Citrus Sinensis ID: 035301

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------
Protein Sequence
MARRADEEYDYLFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQVTNFSSFTSLHFY
Secondary Structure (PSIPRED)
ccccccccccEEEEEEEEccccccHHHHHHHHcccccccccccEEEEEEEEEEEEEcccEEEEEEEEc
Secondary Structure Prediction (SSPRO)
cccccccHccEEEEEEEEEcccccHHHHHHHHHHccccccccccccEEEEEEEEEEEEEEEEEEEEcc
Coil and Loop (DISEMBL)
MARRADEEYDYLFKVVLIGdsgvgksnllsrftrnefcleskstigvefatrtlqvtnfssftslhfy
Flexible Loop (DISEMBL)
marradeeydYLFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTigvefatrtlqvtnfssftslhfy
Low Complexity Region (SEG)
MARRADEEYDYLFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQVTNFSSFTSLHFY
Disordered region (IsUnstruct)
********YDYLFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQVTNFSSFTS****
Disordered Region (DISOPRED)
******E***YLFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQVTNFSSFTSLHFY
Disordered Region (DISEMBL)
MARRADEEYDYLFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQVTNFSSFTSLHFY
Disordered Region (DISPRO)
*****DEEYDYLFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQVTNFSSFTSLHFY
Transmembrane Helix (TMHMM)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
Transmembrane Helix (HMMTOP)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhhooooooooooooooooooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
oooooooooooohhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (Phobius)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Signal Peptide (SignalP NN Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Coiled Coils (COILS)
MARRADEEYDYLFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQVTNFSSFTSLHFY
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	68	2.2.26 [Sep-21-2011]
O04486	217	Ras-related protein RABA2	yes	no	0.823	0.258	0.982	4e-26
Q40193	216	Ras-related protein Rab11	N/A	no	0.823	0.259	0.910	3e-24
Q39434	214	Ras-related protein Rab2B	N/A	no	0.823	0.261	0.910	3e-24
Q9LNW1	214	Ras-related protein RABA2	no	no	0.823	0.261	0.910	6e-24
Q40523	216	Ras-related protein Rab11	N/A	no	0.823	0.259	0.910	1e-23
Q96283	217	Ras-related protein RABA2	no	no	0.823	0.258	0.875	5e-23
Q9FIF9	217	Ras-related protein RABA2	no	no	0.823	0.258	0.857	5e-23
Q9FJH0	217	Ras-related protein RABA1	no	no	0.838	0.262	0.859	1e-21
Q9FK68	216	Ras-related protein RABA1	no	no	0.808	0.254	0.872	2e-21
Q39572	216	Ras-related protein YPTC6	N/A	no	0.823	0.259	0.839	2e-21

>sp|O04486|RAA2A_ARATH Ras-related protein RABA2a OS=Arabidopsis thaliana GN=RABA2A PE=2 SV=1

 Score =  116 bits (291), Expect = 4e-26,   Method: Compositional matrix adjust.
 Identities = 55/56 (98%), Positives = 55/56 (98%)

Query: 1  MARRADEEYDYLFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQV 56
          MARR DEEYDYLFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQV
Sbjct: 1  MARRPDEEYDYLFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQV 56

Intracellular vesicle trafficking and protein transport.
Arabidopsis thaliana (taxid: 3702)

>sp|Q40193|RB11C_LOTJA Ras-related protein Rab11C OS=Lotus japonicus GN=RAB11C PE=2 SV=1

 Score =  110 bits (274), Expect = 3e-24,   Method: Compositional matrix adjust.
 Identities = 51/56 (91%), Positives = 53/56 (94%)

Query: 1  MARRADEEYDYLFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQV 56
          MA R D EYDYLFK+VLIGDSGVGKSN+LSRFTRNEFCLESKSTIGVEFATRTLQV
Sbjct: 1  MAHRVDHEYDYLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQV 56

Lotus japonicus (taxid: 34305)

>sp|Q39434|RB2BV_BETVU Ras-related protein Rab2BV OS=Beta vulgaris GN=RAB2BV PE=2 SV=1

 Score =  110 bits (274), Expect = 3e-24,   Method: Compositional matrix adjust.
 Identities = 51/56 (91%), Positives = 53/56 (94%)

