQGDGEIIEIIDPSLKLV   54 (131)
Q Consensus         5 ~~kp~vlv~NK~Dl~~~~~~----~~~~-----~~~~~is~~~~~~~~~~~~~~~~~~~   54 (131)
                      .+.|++||.||+|+.+....    ...|     -..+.+||+++.| +.++++.+++..
T Consensus       107 ~~~piilVgnK~Dl~~~~~v~~~e~~~~~~~~~~~~~e~Sak~~~~-v~e~f~~l~~~~  164 (171)
T d2erxa1         107 ESIPIMLVGNKCDESPSREVQSSEAEALARTWKCAFMETSAKLNHN-VKELFQELLNLE  164 (171)
T ss_dssp             -CCCEEEEEECGGGGGGCCSCHHHHHHHHHHHTCEEEECBTTTTBS-HHHHHHHHHHTC
T ss_pred             CCCcEEEEeecccccccccccHHHHHHHHHHcCCeEEEEcCCCCcC-HHHHHHHHHHHH
Confidence            46799999999998654221    1223     3457889999999 999988887765

>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=96.82  E-value=0.0001  Score=46.95  Aligned_cols=49  Identities=12%  Similarity=0.079  Sum_probs=35.2

Q ss_pred             CCCcEEeeccCCCccccccc----cccc-----CCCCccccccCCcccccccccccccc
Q psy10878          5 AKKPILLPSASEDPSIDNWD----KASW-----ENVTPIVSEQGDGEIIEIIDPSLKLV   54 (131)
Q Consensus         5 ~~kp~vlv~NK~Dl~~~~~~----~~~~-----~~~~~is~~~~~~~~~~~~~~~~~~~   54 (131)
                      .+.|+++|.||+|+.+....    ...+     -..+.+||+++.| +.++++.+.+.+
T Consensus       110 ~~~piilvgnK~Dl~~~~~v~~~~~~~~a~~~~~~~~e~Sak~g~~-i~~~f~~l~~~i  167 (172)
T d2g3ya1         110 EDIPIILVGNKSDLVRCREVSVSEGRACAVVFDCKFIETSAAVQHN-VKELFEGIVRQV  167 (172)
T ss_dssp             TTSCEEEEEECTTCGGGCCSCHHHHHHHHHHHTCEEEECBTTTTBS-HHHHHHHHHHHH
T ss_pred             CCceEEEEeccccccccccccHHHHHHHHHHcCCeEEEEeCCCCcC-HHHHHHHHHHHH
Confidence            46899999999998654211    1122     3346699999999 999888776644

>d2fn4a1 c.37.1.8 (A:24-196) r-Ras {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: r-Ras
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.81  E-value=7.9e-05  Score=47.47  Aligned_cols=49  Identities=10%  Similarity=0.083  Sum_probs=35.5

Q ss_pred             CCCcEEeeccCCCcccccccc----ccc-----CCCCccccccCCcccccccccccccc
Q psy10878          5 AKKPILLPSASEDPSIDNWDK----ASW-----ENVTPIVSEQGDGEIIEIIDPSLKLV   54 (131)
Q Consensus         5 ~~kp~vlv~NK~Dl~~~~~~~----~~~-----~~~~~is~~~~~~~~~~~~~~~~~~~   54 (131)
                      .+.|++||.||+|+.+.....    ..+     ...+.+||+++.| +.++++.+.+.+
T Consensus       110 ~~~p~ilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~e~Sak~g~g-v~e~f~~l~~~i  167 (173)
T d2fn4a1         110 DDFPVVLVGNKADLESQRQVPRSEASAFGASHHVAYFEASAKLRLN-VDEAFEQLVRAV  167 (173)
T ss_dssp             SCCCEEEEEECGGGGGGCCSCHHHHHHHHHHTTCEEEECBTTTTBS-HHHHHHHHHHHH
T ss_pred             CCCceEEEEEeechhhccccchhhhhHHHHhcCCEEEEEeCCCCcC-HHHHHHHHHHHH
Confidence            467999999999986542211    122     3346799999999 999998877654

>d2gjsa1 c.37.1.8 (A:91-258) Rad {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rad
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.80  E-value=0.0001  Score=46.74  Aligned_cols=49  Identities=8%  Similarity=0.082  Sum_probs=34.8

Q ss_pred             CCCcEEeeccCCCccccccc----cccc-----CCCCccccccCCcccccccccccccc
Q psy10878          5 AKKPILLPSASEDPSIDNWD----KASW-----ENVTPIVSEQGDGEIIEIIDPSLKLV   54 (131)
Q Consensus         5 ~~kp~vlv~NK~Dl~~~~~~----~~~~-----~~~~~is~~~~~~~~~~~~~~~~~~~   54 (131)
                      .+.|+++|.||+|+.+....    ..+|     ...+.+||+++.| +.+++..+.+.+
T Consensus       104 ~~~piilvgnK~Dl~~~~~v~~~~~~~~~~~~~~~~~e~Sak~~~~-v~~~f~~l~~~i  161 (168)
T d2gjsa1         104 DDVPIILVGNKSDLVRSREVSVDEGRACAVVFDCKFIETSAALHHN-VQALFEGVVRQI  161 (168)
T ss_dssp             -CCCEEEEEECTTCGGGCCSCHHHHHHHHHHHTSEEEECBTTTTBS-HHHHHHHHHHHH
T ss_pred             ccceEEEeecccchhhhcchhHHHHHHHHHhcCCEEEEEeCCCCcC-HHHHHHHHHHHH
Confidence            35799999999999664321    1222     3457899999999 999888776543

>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=96.80  E-value=0.00024  Score=45.50  Aligned_cols=22  Identities=32%  Similarity=0.560  Sum_probs=19.4

Q ss_pred             eEEEEEcCCCCCchhhhhhhhh
Q psy10878         71 FKVIVIGDPTVGKTSFVQRYVQ   92 (131)
Q Consensus        71 ~ki~vvG~~~vGKSsli~~~~~   92 (131)
                      .=|+++|.||+||||++.+++.
T Consensus        15 ~liil~G~pGsGKST~a~~l~~   36 (172)
T d1yj5a2          15 EVVVAVGFPGAGKSTFIQEHLV   36 (172)
T ss_dssp             CEEEEECCTTSSHHHHHHHHTG
T ss_pred             EEEEEECCCCCCHHHHHHHHHH
Confidence            3599999999999999998863

>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=96.79  E-value=0.00028  Score=44.69  Aligned_cols=21  Identities=33%  Similarity=0.529  Sum_probs=17.2

Q ss_pred             eEEE-EEcCCCCCchhhhhhhh
Q psy10878         71 FKVI-VIGDPTVGKTSFVQRYV   91 (131)
Q Consensus        71 ~ki~-vvG~~~vGKSsli~~~~   91 (131)
                      +|++ +.|.+|+||||+++.+.
T Consensus         1 mkiivi~G~~GsGKTT~~~~La   22 (194)
T d1nksa_           1 MKIGIVTGIPGVGKSTVLAKVK   22 (194)
T ss_dssp             CEEEEEEECTTSCHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHH
Confidence            3554 57999999999998775

>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=96.76  E-value=0.00043  Score=43.29  Aligned_cols=23  Identities=17%  Similarity=0.317  Sum_probs=19.5

Q ss_pred             eeeEEEEEcCCCCCchhhhhhhh
Q psy10878         69 KLFKVIVIGDPTVGKTSFVQRYV   91 (131)
Q Consensus        69 ~~~ki~vvG~~~vGKSsli~~~~   91 (131)
                      ..+-|.++|.+|+||||+...+.
T Consensus         5 ~g~~I~l~G~~GsGKTTia~~La   27 (183)
T d1m8pa3           5 QGFTIFLTGYMNSGKDAIARALQ   27 (183)
T ss_dssp             CCEEEEEECSTTSSHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHH
Confidence            45678899999999999887765

>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=96.74  E-value=0.00031  Score=49.56  Aligned_cols=24  Identities=25%  Similarity=0.570  Sum_probs=21.5

Q ss_pred             eeeEEEEEcCCCCCchhhhhhhhh
Q psy10878         69 KLFKVIVIGDPTVGKTSFVQRYVQ   92 (131)
Q Consensus        69 ~~~ki~vvG~~~vGKSsli~~~~~   92 (131)
                      ..+.|.+.|.||+|||||++++..
T Consensus        53 ~~~~IgitG~pGaGKSTLi~~l~~   76 (327)
T d2p67a1          53 NTLRLGVTGTPGAGKSTFLEAFGM   76 (327)
T ss_dssp             CSEEEEEEECTTSCHHHHHHHHHH
T ss_pred             CceEEEeeCCCCCCHHHHHHHHHH
Confidence            467899999999999999999873

>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=96.74  E-value=0.00034  Score=45.89  Aligned_cols=21  Identities=43%  Similarity=0.768  Sum_probs=18.9

Q ss_pred             EEEEEcCCCCCchhhhhhhhh
Q psy10878         72 KVIVIGDPTVGKTSFVQRYVQ   92 (131)
Q Consensus        72 ki~vvG~~~vGKSsli~~~~~   92 (131)
                      +++++|+||||||+++..++.
T Consensus        45 n~lLvG~pGVGKTalv~~LA~   65 (195)
T d1jbka_          45 NPVLIGEPGVGKTAIVEGLAQ   65 (195)
T ss_dssp             EEEEECCTTSCHHHHHHHHHH
T ss_pred             CeEEEecCCcccHHHHHHHHH
Confidence            699999999999999987774

>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=96.73  E-value=0.00029  Score=46.60  Aligned_cols=20  Identities=25%  Similarity=0.551  Sum_probs=18.4

Q ss_pred             EEEEcCCCCCchhhhhhhhh
Q psy10878         73 VIVIGDPTVGKTSFVQRYVQ   92 (131)
Q Consensus        73 i~vvG~~~vGKSsli~~~~~   92 (131)
                      ++|+|.+|+|||||+++++.
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            78999999999999999973

>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=96.70  E-value=0.00025  Score=44.73  Aligned_cols=20  Identities=30%  Similarity=0.604  Sum_probs=17.5

Q ss_pred             EEEEEcCCCCCchhhhhhhh
Q psy10878         72 KVIVIGDPTVGKTSFVQRYV   91 (131)
Q Consensus        72 ki~vvG~~~vGKSsli~~~~   91 (131)
                      +|+++|.+||||||+...+.
T Consensus         3 ~IvliG~~G~GKSTig~~La   22 (165)
T d2iyva1           3 KAVLVGLPGSGKSTIGRRLA   22 (165)
T ss_dssp             SEEEECSTTSSHHHHHHHHH
T ss_pred             cEEEECCCCCCHHHHHHHHH
Confidence            48899999999999887765

>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=96.69  E-value=0.00035  Score=45.05  Aligned_cols=20  Identities=15%  Similarity=0.557  Sum_probs=18.6

Q ss_pred             EEEEcCCCCCchhhhhhhhh
Q psy10878         73 VIVIGDPTVGKTSFVQRYVQ   92 (131)
Q Consensus        73 i~vvG~~~vGKSsli~~~~~   92 (131)
                      |+++|++|||||||+++++.
T Consensus         4 Ivl~GpsG~GK~tl~~~L~~   23 (186)
T d1gkya_           4 IVISGPSGTGKSTLLKKLFA   23 (186)
T ss_dssp             EEEECCTTSSHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHH
Confidence            89999999999999999874

>d1zd9a1 c.37.1.8 (A:18-181) ADP-ribosylation factor {Human (Homo sapiens), ARL8A [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Human (Homo sapiens), ARL8A [TaxId: 9606]

Probab=96.68  E-value=0.00014  Score=45.78  Aligned_cols=49  Identities=12%  Similarity=-0.044  Sum_probs=34.8

Q ss_pred             CCCcEEeeccCCCcccccc---ccccc---------CCCCccccccCCcccccccccccccc
Q psy10878          5 AKKPILLPSASEDPSIDNW---DKASW---------ENVTPIVSEQGDGEIIEIIDPSLKLV   54 (131)
Q Consensus         5 ~~kp~vlv~NK~Dl~~~~~---~~~~~---------~~~~~is~~~~~~~~~~~~~~~~~~~   54 (131)
                      .++|++||.||.|+.....   ....+         ...+++|+..+.| +.++++.+.++.
T Consensus       103 ~~~pi~lv~nK~Dl~~~~~~~~i~~~~~~~~~~~~~~~~~e~Sa~~g~g-v~e~~~~l~~~~  163 (164)
T d1zd9a1         103 QGIPVLVLGNKRDLPGALDEKELIEKMNLSAIQDREICCYSISCKEKDN-IDITLQWLIQHS  163 (164)
T ss_dssp             TTCCEEEEEECTTSTTCCCHHHHHHHTTGGGCCSSCEEEEECCTTTCTT-HHHHHHHHHHTC
T ss_pred             cCCcEEEEEeccccchhhhHHHHHHHHHHHHHHhCCCEEEEEeCcCCcC-HHHHHHHHHHcc
Confidence            4789999999999854211   11111         2457899999999 999888776653

>d2a5ja1 c.37.1.8 (A:9-181) Rab2b {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab2b
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.67  E-value=0.00019  Score=45.58  Aligned_cols=48  Identities=13%  Similarity=0.002  Sum_probs=34.5

Q ss_pred             CCCcEEeeccCCCcccccccc----ccc-----CCCCccccccCCccccccccccccc
Q psy10878          5 AKKPILLPSASEDPSIDNWDK----ASW-----ENVTPIVSEQGDGEIIEIIDPSLKL   53 (131)
Q Consensus         5 ~~kp~vlv~NK~Dl~~~~~~~----~~~-----~~~~~is~~~~~~~~~~~~~~~~~~   53 (131)
                      .+.|++||.||+|+.......    ..+     ...+.+||++|.| +.+++..+.+.
T Consensus       107 ~~~piilv~nK~D~~~~~~~~~~~~~~~a~~~~~~~~e~Sa~tg~~-V~e~f~~i~~~  163 (173)
T d2a5ja1         107 SNMVIMLIGNKSDLESRRDVKREEGEAFAREHGLIFMETSAKTACN-VEEAFINTAKE  163 (173)
T ss_dssp             TTCEEEEEEECTTCGGGCCSCHHHHHHHHHHHTCEEEEECTTTCTT-HHHHHHHHHHH
T ss_pred             CCCeEEEEecCCchhhhhhhHHHHHHHHHHHcCCEEEEecCCCCCC-HHHHHHHHHHH
Confidence            468999999999985543221    112     3456899999999 99988766554

>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=96.66  E-value=0.00039  Score=47.79  Aligned_cols=21  Identities=24%  Similarity=0.498  Sum_probs=19.0

Q ss_pred             EEEEEcCCCCCchhhhhhhhh
Q psy10878         72 KVIVIGDPTVGKTSFVQRYVQ   92 (131)
Q Consensus        72 ki~vvG~~~vGKSsli~~~~~   92 (131)
                      ++++||+||||||+++..+..
T Consensus        41 n~lLVG~~GvGKTalv~~la~   61 (268)
T d1r6bx2          41 NPLLVGESGVGKTAIAEGLAW   61 (268)
T ss_dssp             EEEEECCTTSSHHHHHHHHHH
T ss_pred             CcEEECCCCCcHHHHHHHHHH
Confidence            699999999999999988774

>d1r2qa_ c.37.1.8 (A:) Rab5a {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab5a
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.62  E-value=0.00015  Score=45.94  Aligned_cols=49  Identities=14%  Similarity=0.030  Sum_probs=36.1

Q ss_pred             CCCcEEeeccCCCcccccccc----ccc-----CCCCccccccCCcccccccccccccc
Q psy10878          5 AKKPILLPSASEDPSIDNWDK----ASW-----ENVTPIVSEQGDGEIIEIIDPSLKLV   54 (131)
Q Consensus         5 ~~kp~vlv~NK~Dl~~~~~~~----~~~-----~~~~~is~~~~~~~~~~~~~~~~~~~   54 (131)
                      .+.|++||.||+|+.......    ..+     -..+.+||+++.| +.++++.+.+.+
T Consensus       110 ~~~~iilvgnK~Dl~~~~~v~~e~~~~~~~~~~~~~~e~SAk~g~~-V~e~f~~l~~~i  167 (170)
T d1r2qa_         110 PNIVIALSGNKADLANKRAVDFQEAQSYADDNSLLFMETSAKTSMN-VNEIFMAIAKKL  167 (170)
T ss_dssp             TTCEEEEEEECGGGGGGCCSCHHHHHHHHHHTTCEEEECCTTTCTT-HHHHHHHHHHTS
T ss_pred             CCceEEeecccccccccccccHHHHHHHHHhcCCEEEEeeCCCCCC-HHHHHHHHHHHH
Confidence            367899999999986543211    122     3457899999999 999998887655

>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=96.58  E-value=0.00021  Score=45.26  Aligned_cols=49  Identities=6%  Similarity=0.046  Sum_probs=35.2

Q ss_pred             CCCcEEeeccCCCccccccc----cccc-----CCCCccccccCCcccccccccccccc
Q psy10878          5 AKKPILLPSASEDPSIDNWD----KASW-----ENVTPIVSEQGDGEIIEIIDPSLKLV   54 (131)
Q Consensus         5 ~~kp~vlv~NK~Dl~~~~~~----~~~~-----~~~~~is~~~~~~~~~~~~~~~~~~~   54 (131)
                      .+.|+++|.||+|+......    ..+|     -..+.+||+++.| +.+++..+.+.+
T Consensus       109 ~~~p~ilvgnK~Dl~~~~~v~~~~~~~~~~~~~~~~~e~Sak~~~~-i~e~f~~l~~~i  166 (171)
T d2erya1         109 DEFPMILIGNKADLDHQRQVTQEEGQQLARQLKVTYMEASAKIRMN-VDQAFHELVRVI  166 (171)
T ss_dssp             SCCSEEEEEECTTCTTSCSSCHHHHHHHHHHTTCEEEECBTTTTBS-HHHHHHHHHHHH
T ss_pred             CCCCEEEEEeccchhhhccchHHHHHHHHHHcCCEEEEEcCCCCcC-HHHHHHHHHHHH
Confidence            46899999999998654221    1222     2346799999999 999988776544

>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=96.57  E-value=0.0005  Score=46.11  Aligned_cols=21  Identities=29%  Similarity=0.445  Sum_probs=19.1

Q ss_pred             EEEEEcCCCCCchhhhhhhhh
Q psy10878         72 KVIVIGDPTVGKTSFVQRYVQ   92 (131)
Q Consensus        72 ki~vvG~~~vGKSsli~~~~~   92 (131)
                      -+++.|+||+|||+|+..++.
T Consensus        34 ~ilL~GpPGtGKT~la~~la~   54 (273)
T d1gvnb_          34 AFLLGGQPGSGKTSLRSAIFE   54 (273)
T ss_dssp             EEEEECCTTSCTHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            499999999999999998875

>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=96.56  E-value=0.00041  Score=43.63  Aligned_cols=20  Identities=20%  Similarity=0.411  Sum_probs=17.7

Q ss_pred             EEEEEcCCCCCchhhhhhhh
Q psy10878         72 KVIVIGDPTVGKTSFVQRYV   91 (131)
Q Consensus        72 ki~vvG~~~vGKSsli~~~~   91 (131)
                      +|+++|.+|+||||+...+.
T Consensus         2 ~I~liG~~GsGKsTi~k~La   21 (161)
T d1viaa_           2 NIVFIGFMGSGKSTLARALA   21 (161)
T ss_dssp             CEEEECCTTSCHHHHHHHHH
T ss_pred             cEEEECCCCCCHHHHHHHHH
Confidence            48999999999999988775

>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=96.56  E-value=0.00047  Score=44.07  Aligned_cols=20  Identities=30%  Similarity=0.536  Sum_probs=18.1

Q ss_pred             EEEEcCCCCCchhhhhhhhh
Q psy10878         73 VIVIGDPTVGKTSFVQRYVQ   92 (131)
Q Consensus        73 i~vvG~~~vGKSsli~~~~~   92 (131)
                      |+++|++|+|||||++.+..
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            78999999999999998874

>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=96.56  E-value=0.00049  Score=43.32  Aligned_cols=19  Identities=42%  Similarity=0.522  Sum_probs=17.1

Q ss_pred             EEEEcCCCCCchhhhhhhh
Q psy10878         73 VIVIGDPTVGKTSFVQRYV   91 (131)
Q Consensus        73 i~vvG~~~vGKSsli~~~~   91 (131)
                      |++.|.+|+||||+++++.
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            7888999999999998775

>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=96.54  E-value=0.00022  Score=44.36  Aligned_cols=47  Identities=13%  Similarity=0.180  Sum_probs=34.8