Query: 1  MARRADEEYDYLFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQV 56
          MA R D EYDYLFK+VLIGDSGVGKSN+LSRFTRNEFCLESKSTIGVEFATRTLQV
Sbjct: 1  MANRVDHEYDYLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQV 56

Beta vulgaris (taxid: 161934)

>sp|Q9LNW1|RAA2B_ARATH Ras-related protein RABA2b OS=Arabidopsis thaliana GN=RABA2B PE=2 SV=2

 Score =  109 bits (272), Expect = 6e-24,   Method: Compositional matrix adjust.
 Identities = 51/56 (91%), Positives = 53/56 (94%)

Query: 1  MARRADEEYDYLFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQV 56
          MA R D EYDYLFK+VLIGDSGVGKSN+LSRFTRNEFCLESKSTIGVEFATRTLQV
Sbjct: 1  MANRIDHEYDYLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQV 56

Intracellular vesicle trafficking and protein transport.

Arabidopsis thaliana (taxid: 3702)

>sp|Q40523|RB11A_TOBAC Ras-related protein Rab11A OS=Nicotiana tabacum GN=RAB11A PE=2 SV=1

 Score =  108 bits (269), Expect = 1e-23,   Method: Compositional matrix adjust.
 Identities = 51/56 (91%), Positives = 53/56 (94%)

Query: 1  MARRADEEYDYLFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQV 56
          MA R D EYDYLFK+VLIGDSGVGKSN+LSRFTRNEFCLESKSTIGVEFATRTLQV
Sbjct: 1  MANRVDHEYDYLFKMVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQV 56

Nicotiana tabacum (taxid: 4097)

>sp|Q96283|RAA2C_ARATH Ras-related protein RABA2c OS=Arabidopsis thaliana GN=RABA2C PE=2 SV=4

 Score =  106 bits (264), Expect = 5e-23,   Method: Compositional matrix adjust.
 Identities = 49/56 (87%), Positives = 52/56 (92%)

Query: 1  MARRADEEYDYLFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQV 56
          M  R D+EYDYLFK+VLIGDSGVGKSN+LSRFTRNEFCLESKSTIGVEFATRT QV
Sbjct: 1  MTHRVDQEYDYLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTTQV 56

Intracellular vesicle trafficking and protein transport.

Arabidopsis thaliana (taxid: 3702)

>sp|Q9FIF9|RAA2D_ARATH Ras-related protein RABA2d OS=Arabidopsis thaliana GN=RABA2D PE=2 SV=1

 Score =  106 bits (264), Expect = 5e-23,   Method: Compositional matrix adjust.
 Identities = 48/56 (85%), Positives = 54/56 (96%)

Query: 1  MARRADEEYDYLFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQV 56
          MA R +++YDYLFK+VLIGDSGVGK+N+LSRFTRNEFCLESKSTIGVEFATRTLQV
Sbjct: 1  MAHRVEQDYDYLFKIVLIGDSGVGKTNILSRFTRNEFCLESKSTIGVEFATRTLQV 56

Intracellular vesicle trafficking and protein transport.

Arabidopsis thaliana (taxid: 3702)

>sp|Q9FJH0|RAA1F_ARATH Ras-related protein RABA1f OS=Arabidopsis thaliana GN=RABA1F PE=2 SV=1

 Score =  102 bits (253), Expect = 1e-21,   Method: Compositional matrix adjust.
 Identities = 49/57 (85%), Positives = 53/57 (92%)

Query: 2  ARRADEEYDYLFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQVTN 58
          A RAD+EYDYLFKVVLIGDSGVGKSNLLSRFTRNEF LESKSTIGVEFATR++ V +
Sbjct: 3  AYRADDEYDYLFKVVLIGDSGVGKSNLLSRFTRNEFSLESKSTIGVEFATRSIHVDD 59

Intracellular vesicle trafficking and protein transport.

Arabidopsis thaliana (taxid: 3702)

>sp|Q9FK68|RAA1C_ARATH Ras-related protein RABA1c OS=Arabidopsis thaliana GN=RABA1C PE=1 SV=1

 Score =  101 bits (251), Expect = 2e-21,   Method: Compositional matrix adjust.
 Identities = 48/55 (87%), Positives = 52/55 (94%)

Query: 4  RADEEYDYLFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQVTN 58
          RAD+EYDYLFKVVLIGDSGVGKSNLLSRFT+NEF LESKSTIGVEFATR+L V +
Sbjct: 5  RADDEYDYLFKVVLIGDSGVGKSNLLSRFTKNEFSLESKSTIGVEFATRSLNVDD 59

Intracellular vesicle trafficking and protein transport.

Arabidopsis thaliana (taxid: 3702)

>sp|Q39572|YPTC6_CHLRE Ras-related protein YPTC6 OS=Chlamydomonas reinhardtii GN=YPTC6 PE=3 SV=1

 Score =  101 bits (251), Expect = 2e-21,   Method: Compositional matrix adjust.
 Identities = 47/56 (83%), Positives = 53/56 (94%)

Query: 1  MARRADEEYDYLFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQV 56
          M+ + D++YDYLFKVVLIGDSGVGKSNLLSRFTRNEF LESKSTIGVEFATR++QV
Sbjct: 1  MSHKPDDDYDYLFKVVLIGDSGVGKSNLLSRFTRNEFSLESKSTIGVEFATRSIQV 56

Chlamydomonas reinhardtii (taxid: 3055)

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	68
224129448	215	predicted protein [Populus trichocarpa]	0.823	0.260	1.0	6e-25
1405561	215	FSGTP1 [Fagus sylvatica]	0.823	0.260	1.0	9e-25
297849266	217	hypothetical protein ARALYDRAFT_888208 [	0.823	0.258	0.982	2e-24
15217568	217	Ras-related protein RABA2a [Arabidopsis	0.823	0.258	0.982	2e-24
351728017	216	uncharacterized protein LOC100499980 [Gl	0.823	0.259	0.982	2e-24
255570960	215	protein with unknown function [Ricinus c	0.823	0.260	0.982	2e-24
358249314	217	uncharacterized protein LOC100797258 [Gl	0.823	0.258	0.982	3e-24
225465200	215	PREDICTED: ras-related protein RABA2a [V	0.823	0.260	0.982	3e-24
224120066	218	predicted protein [Populus trichocarpa]	0.823	0.256	0.964	4e-24
226491888	217	ras-related protein Rab11C [Zea mays] gi	0.823	0.258	0.964	7e-24

>gi|224129448|ref|XP_002328719.1| predicted protein [Populus trichocarpa] gi|118484335|gb|ABK94045.1| unknown [Populus trichocarpa] gi|222839017|gb|EEE77368.1| predicted protein [Populus trichocarpa]

 Score =  117 bits (294), Expect = 6e-25,   Method: Compositional matrix adjust.
 Identities = 56/56 (100%), Positives = 56/56 (100%)

Query: 1  MARRADEEYDYLFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQV 56
          MARRADEEYDYLFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQV
Sbjct: 1  MARRADEEYDYLFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQV 56

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|1405561|emb|CAA67153.1| FSGTP1 [Fagus sylvatica]

 Score =  117 bits (293), Expect = 9e-25,   Method: Compositional matrix adjust.
 Identities = 56/56 (100%), Positives = 56/56 (100%)

Query: 1  MARRADEEYDYLFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQV 56
          MARRADEEYDYLFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQV
Sbjct: 1  MARRADEEYDYLFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQV 56

Source: Fagus sylvatica

Species: Fagus sylvatica

Genus: Fagus

Family: Fagaceae

Order: Fagales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|297849266|ref|XP_002892514.1| hypothetical protein ARALYDRAFT_888208 [Arabidopsis lyrata subsp. lyrata] gi|297338356|gb|EFH68773.1| hypothetical protein ARALYDRAFT_888208 [Arabidopsis lyrata subsp. lyrata]

 Score =  116 bits (291), Expect = 2e-24,   Method: Compositional matrix adjust.
 Identities = 55/56 (98%), Positives = 55/56 (98%)

Query: 1  MARRADEEYDYLFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQV 56
          MARR DEEYDYLFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQV
Sbjct: 1  MARRPDEEYDYLFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQV 56