Q ss_pred             CCCcEEeeccCCCcccccccc---ccc---CCCCccccccCCcccccccccccc
Q psy10878          5 AKKPILLPSASEDPSIDNWDK---ASW---ENVTPIVSEQGDGEIIEIIDPSLK   52 (131)
Q Consensus         5 ~~kp~vlv~NK~Dl~~~~~~~---~~~---~~~~~is~~~~~~~~~~~~~~~~~   52 (131)
                      ...++++++||+|+.+.....   ..+   .+++++||+++.| +.+|++.+.+
T Consensus       106 ~~~~~i~~~~k~d~~~~~~~~~~~~~~~~~~~~~~vSA~~g~g-i~~L~~~I~k  158 (160)
T d1xzpa2         106 KNKRYLVVINKVDVVEKINEEEIKNKLGTDRHMVKISALKGEG-LEKLEESIYR  158 (160)
T ss_dssp             TTSSEEEEEEECSSCCCCCHHHHHHHHTCSTTEEEEEGGGTCC-HHHHHHHHHH
T ss_pred             ccccceeeeeeccccchhhhHHHHHHhCCCCcEEEEECCCCCC-HHHHHHHHHh
Confidence            357899999999997653221   111   6678999999999 9998876644

>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=96.54  E-value=0.00052  Score=42.88  Aligned_cols=20  Identities=15%  Similarity=0.363  Sum_probs=17.7

Q ss_pred             EEEEcCCCCCchhhhhhhhh
Q psy10878         73 VIVIGDPTVGKTSFVQRYVQ   92 (131)
Q Consensus        73 i~vvG~~~vGKSsli~~~~~   92 (131)
                      ++++|.+|+||||+...+..
T Consensus         9 ivl~G~~GsGKsT~a~~La~   28 (171)
T d1knqa_           9 YVLMGVSGSGKSAVASEVAH   28 (171)
T ss_dssp             EEEECSTTSCHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHH
Confidence            67799999999999998764

>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=96.53  E-value=0.0002  Score=45.35  Aligned_cols=47  Identities=9%  Similarity=-0.049  Sum_probs=33.6

Q ss_pred             CCCcEEeeccCCCccccccc----cccc-----CCCCccccccCCcccccccccccc
Q psy10878          5 AKKPILLPSASEDPSIDNWD----KASW-----ENVTPIVSEQGDGEIIEIIDPSLK   52 (131)
Q Consensus         5 ~~kp~vlv~NK~Dl~~~~~~----~~~~-----~~~~~is~~~~~~~~~~~~~~~~~   52 (131)
                      ...|++||.||+|+.+....    +.+|     ...+++||++|.| +.+++..+..
T Consensus       109 ~~~~~ilvgnK~D~~~~~~v~~~~~~~~~~~~~~~~~~~SAktg~g-V~e~f~~l~~  164 (171)
T d2ew1a1         109 NKVITVLVGNKIDLAERREVSQQRAEEFSEAQDMYYLETSAKESDN-VEKLFLDLAC  164 (171)
T ss_dssp             TTCEEEEEEECGGGGGGCSSCHHHHHHHHHHHTCCEEECCTTTCTT-HHHHHHHHHH
T ss_pred             ccccEEEEEeecccccccchhhhHHHHHHHhCCCEEEEEccCCCCC-HHHHHHHHHH
Confidence            45789999999998654321    1223     4557899999999 9998765543

>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=96.51  E-value=0.00066  Score=43.57  Aligned_cols=22  Identities=36%  Similarity=0.617  Sum_probs=19.5

Q ss_pred             eEEEEEcCCCCCchhhhhhhhh
Q psy10878         71 FKVIVIGDPTVGKTSFVQRYVQ   92 (131)
Q Consensus        71 ~ki~vvG~~~vGKSsli~~~~~   92 (131)
                      +.|+++|.||+||||...+++.
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            5799999999999999988764

>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=96.51  E-value=0.00053  Score=44.05  Aligned_cols=20  Identities=15%  Similarity=0.481  Sum_probs=18.7

Q ss_pred             EEEEcCCCCCchhhhhhhhh
Q psy10878         73 VIVIGDPTVGKTSFVQRYVQ   92 (131)
Q Consensus        73 i~vvG~~~vGKSsli~~~~~   92 (131)
                      ++++|++|+||+||+++++.
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            89999999999999999884

>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=96.48  E-value=0.00018  Score=45.57  Aligned_cols=49  Identities=12%  Similarity=0.072  Sum_probs=35.3

Q ss_pred             CCCcEEeeccCCCccccccccc----cc-----CCCCccccccCCcccccccccccccc
Q psy10878          5 AKKPILLPSASEDPSIDNWDKA----SW-----ENVTPIVSEQGDGEIIEIIDPSLKLV   54 (131)
Q Consensus         5 ~~kp~vlv~NK~Dl~~~~~~~~----~~-----~~~~~is~~~~~~~~~~~~~~~~~~~   54 (131)
                      .+.|+++|.||+|+........    .+     -..+.+||+.+.| +.++++.+.+.+
T Consensus       109 ~~~piivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~e~Sak~~~g-i~e~f~~l~~~i  166 (174)
T d2bmea1         109 QNIVIILCGNKKDLDADREVTFLEASRFAQENELMFLETSALTGEN-VEEAFVQCARKI  166 (174)
T ss_dssp             TTCEEEEEEECGGGGGGCCSCHHHHHHHHHHTTCEEEECCTTTCTT-HHHHHHHHHHHH
T ss_pred             CceEEEEEEecccccchhchhhhHHHHHHHhCCCEEEEeeCCCCcC-HHHHHHHHHHHH
Confidence            4689999999999855432221    22     2447899999999 999987766543

>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=96.48  E-value=0.00059  Score=42.67  Aligned_cols=20  Identities=20%  Similarity=0.549  Sum_probs=17.5

Q ss_pred             EEEEcCCCCCchhhhhhhhh
Q psy10878         73 VIVIGDPTVGKTSFVQRYVQ   92 (131)
Q Consensus        73 i~vvG~~~vGKSsli~~~~~   92 (131)
                      |++.|.+|+||||+.+.+..
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            77899999999999887764

>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=96.47  E-value=0.00059  Score=44.89  Aligned_cols=20  Identities=30%  Similarity=0.463  Sum_probs=18.4

Q ss_pred             EEEEcCCCCCchhhhhhhhh
Q psy10878         73 VIVIGDPTVGKTSFVQRYVQ   92 (131)
Q Consensus        73 i~vvG~~~vGKSsli~~~~~   92 (131)
                      ++++|++|||||||+++++.
T Consensus         5 ivi~GPSG~GK~tl~~~L~~   24 (205)
T d1s96a_           5 YIVSAPSGAGKSSLIQALLK   24 (205)
T ss_dssp             EEEECCTTSCHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHh
Confidence            78999999999999999874

>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=96.43  E-value=0.00034  Score=44.76  Aligned_cols=48  Identities=13%  Similarity=0.112  Sum_probs=35.0

Q ss_pred             CCcEEeeccCCCcccccccc----ccc-----CCCCccccccCCcccccccccccccc
Q psy10878          6 KKPILLPSASEDPSIDNWDK----ASW-----ENVTPIVSEQGDGEIIEIIDPSLKLV   54 (131)
Q Consensus         6 ~kp~vlv~NK~Dl~~~~~~~----~~~-----~~~~~is~~~~~~~~~~~~~~~~~~~   54 (131)
                      +.|+++|.||+|+.+.....    .+|     -..+.+||+++.| +.++++.+.+..
T Consensus       121 ~~~iilv~nK~Dl~~~~~v~~~e~~~~~~~~~~~~~e~Sak~~~~-i~e~f~~l~~~i  177 (186)
T d2f7sa1         121 NPDIVLIGNKADLPDQREVNERQARELADKYGIPYFETSAATGQN-VEKAVETLLDLI  177 (186)
T ss_dssp             CCEEEEEEECTTCGGGCCSCHHHHHHHHHHTTCCEEEEBTTTTBT-HHHHHHHHHHHH
T ss_pred             CceEEEEeeeccchhhhcchHHHHHHHHHHcCCEEEEEeCCCCCC-HHHHHHHHHHHH
Confidence            46788999999996543221    222     3458899999999 999988776643

>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=96.42  E-value=0.00064  Score=43.96  Aligned_cols=20  Identities=25%  Similarity=0.591  Sum_probs=18.3

Q ss_pred             EEEEcCCCCCchhhhhhhhh
Q psy10878         73 VIVIGDPTVGKTSFVQRYVQ   92 (131)
Q Consensus        73 i~vvG~~~vGKSsli~~~~~   92 (131)
                      |+++|++|||||||+.+++.
T Consensus         3 Ivl~GPsGsGK~tl~~~L~~   22 (190)
T d1lvga_           3 VVLSGPSGAGKSTLLKKLFQ   22 (190)
T ss_dssp             EEEECCTTSSHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHH
Confidence            88999999999999998864

>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=96.40  E-value=0.00029  Score=44.38  Aligned_cols=48  Identities=13%  Similarity=0.120  Sum_probs=33.9

Q ss_pred             CCCcEEeeccCCCcccccccc----c----cc--CCCCccccccCCccccccccccccc
Q psy10878          5 AKKPILLPSASEDPSIDNWDK----A----SW--ENVTPIVSEQGDGEIIEIIDPSLKL   53 (131)
Q Consensus         5 ~~kp~vlv~NK~Dl~~~~~~~----~----~~--~~~~~is~~~~~~~~~~~~~~~~~~   53 (131)
                      .+.|++||.||+|+.......    .    ++  ...+.+||+++.| +.++++.+.+.
T Consensus       107 ~~~p~ilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~~e~Sak~g~g-v~e~F~~l~~~  164 (167)
T d1c1ya_         107 EDVPMILVGNKCDLEDERVVGKEQGQNLARQWCNCAFLESSAKSKIN-VNEIFYDLVRQ  164 (167)
T ss_dssp             SCCCEEEEEECTTCGGGCCSCHHHHHHHHHHTTSCEEEECBTTTTBS-HHHHHHHHHHH
T ss_pred             CCCeEEEEEEecCcccccccchhHHHHHHHHhCCCEEEEEcCCCCcC-HHHHHHHHHHH
Confidence            357999999999996543221    1    11  2345689999999 99988776553

>d2qm8a1 c.37.1.10 (A:5-327) Metallochaperone MeaB {Methylobacterium extorquens [TaxId: 408]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Metallochaperone MeaB
species: Methylobacterium extorquens [TaxId: 408]

Probab=96.39  E-value=0.00085  Score=47.16  Aligned_cols=24  Identities=25%  Similarity=0.433  Sum_probs=21.6

Q ss_pred             eeeEEEEEcCCCCCchhhhhhhhh
Q psy10878         69 KLFKVIVIGDPTVGKTSFVQRYVQ   92 (131)
Q Consensus        69 ~~~ki~vvG~~~vGKSsli~~~~~   92 (131)
                      ..+.|.+.|.||+|||||+.++..
T Consensus        50 ~~~~igitG~pGaGKSTli~~l~~   73 (323)
T d2qm8a1          50 RAIRVGITGVPGVGKSTTIDALGS   73 (323)
T ss_dssp             CSEEEEEECCTTSCHHHHHHHHHH
T ss_pred             CceEEeeeCCCCCCHHHHHHHHHH
Confidence            467899999999999999999874

>d1z0fa1 c.37.1.8 (A:8-173) Rab14 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab14
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.38  E-value=0.00032  Score=44.12  Aligned_cols=47  Identities=11%  Similarity=0.079  Sum_probs=33.7

Q ss_pred             CCCcEEeeccCCCcccccccc----ccc-----CCCCccccccCCcccccccccccc
Q psy10878          5 AKKPILLPSASEDPSIDNWDK----ASW-----ENVTPIVSEQGDGEIIEIIDPSLK   52 (131)
Q Consensus         5 ~~kp~vlv~NK~Dl~~~~~~~----~~~-----~~~~~is~~~~~~~~~~~~~~~~~   52 (131)
                      ...|++++.||+|+.......    ..+     ...+.+||+++.| +.++++.+.+
T Consensus       108 ~~~~iilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~e~Saktg~~-v~e~f~~i~~  163 (166)
T d1z0fa1         108 PNTVIILIGNKADLEAQRDVTYEEAKQFAEENGLLFLEASAKTGEN-VEDAFLEAAK  163 (166)
T ss_dssp             TTCEEEEEEECTTCGGGCCSCHHHHHHHHHHTTCEEEECCTTTCTT-HHHHHHHHHH
T ss_pred             ccceEEEEcccccchhhcccHHHHHHHHHHHcCCEEEEEeCCCCCC-HHHHHHHHHH
Confidence            367899999999985543221    112     3457899999999 9998876654

>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=96.38  E-value=0.00073  Score=42.12  Aligned_cols=20  Identities=25%  Similarity=0.483  Sum_probs=17.1

Q ss_pred             EEEEcCCCCCchhhhhhhhh
Q psy10878         73 VIVIGDPTVGKTSFVQRYVQ   92 (131)
Q Consensus        73 i~vvG~~~vGKSsli~~~~~   92 (131)
                      |++.|.+|+||||+.+.+..
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            56669999999999998774

>d1ixsb2 c.37.1.20 (B:4-242) Holliday junction helicase RuvB {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Holliday junction helicase RuvB
species: Thermus thermophilus [TaxId: 274]

Probab=96.35  E-value=0.00076  Score=44.73  Aligned_cols=21  Identities=24%  Similarity=0.602  Sum_probs=18.9

Q ss_pred             EEEEEcCCCCCchhhhhhhhh
Q psy10878         72 KVIVIGDPTVGKTSFVQRYVQ   92 (131)
Q Consensus        72 ki~vvG~~~vGKSsli~~~~~   92 (131)
                      .+++.|+||+|||++++.++.
T Consensus        37 ~~Ll~GPpG~GKTtla~~la~   57 (239)
T d1ixsb2          37 HLLLFGPPGLGKTTLAHVIAH   57 (239)
T ss_dssp             CEEEECCTTSCHHHHHHHHHH
T ss_pred             eEEEECCCCCCHHHHHHHHHH
Confidence            489999999999999998874

>d1e6ca_ c.37.1.2 (A:) Shikimate kinase (AroK) {Erwinia chrysanthemi [TaxId: 556]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Shikimate kinase (AroK)
domain: Shikimate kinase (AroK)
species: Erwinia chrysanthemi [TaxId: 556]

Probab=96.35  E-value=0.00075  Score=42.58  Aligned_cols=19  Identities=16%  Similarity=0.371  Sum_probs=17.3

Q ss_pred             EEEEcCCCCCchhhhhhhh
Q psy10878         73 VIVIGDPTVGKTSFVQRYV   91 (131)
Q Consensus        73 i~vvG~~~vGKSsli~~~~   91 (131)
                      |+++|.+|+||||+...++
T Consensus         5 Iil~G~~GsGKSTia~~LA   23 (170)
T d1e6ca_           5 IFMVGARGCGMTTVGRELA   23 (170)
T ss_dssp             EEEESCTTSSHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHH
Confidence            7899999999999998876

>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=96.32  E-value=0.00079  Score=45.46  Aligned_cols=21  Identities=14%  Similarity=0.336  Sum_probs=19.2

Q ss_pred             EEEEEcCCCCCchhhhhhhhh
Q psy10878         72 KVIVIGDPTVGKTSFVQRYVQ   92 (131)
Q Consensus        72 ki~vvG~~~vGKSsli~~~~~   92 (131)
                      +++++|.+|+|||||++-+.+
T Consensus        31 ~vaIvG~sGsGKSTLl~ll~g   51 (241)
T d2pmka1          31 VIGIVGRSGSGKSTLTKLIQR   51 (241)
T ss_dssp             EEEEECSTTSSHHHHHHHHTT
T ss_pred             EEEEECCCCCCHHHHHHHHHh
Confidence            699999999999999998765

>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=96.30  E-value=0.00035  Score=44.09  Aligned_cols=49  Identities=6%  Similarity=0.024  Sum_probs=35.6

Q ss_pred             CCCcEEeeccCCCccccccc----cccc-----CCCCccccccCCcccccccccccccc
Q psy10878          5 AKKPILLPSASEDPSIDNWD----KASW-----ENVTPIVSEQGDGEIIEIIDPSLKLV   54 (131)
Q Consensus         5 ~~kp~vlv~NK~Dl~~~~~~----~~~~-----~~~~~is~~~~~~~~~~~~~~~~~~~   54 (131)
                      ...|+++|.||+|+......    ...+     ...+.+||+++.| +.++++.+.+..
T Consensus       109 ~~~~iivv~nK~D~~~~~~v~~~~~~~~~~~~~~~~~e~Sak~g~g-v~e~f~~l~~~i  166 (169)
T d3raba_         109 DNAQVLLVGNKCDMEDERVVSSERGRQLADHLGFEFFEASAKDNIN-VKQTFERLVDVI  166 (169)
T ss_dssp             SCCEEEEEEECTTCGGGCCSCHHHHHHHHHHHTCEEEECBTTTTBS-HHHHHHHHHHHH
T ss_pred             CcceEEEEEeecccccccccchhhhHHHHHHcCCEEEEecCCCCcC-HHHHHHHHHHHH
Confidence            46788999999998654321    1122     4568899999999 999988776543

>d1in4a2 c.37.1.20 (A:17-254) Holliday junction helicase RuvB {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Holliday junction helicase RuvB
species: Thermotoga maritima [TaxId: 2336]

Probab=96.29  E-value=0.00082  Score=44.50  Aligned_cols=21  Identities=29%  Similarity=0.577  Sum_probs=18.9

Q ss_pred             EEEEEcCCCCCchhhhhhhhh
Q psy10878         72 KVIVIGDPTVGKTSFVQRYVQ   92 (131)
Q Consensus        72 ki~vvG~~~vGKSsli~~~~~   92 (131)
                      .+++.|+||+|||++++.++.
T Consensus        37 ~~L~~GPpGtGKT~lA~~la~   57 (238)
T d1in4a2          37 HVLLAGPPGLGKTTLAHIIAS   57 (238)
T ss_dssp             CEEEESSTTSSHHHHHHHHHH
T ss_pred             eEEEECCCCCcHHHHHHHHHh
Confidence            489999999999999998874

>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=96.28  E-value=0.00053  Score=43.30  Aligned_cols=48  Identities=6%  Similarity=-0.025  Sum_probs=34.1

Q ss_pred             CCCcEEeeccCCCccccccc----cccc-----CCCCccccccCC-ccccccccccccc
Q psy10878          5 AKKPILLPSASEDPSIDNWD----KASW-----ENVTPIVSEQGD-GEIIEIIDPSLKL   53 (131)
Q Consensus         5 ~~kp~vlv~NK~Dl~~~~~~----~~~~-----~~~~~is~~~~~-~~~~~~~~~~~~~   53 (131)
                      .+.|+++|.||+|+......    ..+|     ...+.+||+++. | +.++++.+.+.
T Consensus       108 ~~~p~ilvgnK~Dl~~~~~v~~e~~~~~~~~~~~~~~e~Sak~~~~n-V~~~F~~l~~~  165 (169)
T d1x1ra1         108 ESFPMILVANKVDLMHLRKVTRDQGKEMATKYNIPYIETSAKDPPLN-VDKTFHDLVRV  165 (169)
T ss_dssp             SCCCEEEEEECTTCSTTCCSCHHHHHHHHHHHTCCEEEEBCSSSCBS-HHHHHHHHHHH
T ss_pred             cCccEEEEecccchhhhceeehhhHHHHHHHcCCEEEEEcCCCCCcC-HHHHHHHHHHH
Confidence            46899999999998665322    2223     456789998875 8 88887766554

>d2fnaa2 c.37.1.20 (A:1-283) Archaeal ATPase SSO1545 {Sulfolobus solfataricus [TaxId: 2287]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Archaeal ATPase SSO1545
species: Sulfolobus solfataricus [TaxId: 2287]

Probab=96.27  E-value=0.00077  Score=44.90  Aligned_cols=21  Identities=24%  Similarity=0.396  Sum_probs=18.7

Q ss_pred             EEEEEcCCCCCchhhhhhhhh
Q psy10878         72 KVIVIGDPTVGKTSFVQRYVQ   92 (131)
Q Consensus        72 ki~vvG~~~vGKSsli~~~~~   92 (131)
                      -+++.|++|+|||||+.+++.
T Consensus        31 ~i~i~G~~G~GKTsLl~~~~~   51 (283)
T d2fnaa2          31 ITLVLGLRRTGKSSIIKIGIN   51 (283)
T ss_dssp             EEEEEESTTSSHHHHHHHHHH
T ss_pred             EEEEEcCCCCcHHHHHHHHHH
Confidence            478999999999999998874

>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=96.26  E-value=0.00027  Score=43.58  Aligned_cols=48  Identities=15%  Similarity=0.068  Sum_probs=34.0