Source: Arabidopsis lyrata subsp. lyrata

Species: Arabidopsis lyrata

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|15217568|ref|NP_172434.1| Ras-related protein RABA2a [Arabidopsis thaliana] gi|3024516|sp|O04486.1|RAA2A_ARATH RecName: Full=Ras-related protein RABA2a; Short=AtRABA2a; AltName: Full=Ras-related protein Rab11C; Short=AtRab11C; Flags: Precursor gi|2160157|gb|AAB60720.1| Strong similarity to A. thaliana ara-2 (gb|ATHARA2). ESTs gb|ATTS2483,gb|ATTS2484,gb|AA042159 come from this gene [Arabidopsis thaliana] gi|2231303|gb|AAB61994.1| ras-related small GTPase [Arabidopsis thaliana] gi|15010638|gb|AAK73978.1| At1g09630/F21M12_2 [Arabidopsis thaliana] gi|21553810|gb|AAM62903.1| putative RAS-related protein RAB11C [Arabidopsis thaliana] gi|22137284|gb|AAM91487.1| At1g09630/F21M12_2 [Arabidopsis thaliana] gi|332190350|gb|AEE28471.1| Ras-related protein RABA2a [Arabidopsis thaliana]

 Score =  116 bits (291), Expect = 2e-24,   Method: Compositional matrix adjust.
 Identities = 55/56 (98%), Positives = 55/56 (98%)

Query: 1  MARRADEEYDYLFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQV 56
          MARR DEEYDYLFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQV
Sbjct: 1  MARRPDEEYDYLFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQV 56

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|351728017|ref|NP_001235133.1| uncharacterized protein LOC100499980 [Glycine max] gi|255628259|gb|ACU14474.1| unknown [Glycine max]

 Score =  116 bits (290), Expect = 2e-24,   Method: Compositional matrix adjust.
 Identities = 55/56 (98%), Positives = 56/56 (100%)

Query: 1  MARRADEEYDYLFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQV 56
          MARRA+EEYDYLFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQV
Sbjct: 1  MARRAEEEYDYLFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQV 56

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255570960|ref|XP_002526431.1| protein with unknown function [Ricinus communis] gi|223534211|gb|EEF35926.1| protein with unknown function [Ricinus communis]

 Score =  115 bits (289), Expect = 2e-24,   Method: Compositional matrix adjust.
 Identities = 55/56 (98%), Positives = 55/56 (98%)

Query: 1  MARRADEEYDYLFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQV 56
          MARR DEEYDYLFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQV
Sbjct: 1  MARRPDEEYDYLFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQV 56

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|358249314|ref|NP_001240030.1| uncharacterized protein LOC100797258 [Glycine max] gi|255645100|gb|ACU23049.1| unknown [Glycine max]

 Score =  115 bits (289), Expect = 3e-24,   Method: Compositional matrix adjust.
 Identities = 55/56 (98%), Positives = 56/56 (100%)

Query: 1  MARRADEEYDYLFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQV 56
          MARRA+EEYDYLFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQV
Sbjct: 1  MARRAEEEYDYLFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQV 56

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|225465200|ref|XP_002264444.1| PREDICTED: ras-related protein RABA2a [Vitis vinifera] gi|297739506|emb|CBI29688.3| unnamed protein product [Vitis vinifera]

 Score =  115 bits (288), Expect = 3e-24,   Method: Compositional matrix adjust.
 Identities = 55/56 (98%), Positives = 55/56 (98%)

Query: 1  MARRADEEYDYLFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQV 56
          MARR DEEYDYLFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQV
Sbjct: 1  MARRPDEEYDYLFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQV 56

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224120066|ref|XP_002331128.1| predicted protein [Populus trichocarpa] gi|222872856|gb|EEF09987.1| predicted protein [Populus trichocarpa]

 Score =  115 bits (287), Expect = 4e-24,   Method: Compositional matrix adjust.
 Identities = 54/56 (96%), Positives = 55/56 (98%)

Query: 1  MARRADEEYDYLFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQV 56
          MARR DEEYDYLFKVVLIGDSGVGKSN+LSRFTRNEFCLESKSTIGVEFATRTLQV
Sbjct: 1  MARRPDEEYDYLFKVVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQV 56

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|226491888|ref|NP_001147252.1| ras-related protein Rab11C [Zea mays] gi|195609118|gb|ACG26389.1| ras-related protein Rab11C [Zea mays]

 Score =  114 bits (285), Expect = 7e-24,   Method: Compositional matrix adjust.
 Identities = 54/56 (96%), Positives = 55/56 (98%)

Query: 1  MARRADEEYDYLFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQV 56
          MARR +EEYDYLFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQV
Sbjct: 1  MARRPEEEYDYLFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQV 56