Q ss_pred             CCCcEEeeccCCCcccccccc---c----cc-----CCCCccccccCCccccccccccccc
Q psy10878          5 AKKPILLPSASEDPSIDNWDK---A----SW-----ENVTPIVSEQGDGEIIEIIDPSLKL   53 (131)
Q Consensus         5 ~~kp~vlv~NK~Dl~~~~~~~---~----~~-----~~~~~is~~~~~~~~~~~~~~~~~~   53 (131)
                      ...|++++.||.|+.+.....   .    .+     ..++++||++|.| +.++++.+.+.
T Consensus       100 ~~~~i~~v~~k~d~~~~~~~~~i~~~~~~~~~~~~~~~~~~~SAktg~g-i~e~~~~l~~~  159 (160)
T d1r8sa_         100 RDAVLLVFANKQDLPNAMNAAEITDKLGLHSLRHRNWYIQATCATSGDG-LYEGLDWLSNQ  159 (160)
T ss_dssp             TTCEEEEEEECTTSTTCCCHHHHHHHTTGGGCSSCCEEEEECBTTTTBT-HHHHHHHHHHH
T ss_pred             cCceEEEEeecccccccccHHHHHHHHHHHHHhhCCCEEEEeECCCCCC-HHHHHHHHHhc
Confidence            467899999999986532111   0    11     3457899999999 99998876543

>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=96.24  E-value=0.00013  Score=46.74  Aligned_cols=49  Identities=16%  Similarity=0.181  Sum_probs=34.0

Q ss_pred             CCCcEEeeccCCCccccccccc--------------------cc--CCCCccccccCCcccccccccccccc
Q psy10878          5 AKKPILLPSASEDPSIDNWDKA--------------------SW--ENVTPIVSEQGDGEIIEIIDPSLKLV   54 (131)
Q Consensus         5 ~~kp~vlv~NK~Dl~~~~~~~~--------------------~~--~~~~~is~~~~~~~~~~~~~~~~~~~   54 (131)
                      .+.|++||.||+|+.+......                    ++  ...+.+||+++.| +.++++.+.+..
T Consensus       108 ~~~piilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~E~SAk~~~~-V~e~F~~l~~~i  178 (183)
T d1mh1a_         108 PNTPIILVGTKLDLRDDKDTIEKLKEKKLTPITYPQGLAMAKEIGAVKYLECSALTQRG-LKTVFDEAIRAV  178 (183)
T ss_dssp             TTSCEEEEEECHHHHTCHHHHHHHHHTTCCCCCHHHHHHHHHHTTCSEEEECCTTTCTT-HHHHHHHHHHHH
T ss_pred             CCCcEEEEeecccchhhhhhhhhhhhccccchhhHHHHHHHHHcCCceEEEcCCCCCcC-HHHHHHHHHHHH
Confidence            4689999999999854321100                    00  1345689999999 999988776653

>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=96.23  E-value=0.0009  Score=45.46  Aligned_cols=21  Identities=19%  Similarity=0.396  Sum_probs=19.0

Q ss_pred             EEEEEcCCCCCchhhhhhhhh
Q psy10878         72 KVIVIGDPTVGKTSFVQRYVQ   92 (131)
Q Consensus        72 ki~vvG~~~vGKSsli~~~~~   92 (131)
                      +++++|.+|+|||||++-+++
T Consensus        43 ~iaivG~sGsGKSTLl~ll~g   63 (253)
T d3b60a1          43 TVALVGRSGSGKSTIASLITR   63 (253)
T ss_dssp             EEEEEECTTSSHHHHHHHHTT
T ss_pred             EEEEECCCCChHHHHHHHHhc
Confidence            699999999999999997764

>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=96.22  E-value=0.00099  Score=44.98  Aligned_cols=21  Identities=14%  Similarity=0.207  Sum_probs=19.1

Q ss_pred             EEEEEcCCCCCchhhhhhhhh
Q psy10878         72 KVIVIGDPTVGKTSFVQRYVQ   92 (131)
Q Consensus        72 ki~vvG~~~vGKSsli~~~~~   92 (131)
                      +++++|.+|+|||||++-+++
T Consensus        30 ~vaivG~sGsGKSTLl~ll~g   50 (242)
T d1mv5a_          30 IIAFAGPSGGGKSTIFSLLER   50 (242)
T ss_dssp             EEEEECCTTSSHHHHHHHHTT
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            699999999999999998764

>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=96.19  E-value=0.00038  Score=43.93  Aligned_cols=49  Identities=14%  Similarity=0.092  Sum_probs=33.7

Q ss_pred             CCCcEEeeccCCCccccccc----cccc-----CCCCccccccCCccccccccccccc
Q psy10878          5 AKKPILLPSASEDPSIDNWD----KASW-----ENVTPIVSEQGDGEIIEIIDPSLKL   53 (131)
Q Consensus         5 ~~kp~vlv~NK~Dl~~~~~~----~~~~-----~~~~~is~~~~~~~~~~~~~~~~~~   53 (131)
                      .+.|+++|.||+|+.+....    +.++     -..+.+||+.+.|.+.+++..+.+.
T Consensus       105 ~~~piilvgnK~Dl~~~r~V~~~e~~~~a~~~~~~~~e~Saktg~gnV~e~F~~l~~~  162 (168)
T d2atva1         105 KNVTLILVGNKADLDHSRQVSTEEGEKLATELACAFYECSACTGEGNITEIFYELCRE  162 (168)
T ss_dssp             SCCCEEEEEECGGGGGGCCSCHHHHHHHHHHHTSEEEECCTTTCTTCHHHHHHHHHHH
T ss_pred             cCcceeeeccchhhhhhccCcHHHHHHHHHHhCCeEEEEccccCCcCHHHHHHHHHHH
Confidence            47899999999999654221    1122     4457789999875488887766554

>d1xtqa1 c.37.1.8 (A:3-169) GTP-binding protein RheB {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: GTP-binding protein RheB
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.19  E-value=0.00026  Score=44.52  Aligned_cols=47  Identities=9%  Similarity=0.172  Sum_probs=33.4

Q ss_pred             CCCcEEeeccCCCccccccc----cccc-----CCCCccccccCCcccccccccccc
Q psy10878          5 AKKPILLPSASEDPSIDNWD----KASW-----ENVTPIVSEQGDGEIIEIIDPSLK   52 (131)
Q Consensus         5 ~~kp~vlv~NK~Dl~~~~~~----~~~~-----~~~~~is~~~~~~~~~~~~~~~~~   52 (131)
                      .+.|++||.||+|+......    ...|     ...+.+||+++.| +.+++..++.
T Consensus       108 ~~~piilvgnK~Dl~~~r~v~~~~~~~~a~~~~~~~~e~Sak~~~~-v~~~f~~li~  163 (167)
T d1xtqa1         108 VQIPIMLVGNKKDLHMERVISYEEGKALAESWNAAFLESSAKENQT-AVDVFRRIIL  163 (167)
T ss_dssp             SCCCEEEEEECTTCGGGCCSCHHHHHHHHHHHTCEEEECCTTCHHH-HHHHHHHHHH
T ss_pred             cccceeeeccccccccccchhHHHHHHHHHHcCCEEEEEecCCCCC-HHHHHHHHHH
Confidence            46799999999998654221    1223     3456799999999 9888776554

>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=96.17  E-value=0.00096  Score=44.76  Aligned_cols=21  Identities=19%  Similarity=0.259  Sum_probs=18.4

Q ss_pred             EEEEEcCCCCCchhhhhhhhh
Q psy10878         72 KVIVIGDPTVGKTSFVQRYVQ   92 (131)
Q Consensus        72 ki~vvG~~~vGKSsli~~~~~   92 (131)
                      -+.++|++|+|||||++.+.+
T Consensus        33 ~~~iiG~sGsGKSTLl~~i~g   53 (230)
T d1l2ta_          33 FVSIMGPSGSGKSTMLNIIGC   53 (230)
T ss_dssp             EEEEECSTTSSHHHHHHHHTT
T ss_pred             EEEEECCCCCCcchhhHhccC
Confidence            489999999999999996654

>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=96.15  E-value=0.0011  Score=44.97  Aligned_cols=21  Identities=14%  Similarity=0.241  Sum_probs=19.0

Q ss_pred             EEEEEcCCCCCchhhhhhhhh
Q psy10878         72 KVIVIGDPTVGKTSFVQRYVQ   92 (131)
Q Consensus        72 ki~vvG~~~vGKSsli~~~~~   92 (131)
                      +++++|.+|+|||||++-+.+
T Consensus        42 ~vaivG~sGsGKSTLl~li~g   62 (251)
T d1jj7a_          42 VTALVGPNGSGKSTVAALLQN   62 (251)
T ss_dssp             EEEEECSTTSSHHHHHHHHTT
T ss_pred             EEEEECCCCCcHHHHHHHHhc
Confidence            699999999999999997764

>d1kmqa_ c.37.1.8 (A:) RhoA {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: RhoA
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.15  E-value=0.00023  Score=45.30  Aligned_cols=47  Identities=17%  Similarity=0.301  Sum_probs=32.7

Q ss_pred             CCCcEEeeccCCCcccccccc----------------ccc----C--CCCccccccCCcccccccccccc
Q psy10878          5 AKKPILLPSASEDPSIDNWDK----------------ASW----E--NVTPIVSEQGDGEIIEIIDPSLK   52 (131)
Q Consensus         5 ~~kp~vlv~NK~Dl~~~~~~~----------------~~~----~--~~~~is~~~~~~~~~~~~~~~~~   52 (131)
                      .+.|++||.||+|+.+.....                ..|    +  ..+.+||+++.| +.++++.+.+
T Consensus       105 ~~~piilvgnK~Dl~~~~~~~~~~~~~~~~~v~~~e~~~~a~~~~~~~~~E~SAkt~~g-i~e~F~~i~~  173 (177)
T d1kmqa_         105 PNVPIILVGNKKDLRNDEHTRRELAKMKQEPVKPEEGRDMANRIGAFGYMECSAKTKDG-VREVFEMATR  173 (177)
T ss_dssp             TTSCEEEEEECGGGTTCHHHHHHHHHTTCCCCCHHHHHHHHHHTTCSEEEECCTTTCTT-HHHHHHHHHH
T ss_pred             CCCceEEeeecccccchhhHHHHHHHhhcccccHHHHHHHHHHcCCcEEEEecCCCCcC-HHHHHHHHHH
Confidence            368999999999996532110                011    2  246699999999 9998876654

>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=96.14  E-value=0.00062  Score=43.93  Aligned_cols=49  Identities=6%  Similarity=-0.062  Sum_probs=36.0

Q ss_pred             CCCcEEeeccCCCcccccccccc----c-----CCCCccccccCCcccccccccccccc
Q psy10878          5 AKKPILLPSASEDPSIDNWDKAS----W-----ENVTPIVSEQGDGEIIEIIDPSLKLV   54 (131)
Q Consensus         5 ~~kp~vlv~NK~Dl~~~~~~~~~----~-----~~~~~is~~~~~~~~~~~~~~~~~~~   54 (131)
                      .+.|+++|.||+|+.+......+    +     ...+.+||+++.| +.++++.+++.+
T Consensus       110 ~~~~iilv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~e~SAk~g~g-i~e~f~~l~~~i  167 (194)
T d2bcgy1         110 STVLKLLVGNKCDLKDKRVVEYDVAKEFADANKMPFLETSALDSTN-VEDAFLTMARQI  167 (194)
T ss_dssp             TTCEEEEEEECTTCTTTCCSCHHHHHHHHHHTTCCEEECCTTTCTT-HHHHHHHHHHHH
T ss_pred             CCceEEEEEeccccccccchhHHHHhhhhhccCcceEEEecCcCcc-HHHHHHHHHHHH
Confidence            46799999999999764322211    1     4567899999999 999988776543

>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=96.11  E-value=0.0011  Score=42.56  Aligned_cols=20  Identities=35%  Similarity=0.670  Sum_probs=18.2

Q ss_pred             EEEEcCCCCCchhhhhhhhh
Q psy10878         73 VIVIGDPTVGKTSFVQRYVQ   92 (131)
Q Consensus        73 i~vvG~~~vGKSsli~~~~~   92 (131)
                      |+++|.||+||||+..+++.
T Consensus        11 I~l~G~pGSGKsT~a~~La~   30 (194)
T d3adka_          11 IFVVGGPGSGKGTQCEKIVQ   30 (194)
T ss_dssp             EEEEECTTSSHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHH
Confidence            88999999999999998874

>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=96.10  E-value=0.0012  Score=44.31  Aligned_cols=21  Identities=19%  Similarity=0.420  Sum_probs=18.8

Q ss_pred             EEEEEcCCCCCchhhhhhhhh
Q psy10878         72 KVIVIGDPTVGKTSFVQRYVQ   92 (131)
Q Consensus        72 ki~vvG~~~vGKSsli~~~~~   92 (131)
                      -+.++|++|+|||||++-+.+
T Consensus        28 i~~liGpsGsGKSTLl~~i~G   48 (232)
T d2awna2          28 FVVFVGPSGCGKSTLLRMIAG   48 (232)
T ss_dssp             EEEEECCTTSSHHHHHHHHHT
T ss_pred             EEEEECCCCChHHHHHHHHhc
Confidence            489999999999999997765

>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=96.09  E-value=0.00036  Score=43.24  Aligned_cols=50  Identities=10%  Similarity=0.033  Sum_probs=36.2

Q ss_pred             cCCCcEEeeccCCCcccccc---ccc----cc-----CCCCccccccCCcccccccccccccc
Q psy10878          4 KAKKPILLPSASEDPSIDNW---DKA----SW-----ENVTPIVSEQGDGEIIEIIDPSLKLV   54 (131)
Q Consensus         4 ~~~kp~vlv~NK~Dl~~~~~---~~~----~~-----~~~~~is~~~~~~~~~~~~~~~~~~~   54 (131)
                      ....|++++.||.|+.....   ...    .+     ...+++||++|.| +.++++.+.+.+
T Consensus       104 ~~~~~i~iv~nk~Dl~~~~~~~~i~~~~~~~~~~~~~~~~~~~SA~~g~g-v~e~~~~l~~~l  165 (169)
T d1upta_         104 LRKAILVVFANKQDMEQAMTSSEMANSLGLPALKDRKWQIFKTSATKGTG-LDEAMEWLVETL  165 (169)
T ss_dssp             GTTCEEEEEEECTTSTTCCCHHHHHHHHTGGGCTTSCEEEEECCTTTCTT-HHHHHHHHHHHH
T ss_pred             cccceEEEEEeeccccccccHHHHHHHHHHHHHhcCCCEEEEEeCCCCCC-HHHHHHHHHHHH
Confidence            34688999999999965321   111    11     3468999999999 999998887655

>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=96.09  E-value=0.00057  Score=43.54  Aligned_cols=23  Identities=22%  Similarity=0.159  Sum_probs=19.5

Q ss_pred             eeEEEEEcCCCCCchhhhhhhhh
Q psy10878         70 LFKVIVIGDPTVGKTSFVQRYVQ   92 (131)
Q Consensus        70 ~~ki~vvG~~~vGKSsli~~~~~   92 (131)
                      .+-|.++|.+|+||||+.+.+..
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            45688999999999999998763

>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=96.07  E-value=0.0012  Score=43.25  Aligned_cols=21  Identities=24%  Similarity=0.335  Sum_probs=18.9

Q ss_pred             EEEEEcCCCCCchhhhhhhhh
Q psy10878         72 KVIVIGDPTVGKTSFVQRYVQ   92 (131)
Q Consensus        72 ki~vvG~~~vGKSsli~~~~~   92 (131)
                      -++++|+.|+|||||++.+++
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            388999999999999998875

>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=96.06  E-value=0.0021  Score=41.24  Aligned_cols=21  Identities=29%  Similarity=0.616  Sum_probs=18.7

Q ss_pred             EEEEEcCCCCCchhhhhhhhh
Q psy10878         72 KVIVIGDPTVGKTSFVQRYVQ   92 (131)
Q Consensus        72 ki~vvG~~~vGKSsli~~~~~   92 (131)
                      -|+++|.||+||||+...++.
T Consensus        10 iI~i~GppGSGKsT~a~~La~   30 (196)
T d1ukza_          10 VIFVLGGPGAGKGTQCEKLVK   30 (196)
T ss_dssp             EEEEECSTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            488999999999999998874

>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=96.05  E-value=0.0013  Score=45.34  Aligned_cols=21  Identities=24%  Similarity=0.357  Sum_probs=19.2

Q ss_pred             EEEEEcCCCCCchhhhhhhhh
Q psy10878         72 KVIVIGDPTVGKTSFVQRYVQ   92 (131)
Q Consensus        72 ki~vvG~~~vGKSsli~~~~~   92 (131)
                      .++++|.+|+|||||++.+++
T Consensus        64 ~vaivG~nGsGKSTLl~~i~G   84 (281)
T d1r0wa_          64 MLAITGSTGSGKTSLLMLILG   84 (281)
T ss_dssp             EEEEEESTTSSHHHHHHHHHT
T ss_pred             EEEEECCCCChHHHHHHHHhC
Confidence            599999999999999998875

>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=96.05  E-value=0.0012  Score=44.96  Aligned_cols=21  Identities=19%  Similarity=0.333  Sum_probs=18.8

Q ss_pred             EEEEEcCCCCCchhhhhhhhh
Q psy10878         72 KVIVIGDPTVGKTSFVQRYVQ   92 (131)
Q Consensus        72 ki~vvG~~~vGKSsli~~~~~   92 (131)
                      +++++|.+|+|||||++-+.+
T Consensus        46 ~vaivG~sGsGKSTLl~ll~g   66 (255)
T d2hyda1          46 TVAFVGMSGGGKSTLINLIPR   66 (255)
T ss_dssp             EEEEECSTTSSHHHHHTTTTT
T ss_pred             EEEEECCCCCcHHHHHHHHHh
Confidence            699999999999999997664

>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=96.05  E-value=0.00012  Score=46.44  Aligned_cols=49  Identities=12%  Similarity=0.102  Sum_probs=35.1

Q ss_pred             cCCCcEEeeccCCCcccccccc----------ccc---CCCCccccccCCccccccccccccc
Q psy10878          4 KAKKPILLPSASEDPSIDNWDK----------ASW---ENVTPIVSEQGDGEIIEIIDPSLKL   53 (131)
Q Consensus         4 ~~~kp~vlv~NK~Dl~~~~~~~----------~~~---~~~~~is~~~~~~~~~~~~~~~~~~   53 (131)
                      ....++++++||+|+.+.....          ..+   .+++++||++|.| +.+|++.+.+.
T Consensus       125 ~~~~~~~~v~~k~D~~~~~~~~~~~~~~~~~l~~~~~~~~~i~vSA~~g~G-id~L~~~i~~~  186 (188)
T d1puia_         125 DSNIAVLVLLTKADKLASGARKAQLNMVREAVLAFNGDVQVETFSSLKKQG-VDKLRQKLDTW  186 (188)
T ss_dssp             HTTCCEEEEEECGGGSCHHHHHHHHHHHHHHHGGGCSCEEEEECBTTTTBS-HHHHHHHHHHH
T ss_pred             hccccccchhhhhhccCHHHHHHHHHHHHHHHHhhCCCCcEEEEeCCCCCC-HHHHHHHHHHH
Confidence            4578899999999986642211          111   3578999999999 99988766543

>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=96.01  E-value=0.0014  Score=44.21  Aligned_cols=22  Identities=18%  Similarity=0.377  Sum_probs=18.9

Q ss_pred             EEEEEcCCCCCchhhhhhhhhC
Q psy10878         72 KVIVIGDPTVGKTSFVQRYVQN   93 (131)
Q Consensus        72 ki~vvG~~~vGKSsli~~~~~~   93 (131)
                      -++++|++|+|||||++.+.+-
T Consensus        26 ~~~liGpnGaGKSTll~~i~Gl   47 (240)
T d2onka1          26 YCVLLGPTGAGKSVFLELIAGI   47 (240)
T ss_dssp             EEEEECCTTSSHHHHHHHHHTS
T ss_pred             EEEEECCCCChHHHHHHHHHcC
Confidence            3679999999999999988753

>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=95.99  E-value=0.0019  Score=40.93  Aligned_cols=24  Identities=21%  Similarity=0.213  Sum_probs=20.2

Q ss_pred             eeeEEEEEcCCCCCchhhhhhhhh
Q psy10878         69 KLFKVIVIGDPTVGKTSFVQRYVQ   92 (131)
Q Consensus        69 ~~~ki~vvG~~~vGKSsli~~~~~   92 (131)
                      ..+=|.|-|.+|+|||||++++..
T Consensus        21 ~~~iIgI~G~~GSGKSTla~~L~~   44 (198)
T d1rz3a_          21 GRLVLGIDGLSRSGKTTLANQLSQ   44 (198)
T ss_dssp             SSEEEEEEECTTSSHHHHHHHHHH
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHH
Confidence            345688999999999999998763

>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=95.99  E-value=0.0014  Score=45.54  Aligned_cols=21  Identities=33%  Similarity=0.667  Sum_probs=18.8

Q ss_pred             EEEEEcCCCCCchhhhhhhhh
Q psy10878         72 KVIVIGDPTVGKTSFVQRYVQ   92 (131)
Q Consensus        72 ki~vvG~~~vGKSsli~~~~~   92 (131)
                      .++++|+||||||.|++.++.
T Consensus        51 ~iLl~GPpG~GKT~lAkalA~   71 (309)
T d1ofha_          51 NILMIGPTGVGKTEIARRLAK   71 (309)
T ss_dssp             CEEEECCTTSSHHHHHHHHHH
T ss_pred             eEEEECCCCCCHHHHHHHHhh
Confidence            489999999999999998774

>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=95.94  E-value=0.0016  Score=43.28  Aligned_cols=21  Identities=24%  Similarity=0.537  Sum_probs=19.0

Q ss_pred             EEEEEcCCCCCchhhhhhhhh
Q psy10878         72 KVIVIGDPTVGKTSFVQRYVQ   92 (131)
Q Consensus        72 ki~vvG~~~vGKSsli~~~~~   92 (131)
                      .+++.|++|+|||+++..++.
T Consensus        45 ~lll~GppGtGKT~l~~~l~~   65 (276)
T d1fnna2          45 RATLLGRPGTGKTVTLRKLWE   65 (276)
T ss_dssp             EEEEECCTTSSHHHHHHHHHH
T ss_pred             ceEEECCCCCCHHHHHHHHHH
Confidence            599999999999999988774

>d2atxa1 c.37.1.8 (A:9-193) RhoQ {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: RhoQ
species: Human (Homo sapiens) [TaxId: 9606]

Probab=95.92  E-value=0.0006  Score=43.67  Aligned_cols=48  Identities=15%  Similarity=0.111  Sum_probs=33.0

Q ss_pred             CCCcEEeeccCCCcccccc-----------c-----cccc----C--CCCccccccCCccccccccccccc
Q psy10878          5 AKKPILLPSASEDPSIDNW-----------D-----KASW----E--NVTPIVSEQGDGEIIEIIDPSLKL   53 (131)
Q Consensus         5 ~~kp~vlv~NK~Dl~~~~~-----------~-----~~~~----~--~~~~is~~~~~~~~~~~~~~~~~~   53 (131)
                      .+.|+++|.||+|+.+...           .     ..++    +  ..+.+||+++.| +.++++.+.+.
T Consensus       112 ~~~~~ilvgnK~Dl~~~~~~~~~~~~~~~r~v~~~~~~~~a~~~~~~~~~E~SAk~~~g-v~e~F~~li~~  181 (185)
T d2atxa1         112 PNVPFLLIGTQIDLRDDPKTLARLNDMKEKPICVEQGQKLAKEIGACCYVECSALTQKG-LKTVFDEAIIA  181 (185)
T ss_dssp             TTCCEEEEEECTTSTTCHHHHHHHTTTTCCCCCHHHHHHHHHHHTCSCEEECCTTTCTT-HHHHHHHHHHH
T ss_pred             CCCCeeEeeeccccccchhhhhhhhhcccccccHHHHHHHHHHcCCCEEEEecCCCCcC-HHHHHHHHHHH
Confidence            4689999999999865210           0     0111    2  235689999999 99998876553

>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=95.91  E-value=0.0018  Score=42.12  Aligned_cols=23  Identities=13%  Similarity=0.328  Sum_probs=19.7

Q ss_pred             eeEEEEEcCCCCCchhhhhhhhh
Q psy10878         70 LFKVIVIGDPTVGKTSFVQRYVQ   92 (131)
Q Consensus        70 ~~ki~vvG~~~vGKSsli~~~~~   92 (131)
                      .+.|++-|++|+||||....++.
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

>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=95.91  E-value=0.0017  Score=43.81  Aligned_cols=22  Identities=18%  Similarity=0.304  Sum_probs=19.3

Q ss_pred             EEEEEcCCCCCchhhhhhhhhC
Q psy10878         72 KVIVIGDPTVGKTSFVQRYVQN   93 (131)
Q Consensus        72 ki~vvG~~~vGKSsli~~~~~~   93 (131)
                      -+.++|++|+|||||++.+.+-
T Consensus        34 ~~~liGpsGaGKSTLl~~i~Gl   55 (239)
T d1v43a3          34 FLVLLGPSGCGKTTTLRMIAGL   55 (239)
T ss_dssp             EEEEECCTTSSHHHHHHHHHTS
T ss_pred             EEEEECCCCChHHHHHHHHHcC
Confidence            4899999999999999987753

>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=95.84  E-value=0.0011  Score=47.71  Aligned_cols=20  Identities=40%  Similarity=0.762  Sum_probs=17.1

Q ss_pred             EEEEEcCCCCCchhhhhhhh
Q psy10878         72 KVIVIGDPTVGKTSFVQRYV   91 (131)
Q Consensus        72 ki~vvG~~~vGKSsli~~~~   91 (131)
                      ++++||+||||||+++..++
T Consensus        45 n~llvG~~GvGKtaiv~~la   64 (387)
T d1qvra2          45 NPVLIGEPGVGKTAIVEGLA   64 (387)
T ss_dssp             CCEEEECTTSCHHHHHHHHH
T ss_pred             CCeEECCCCCCHHHHHHHHH
Confidence            47999999999999986554

>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=95.78  E-value=0.0017  Score=43.75  Aligned_cols=21  Identities=24%  Similarity=0.282  Sum_probs=18.8

Q ss_pred             EEEEEcCCCCCchhhhhhhhh
Q psy10878         72 KVIVIGDPTVGKTSFVQRYVQ   92 (131)
Q Consensus        72 ki~vvG~~~vGKSsli~~~~~   92 (131)
                      -+.++|.+|+|||||++.+.+
T Consensus        33 ~~~iiG~sGsGKSTLl~~i~G   53 (240)
T d3dhwc1          33 IYGVIGASGAGKSTLIRCVNL   53 (240)
T ss_dssp             EEEEEESTTSSHHHHHHHHTT
T ss_pred             EEEEECCCCCCHHHHHHHHcC
Confidence            489999999999999998765

>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=95.77  E-value=0.002  Score=43.36  Aligned_cols=22  Identities=27%  Similarity=0.558  Sum_probs=19.7

Q ss_pred             eEEEEEcCCCCCchhhhhhhhh
Q psy10878         71 FKVIVIGDPTVGKTSFVQRYVQ   92 (131)
Q Consensus        71 ~ki~vvG~~~vGKSsli~~~~~   92 (131)
                      ..+++.|+||+|||+++..++.
T Consensus        41 ~~vLL~GppGtGKT~la~alA~   62 (246)
T d1d2na_          41 VSVLLEGPPHSGKTALAAKIAE   62 (246)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHH
T ss_pred             eEEEEECcCCCCHHHHHHHHhh
Confidence            4699999999999999998874

>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=95.76  E-value=0.0041  Score=41.09  Aligned_cols=23  Identities=26%  Similarity=0.421  Sum_probs=18.7

Q ss_pred             eeeEEEEEcCCCCCchhhhhhhh
Q psy10878         69 KLFKVIVIGDPTVGKTSFVQRYV   91 (131)
Q Consensus        69 ~~~ki~vvG~~~vGKSsli~~~~   91 (131)
                      ...-++++|.+||||||-+.+++
T Consensus        10 ~p~vi~lvGptGvGKTTTiAKLA   32 (213)
T d1vmaa2          10 PPFVIMVVGVNGTGKTTSCGKLA   32 (213)
T ss_dssp             SCEEEEEECCTTSSHHHHHHHHH
T ss_pred             CCEEEEEECCCCCCHHHHHHHHH
Confidence            34578999999999999876655

>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=95.73  E-value=0.0021  Score=43.30  Aligned_cols=22  Identities=23%  Similarity=0.315  Sum_probs=19.3

Q ss_pred             EEEEEcCCCCCchhhhhhhhhC
Q psy10878         72 KVIVIGDPTVGKTSFVQRYVQN   93 (131)
Q Consensus        72 ki~vvG~~~vGKSsli~~~~~~   93 (131)
                      -+.++|++|+|||||++.+.+-
T Consensus        31 ~~~liG~sGaGKSTll~~i~gl   52 (240)
T d1g2912          31 FMILLGPSGCGKTTTLRMIAGL   52 (240)
T ss_dssp             EEEEECSTTSSHHHHHHHHHTS
T ss_pred             EEEEECCCCChHHHHHHHHhcC
Confidence            4899999999999999987753

>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=95.72  E-value=0.0024  Score=42.35  Aligned_cols=21  Identities=29%  Similarity=0.494  Sum_probs=19.2

Q ss_pred             EEEEEcCCCCCchhhhhhhhh
Q psy10878         72 KVIVIGDPTVGKTSFVQRYVQ   92 (131)
Q Consensus        72 ki~vvG~~~vGKSsli~~~~~   92 (131)
                      .+++.|++|+|||+++..++.
T Consensus        54 ~lll~GPpG~GKTt~a~~la~   74 (253)
T d1sxja2          54 AAMLYGPPGIGKTTAAHLVAQ   74 (253)
T ss_dssp             EEEEECSTTSSHHHHHHHHHH
T ss_pred             eEEEECCCCCCHHHHHHHHHH
Confidence            589999999999999998875

>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=95.71  E-value=0.0022  Score=42.12  Aligned_cols=21  Identities=29%  Similarity=0.498  Sum_probs=18.8

Q ss_pred             EEEEEcCCCCCchhhhhhhhh
Q psy10878         72 KVIVIGDPTVGKTSFVQRYVQ   92 (131)
Q Consensus        72 ki~vvG~~~vGKSsli~~~~~   92 (131)
                      .+++.|++|+|||+++..++.
T Consensus        47 ~lll~Gp~G~GKTtla~~iak   67 (231)
T d1iqpa2          47 HLLFAGPPGVGKTTAALALAR   67 (231)
T ss_dssp             EEEEESCTTSSHHHHHHHHHH
T ss_pred             eEEEECCCCCcHHHHHHHHHH
Confidence            489999999999999988774

>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=95.67  E-value=0.0013  Score=43.94  Aligned_cols=20  Identities=30%  Similarity=0.353  Sum_probs=16.9

Q ss_pred             EEEEcCCCCCchhhhhhhhh
Q psy10878         73 VIVIGDPTVGKTSFVQRYVQ   92 (131)
Q Consensus        73 i~vvG~~~vGKSsli~~~~~   92 (131)
                      +++.|+||+|||++++.++.
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            45569999999999998774

>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=95.65  E-value=0.0015  Score=40.64  Aligned_cols=36  Identities=8%  Similarity=-0.021  Sum_probs=24.2

Q ss_pred             CCCcEEeeccCCCcccccc----ccccc-----CCCCccccccCC
Q psy10878          5 AKKPILLPSASEDPSIDNW----DKASW-----ENVTPIVSEQGD   40 (131)
Q Consensus         5 ~~kp~vlv~NK~Dl~~~~~----~~~~~-----~~~~~is~~~~~   40 (131)
                      .+.|++||.||+|+.+...    ....|     ...+.+||+++.
T Consensus       108 ~~~pi~lvgnK~Dl~~~~~v~~~~~~~~~~~~~~~~~e~SAkt~~  152 (165)
T d1z06a1         108 NDIPRILVGNKCDLRSAIQVPTDLAQKFADTHSMPLFETSAKNPN  152 (165)
T ss_dssp             SCCCEEEEEECTTCGGGCCSCHHHHHHHHHHTTCCEEECCSSSGG
T ss_pred             CCCeEEEEeccccchhccchhHHHHHHHHHHCCCEEEEEecccCC
Confidence            4689999999999865421    11222     455778998654

>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=95.64  E-value=0.0016  Score=43.52  Aligned_cols=21  Identities=19%  Similarity=0.420  Sum_probs=19.0

Q ss_pred             EEEEEcCCCCCchhhhhhhhh
Q psy10878         72 KVIVIGDPTVGKTSFVQRYVQ   92 (131)
Q Consensus        72 ki~vvG~~~vGKSsli~~~~~   92 (131)
                      -+.++|+.|+|||||++.+.+
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            489999999999999998875

>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=95.60  E-value=0.00063  Score=42.71  Aligned_cols=48  Identities=15%  Similarity=0.067  Sum_probs=34.0

Q ss_pred             CCCcEEeeccCCCccccccc----cccc-----CCCCccccccCCccccccccccccc
Q psy10878          5 AKKPILLPSASEDPSIDNWD----KASW-----ENVTPIVSEQGDGEIIEIIDPSLKL   53 (131)
Q Consensus         5 ~~kp~vlv~NK~Dl~~~~~~----~~~~-----~~~~~is~~~~~~~~~~~~~~~~~~   53 (131)
                      ...|++||.||+|+......    ...|     ...+.+||+++.| +.+++..+.+.
T Consensus       107 ~~~~~ilvgnK~Dl~~~~~v~~~e~~~~a~~~~~~~~e~Sak~~~~-v~e~F~~l~~~  163 (167)
T d1z08a1         107 NEICLCIVGNKIDLEKERHVSIQEAESYAESVGAKHYHTSAKQNKG-IEELFLDLCKR  163 (167)
T ss_dssp             GGSEEEEEEECGGGGGGCCSCHHHHHHHHHHTTCEEEEEBTTTTBS-HHHHHHHHHHH
T ss_pred             cccceeeeccccccccccccchHHHHHHHHHcCCeEEEEecCCCcC-HHHHHHHHHHH
Confidence            35788999999998654221    1222     4457899999999 99988776554

>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=95.59  E-value=0.0014  Score=43.85  Aligned_cols=22  Identities=23%  Similarity=0.392  Sum_probs=19.5

Q ss_pred             EEEEEcCCCCCchhhhhhhhhC
Q psy10878         72 KVIVIGDPTVGKTSFVQRYVQN   93 (131)
Q Consensus        72 ki~vvG~~~vGKSsli~~~~~~   93 (131)
                      -+.++|++|+|||||++.+.+-
T Consensus        28 ~~~liGpsGaGKSTll~~l~Gl   49 (229)
T d3d31a2          28 YFVILGPTGAGKTLFLELIAGF   49 (229)
T ss_dssp             EEEEECCCTHHHHHHHHHHHTS
T ss_pred             EEEEECCCCCcHHHHHHHHhcC
Confidence            3899999999999999988763

>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=95.52  E-value=0.0028  Score=41.84  Aligned_cols=21  Identities=14%  Similarity=0.444  Sum_probs=13.5

Q ss_pred             eEEEEEcCCCCCchhhhhhhh
Q psy10878         71 FKVIVIGDPTVGKTSFVQRYV   91 (131)
Q Consensus        71 ~ki~vvG~~~vGKSsli~~~~   91 (131)
                      .-++++|.+||||||.+.+++
T Consensus        13 ~vi~lvGptGvGKTTTiAKLA   33 (211)
T d1j8yf2          13 YVIMLVGVQGTGKATTAGKLA   33 (211)
T ss_dssp             EEEEEECSCCC----HHHHHH
T ss_pred             EEEEEECCCCCCHHHHHHHHH
Confidence            348889999999999877655

>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=95.47  E-value=0.0029  Score=41.85  Aligned_cols=22  Identities=14%  Similarity=0.323  Sum_probs=19.3

Q ss_pred             EEEEEcCCCCCchhhhhhhhhC
Q psy10878         72 KVIVIGDPTVGKTSFVQRYVQN   93 (131)
Q Consensus        72 ki~vvG~~~vGKSsli~~~~~~   93 (131)
                      .+++.|++|+|||+++..++..
T Consensus        35 ~lll~Gp~G~GKTt~~~~la~~   56 (252)
T d1sxje2          35 HLLLYGPNGTGKKTRCMALLES   56 (252)
T ss_dssp             CEEEECSTTSSHHHHHHTHHHH
T ss_pred             eEEEECCCCCCHHHHHHHHHHh
Confidence            4899999999999999988753

>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=95.46  E-value=0.0028  Score=42.59  Aligned_cols=22  Identities=27%  Similarity=0.294  Sum_probs=19.4

Q ss_pred             EEEEEcCCCCCchhhhhhhhhC
Q psy10878         72 KVIVIGDPTVGKTSFVQRYVQN   93 (131)
Q Consensus        72 ki~vvG~~~vGKSsli~~~~~~   93 (131)
                      -+.++|+.|+|||||++.+.+-
T Consensus        34 i~~liGpnGaGKSTl~~~i~Gl   55 (240)
T d1ji0a_          34 IVTLIGANGAGKTTTLSAIAGL   55 (240)
T ss_dssp             EEEEECSTTSSHHHHHHHHTTS
T ss_pred             EEEEECCCCCcHHHHHHHHhCC
Confidence            4889999999999999988753

>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=95.45  E-value=0.0045  Score=39.45  Aligned_cols=25  Identities=24%  Similarity=0.582  Sum_probs=21.2

Q ss_pred             ceeeEEEEEcCCCCCchhhhhhhhh
Q psy10878         68 EKLFKVIVIGDPTVGKTSFVQRYVQ   92 (131)
Q Consensus        68 ~~~~ki~vvG~~~vGKSsli~~~~~   92 (131)
                      .+.+-|++-|..|+||||+++.+..
T Consensus         7 ~kp~~I~ieG~~GsGKTTl~~~L~~   31 (197)
T d2vp4a1           7 TQPFTVLIEGNIGSGKTTYLNHFEK   31 (197)
T ss_dssp             CCCEEEEEECSTTSCHHHHHHTTGG
T ss_pred             CCceEEEEECCCCCCHHHHHHHHHH
Confidence            3456799999999999999998763

>d1n0wa_ c.37.1.11 (A:) DNA repair protein Rad51, catalytic domain {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: DNA repair protein Rad51, catalytic domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=95.40  E-value=0.0033  Score=39.91  Aligned_cols=22  Identities=18%  Similarity=0.255  Sum_probs=19.3

Q ss_pred             EEEEEcCCCCCchhhhhhhhhC
Q psy10878         72 KVIVIGDPTVGKTSFVQRYVQN   93 (131)
Q Consensus        72 ki~vvG~~~vGKSsli~~~~~~   93 (131)
                      =+.+.|+||+|||+|+..++..
T Consensus        25 v~~i~G~~GsGKT~l~l~la~~   46 (242)
T d1n0wa_          25 ITEMFGEFRTGKTQICHTLAVT   46 (242)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHH
T ss_pred             EEEEEeCCCCCHHHHHHHHHHH
Confidence            3889999999999999998853

>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=95.37  E-value=0.0032  Score=42.28  Aligned_cols=22  Identities=23%  Similarity=0.170  Sum_probs=19.3

Q ss_pred             EEEEEcCCCCCchhhhhhhhhC
Q psy10878         72 KVIVIGDPTVGKTSFVQRYVQN   93 (131)
Q Consensus        72 ki~vvG~~~vGKSsli~~~~~~   93 (131)
                      -+.++|+.|+|||||++.+.+-
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            4789999999999999988754

>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=95.35  E-value=0.002  Score=40.40  Aligned_cols=48  Identities=10%  Similarity=0.012  Sum_probs=35.5

Q ss_pred             CCCcEEeeccCCCcccccccc----ccc-----CCCCccccccCCccccccccccccc
Q psy10878          5 AKKPILLPSASEDPSIDNWDK----ASW-----ENVTPIVSEQGDGEIIEIIDPSLKL   53 (131)
Q Consensus         5 ~~kp~vlv~NK~Dl~~~~~~~----~~~-----~~~~~is~~~~~~~~~~~~~~~~~~   53 (131)
                      ...|+++|.||+|+.......    ..+     -..+.+||+++.| +.++++.+.+.
T Consensus       111 ~~~~iilv~~k~d~~~~~~v~~~~~~~~~~~~~~~~~e~Sak~g~g-i~e~f~~l~~~  167 (170)
T d2g6ba1         111 HDVALMLLGNKVDSAHERVVKREDGEKLAKEYGLPFMETSAKTGLN-VDLAFTAIAKE  167 (170)
T ss_dssp             TTCEEEEEEECCSTTSCCCSCHHHHHHHHHHHTCCEEECCTTTCTT-HHHHHHHHHHH
T ss_pred             CCceEEEEEeeechhhcccccHHHHHHHHHHcCCEEEEEeCCCCcC-HHHHHHHHHHH
Confidence            467899999999986653221    122     4678899999999 99988777654

>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=95.31  E-value=0.0036  Score=41.16  Aligned_cols=20  Identities=35%  Similarity=0.501  Sum_probs=17.1

Q ss_pred             EEEEEcCCCCCchhhhhhhh
Q psy10878         72 KVIVIGDPTVGKTSFVQRYV   91 (131)
Q Consensus        72 ki~vvG~~~vGKSsli~~~~   91 (131)
                      -++++|.+||||||.+.++.
T Consensus         8 vi~lvGptGvGKTTTiaKLA   27 (207)
T d1okkd2           8 VVLVVGVNGVGKTTTIAKLG   27 (207)
T ss_dssp             EEEEECSTTSSHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHH
Confidence            47899999999999877665