Source: Zea mays

Species: Zea mays

Genus: Zea

Family: Poaceae

Order: Poales

Class: Liliopsida

Phylum: Streptophyta

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	68
TAIR|locus:2024276	217	RAB11c "RAB GTPase 11C" [Arabi	0.823	0.258	0.982	5.3e-24
TAIR|locus:2024992	214	RABA2b "RAB GTPase homolog A2B	0.823	0.261	0.910	1.3e-22
TAIR|locus:2102777	217	RABA2c "RAB GTPase homolog A2C	0.823	0.258	0.875	5.5e-22
TAIR|locus:2168469	217	RABA2D "RAB GTPase homolog A2D	0.823	0.258	0.857	7e-22
TAIR|locus:2159285	217	RABA1f "RAB GTPase homolog A1F	0.808	0.253	0.890	1e-20
TAIR|locus:2124092	214	RABA1d "RAB GTPase homolog A1D	0.779	0.247	0.905	2.1e-20
TAIR|locus:2171943	216	RABA1c "RAB GTPase homolog A1C	0.779	0.245	0.905	2.1e-20
UNIPROTKB|Q5ZJN2	216	RAB11A "Ras-related protein Ra	0.808	0.254	0.875	5.7e-20
ZFIN|ZDB-GENE-040718-293	218	rab11bb "RAB11B, member RAS on	0.808	0.252	0.875	5.7e-20
UNIPROTKB|Q5F3R8	218	RAB11B "Uncharacterized protei	0.75	0.233	0.921	7.2e-20

TAIR|locus:2024276 RAB11c "RAB GTPase 11C" [Arabidopsis thaliana (taxid:3702)]

 Score = 275 (101.9 bits), Expect = 5.3e-24, P = 5.3e-24
 Identities = 55/56 (98%), Positives = 55/56 (98%)

Query:     1 MARRADEEYDYLFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQV 56
             MARR DEEYDYLFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQV
Sbjct:     1 MARRPDEEYDYLFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQV 56

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

GO:0005886 "plasma membrane" evidence=ISM;IDA

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

GO:0015031 "protein transport" evidence=IEA

GO:0000910 "cytokinesis" evidence=IMP

GO:0005768 "endosome" evidence=IDA

GO:0009504 "cell plate" evidence=IDA

GO:0005829 "cytosol" evidence=IDA

GO:0016192 "vesicle-mediated transport" evidence=RCA

GO:0019932 "second-messenger-mediated signaling" evidence=RCA

TAIR|locus:2024992 RABA2b "RAB GTPase homolog A2B" [Arabidopsis thaliana (taxid:3702)]

 Score = 262 (97.3 bits), Expect = 1.3e-22, P = 1.3e-22
 Identities = 51/56 (91%), Positives = 53/56 (94%)

Query:     1 MARRADEEYDYLFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQV 56
             MA R D EYDYLFK+VLIGDSGVGKSN+LSRFTRNEFCLESKSTIGVEFATRTLQV
Sbjct:     1 MANRIDHEYDYLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQV 56

GO:0003924 "GTPase activity" evidence=IEA

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

GO:0005622 "intracellular" evidence=IEA

GO:0005794 "Golgi apparatus" evidence=ISM

GO:0006184 "GTP catabolic process" evidence=IEA

GO:0006886 "intracellular protein transport" evidence=IEA

GO:0006913 "nucleocytoplasmic transport" evidence=IEA

GO:0007165 "signal transduction" evidence=IEA

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

GO:0015031 "protein transport" evidence=IEA

GO:0016020 "membrane" evidence=IEA

GO:0005886 "plasma membrane" evidence=IDA

GO:0005768 "endosome" evidence=IDA

GO:0009504 "cell plate" evidence=IDA

GO:0006457 "protein folding" evidence=RCA

GO:0009408 "response to heat" evidence=RCA

GO:0009644 "response to high light intensity" evidence=RCA

GO:0016192 "vesicle-mediated transport" evidence=RCA

GO:0042542 "response to hydrogen peroxide" evidence=RCA

TAIR|locus:2102777 RABA2c "RAB GTPase homolog A2C" [Arabidopsis thaliana (taxid:3702)]

 Score = 256 (95.2 bits), Expect = 5.5e-22, P = 5.5e-22
 Identities = 49/56 (87%), Positives = 52/56 (92%)

Query:     1 MARRADEEYDYLFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQV 56
             M  R D+EYDYLFK+VLIGDSGVGKSN+LSRFTRNEFCLESKSTIGVEFATRT QV
Sbjct:     1 MTHRVDQEYDYLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTTQV 56