>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=95.31  E-value=0.0037  Score=42.05  Aligned_cols=21  Identities=33%  Similarity=0.618  Sum_probs=19.2

Q ss_pred             EEEEEcCCCCCchhhhhhhhh
Q psy10878         72 KVIVIGDPTVGKTSFVQRYVQ   92 (131)
Q Consensus        72 ki~vvG~~~vGKSsli~~~~~   92 (131)
                      .+++.|++|+|||++++.+..
T Consensus        44 giLl~GppGtGKT~la~aia~   64 (247)
T d1ixza_          44 GVLLVGPPGVGKTHLARAVAG   64 (247)
T ss_dssp             EEEEECCTTSSHHHHHHHHHH
T ss_pred             eEEEecCCCCChhHHHHHHHH
Confidence            489999999999999998884

>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=95.30  E-value=0.0034  Score=42.62  Aligned_cols=21  Identities=24%  Similarity=0.438  Sum_probs=18.9

Q ss_pred             EEEEEcCCCCCchhhhhhhhh
Q psy10878         72 KVIVIGDPTVGKTSFVQRYVQ   92 (131)
Q Consensus        72 ki~vvG~~~vGKSsli~~~~~   92 (131)
                      .+.++|.+|+|||||++.+.+
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            489999999999999998765

>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=95.28  E-value=0.0039  Score=41.11  Aligned_cols=20  Identities=25%  Similarity=0.509  Sum_probs=17.7

Q ss_pred             EEEEEcCCCCCchhhhhhhh
Q psy10878         72 KVIVIGDPTVGKTSFVQRYV   91 (131)
Q Consensus        72 ki~vvG~~~vGKSsli~~~~   91 (131)
                      -++++|.+||||||.+.++.
T Consensus        11 vi~lvGptGvGKTTTiAKLA   30 (211)
T d2qy9a2          11 VILMVGVNGVGKTTTIGKLA   30 (211)
T ss_dssp             EEEEECCTTSCHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHH
Confidence            48899999999999888776

>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=95.27  E-value=0.0039  Score=40.83  Aligned_cols=20  Identities=30%  Similarity=0.516  Sum_probs=18.1

Q ss_pred             EEEEcCCCCCchhhhhhhhh
Q psy10878         73 VIVIGDPTVGKTSFVQRYVQ   92 (131)
Q Consensus        73 i~vvG~~~vGKSsli~~~~~   92 (131)
                      +++.|++|+|||+++..++.
T Consensus        36 lll~Gp~G~GKTtl~~~i~~   55 (237)
T d1sxjd2          36 MLFYGPPGTGKTSTILALTK   55 (237)
T ss_dssp             EEEECSTTSSHHHHHHHHHH
T ss_pred             EEEECCCCCChHHHHHHHHH
Confidence            89999999999999988774

>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=95.26  E-value=0.0039  Score=40.79  Aligned_cols=20  Identities=35%  Similarity=0.581  Sum_probs=17.7

Q ss_pred             EEEEcCCCCCchhhhhhhhh
Q psy10878         73 VIVIGDPTVGKTSFVQRYVQ   92 (131)
Q Consensus        73 i~vvG~~~vGKSsli~~~~~   92 (131)
                      +++.|++|+||||+++.++.
T Consensus        39 ~ll~Gp~G~GKTt~a~~la~   58 (224)
T d1sxjb2          39 MIISGMPGIGKTTSVHCLAH   58 (224)
T ss_dssp             EEEECSTTSSHHHHHHHHHH
T ss_pred             EEEECCCCCCchhhHHHHHH
Confidence            89999999999999887653

>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=95.25  E-value=0.00038  Score=45.56  Aligned_cols=48  Identities=6%  Similarity=0.014  Sum_probs=29.1

Q ss_pred             CCcEEeeccCCCcccccccc-------c------cc----CCCCccccccCC----------cccccccccccccc
Q psy10878          6 KKPILLPSASEDPSIDNWDK-------A------SW----ENVTPIVSEQGD----------GEIIEIIDPSLKLV   54 (131)
Q Consensus         6 ~kp~vlv~NK~Dl~~~~~~~-------~------~~----~~~~~is~~~~~----------~~~~~~~~~~~~~~   54 (131)
                      .+|+++++||+|+...+...       .      .+    ..++++|+..|.          + +.+|++.+.++.
T Consensus       119 ~~~iIv~iNK~D~~~~~~~~~~i~~~i~~~l~~~~~~~~~~pii~iSa~~g~~~~~~~~~~~~-~~~Lldai~~~i  193 (196)
T d1d2ea3         119 VEHVVVYVNKADAVQDSEMVELVELEIRELLTEFGYKGEETPIIVGSALCALEQRDPELGLKS-VQKLLDAVDTYI  193 (196)
T ss_dssp             CCCEEEEEECGGGCSCHHHHHHHHHHHHHHHHHTTSCTTTSCEEECCHHHHHTTCCTTTTHHH-HHHHHHHHHHHS
T ss_pred             CCcEEEEEecccccccHHHHHHHHHHHHHHHHHhCCCcccCEEEEEEccccccccCcccccCC-HHHHHHHHHhhC
Confidence            36788899999996532111       1      11    224688988773          4 566666655544

>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=95.19  E-value=0.0019  Score=40.85  Aligned_cols=50  Identities=10%  Similarity=0.104  Sum_probs=36.3

Q ss_pred             cCCCcEEeeccCCCccccccccc---cc-----CCCCccccccCCcccccccccccccc
Q psy10878          4 KAKKPILLPSASEDPSIDNWDKA---SW-----ENVTPIVSEQGDGEIIEIIDPSLKLV   54 (131)
Q Consensus         4 ~~~kp~vlv~NK~Dl~~~~~~~~---~~-----~~~~~is~~~~~~~~~~~~~~~~~~~   54 (131)
                      ....|++++.||.|.........   ++     ...+.+||+.|.| +.++++.+.+.+
T Consensus       111 ~~~~~i~~~~nk~d~~~~~v~~~~~~~~~~~~~~~~~e~Sa~tg~g-v~e~f~~l~~~l  168 (177)
T d1x3sa1         111 RNDIVNMLVGNKIDKENREVDRNEGLKFARKHSMLFIEASAKTCDG-VQCAFEELVEKI  168 (177)
T ss_dssp             CSCCEEEEEEECTTSSSCCSCHHHHHHHHHHTTCEEEECCTTTCTT-HHHHHHHHHHHH
T ss_pred             ccceeeEEEeeccccccccccHHHHHHHHHHCCCEEEEEeCCCCCC-HHHHHHHHHHHH
Confidence            34678899999999865432222   12     4568899999999 999998776554

>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=95.19  E-value=0.0055  Score=40.08  Aligned_cols=23  Identities=13%  Similarity=0.254  Sum_probs=19.8

Q ss_pred             eeeEEEEEcCCCCCchhhhhhhh
Q psy10878         69 KLFKVIVIGDPTVGKTSFVQRYV   91 (131)
Q Consensus        69 ~~~ki~vvG~~~vGKSsli~~~~   91 (131)
                      ..+-|.+.|.||+|||||.+.+.
T Consensus        23 kg~vIwltGlsGsGKTTia~~L~   45 (208)
T d1m7ga_          23 RGLTIWLTGLSASGKSTLAVELE   45 (208)
T ss_dssp             SCEEEEEECSTTSSHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHH
Confidence            44569999999999999998775

>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=95.16  E-value=0.0028  Score=42.65  Aligned_cols=43  Identities=14%  Similarity=0.355  Sum_probs=28.8

Q ss_pred             CcEEeeccCCCccccccccccc----------------------CCCCccccccCCcccccccccc
Q psy10878          7 KPILLPSASEDPSIDNWDKASW----------------------ENVTPIVSEQGDGEIIEIIDPS   50 (131)
Q Consensus         7 kp~vlv~NK~Dl~~~~~~~~~~----------------------~~~~~is~~~~~~~~~~~~~~~   50 (131)
                      +++++++||+|++..++....|                      -..+|+||.+|.| +.++++..
T Consensus       163 ~~iiv~iNKmD~~~~~~~e~~~~ei~~~l~~~l~~i~~~~~~~~v~~VPiSA~~G~n-I~~~~~s~  227 (245)
T d1r5ba3         163 NHLVVVINKMDEPSVQWSEERYKECVDKLSMFLRRVAGYNSKTDVKYMPVSAYTGQN-VKDRVDSS  227 (245)
T ss_dssp             SSEEEEEECTTSTTCSSCHHHHHHHHHHHHHHHHHHHCCCHHHHEEEEECBTTTTBT-TSSCCCTT
T ss_pred             CeEEEEEEcCCCCccchhHHHHHHHHHHHHHHHHHHhCcCcccCCEEEEeeccCCCC-cccchhcc
Confidence            3477899999986432211110                      1258999999999 88877653

>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=95.14  E-value=0.0046  Score=40.62  Aligned_cols=19  Identities=21%  Similarity=0.316  Sum_probs=16.6

Q ss_pred             EEEEcCCCCCchhhhhhhh
Q psy10878         73 VIVIGDPTVGKTSFVQRYV   91 (131)
Q Consensus        73 i~vvG~~~vGKSsli~~~~   91 (131)
                      ++++|.+||||||.+.++.
T Consensus        13 i~lvGp~GvGKTTTiaKLA   31 (207)
T d1ls1a2          13 WFLVGLQGSGKTTTAAKLA   31 (207)
T ss_dssp             EEEECCTTTTHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHH
Confidence            6789999999999887765

>d1pzna2 c.37.1.11 (A:96-349) DNA repair protein Rad51, catalytic domain {Archaeon Pyrococcus furiosus [TaxId: 2261]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: DNA repair protein Rad51, catalytic domain
species: Archaeon Pyrococcus furiosus [TaxId: 2261]

Probab=95.14  E-value=0.0041  Score=40.94  Aligned_cols=22  Identities=23%  Similarity=0.229  Sum_probs=19.4

Q ss_pred             EEEEEcCCCCCchhhhhhhhhC
Q psy10878         72 KVIVIGDPTVGKTSFVQRYVQN   93 (131)
Q Consensus        72 ki~vvG~~~vGKSsli~~~~~~   93 (131)
                      =++|.|+||+|||+|..+|+..
T Consensus        38 ~~li~G~pGsGKT~~~lq~~~~   59 (254)
T d1pzna2          38 ITEVFGEFGSGKTQLAHTLAVM   59 (254)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHH
T ss_pred             EEEEEcCCCCCHHHHHHHHHHH
Confidence            4889999999999999999843

>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=95.14  E-value=0.0024  Score=38.90  Aligned_cols=48  Identities=10%  Similarity=-0.013  Sum_probs=32.6

Q ss_pred             cCCCcEEeeccCCCccccc---c----------ccccc------CCCCccccccCCcccccccccccc
Q psy10878          4 KAKKPILLPSASEDPSIDN---W----------DKASW------ENVTPIVSEQGDGEIIEIIDPSLK   52 (131)
Q Consensus         4 ~~~kp~vlv~NK~Dl~~~~---~----------~~~~~------~~~~~is~~~~~~~~~~~~~~~~~   52 (131)
                      ..++|++++.||.|+....   .          ....+      ..++++||++|.| +.++++.+.+
T Consensus        99 ~~~~~i~i~~~k~d~~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~SA~tg~G-v~e~~~~l~~  165 (166)
T d2qtvb1          99 LKDVPFVILGNKIDAPNAVSEAELRSALGLLNTTGSQRIEGQRPVEVFMCSVVMRNG-YLEAFQWLSQ  165 (166)
T ss_dssp             TTTCCEEEEEECTTSSSCCCHHHHHHHHTCSSCCC---CCSSCCEEEEEEBTTTTBS-HHHHHHHHTT
T ss_pred             cCCceEEEEeccccccccCCHHHHHHHhhhhhhhHHHhhcccCCCEEEEeeCCCCCC-HHHHHHHHhC
Confidence            4578999999999984421   0          00011      2357889999999 9998876544

>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=95.13  E-value=0.0041  Score=42.08  Aligned_cols=22  Identities=18%  Similarity=0.348  Sum_probs=19.3

Q ss_pred             EEEEEcCCCCCchhhhhhhhhC
Q psy10878         72 KVIVIGDPTVGKTSFVQRYVQN   93 (131)
Q Consensus        72 ki~vvG~~~vGKSsli~~~~~~   93 (131)
                      -+.++|+.|+|||||++.+.+-
T Consensus        32 i~~liG~nGaGKSTLl~~i~Gl   53 (254)
T d1g6ha_          32 VTLIIGPNGSGKSTLINVITGF   53 (254)
T ss_dssp             EEEEECSTTSSHHHHHHHHTTS
T ss_pred             EEEEECCCCCcHHHHHHHHHCC
Confidence            3789999999999999988753

>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=95.08  E-value=0.0039  Score=45.50  Aligned_cols=21  Identities=33%  Similarity=0.667  Sum_probs=19.3

Q ss_pred             EEEEEcCCCCCchhhhhhhhh
Q psy10878         72 KVIVIGDPTVGKTSFVQRYVQ   92 (131)
Q Consensus        72 ki~vvG~~~vGKSsli~~~~~   92 (131)
                      +|+++|++|||||-|+.+++.
T Consensus        51 NILliGPTGvGKTlLAr~LAk   71 (443)
T d1g41a_          51 NILMIGPTGVGKTEIARRLAK   71 (443)
T ss_dssp             CEEEECCTTSSHHHHHHHHHH
T ss_pred             cEEEECCCCCCHHHHHHHHHH
Confidence            799999999999999998874

>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=95.07  E-value=0.0047  Score=40.32  Aligned_cols=20  Identities=30%  Similarity=0.522  Sum_probs=18.5

Q ss_pred             EEEEcCCCCCchhhhhhhhh
Q psy10878         73 VIVIGDPTVGKTSFVQRYVQ   92 (131)
Q Consensus        73 i~vvG~~~vGKSsli~~~~~   92 (131)
                      +++.|++|+|||+++..++.
T Consensus        38 lLl~Gp~G~GKttl~~~la~   57 (227)
T d1sxjc2          38 LLFYGPPGTGKTSTIVALAR   57 (227)
T ss_dssp             EEEECSSSSSHHHHHHHHHH
T ss_pred             EEEECCCCCChhHHHHHHHH
Confidence            88999999999999998875

>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=95.06  E-value=0.002  Score=41.25  Aligned_cols=49  Identities=16%  Similarity=0.172  Sum_probs=34.2

Q ss_pred             CCCcEEeeccCCCcccccc----------------ccccc------CCCCccccccCCcccccccccccccc
Q psy10878          5 AKKPILLPSASEDPSIDNW----------------DKASW------ENVTPIVSEQGDGEIIEIIDPSLKLV   54 (131)
Q Consensus         5 ~~kp~vlv~NK~Dl~~~~~----------------~~~~~------~~~~~is~~~~~~~~~~~~~~~~~~~   54 (131)
                      .+.|+++|.||+|+.+...                ....|      -..+.+||+++.| +.++++.+....
T Consensus       106 ~~~~i~lvgnK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~e~SAk~~~~-V~e~f~~l~~~~  176 (191)
T d2ngra_         106 PKTPFLLVGTQIDLRDDPSTIEKLAKNKQKPITPETAEKLARDLKAVKYVECSALTQKG-LKNVFDEAILAA  176 (191)
T ss_dssp             TTCCEEEEEECGGGGGCHHHHHHHHTTTCCCCCHHHHHHHHHHTTCSCEEECCTTTCTT-HHHHHHHHHHHH
T ss_pred             CCCceEEEeccccccccchhhhhhhhcccccccHHHHHHHHHHcCCCeEEEEeCCCCcC-HHHHHHHHHHHH
Confidence            3689999999999864321                00111      2346789999999 999998776554

>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=95.06  E-value=0.0039  Score=43.63  Aligned_cols=22  Identities=32%  Similarity=0.573  Sum_probs=19.8

Q ss_pred             eEEEEEcCCCCCchhhhhhhhh
Q psy10878         71 FKVIVIGDPTVGKTSFVQRYVQ   92 (131)
Q Consensus        71 ~ki~vvG~~~vGKSsli~~~~~   92 (131)
                      .+++|.|.+|+||||+++.++.
T Consensus       167 ~nili~G~tgSGKTT~l~al~~  188 (323)
T d1g6oa_         167 KNVIVCGGTGSGKTTYIKSIME  188 (323)
T ss_dssp             CCEEEEESTTSSHHHHHHHHGG
T ss_pred             CCEEEEeeccccchHHHHHHhh
Confidence            3599999999999999999885

>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=95.05  E-value=0.0019  Score=40.70  Aligned_cols=50  Identities=4%  Similarity=-0.103  Sum_probs=31.5

Q ss_pred             cCCCcEEeeccCCCcccccccc----ccc-----CCCCccccccCCcccccccccccccc
Q psy10878          4 KAKKPILLPSASEDPSIDNWDK----ASW-----ENVTPIVSEQGDGEIIEIIDPSLKLV   54 (131)
Q Consensus         4 ~~~kp~vlv~NK~Dl~~~~~~~----~~~-----~~~~~is~~~~~~~~~~~~~~~~~~~   54 (131)
                      ..+.|+++|.||.|+.......    ..+     -..+.+||+.+.| +.++++.+.+.+
T Consensus       109 ~~~~~iilv~~k~D~~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~g~g-v~e~f~~l~~~i  167 (173)
T d2fu5c1         109 SADVEKMILGNKCDVNDKRQVSKERGEKLALDYGIKFMETSAKANIN-VENAFFTLARDI  167 (173)
T ss_dssp             CTTCEEEEEEEC--CCSCCCSCHHHHHHHHHHHTCEEEECCC---CC-HHHHHHHHHHHH
T ss_pred             cCCceEEEEEecccchhhcccHHHHHHHHHHhcCCEEEEEeCCCCCC-HHHHHHHHHHHH
Confidence            3468999999999986543221    112     4567899999999 999988776644

>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=95.01  E-value=0.0061  Score=39.43  Aligned_cols=22  Identities=36%  Similarity=0.501  Sum_probs=18.9

Q ss_pred             eEEEEEcCCCCCchhhhhhhhh
Q psy10878         71 FKVIVIGDPTVGKTSFVQRYVQ   92 (131)
Q Consensus        71 ~ki~vvG~~~vGKSsli~~~~~   92 (131)
                      +-|.+-|.+|+|||||.+.+..
T Consensus         3 ~iIgI~G~~gSGKSTla~~L~~   24 (213)
T d1uj2a_           3 FLIGVSGGTASGKSSVCAKIVQ   24 (213)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHH
T ss_pred             EEEEEECCCCCCHHHHHHHHHH
Confidence            4588999999999999988753

>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=95.01  E-value=0.0053  Score=41.52  Aligned_cols=21  Identities=29%  Similarity=0.537  Sum_probs=19.1

Q ss_pred             EEEEEcCCCCCchhhhhhhhh
Q psy10878         72 KVIVIGDPTVGKTSFVQRYVQ   92 (131)
Q Consensus        72 ki~vvG~~~vGKSsli~~~~~   92 (131)
                      .+++.|+||+|||++++.++.
T Consensus        47 ~iLL~GppGtGKT~la~~iA~   67 (256)
T d1lv7a_          47 GVLMVGPPGTGKTLLAKAIAG   67 (256)
T ss_dssp             EEEEECCTTSCHHHHHHHHHH
T ss_pred             eEEeeCCCCCCccHHHHHHHH
Confidence            589999999999999998874

>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=95.00  E-value=0.002  Score=43.44  Aligned_cols=21  Identities=24%  Similarity=0.468  Sum_probs=19.1

Q ss_pred             EEEEEcCCCCCchhhhhhhhh
Q psy10878         72 KVIVIGDPTVGKTSFVQRYVQ   92 (131)
Q Consensus        72 ki~vvG~~~vGKSsli~~~~~   92 (131)
                      .+.++|.+|+|||||++.+.+
T Consensus        33 ~~~iiG~sGsGKSTll~~i~g   53 (242)
T d1oxxk2          33 RFGILGPSGAGKTTFMRIIAG   53 (242)
T ss_dssp             EEEEECSCHHHHHHHHHHHHT
T ss_pred             EEEEECCCCCcHHHHHHHHHc
Confidence            489999999999999998775

>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=94.99  E-value=0.0054  Score=39.55  Aligned_cols=20  Identities=15%  Similarity=0.365  Sum_probs=16.9

Q ss_pred             EEEEcCCCCCchhhhhhhhh
Q psy10878         73 VIVIGDPTVGKTSFVQRYVQ   92 (131)
Q Consensus        73 i~vvG~~~vGKSsli~~~~~   92 (131)
                      |++.|+||+||+|+...+..
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            66779999999999987764

>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=94.98  E-value=0.0039  Score=38.91  Aligned_cols=49  Identities=8%  Similarity=-0.026  Sum_probs=35.7

Q ss_pred             CCCcEEeeccCCCccccccc-------cccc-----CCCCccccccCCcccccccccccccc
Q psy10878          5 AKKPILLPSASEDPSIDNWD-------KASW-----ENVTPIVSEQGDGEIIEIIDPSLKLV   54 (131)
Q Consensus         5 ~~kp~vlv~NK~Dl~~~~~~-------~~~~-----~~~~~is~~~~~~~~~~~~~~~~~~~   54 (131)
                      ...|++++.||+|+.+....       ...|     -..+.+||+++.| +.+++..+.+.+
T Consensus       107 ~~~~~~~v~nk~d~~~~~~~~~v~~~~~~~~~~~~~~~~~e~Sak~g~g-V~e~F~~i~~~i  167 (170)
T d1ek0a_         107 KDIIIALVGNKIDMLQEGGERKVAREEGEKLAEEKGLLFFETSAKTGEN-VNDVFLGIGEKI  167 (170)
T ss_dssp             TTCEEEEEEECGGGGGSSCCCCSCHHHHHHHHHHHTCEEEECCTTTCTT-HHHHHHHHHTTS
T ss_pred             cccceeeeecccccccccchhhhhHHHHHHHHHHcCCEEEEecCCCCcC-HHHHHHHHHHHh
Confidence            46789999999998553211       1112     3457899999999 999988877765

>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=94.97  E-value=0.0045  Score=40.32  Aligned_cols=21  Identities=14%  Similarity=0.262  Sum_probs=18.8

Q ss_pred             EEEEEcCCCCCchhhhhhhhh
Q psy10878         72 KVIVIGDPTVGKTSFVQRYVQ   92 (131)
Q Consensus        72 ki~vvG~~~vGKSsli~~~~~   92 (131)
                      -+++.|+||+|||+|+.+|+.
T Consensus        36 ~~li~G~pGsGKT~l~lq~~~   56 (251)
T d1szpa2          36 ITELFGEFRTGKSQLCHTLAV   56 (251)
T ss_dssp             EEEEEESTTSSHHHHHHHHTT
T ss_pred             EEEEEcCCCCCHHHHHHHHHH
Confidence            388999999999999998874

>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=94.96  E-value=0.0039  Score=43.38  Aligned_cols=21  Identities=33%  Similarity=0.533  Sum_probs=18.7

Q ss_pred             EEEEEcCCCCCchhhhhhhhh
Q psy10878         72 KVIVIGDPTVGKTSFVQRYVQ   92 (131)
Q Consensus        72 ki~vvG~~~vGKSsli~~~~~   92 (131)
                      .++++|+||+|||+|+.++..
T Consensus        30 ~vLl~G~pG~GKT~lar~~~~   50 (333)
T d1g8pa_          30 GVLVFGDRGTGKSTAVRALAA   50 (333)
T ss_dssp             CEEEECCGGGCTTHHHHHHHH
T ss_pred             eEEEECCCCccHHHHHHHHHH
Confidence            599999999999999998753

>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=94.94  E-value=0.0055  Score=41.28  Aligned_cols=21  Identities=24%  Similarity=0.480  Sum_probs=19.1

Q ss_pred             EEEEEcCCCCCchhhhhhhhh
Q psy10878         72 KVIVIGDPTVGKTSFVQRYVQ   92 (131)
Q Consensus        72 ki~vvG~~~vGKSsli~~~~~   92 (131)
                      .+++.|+||+|||++++.++.
T Consensus        40 giLL~GppGtGKT~l~~ala~   60 (258)
T d1e32a2          40 GILLYGPPGTGKTLIARAVAN   60 (258)
T ss_dssp             EEEEECCTTSSHHHHHHHHHH
T ss_pred             eeEEecCCCCCchHHHHHHHH
Confidence            599999999999999998875

>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=94.93  E-value=0.0061  Score=40.21  Aligned_cols=21  Identities=19%  Similarity=0.401  Sum_probs=18.9

Q ss_pred             EEEEcCCCCCchhhhhhhhhC
Q psy10878         73 VIVIGDPTVGKTSFVQRYVQN   93 (131)
Q Consensus        73 i~vvG~~~vGKSsli~~~~~~   93 (131)
                      .++-|.-|+|||||+++++..
T Consensus         6 ~iitGFLGaGKTTll~~lL~~   26 (222)
T d1nija1           6 TLLTGFLGAGKTTLLRHILNE   26 (222)
T ss_dssp             EEEEESSSSSCHHHHHHHHHS
T ss_pred             EEEeeCCCCCHHHHHHHHHhc
Confidence            678899999999999999864

>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=94.76  E-value=0.0022  Score=42.14  Aligned_cols=23  Identities=9%  Similarity=0.160  Sum_probs=18.8

Q ss_pred             CCCccccccCCccccccccccccc
Q psy10878         30 NVTPIVSEQGDGEIIEIIDPSLKL   53 (131)
Q Consensus        30 ~~~~is~~~~~~~~~~~~~~~~~~   53 (131)
                      .++|+||.++.| +.++++.+.++
T Consensus       218 ~~v~vSa~~geG-i~~L~~~l~e~  240 (244)
T d1yrba1         218 RVLYLSAKTREG-FEDLETLAYEH  240 (244)
T ss_dssp             CCEECCTTTCTT-HHHHHHHHHHH
T ss_pred             cEEEEECCCCCC-HHHHHHHHHHH
Confidence            578999999999 99998766543

>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=94.74  E-value=0.0065  Score=41.34  Aligned_cols=21  Identities=14%  Similarity=0.264  Sum_probs=18.5

Q ss_pred             EEEEEcCCCCCchhhhhhhhh
Q psy10878         72 KVIVIGDPTVGKTSFVQRYVQ   92 (131)
Q Consensus        72 ki~vvG~~~vGKSsli~~~~~   92 (131)
                      -+.+.|.+|+|||+|+..+.+
T Consensus        46 ~v~I~GmgGiGKTtLA~~v~~   66 (277)
T d2a5yb3          46 FLFLHGRAGSGKSVIASQALS   66 (277)
T ss_dssp             EEEEECSTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            478999999999999988764

>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=94.71  E-value=0.0076  Score=38.64  Aligned_cols=20  Identities=20%  Similarity=0.376  Sum_probs=17.7

Q ss_pred             EEEEEcCCCCCchhhhhhhh
Q psy10878         72 KVIVIGDPTVGKTSFVQRYV   91 (131)
Q Consensus        72 ki~vvG~~~vGKSsli~~~~   91 (131)
                      -|+|-|..|+||||++..+.
T Consensus         2 lI~ieG~dGsGKST~~~~L~   21 (208)
T d1gsia_           2 LIAIEGVDGAGKRTLVEKLS   21 (208)
T ss_dssp             EEEEECSTTSSHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHH
Confidence            48899999999999998765

>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=94.66  E-value=0.0091  Score=38.21  Aligned_cols=23  Identities=35%  Similarity=0.510  Sum_probs=20.0

Q ss_pred             EEEEEcCCCCCchhhhhhhhhCc
Q psy10878         72 KVIVIGDPTVGKTSFVQRYVQNT   94 (131)
Q Consensus        72 ki~vvG~~~vGKSsli~~~~~~~   94 (131)
                      -+++.|++|+|||+++..++...
T Consensus        16 gvl~~G~sG~GKStlal~l~~~g   38 (176)
T d1kkma_          16 GVLITGDSGVGKSETALELVQRG   38 (176)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHTT
T ss_pred             EEEEEeCCCCCHHHHHHHHHHcC
Confidence            48999999999999999888543

>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=94.64  E-value=0.0068  Score=39.77  Aligned_cols=22  Identities=36%  Similarity=0.653  Sum_probs=19.5

Q ss_pred             EEEEEcCCCCCchhhhhhhhhC
Q psy10878         72 KVIVIGDPTVGKTSFVQRYVQN   93 (131)
Q Consensus        72 ki~vvG~~~vGKSsli~~~~~~   93 (131)
                      -+++.|+||+|||+|+.+++.+
T Consensus        28 l~li~G~pGsGKT~l~~qia~~   49 (242)
T d1tf7a2          28 IILATGATGTGKTLLVSRFVEN   49 (242)
T ss_dssp             EEEEEECTTSSHHHHHHHHHHH
T ss_pred             EEEEEeCCCCCHHHHHHHHHHH
Confidence            4889999999999999998854

>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=94.57  E-value=0.0071  Score=39.31  Aligned_cols=22  Identities=23%  Similarity=0.167  Sum_probs=19.4

Q ss_pred             EEEEEcCCCCCchhhhhhhhhC
Q psy10878         72 KVIVIGDPTVGKTSFVQRYVQN   93 (131)
Q Consensus        72 ki~vvG~~~vGKSsli~~~~~~   93 (131)
                      =+++.|++|+|||+|+.+++.+
T Consensus        36 l~~i~G~~G~GKT~~~l~~a~~   57 (258)
T d2i1qa2          36 VTEFAGVFGSGKTQIMHQSCVN   57 (258)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHH
T ss_pred             EEEEEeCCCCCHHHHHHHHHHH
Confidence            3889999999999999998853

>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=94.54  E-value=0.012  Score=37.21  Aligned_cols=23  Identities=13%  Similarity=0.156  Sum_probs=19.4

Q ss_pred             eeEEEEEcCCCCCchhhhhhhhh
Q psy10878         70 LFKVIVIGDPTVGKTSFVQRYVQ   92 (131)
Q Consensus        70 ~~ki~vvG~~~vGKSsli~~~~~   92 (131)
                      .+-|.+.|.+|+||||+++.|..
T Consensus         3 p~IIgitG~~gSGKstva~~l~~   25 (191)
T d1uf9a_           3 PIIIGITGNIGSGKSTVAALLRS   25 (191)
T ss_dssp             CEEEEEEECTTSCHHHHHHHHHH
T ss_pred             CEEEEEECCCCCCHHHHHHHHHH
Confidence            45688999999999999987754

>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=94.54  E-value=0.0039  Score=38.84  Aligned_cols=49  Identities=16%  Similarity=0.021  Sum_probs=33.9

Q ss_pred             CCCcEEeeccCCCccccccc---c----------ccc-----------CCCCccccccCCcccccccccccccc
Q psy10878          5 AKKPILLPSASEDPSIDNWD---K----------ASW-----------ENVTPIVSEQGDGEIIEIIDPSLKLV   54 (131)
Q Consensus         5 ~~kp~vlv~NK~Dl~~~~~~---~----------~~~-----------~~~~~is~~~~~~~~~~~~~~~~~~~   54 (131)
                      .++|++++.||.|+......   .          ...           -..+++||++|.| +.++++.+.+++
T Consensus       113 ~~~~~li~~~K~D~~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~SA~tg~G-i~e~~~~l~~~i  185 (186)
T d1f6ba_         113 ANVPILILGNKIDRPEAISEERLREMFGLYGQTTGKGSVSLKELNARPLEVFMCSVLKRQG-YGEGFRWMAQYI  185 (186)
T ss_dssp             TTSCEEEEEECTTSTTCCCHHHHHHHHTCTTTCCCSSCCCTTTCCSCCEEEEECBTTTTBS-HHHHHHHHHTTC
T ss_pred             CCCceEEEEeccCccccCCHHHHHHHHhhcccchhhhhhhHHHhhcCCCEEEEEeCCCCCC-HHHHHHHHHHhh
Confidence            47899999999998432100   0          000           1256899999999 999988776654

>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=94.43  E-value=0.0042  Score=41.01  Aligned_cols=37  Identities=19%  Similarity=0.419  Sum_probs=24.2

Q ss_pred             CcEEeeccCCCccccccccccc--------------------CCCCccccccCCcccc
Q psy10878          7 KPILLPSASEDPSIDNWDKASW--------------------ENVTPIVSEQGDGEII   44 (131)
Q Consensus         7 kp~vlv~NK~Dl~~~~~~~~~~--------------------~~~~~is~~~~~~~~~   44 (131)
                      +++++++||+|+....+....+                    ...+|+||..+.| +.
T Consensus       142 ~~iIv~iNK~D~~~~~~~~~~~~~v~~~i~~~~~~~~~~~~~i~~IPISA~~G~N-V~  198 (224)
T d1jnya3         142 DQLIVAVNKMDLTEPPYDEKRYKEIVDQVSKFMRSYGFNTNKVRFVPVVAPSGDN-IT  198 (224)
T ss_dssp             TTCEEEEECGGGSSSTTCHHHHHHHHHHHHHHHHHTTCCCTTCEEEECBTTTTBT-TT
T ss_pred             CceEEEEEcccCCCccccHHHHHHHHHHHHhHHHhcCCCcccCeEEEEEccCCCC-cc
Confidence            4688889999987543222111                    2236999999888 53

>d1v5wa_ c.37.1.11 (A:) Meiotic recombination protein DMC1/LIM15 homolog {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Meiotic recombination protein DMC1/LIM15 homolog
species: Human (Homo sapiens) [TaxId: 9606]

Probab=94.37  E-value=0.0093  Score=39.01  Aligned_cols=21  Identities=19%  Similarity=0.233  Sum_probs=19.1

Q ss_pred             EEEEEcCCCCCchhhhhhhhh
Q psy10878         72 KVIVIGDPTVGKTSFVQRYVQ   92 (131)
Q Consensus        72 ki~vvG~~~vGKSsli~~~~~   92 (131)
                      =+++.|++|+|||+|..+|+.
T Consensus        39 ~~~i~G~~GsGKT~lalq~~~   59 (258)
T d1v5wa_          39 ITEAFGEFRTGKTQLSHTLCV   59 (258)
T ss_dssp             EEEEECCTTCTHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            488999999999999999984

>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=94.35  E-value=0.008  Score=40.67  Aligned_cols=21  Identities=29%  Similarity=0.480  Sum_probs=19.1

Q ss_pred             EEEEEcCCCCCchhhhhhhhh
Q psy10878         72 KVIVIGDPTVGKTSFVQRYVQ   92 (131)
Q Consensus        72 ki~vvG~~~vGKSsli~~~~~   92 (131)
                      .+++.|++|+|||+|++.++.
T Consensus        43 giLL~Gp~GtGKT~l~~ala~   63 (265)
T d1r7ra3          43 GVLFYGPPGCGKTLLAKAIAN   63 (265)
T ss_dssp             EEEEBCCTTSSHHHHHHHHHH
T ss_pred             eEEEECCCCCcchhHHHHHHH
Confidence            499999999999999998874

>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=94.28  E-value=0.008  Score=42.69  Aligned_cols=20  Identities=30%  Similarity=0.516  Sum_probs=18.3

Q ss_pred             EEEEEcCCCCCchhhhhhhh
Q psy10878         72 KVIVIGDPTVGKTSFVQRYV   91 (131)
Q Consensus        72 ki~vvG~~~vGKSsli~~~~   91 (131)
                      +++++|++|||||-|..+++
T Consensus        70 niLfiGPTGvGKTElAk~LA   89 (364)
T d1um8a_          70 NILLIGPTGSGKTLMAQTLA   89 (364)
T ss_dssp             CEEEECCTTSSHHHHHHHHH
T ss_pred             ceeeeCCCCccHHHHHHHHH
Confidence            59999999999999998876

>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=94.28  E-value=0.019  Score=35.96  Aligned_cols=22  Identities=32%  Similarity=0.454  Sum_probs=19.2

Q ss_pred             eEEEEEcCCCCCchhhhhhhhh
Q psy10878         71 FKVIVIGDPTVGKTSFVQRYVQ   92 (131)
Q Consensus        71 ~ki~vvG~~~vGKSsli~~~~~   92 (131)
                      .-+++-|+-|+|||+|+..++.
T Consensus        34 ~ii~L~G~LGaGKTtfvr~~~~   55 (158)
T d1htwa_          34 IMVYLNGDLGAGKTTLTRGMLQ   55 (158)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHH
T ss_pred             eEEEEecCCCccHHHHHHHHHh
Confidence            3488899999999999998884

>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=94.16  E-value=0.012  Score=37.70  Aligned_cols=22  Identities=18%  Similarity=0.433  Sum_probs=19.6

Q ss_pred             EEEEEcCCCCCchhhhhhhhhC
Q psy10878         72 KVIVIGDPTVGKTSFVQRYVQN   93 (131)
Q Consensus        72 ki~vvG~~~vGKSsli~~~~~~   93 (131)
                      -+++.|++|+|||+++..++..
T Consensus        17 gvli~G~sG~GKS~lal~l~~~   38 (177)
T d1knxa2          17 GVLLTGRSGIGKSECALDLINK   38 (177)
T ss_dssp             EEEEEESSSSSHHHHHHHHHTT
T ss_pred             EEEEEcCCCCCHHHHHHHHHHc
Confidence            4899999999999999998854

>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=93.97  E-value=0.012  Score=41.78  Aligned_cols=20  Identities=20%  Similarity=0.257  Sum_probs=18.2

Q ss_pred             EEEEEcCCCCCchhhhhhhh
Q psy10878         72 KVIVIGDPTVGKTSFVQRYV   91 (131)
Q Consensus        72 ki~vvG~~~vGKSsli~~~~   91 (131)
                      .+++.|+||+|||++++.++
T Consensus       156 ~~~~~g~~~~gk~~~~~~~~  175 (362)
T d1svma_         156 YWLFKGPIDSGKTTLAAALL  175 (362)
T ss_dssp             EEEEECSTTSSHHHHHHHHH
T ss_pred             eEEEECCCCCCHHHHHHHHH
Confidence            69999999999999998766

>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=93.93  E-value=0.012  Score=38.03  Aligned_cols=20  Identities=30%  Similarity=0.552  Sum_probs=17.6

Q ss_pred             EEEEEcCCCCCchhhhhhhh
Q psy10878         72 KVIVIGDPTVGKTSFVQRYV   91 (131)
Q Consensus        72 ki~vvG~~~vGKSsli~~~~   91 (131)
                      -+++.|++|+|||+|+.+++
T Consensus        28 ~~~I~G~~G~GKT~la~~~~   47 (242)
T d1tf7a1          28 STLVSGTSGTGKTLFSIQFL   47 (242)
T ss_dssp             EEEEEESTTSSHHHHHHHHH
T ss_pred             EEEEEeCCCCCHHHHHHHHH
Confidence            48889999999999988765

>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=93.88  E-value=0.015  Score=36.89  Aligned_cols=23  Identities=22%  Similarity=0.501  Sum_probs=19.7

Q ss_pred             eEEEEEcCCCCCchhhhhhhhhC
Q psy10878         71 FKVIVIGDPTVGKTSFVQRYVQN   93 (131)
Q Consensus        71 ~ki~vvG~~~vGKSsli~~~~~~   93 (131)
                      .-+++.|++|+|||++...++..
T Consensus        16 ~gvli~G~sg~GKS~la~~l~~~   38 (169)
T d1ko7a2          16 VGVLITGDSGIGKSETALELIKR   38 (169)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHT
T ss_pred             EEEEEEeCCCCCHHHHHHHHHHc
Confidence            35999999999999999887754

>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=93.87  E-value=0.012  Score=40.74  Aligned_cols=21  Identities=24%  Similarity=0.378  Sum_probs=18.4

Q ss_pred             EEEEEcCCCCCchhhhhhhhh
Q psy10878         72 KVIVIGDPTVGKTSFVQRYVQ   92 (131)
Q Consensus        72 ki~vvG~~~vGKSsli~~~~~   92 (131)
                      .++++|++|||||.|+..+..
T Consensus        54 ~~lf~Gp~GvGKT~lak~la~   74 (315)
T d1r6bx3          54 SFLFAGPTGVGKTEVTVQLSK   74 (315)
T ss_dssp             EEEEECSTTSSHHHHHHHHHH
T ss_pred             EEEEECCCcchhHHHHHHHHh
Confidence            589999999999999987663

>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=93.77  E-value=0.014  Score=38.20  Aligned_cols=21  Identities=24%  Similarity=0.395  Sum_probs=18.6

Q ss_pred             EEEEcCCCCCchhhhhhhhhC
Q psy10878         73 VIVIGDPTVGKTSFVQRYVQN   93 (131)
Q Consensus        73 i~vvG~~~vGKSsli~~~~~~   93 (131)
                      +.+.|.+|+|||.|++.++..
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            789999999999999887753

>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=93.70  E-value=0.014  Score=38.10  Aligned_cols=21  Identities=33%  Similarity=0.545  Sum_probs=18.7

Q ss_pred             EEEEEcCCCCCchhhhhhhhh
Q psy10878         72 KVIVIGDPTVGKTSFVQRYVQ   92 (131)
Q Consensus        72 ki~vvG~~~vGKSsli~~~~~   92 (131)
                      .|++-|..|+||||++..+..
T Consensus         4 ~I~ieG~dGsGKST~~~~L~~   24 (241)
T d1p5zb_           4 KISIEGNIAAGKSTFVNILKQ   24 (241)
T ss_dssp             EEEEECSTTSSHHHHHTTTGG
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            489999999999999998764

>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=93.57  E-value=0.015  Score=39.31  Aligned_cols=19  Identities=16%  Similarity=0.396  Sum_probs=16.3