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

GO:0005794 "Golgi apparatus" evidence=ISM

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

GO:0015031 "protein transport" evidence=IEA

GO:0005886 "plasma membrane" evidence=IDA

GO:0005768 "endosome" evidence=IDA

GO:0009504 "cell plate" evidence=IDA

GO:0005829 "cytosol" evidence=IDA

GO:0009506 "plasmodesma" evidence=IDA

GO:0016192 "vesicle-mediated transport" evidence=RCA

TAIR|locus:2168469 RABA2D "RAB GTPase homolog A2D" [Arabidopsis thaliana (taxid:3702)]

 Score = 255 (94.8 bits), Expect = 7.0e-22, P = 7.0e-22
 Identities = 48/56 (85%), Positives = 54/56 (96%)

Query:     1 MARRADEEYDYLFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQV 56
             MA R +++YDYLFK+VLIGDSGVGK+N+LSRFTRNEFCLESKSTIGVEFATRTLQV
Sbjct:     1 MAHRVEQDYDYLFKIVLIGDSGVGKTNILSRFTRNEFCLESKSTIGVEFATRTLQV 56

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

GO:0005794 "Golgi apparatus" evidence=ISM

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

GO:0015031 "protein transport" evidence=IEA

GO:0005886 "plasma membrane" evidence=IDA

GO:0005768 "endosome" evidence=IDA

GO:0009504 "cell plate" evidence=IDA

GO:0016192 "vesicle-mediated transport" evidence=RCA

TAIR|locus:2159285 RABA1f "RAB GTPase homolog A1F" [Arabidopsis thaliana (taxid:3702)]

 Score = 244 (91.0 bits), Expect = 1.0e-20, P = 1.0e-20
 Identities = 49/55 (89%), Positives = 52/55 (94%)

Query:     2 ARRADEEYDYLFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQV 56
             A RAD+EYDYLFKVVLIGDSGVGKSNLLSRFTRNEF LESKSTIGVEFATR++ V
Sbjct:     3 AYRADDEYDYLFKVVLIGDSGVGKSNLLSRFTRNEFSLESKSTIGVEFATRSIHV 57

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

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

GO:0015031 "protein transport" evidence=IEA

GO:0005829 "cytosol" evidence=RCA

GO:0016192 "vesicle-mediated transport" evidence=RCA

TAIR|locus:2124092 RABA1d "RAB GTPase homolog A1D" [Arabidopsis thaliana (taxid:3702)]

 Score = 241 (89.9 bits), Expect = 2.1e-20, P = 2.1e-20
 Identities = 48/53 (90%), Positives = 51/53 (96%)

Query:     4 RADEEYDYLFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQV 56
             RAD++YDYLFKVVLIGDSGVGKSNLLSRFTRNEF LESKSTIGVEFATR+L V
Sbjct:     5 RADDDYDYLFKVVLIGDSGVGKSNLLSRFTRNEFSLESKSTIGVEFATRSLNV 57

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

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

GO:0015031 "protein transport" evidence=IEA

GO:0005886 "plasma membrane" evidence=IDA

GO:0031901 "early endosome membrane" evidence=IDA

GO:0032588 "trans-Golgi network membrane" evidence=IDA

GO:0005829 "cytosol" evidence=RCA

GO:0009506 "plasmodesma" evidence=IDA

GO:0016192 "vesicle-mediated transport" evidence=RCA

TAIR|locus:2171943 RABA1c "RAB GTPase homolog A1C" [Arabidopsis thaliana (taxid:3702)]

 Score = 241 (89.9 bits), Expect = 2.1e-20, P = 2.1e-20
 Identities = 48/53 (90%), Positives = 51/53 (96%)

Query:     4 RADEEYDYLFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQV 56
             RAD+EYDYLFKVVLIGDSGVGKSNLLSRFT+NEF LESKSTIGVEFATR+L V
Sbjct:     5 RADDEYDYLFKVVLIGDSGVGKSNLLSRFTKNEFSLESKSTIGVEFATRSLNV 57

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

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

GO:0015031 "protein transport" evidence=IEA

GO:0005634 "nucleus" evidence=IDA

GO:0005773 "vacuole" evidence=IDA

GO:0005886 "plasma membrane" evidence=IDA

GO:0005829 "cytosol" evidence=IDA

GO:0016192 "vesicle-mediated transport" evidence=RCA

UNIPROTKB|Q5ZJN2 RAB11A "Ras-related protein Rab-11A" [Gallus gallus (taxid:9031)]