Q ss_pred             EEEEcCCCCCchhhhhhhh
Q psy10878         73 VIVIGDPTVGKTSFVQRYV   91 (131)
Q Consensus        73 i~vvG~~~vGKSsli~~~~   91 (131)
                      -+++|+.|+|||+++..+.
T Consensus        27 nvlvG~NgsGKS~iL~Ai~   45 (308)
T d1e69a_          27 TAIVGPNGSGKSNIIDAIK   45 (308)
T ss_dssp             EEEECCTTTCSTHHHHHHH
T ss_pred             EEEECCCCCcHHHHHHHHH
Confidence            4789999999999997653

>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=93.52  E-value=0.016  Score=40.47  Aligned_cols=20  Identities=40%  Similarity=0.539  Sum_probs=17.1

Q ss_pred             EEEEcCCCCCchhhhhhhhh
Q psy10878         73 VIVIGDPTVGKTSFVQRYVQ   92 (131)
Q Consensus        73 i~vvG~~~vGKSsli~~~~~   92 (131)
                      +++.|+||+|||.|+..+..
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            55579999999999998874

>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=93.34  E-value=0.018  Score=37.04  Aligned_cols=19  Identities=26%  Similarity=0.321  Sum_probs=16.9

Q ss_pred             EEEEcCCCCCchhhhhhhh
Q psy10878         73 VIVIGDPTVGKTSFVQRYV   91 (131)
Q Consensus        73 i~vvG~~~vGKSsli~~~~   91 (131)
                      |++-|..|+||||++..+.
T Consensus         5 IviEG~dGsGKsT~~~~L~   23 (210)
T d4tmka_           5 IVIEGLEGAGKTTARNVVV   23 (210)
T ss_dssp             EEEEECTTSCHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHH
Confidence            7788999999999998766

>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=93.13  E-value=0.011  Score=39.08  Aligned_cols=37  Identities=16%  Similarity=0.230  Sum_probs=24.0

Q ss_pred             CcEEeeccCCCccccccccc-----c---------c--CC--CCccccccCCcccc
Q psy10878          7 KPILLPSASEDPSIDNWDKA-----S---------W--EN--VTPIVSEQGDGEII   44 (131)
Q Consensus         7 kp~vlv~NK~Dl~~~~~~~~-----~---------~--~~--~~~is~~~~~~~~~   44 (131)
                      +.+++++||+|+.+......     +         |  .+  .+|+||.+|.| +.
T Consensus       143 ~~iiv~vNK~D~~~~~~~~~~~~~~~l~~~~~~~~~~~~~i~~IPiSA~~G~n-i~  197 (222)
T d1zunb3         143 KHIVVAINKMDLNGFDERVFESIKADYLKFAEGIAFKPTTMAFVPMSALKGDN-VV  197 (222)
T ss_dssp             CEEEEEEECTTTTTSCHHHHHHHHHHHHHHHHTTTCCCSEEEEEECCTTTCTT-TS
T ss_pred             CEEEEEEEccccccccceehhhhHHHHhhhhHhhccCCCceEEEEEEcccCcc-CC
Confidence            45888999999975321111     1         1  22  26899999998 53

>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=93.07  E-value=0.032  Score=35.97  Aligned_cols=25  Identities=16%  Similarity=0.333  Sum_probs=19.9

Q ss_pred             eEEEEEcCCCCCchhhhhhhhhCcC
Q psy10878         71 FKVIVIGDPTVGKTSFVQRYVQNTF   95 (131)
Q Consensus        71 ~ki~vvG~~~vGKSsli~~~~~~~~   95 (131)
                      +-|.+.|..|+||||+.+.|....+
T Consensus         4 ~iIgitG~igSGKStv~~~l~~~G~   28 (208)
T d1vhta_           4 YIVALTGGIGSGKSTVANAFADLGI   28 (208)
T ss_dssp             EEEEEECCTTSCHHHHHHHHHHTTC
T ss_pred             EEEEEECCCcCCHHHHHHHHHHCCC
Confidence            4477999999999999987764433

>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=93.03  E-value=0.029  Score=38.89  Aligned_cols=25  Identities=16%  Similarity=0.274  Sum_probs=20.9

Q ss_pred             CceeeEEEEEcCCCCCchhhhhhhh
Q psy10878         67 PEKLFKVIVIGDPTVGKTSFVQRYV   91 (131)
Q Consensus        67 ~~~~~ki~vvG~~~vGKSsli~~~~   91 (131)
                      ....+=|.|.|.+|+||||+.+.+.
T Consensus        77 ~k~P~iIGIaG~sgSGKSTla~~L~  101 (308)
T d1sq5a_          77 QRIPYIISIAGSVAVGKSTTARVLQ  101 (308)
T ss_dssp             CCCCEEEEEEECTTSSHHHHHHHHH
T ss_pred             CCCCEEEEEeCCCCCCCcHHHHHHH
Confidence            3456789999999999999988765

>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=92.97  E-value=0.02  Score=39.34  Aligned_cols=20  Identities=20%  Similarity=0.411  Sum_probs=14.9

Q ss_pred             EEEEcCCCCCchhhhhhhhh
Q psy10878         73 VIVIGDPTVGKTSFVQRYVQ   92 (131)
Q Consensus        73 i~vvG~~~vGKSsli~~~~~   92 (131)
                      |.|.|.+|+||||+.+.+..
T Consensus         7 IgIaG~SGSGKTTva~~l~~   26 (288)
T d1a7ja_           7 ISVTGSSGAGTSTVKHTFDQ   26 (288)
T ss_dssp             EEEESCC---CCTHHHHHHH
T ss_pred             EEEECCCCCcHHHHHHHHHH
Confidence            89999999999999987653

>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=92.86  E-value=0.021  Score=37.98  Aligned_cols=20  Identities=10%  Similarity=0.164  Sum_probs=17.4

Q ss_pred             EEEEcCCCCCchhhhhhhhh
Q psy10878         73 VIVIGDPTVGKTSFVQRYVQ   92 (131)
Q Consensus        73 i~vvG~~~vGKSsli~~~~~   92 (131)
                      .++.|.+|+|||+|+..++.
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            77999999999999987663

>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=92.79  E-value=0.013  Score=36.28  Aligned_cols=49  Identities=16%  Similarity=0.130  Sum_probs=35.9

Q ss_pred             CCCcEEeeccCCCcccccccc---ccc-----CCCCccccccCCcccccccccccccc
Q psy10878          5 AKKPILLPSASEDPSIDNWDK---ASW-----ENVTPIVSEQGDGEIIEIIDPSLKLV   54 (131)
Q Consensus         5 ~~kp~vlv~NK~Dl~~~~~~~---~~~-----~~~~~is~~~~~~~~~~~~~~~~~~~   54 (131)
                      ...|++++.||.|+.......   .++     ...+++|++++.| +.++++.+.+.+
T Consensus       106 ~~~~~i~~~~k~d~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~-v~e~f~~l~~~i  162 (166)
T d1g16a_         106 DEAQLLLVGNKSDMETRVVTADQGEALAKELGIPFIESSAKNDDN-VNEIFFTLAKLI  162 (166)
T ss_dssp             TTCEEEEEEECTTCTTCCSCHHHHHHHHHHHTCCEEECBTTTTBS-HHHHHHHHHHHH
T ss_pred             CcceeeeecchhhhhhhhhhHHHHHHHHHhcCCeEEEECCCCCCC-HHHHHHHHHHHH
Confidence            357889999999986543222   222     4567899999999 999988776654

>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=92.78  E-value=0.024  Score=37.91  Aligned_cols=20  Identities=25%  Similarity=0.547  Sum_probs=17.6

Q ss_pred             EEEEcCCCCCchhhhhhhhh
Q psy10878         73 VIVIGDPTVGKTSFVQRYVQ   92 (131)
Q Consensus        73 i~vvG~~~vGKSsli~~~~~   92 (131)
                      +++.|.||+|||+|+..++.
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            78999999999999887763

>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=92.77  E-value=0.027  Score=36.48  Aligned_cols=21  Identities=10%  Similarity=0.343  Sum_probs=18.6

Q ss_pred             EEEEEcCCCCCchhhhhhhhh
Q psy10878         72 KVIVIGDPTVGKTSFVQRYVQ   92 (131)
Q Consensus        72 ki~vvG~~~vGKSsli~~~~~   92 (131)
                      -+++.|++|+|||+++..++.
T Consensus        26 ~lLl~Gp~G~GKtt~a~~~a~   46 (207)
T d1a5ta2          26 ALLIQALPGMGDDALIYALSR   46 (207)
T ss_dssp             EEEEECCTTSCHHHHHHHHHH
T ss_pred             EEEEECCCCCcHHHHHHHHHH
Confidence            389999999999999997764

>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=92.71  E-value=0.038  Score=38.59  Aligned_cols=26  Identities=15%  Similarity=0.388  Sum_probs=22.4

Q ss_pred             CceeeEEEEEcCCCCCchhhhhhhhh
Q psy10878         67 PEKLFKVIVIGDPTVGKTSFVQRYVQ   92 (131)
Q Consensus        67 ~~~~~ki~vvG~~~vGKSsli~~~~~   92 (131)
                      +...++|+|=|.-|+||||+++.+..
T Consensus         2 ~m~~lrI~IEG~iGsGKSTl~~~L~~   27 (331)
T d1osna_           2 KMGVLRIYLDGAYGIGKTTAAEEFLH   27 (331)
T ss_dssp             CEEEEEEEEEESSSSCTTHHHHHHHH
T ss_pred             CccceEEEEECCCCCCHHHHHHHHHH
Confidence            34567899999999999999998874

>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=92.59  E-value=0.0037  Score=39.27  Aligned_cols=19  Identities=21%  Similarity=0.424  Sum_probs=16.5

Q ss_pred             EEEEcCCCCCchhhhhhhh
Q psy10878         73 VIVIGDPTVGKTSFVQRYV   91 (131)
Q Consensus        73 i~vvG~~~vGKSsli~~~~   91 (131)
                      .+++|..|+||||++..+.
T Consensus        27 tvi~G~NGsGKStil~Ai~   45 (222)
T d1qhla_          27 TTLSGGNGAGKSTTMAAFV   45 (222)
T ss_dssp             HHHHSCCSHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHH
Confidence            4678999999999999765

>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=92.55  E-value=0.028  Score=37.03  Aligned_cols=21  Identities=29%  Similarity=0.384  Sum_probs=17.8

Q ss_pred             EEEEEcCCCCCchhhhhhhhh
Q psy10878         72 KVIVIGDPTVGKTSFVQRYVQ   92 (131)
Q Consensus        72 ki~vvG~~~vGKSsli~~~~~   92 (131)
                      .+++.|++|+|||+++..++.
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            378899999999999887653

>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=92.50  E-value=0.044  Score=35.19  Aligned_cols=22  Identities=23%  Similarity=0.373  Sum_probs=18.7

Q ss_pred             eEEEEEcCCCCCchhhhhhhhh
Q psy10878         71 FKVIVIGDPTVGKTSFVQRYVQ   92 (131)
Q Consensus        71 ~ki~vvG~~~vGKSsli~~~~~   92 (131)
                      +-|.+.|..|+||||+++.|..
T Consensus         3 ~iIgITG~igSGKStv~~~l~~   24 (205)
T d1jjva_           3 YIVGLTGGIGSGKTTIANLFTD   24 (205)
T ss_dssp             EEEEEECSTTSCHHHHHHHHHT
T ss_pred             EEEEEECCCCCCHHHHHHHHHH
Confidence            4588999999999999987753

>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=92.34  E-value=0.029  Score=36.36  Aligned_cols=19  Identities=21%  Similarity=0.440  Sum_probs=16.0

Q ss_pred             EEEEcCCCCCchhhhhhhh
Q psy10878         73 VIVIGDPTVGKTSFVQRYV   91 (131)
Q Consensus        73 i~vvG~~~vGKSsli~~~~   91 (131)
                      |++-|..|+||||++..+.
T Consensus         6 I~ieG~dGsGKsT~~~~L~   24 (209)
T d1nn5a_           6 IVLEGVDRAGKSTQSRKLV   24 (209)
T ss_dssp             EEEEESTTSSHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHH
Confidence            7777999999999877654

>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=91.68  E-value=0.0044  Score=39.40  Aligned_cols=17  Identities=18%  Similarity=0.110  Sum_probs=14.3

Q ss_pred             CCCcEEeeccCCCcccc
Q psy10878          5 AKKPILLPSASEDPSID   21 (131)
Q Consensus         5 ~~kp~vlv~NK~Dl~~~   21 (131)
                      .+.|++|++||+|+.+.
T Consensus       110 ~~~piilv~NK~Dl~~~  126 (200)
T d1zcba2         110 SNVSIILFLNKTDLLEE  126 (200)
T ss_dssp             TTSEEEEEEECHHHHHH
T ss_pred             cCceEEEEeccchhhhh
Confidence            57899999999998543

>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=91.62  E-value=0.04  Score=35.89  Aligned_cols=21  Identities=29%  Similarity=0.593  Sum_probs=18.4

Q ss_pred             EEEEEcCCCCCchhhhhhhhh
Q psy10878         72 KVIVIGDPTVGKTSFVQRYVQ   92 (131)
Q Consensus        72 ki~vvG~~~vGKSsli~~~~~   92 (131)
                      -|+|=|.-||||||+++.+..
T Consensus         4 ~IviEG~~GsGKST~~~~L~~   24 (241)
T d2ocpa1           4 RLSIEGNIAVGKSTFVKLLTK   24 (241)
T ss_dssp             EEEEEECTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCCcHHHHHHHHHH
Confidence            388999999999999998764

>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=91.38  E-value=0.0048  Score=39.06  Aligned_cols=48  Identities=15%  Similarity=0.113  Sum_probs=30.9

Q ss_pred             CCCcEEeeccCCCccccccc----------------cccc----C--CCCccccccCC-ccccccccccccc
Q psy10878          5 AKKPILLPSASEDPSIDNWD----------------KASW----E--NVTPIVSEQGD-GEIIEIIDPSLKL   53 (131)
Q Consensus         5 ~~kp~vlv~NK~Dl~~~~~~----------------~~~~----~--~~~~is~~~~~-~~~~~~~~~~~~~   53 (131)
                      .+.|++||.||+|+......                ...+    .  ..+.+||+++. + +.++++.+...
T Consensus       105 ~~~~iilVgnK~Dl~~~~~~~~~~~~~~~~~V~~~e~~~~a~~~~~~~y~E~SAk~~~n~-i~~~F~~~~~~  175 (179)
T d1m7ba_         105 PNTKMLLVGCKSDLRTDVSTLVELSNHRQTPVSYDQGANMAKQIGAATYIECSALQSENS-VRDIFHVATLA  175 (179)
T ss_dssp             TTCEEEEEEECGGGGGCHHHHHHHHTTTCCCCCHHHHHHHHHHHTCSEEEECBTTTBHHH-HHHHHHHHHHH
T ss_pred             CcceEEEEEecccccccchhhHHHhhhhcCcchHHHHHHHHHHhCCCeEEEEeCCCCCcC-HHHHHHHHHHH
Confidence            47899999999998642110                0111    2  23558999886 6 88887765543

>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=91.31  E-value=0.013  Score=40.97  Aligned_cols=46  Identities=15%  Similarity=0.205  Sum_probs=32.9

Q ss_pred             cEEeeccCCCcccccccc------------------ccc-CCCCccccccCCcccccccccccccc
Q psy10878          8 PILLPSASEDPSIDNWDK------------------ASW-ENVTPIVSEQGDGEIIEIIDPSLKLV   54 (131)
Q Consensus         8 p~vlv~NK~Dl~~~~~~~------------------~~~-~~~~~is~~~~~~~~~~~~~~~~~~~   54 (131)
                      +-++|+||+|+.......                  ..| -.++.+|+.++.| +.++.+.+.++.
T Consensus       191 aDi~vvNKaD~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~p~V~~~Sa~~g~G-i~el~~~I~~~~  255 (323)
T d2qm8a1         191 ADMIAVNKADDGDGERRASAAASEYRAALHILTPPSATWTPPVVTISGLHGKG-LDSLWSRIEDHR  255 (323)
T ss_dssp             CSEEEEECCSTTCCHHHHHHHHHHHHHHHTTBCCSBTTBCCCEEEEBTTTTBS-HHHHHHHHHHHH
T ss_pred             hheeeEeccccccchHHHHHHHHHHHHHhhcccccccCCCCceEEEEecCCCC-HHHHHHHHHHHH
Confidence            348899999975432110                  112 4578899999999 999999886665

>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=91.05  E-value=0.036  Score=37.22  Aligned_cols=15  Identities=27%  Similarity=0.514  Sum_probs=13.3

Q ss_pred             EEEEcCCCCCchhhh
Q psy10878         73 VIVIGDPTVGKTSFV   87 (131)
Q Consensus        73 i~vvG~~~vGKSsli   87 (131)
                      ++|+|.||+|||+.+
T Consensus        17 ~lI~g~aGTGKTt~l   31 (306)
T d1uaaa1          17 CLVLAGAGSGKTRVI   31 (306)
T ss_dssp             EEECCCTTSCHHHHH
T ss_pred             EEEEeeCCccHHHHH
Confidence            789999999999754

>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=91.01  E-value=0.043  Score=38.36  Aligned_cols=19  Identities=21%  Similarity=0.391  Sum_probs=16.4

Q ss_pred             EEEEcCCCCCchhhhhhhh
Q psy10878         73 VIVIGDPTVGKTSFVQRYV   91 (131)
Q Consensus        73 i~vvG~~~vGKSsli~~~~   91 (131)
                      -+++|+.|+|||+++..+.
T Consensus        28 ~~i~G~NGsGKS~ileAi~   46 (427)
T d1w1wa_          28 TSIIGPNGSGKSNMMDAIS   46 (427)
T ss_dssp             EEEECSTTSSHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHH
Confidence            4588999999999998864

>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=90.88  E-value=0.054  Score=37.11  Aligned_cols=22  Identities=27%  Similarity=0.504  Sum_probs=19.4

Q ss_pred             eEEEEEcCCCCCchhhhhhhhh
Q psy10878         71 FKVIVIGDPTVGKTSFVQRYVQ   92 (131)
Q Consensus        71 ~ki~vvG~~~vGKSsli~~~~~   92 (131)
                      -|+.++|++|+|||+|+..++.
T Consensus        44 Qr~~I~g~~g~GKT~l~~~i~~   65 (289)
T d1xpua3          44 QRGLIVAPPKAGKTMLLQNIAQ   65 (289)
T ss_dssp             CEEEEEECSSSSHHHHHHHHHH
T ss_pred             CeeeEeCCCCCCHHHHHHHHHH
Confidence            3799999999999999987774

>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=90.87  E-value=0.039  Score=35.98  Aligned_cols=21  Identities=19%  Similarity=0.395  Sum_probs=18.3

Q ss_pred             eEEEEEcCCCCCchhhhhhhh
Q psy10878         71 FKVIVIGDPTVGKTSFVQRYV   91 (131)
Q Consensus        71 ~ki~vvG~~~vGKSsli~~~~   91 (131)
                      --+++.|++++|||.++..++
T Consensus        54 n~i~~~GP~~TGKS~f~~sl~   74 (205)
T d1tuea_          54 NCLVFCGPANTGKSYFGMSFI   74 (205)
T ss_dssp             SEEEEESCGGGCHHHHHHHHH
T ss_pred             eEEEEECCCCccHHHHHHHHH
Confidence            369999999999999988765

>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=90.75  E-value=0.045  Score=37.10  Aligned_cols=16  Identities=19%  Similarity=0.480  Sum_probs=13.8

Q ss_pred             EEEEcCCCCCchhhhh
Q psy10878         73 VIVIGDPTVGKTSFVQ   88 (131)
Q Consensus        73 i~vvG~~~vGKSsli~   88 (131)
                      ++|.|.+|+|||+.+.
T Consensus        27 ~lV~g~aGSGKTt~l~   42 (318)
T d1pjra1          27 LLIMAGAGSGKTRVLT   42 (318)
T ss_dssp             EEEEECTTSCHHHHHH
T ss_pred             EEEEecCCccHHHHHH
Confidence            8899999999997653

>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=90.72  E-value=0.055  Score=38.57  Aligned_cols=21  Identities=24%  Similarity=0.336  Sum_probs=19.3

Q ss_pred             EEEEEcCCCCCchhhhhhhhh
Q psy10878         72 KVIVIGDPTVGKTSFVQRYVQ   92 (131)
Q Consensus        72 ki~vvG~~~vGKSsli~~~~~   92 (131)
                      =+++.|.+|+||||.++.++.
T Consensus       160 liLvtGpTGSGKSTTl~~~l~  180 (401)
T d1p9ra_         160 IILVTGPTGSGKSTTLYAGLQ  180 (401)
T ss_dssp             EEEEECSTTSCHHHHHHHHHH
T ss_pred             eEEEEcCCCCCccHHHHHHhh
Confidence            499999999999999999885

>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=90.65  E-value=0.052  Score=38.45  Aligned_cols=22  Identities=18%  Similarity=0.395  Sum_probs=18.8

Q ss_pred             EEEEEcCCCCCchhhhhhhhhC
Q psy10878         72 KVIVIGDPTVGKTSFVQRYVQN   93 (131)
Q Consensus        72 ki~vvG~~~vGKSsli~~~~~~   93 (131)
                      .++|+|.+|+|||+++..++..
T Consensus        52 H~~I~G~tGsGKT~~l~~li~~   73 (433)
T d1e9ra_          52 HLLVNGATGTGKSVLLRELAYT   73 (433)
T ss_dssp             CEEEEECTTSSHHHHHHHHHHH
T ss_pred             eEEEEeCCCCcHHHHHHHHHHH
Confidence            5999999999999998776643

>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=90.64  E-value=0.013  Score=40.97  Aligned_cols=46  Identities=17%  Similarity=0.193  Sum_probs=32.1

Q ss_pred             cEEeeccCCCcccccc-----------------ccccc-CCCCccccccCCcccccccccccccc
Q psy10878          8 PILLPSASEDPSIDNW-----------------DKASW-ENVTPIVSEQGDGEIIEIIDPSLKLV   54 (131)
Q Consensus         8 p~vlv~NK~Dl~~~~~-----------------~~~~~-~~~~~is~~~~~~~~~~~~~~~~~~~   54 (131)
                      +-++|+||+|+.....                 ....| -.++.+|+.++.| +.++.+.+.++.
T Consensus       194 aDi~VvNKaD~~~~~~~~~~~~~~~~al~~~~~~~~~w~p~V~~~SA~~g~G-i~eL~~~I~~~~  257 (327)
T d2p67a1         194 ADLIVINKDDGDNHTNVAIARHMYESALHILRRKYDEWQPRVLTCSALEKRG-IDEIWHAIIDFK  257 (327)
T ss_dssp             CSEEEECCCCTTCHHHHHHHHHHHHHHHHHSCCSBTTBCCEEEECBGGGTBS-HHHHHHHHHHHH
T ss_pred             ccEEEEEeecccchHHHHHHHHHHHHHhhhcccCCCCCcceeEEEEeeCCCC-HHHHHHHHHHHH
Confidence            3478899999854211                 01122 3467899999999 999998886654

>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=90.53  E-value=0.064  Score=33.87  Aligned_cols=18  Identities=11%  Similarity=0.093  Sum_probs=14.9

Q ss_pred             cCCCcEEeeccCCCcccc
Q psy10878          4 KAKKPILLPSASEDPSID   21 (131)
Q Consensus         4 ~~~kp~vlv~NK~Dl~~~   21 (131)
                      ..++|+++|+||+|+...
T Consensus       109 ~~~~piiiv~NK~D~~~~  126 (209)
T d1nrjb_         109 ENGIDILIACNKSELFTA  126 (209)
T ss_dssp             TTCCCEEEEEECTTSTTC
T ss_pred             hccCCeEEEEEeeccccc
Confidence            457999999999998653

>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=90.43  E-value=0.07  Score=37.25  Aligned_cols=24  Identities=13%  Similarity=0.218  Sum_probs=21.0

Q ss_pred             eeeEEEEEcCCCCCchhhhhhhhh
Q psy10878         69 KLFKVIVIGDPTVGKTSFVQRYVQ   92 (131)
Q Consensus        69 ~~~ki~vvG~~~vGKSsli~~~~~   92 (131)
                      ..++|+|=|.-|+||||+++.+..
T Consensus         5 ~~~rI~iEG~iGsGKSTl~~~L~~   28 (333)
T d1p6xa_           5 TIVRIYLDGVYGIGKSTTGRVMAS   28 (333)
T ss_dssp             EEEEEEEECSTTSSHHHHHHHHHS
T ss_pred             ceEEEEEECCccCCHHHHHHHHHH
Confidence            457899999999999999998764

>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=90.29  E-value=0.055  Score=37.37  Aligned_cols=21  Identities=24%  Similarity=0.477  Sum_probs=17.7

Q ss_pred             EEEEEcCCCCCchhhhhhhhh
Q psy10878         72 KVIVIGDPTVGKTSFVQRYVQ   92 (131)
Q Consensus        72 ki~vvG~~~vGKSsli~~~~~   92 (131)
                      -++++|++|||||.++..+..
T Consensus        55 ~~lf~Gp~G~GKt~lak~la~   75 (315)
T d1qvra3          55 SFLFLGPTGVGKTELAKTLAA   75 (315)
T ss_dssp             EEEEBSCSSSSHHHHHHHHHH
T ss_pred             EEEEECCCcchHHHHHHHHHH
Confidence            478999999999999887653

>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=90.20  E-value=0.08  Score=36.17  Aligned_cols=23  Identities=13%  Similarity=0.041  Sum_probs=18.9

Q ss_pred             eeeEEEEEcCCCCCchhhhhhhh
Q psy10878         69 KLFKVIVIGDPTVGKTSFVQRYV   91 (131)
Q Consensus        69 ~~~ki~vvG~~~vGKSsli~~~~   91 (131)
                      ..+=|.+-|.+|+|||||...+.
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            45678899999999999887653

>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=90.16  E-value=0.065  Score=34.68  Aligned_cols=20  Identities=20%  Similarity=0.240  Sum_probs=17.5

Q ss_pred             EEEEEcCCCCCchhhhhhhh
Q psy10878         72 KVIVIGDPTVGKTSFVQRYV   91 (131)
Q Consensus        72 ki~vvG~~~vGKSsli~~~~   91 (131)
                      =|++-|..|+||||++..+.
T Consensus         5 ~I~iEG~DGsGKST~~~~L~   24 (214)
T d1tmka_           5 LILIEGLDRTGKTTQCNILY   24 (214)
T ss_dssp             EEEEEESTTSSHHHHHHHHH
T ss_pred             EEEEECCCCCcHHHHHHHHH
Confidence            38899999999999988765

>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=90.12  E-value=0.071  Score=35.34  Aligned_cols=20  Identities=25%  Similarity=0.461  Sum_probs=16.7

Q ss_pred             EEEEEcCCCCCchhhhhhhh
Q psy10878         72 KVIVIGDPTVGKTSFVQRYV   91 (131)
Q Consensus        72 ki~vvG~~~vGKSsli~~~~   91 (131)
                      +|+|.|..||||||+...+.
T Consensus         3 ~Iai~gKGGvGKTT~a~nLA   22 (269)
T d1cp2a_           3 QVAIYGKGGIGKSTTTQNLT   22 (269)
T ss_dssp             EEEEEECTTSSHHHHHHHHH
T ss_pred             EEEEECCCcCCHHHHHHHHH
Confidence            57889999999999886544

>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=90.02  E-value=0.073  Score=33.81  Aligned_cols=16  Identities=13%  Similarity=0.351  Sum_probs=13.3

Q ss_pred             CCCcEEeeccCCCccc
Q psy10878          5 AKKPILLPSASEDPSI   20 (131)
Q Consensus         5 ~~kp~vlv~NK~Dl~~   20 (131)
                      .+.|+++|+||+|+..
T Consensus       107 ~~~pilvv~NK~Dl~~  122 (207)
T d2fh5b1         107 NSPSLLIACNKQDIAM  122 (207)
T ss_dssp             TCCEEEEEEECTTSTT
T ss_pred             cCCcEEEEEECcccCC
Confidence            4578899999999964

>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=89.54  E-value=0.035  Score=34.85  Aligned_cols=47  Identities=6%  Similarity=-0.024  Sum_probs=30.5

Q ss_pred             CCcEEeeccCCCcccccc------ccccc------CCCCccccccCCccccccccccccc
Q psy10878          6 KKPILLPSASEDPSIDNW------DKASW------ENVTPIVSEQGDGEIIEIIDPSLKL   53 (131)
Q Consensus         6 ~kp~vlv~NK~Dl~~~~~------~~~~~------~~~~~is~~~~~~~~~~~~~~~~~~   53 (131)
                      +.|+++|.||.|+.....      ....|      ...+.+||+++.| +.+++..+.+.
T Consensus       106 ~~pi~lV~~k~d~d~~~~~~v~~~~~~~~~~~~~~~~~~e~SAk~~~~-v~~~F~~l~~~  164 (175)
T d2bmja1         106 GLALALVGTQDRISASSPRVVGDARARALCADMKRCSYYETCATYGLN-VDRVFQEVAQK  164 (175)
T ss_dssp             CCEEEEEEECTTCCSSSCCCSCHHHHHHHHHTSTTEEEEEEBTTTTBT-HHHHHHHHHHH
T ss_pred             CccEEEEeeecCcchhhhcchhHHHHHHHHHHhCCCeEEEeCCCCCcC-HHHHHHHHHHH
Confidence            458899999888743211      11112      2236789999999 99887766543

>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=88.93  E-value=0.087  Score=36.70  Aligned_cols=22  Identities=36%  Similarity=0.478  Sum_probs=19.7

Q ss_pred             eeEEEEEcCCCCCchhhhhhhh
Q psy10878         70 LFKVIVIGDPTVGKTSFVQRYV   91 (131)
Q Consensus        70 ~~ki~vvG~~~vGKSsli~~~~   91 (131)
                      .++|+|=|.-|+||||+++.+.
T Consensus         4 ~lrI~IEG~iGsGKTTl~~~La   25 (329)
T d1e2ka_           4 LLRVYIDGPHGMGKTTTTQLLV   25 (329)
T ss_dssp             EEEEEECSCTTSSHHHHHHHHT
T ss_pred             ceEEEEECCcCCCHHHHHHHHH
Confidence            4679999999999999999876

>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=88.77  E-value=0.1  Score=33.89  Aligned_cols=21  Identities=14%  Similarity=0.191  Sum_probs=18.2

Q ss_pred             EEEEEcCCCCCchhhhhhhhh
Q psy10878         72 KVIVIGDPTVGKTSFVQRYVQ   92 (131)
Q Consensus        72 ki~vvG~~~vGKSsli~~~~~   92 (131)
                      -|.+.|..|+||||+.+.|..
T Consensus         3 iIgiTG~igSGKsTva~~l~e   23 (241)
T d1deka_           3 LIFLSGVKRSGKDTTADFIMS   23 (241)
T ss_dssp             EEEEECCTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            378889999999999998764

>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=88.28  E-value=0.098  Score=35.55  Aligned_cols=23  Identities=30%  Similarity=0.466  Sum_probs=20.0

Q ss_pred             eEEEEEcCCCCCchhhhhhhhhC
Q psy10878         71 FKVIVIGDPTVGKTSFVQRYVQN   93 (131)
Q Consensus        71 ~ki~vvG~~~vGKSsli~~~~~~   93 (131)
                      -|+.++|.+++|||+|+..++.+
T Consensus        69 Qr~~If~~~g~GKt~l~~~i~~~   91 (276)
T d2jdid3          69 GKIGLFGGAGVGKTVLIMELINN   91 (276)
T ss_dssp             CEEEEEECTTSSHHHHHHHHHHH
T ss_pred             CEEEeeCCCCCCHHHHHHHHHHH
Confidence            37999999999999999888743

>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=88.24  E-value=0.12  Score=32.63  Aligned_cols=20  Identities=30%  Similarity=0.358  Sum_probs=16.6

Q ss_pred             EEEEEcCC-CCCchhhhhhhh
Q psy10878         72 KVIVIGDP-TVGKTSFVQRYV   91 (131)
Q Consensus        72 ki~vvG~~-~vGKSsli~~~~   91 (131)
                      |+.|.|.. |||||++..-++
T Consensus         3 ~~~i~gt~~GVGKTtvs~~La   23 (224)
T d1byia_           3 RYFVTGTDTEVGKTVASCALL   23 (224)
T ss_dssp             EEEEEESSTTSCHHHHHHHHH
T ss_pred             eEEEEECCCCccHHHHHHHHH
Confidence            68899996 999998876554

>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=87.92  E-value=0.12  Score=34.42  Aligned_cols=20  Identities=30%  Similarity=0.297  Sum_probs=15.6

Q ss_pred             EEEEEcCCCCCchhhhhhhh
Q psy10878         72 KVIVIGDPTVGKTSFVQRYV   91 (131)
Q Consensus        72 ki~vvG~~~vGKSsli~~~~   91 (131)
                      -+++.|..||||||+...+.
T Consensus        10 ~i~~sGKGGVGKTTvaa~lA   29 (296)
T d1ihua1          10 YLFFTGKGGVGKTSISCATA   29 (296)
T ss_dssp             EEEEECSTTSSHHHHHHHHH
T ss_pred             EEEEECCCcChHHHHHHHHH
Confidence            36789999999999665443

>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=87.57  E-value=0.06  Score=35.71  Aligned_cols=39  Identities=18%  Similarity=0.285  Sum_probs=23.8

Q ss_pred             CCc-EEeeccCCCcccccccc-----cc---c--------CC--CCccccccCCccccc
Q psy10878          6 KKP-ILLPSASEDPSIDNWDK-----AS---W--------EN--VTPIVSEQGDGEIIE   45 (131)
Q Consensus         6 ~kp-~vlv~NK~Dl~~~~~~~-----~~---~--------~~--~~~is~~~~~~~~~~   45 (131)
                      +.| +++++||+|+.......     .+   +        ..  .+|+|+..+.+ +-+
T Consensus       143 gv~~iiv~iNKmD~~~~d~~~~~~~~~el~~~l~~~~~~~~~i~~ipiSa~~G~n-i~~  200 (239)
T d1f60a3         143 GVRQLIVAVNKMDSVKWDESRFQEIVKETSNFIKKVGYNPKTVPFVPISGWNGDN-MIE  200 (239)
T ss_dssp             TCCEEEEEEECGGGGTTCHHHHHHHHHHHHHHHHHHTCCGGGCCEEECCTTTCBT-TTB
T ss_pred             CCCeEEEEEECCCCCCCCHHHHHHHHHHHHHHHHhcCCCCCcEEEEEEEccCCCc-cee
Confidence            444 67789999986532211     11   1        12  26889998888 443

>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=87.48  E-value=0.14  Score=34.31  Aligned_cols=19  Identities=21%  Similarity=0.426  Sum_probs=15.4

Q ss_pred             EEEEEcCCCCCchhhhhhh
Q psy10878         72 KVIVIGDPTVGKTSFVQRY   90 (131)
Q Consensus        72 ki~vvG~~~vGKSsli~~~   90 (131)
                      +|++-|..||||||+..-+
T Consensus         4 ~IaisgKGGVGKTT~a~NL   22 (289)
T d2afhe1           4 QCAIYGKGGIGKSTTTQNL   22 (289)
T ss_dssp             EEEEEECTTSSHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHH
Confidence            5778899999999976543

>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=86.97  E-value=0.15  Score=34.31  Aligned_cols=21  Identities=24%  Similarity=0.388  Sum_probs=18.1

Q ss_pred             EEEEEcCCCCCchhhhhhhhh
Q psy10878         72 KVIVIGDPTVGKTSFVQRYVQ   92 (131)
Q Consensus        72 ki~vvG~~~vGKSsli~~~~~   92 (131)
                      =+.+.|++++|||+|+.+++.
T Consensus        56 itei~G~~gsGKTtl~l~~~~   76 (263)
T d1u94a1          56 IVEIYGPESSGKTTLTLQVIA   76 (263)
T ss_dssp             EEEEECSTTSSHHHHHHHHHH
T ss_pred             EEEEecCCCcHHHHHHHHHHH
Confidence            378999999999999987763

>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=86.91  E-value=0.15  Score=33.80  Aligned_cols=18  Identities=28%  Similarity=0.588  Sum_probs=13.8

Q ss_pred             EEEEcCCCCCchhhhhhh
Q psy10878         73 VIVIGDPTVGKTSFVQRY   90 (131)
Q Consensus        73 i~vvG~~~vGKSsli~~~   90 (131)
                      |++.|..||||||+...+
T Consensus        23 ii~sGKGGVGKTT~a~nL   40 (279)
T d1ihua2          23 IMLMGKGGVGKTTMAAAI   40 (279)
T ss_dssp             EEEECSTTSSHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHH
Confidence            455699999999975544

>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=86.84  E-value=0.15  Score=35.77  Aligned_cols=18  Identities=33%  Similarity=0.593  Sum_probs=15.2

Q ss_pred             EEEEEcCCCCCchhhhhh
Q psy10878         72 KVIVIGDPTVGKTSFVQR   89 (131)
Q Consensus        72 ki~vvG~~~vGKSsli~~   89 (131)
                      -+++.|.||+|||+++..
T Consensus       165 ~~vI~G~pGTGKTt~i~~  182 (359)
T d1w36d1         165 ISVISGGPGTGKTTTVAK  182 (359)
T ss_dssp             EEEEECCTTSTHHHHHHH
T ss_pred             eEEEEcCCCCCceehHHH
Confidence            478899999999988754

>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=86.67  E-value=0.16  Score=34.17  Aligned_cols=23  Identities=22%  Similarity=0.343  Sum_probs=19.2

Q ss_pred             eeEEEEEcCCCCCchhhhhhhhh
Q psy10878         70 LFKVIVIGDPTVGKTSFVQRYVQ   92 (131)
Q Consensus        70 ~~ki~vvG~~~vGKSsli~~~~~   92 (131)
                      +--+++.|.++.|||+|++.+..
T Consensus       104 ~n~~~l~G~~~tGKS~f~~~i~~  126 (267)
T d1u0ja_         104 RNTIWLFGPATTGKTNIAEAIAH  126 (267)
T ss_dssp             CCEEEEECSTTSSHHHHHHHHHH
T ss_pred             cEEEEEEcCCCCCHHHHHHHHHH
Confidence            44688999999999999987663

>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=84.58  E-value=0.5  Score=27.59  Aligned_cols=20  Identities=15%  Similarity=0.042  Sum_probs=16.4

Q ss_pred             EEEEEcCCCCCchhhhhhhh
Q psy10878         72 KVIVIGDPTVGKTSFVQRYV   91 (131)
Q Consensus        72 ki~vvG~~~vGKSsli~~~~   91 (131)
                      ..++.+++|+|||.++-.++
T Consensus        10 ~~ll~apTGsGKT~~~~~~~   29 (136)
T d1a1va1          10 VAHLHAPTGSGKSTKVPAAY   29 (136)
T ss_dssp             EEEEECCTTSCTTTHHHHHH
T ss_pred             EEEEEeCCCCCHHHHHHHHH
Confidence            46889999999998886555

>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=84.24  E-value=0.23  Score=32.86  Aligned_cols=20  Identities=25%  Similarity=0.428  Sum_probs=16.8

Q ss_pred             EEEEEcCCCCCchhhhhhhh
Q psy10878         72 KVIVIGDPTVGKTSFVQRYV   91 (131)
Q Consensus        72 ki~vvG~~~vGKSsli~~~~   91 (131)
                      -+++.|++|+||+.++..+-
T Consensus        25 pvlI~Ge~GtGK~~~A~~ih   44 (247)
T d1ny5a2          25 PVLITGESGVGKEVVARLIH   44 (247)
T ss_dssp             CEEEECSTTSSHHHHHHHHH
T ss_pred             CEEEECCCCcCHHHHHHHHH
Confidence            38999999999998877653

>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=84.10  E-value=0.31  Score=28.93  Aligned_cols=23  Identities=13%  Similarity=0.229  Sum_probs=20.2

Q ss_pred             eeeEEEEEcCCCCCchhhhhhhh
Q psy10878         69 KLFKVIVIGDPTVGKTSFVQRYV   91 (131)
Q Consensus        69 ~~~ki~vvG~~~vGKSsli~~~~   91 (131)
                      ..+-|.+-|.+++|||+|.+.+.
T Consensus         5 qgf~i~~tg~~~~gk~~ia~al~   27 (122)
T d1g8fa3           5 QGFSIVLGNSLTVSREQLSIALL   27 (122)
T ss_dssp             CCEEEEECTTCCSCHHHHHHHHH
T ss_pred             cceEEEEeCCCCCCHHHHHHHHH
Confidence            45789999999999999998775

>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=81.34  E-value=0.23  Score=33.74  Aligned_cols=22  Identities=32%  Similarity=0.474  Sum_probs=18.7

Q ss_pred             eEEEEEcCCCCCchhhhhhhhh
Q psy10878         71 FKVIVIGDPTVGKTSFVQRYVQ   92 (131)
Q Consensus        71 ~ki~vvG~~~vGKSsli~~~~~   92 (131)
                      -|+.++|.+++|||+|+..++.
T Consensus        69 Qr~~If~~~g~GKt~ll~~~~~   90 (285)
T d2jdia3          69 QRELIIGDRQTGKTSIAIDTII   90 (285)
T ss_dssp             CBCEEEESTTSSHHHHHHHHHH
T ss_pred             CEEEeecCCCCChHHHHHHHHH
Confidence            3799999999999999876663