 Score = 237 (88.5 bits), Expect = 5.7e-20, P = 5.7e-20
 Identities = 49/56 (87%), Positives = 52/56 (92%)

Query:     1 MARRADEEYDYLFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQV 56
             M  R D+EYDYLFKVVLIGDSGVGKSNLLSRFTRNEF LESKSTIGVEFATR++QV
Sbjct:     1 MGNR-DDEYDYLFKVVLIGDSGVGKSNLLSRFTRNEFNLESKSTIGVEFATRSIQV 55

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

GO:0005525 "GTP binding" evidence=IEA

GO:0007049 "cell cycle" evidence=IEA

GO:0015031 "protein transport" evidence=IEA

GO:0005886 "plasma membrane" evidence=IEA

GO:0055038 "recycling endosome membrane" evidence=IEA

GO:0000910 "cytokinesis" evidence=IEA

GO:0003924 "GTPase activity" evidence=IEA

GO:0005739 "mitochondrion" evidence=IEA

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

GO:0016192 "vesicle-mediated transport" evidence=IEA

GO:0031175 "neuron projection development" evidence=IEA

GO:0043234 "protein complex" evidence=IEA

GO:0072659 "protein localization to plasma membrane" evidence=IEA

GO:0032154 "cleavage furrow" evidence=ISS

ZFIN|ZDB-GENE-040718-293 rab11bb "RAB11B, member RAS oncogene family, b" [Danio rerio (taxid:7955)]

 Score = 237 (88.5 bits), Expect = 5.7e-20, P = 5.7e-20
 Identities = 49/56 (87%), Positives = 53/56 (94%)

Query:     1 MARRADEEYDYLFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQV 56
             MA R D+EYD+LFKVVLIGDSGVGKSNLLSRFTRNEF LESKSTIGVEFATR++QV
Sbjct:     1 MANR-DDEYDFLFKVVLIGDSGVGKSNLLSRFTRNEFNLESKSTIGVEFATRSIQV 55

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|Q5F3R8 RAB11B "Uncharacterized protein" [Gallus gallus (taxid:9031)]

 Score = 236 (88.1 bits), Expect = 7.2e-20, P = 7.2e-20
 Identities = 47/51 (92%), Positives = 50/51 (98%)

Query:     6 DEEYDYLFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQV 56
             D+EYDYLFKVVLIGDSGVGKSNLLSRFTRNEF LESKSTIGVEFATR++QV
Sbjct:     5 DDEYDYLFKVVLIGDSGVGKSNLLSRFTRNEFNLESKSTIGVEFATRSIQV 55

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

GO:0015031 "protein transport" evidence=IEA

GO:0003924 "GTPase activity" evidence=IEA

GO:0005525 "GTP binding" evidence=IEA

GO:0005739 "mitochondrion" evidence=IEA

GO:0019003 "GDP binding" evidence=IEA

---

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

ID	Name	Annotated EC number	Identity	Query coverage	Hit coverage	RBH(Q2H)	RBH(H2Q)
Q40523	RB11A_TOBAC	No assigned EC number	0.9107	0.8235	0.2592	N/A	no
Q5R9M7	RB11A_PONAB	No assigned EC number	0.9215	0.75	0.2361	yes	no
Q40193	RB11C_LOTJA	No assigned EC number	0.9107	0.8235	0.2592	N/A	no
P51996	YPT32_YEAST	No assigned EC number	0.8235	0.75	0.2297	yes	no
Q2TA29	RB11A_BOVIN	No assigned EC number	0.9215	0.75	0.2361	yes	no
P36412	RB11A_DICDI	No assigned EC number	0.8148	0.7941	0.2523	yes	no
Q52NJ1	RB11A_PIG	No assigned EC number	0.9215	0.75	0.2361	yes	no
Q39434	RB2BV_BETVU	No assigned EC number	0.9107	0.8235	0.2616	N/A	no
P17610	YPT3_SCHPO	No assigned EC number	0.7924	0.7794	0.2476	yes	no
Q5ZJN2	RB11A_CHICK	No assigned EC number	0.9215	0.75	0.2361	yes	no
P22129	RB11B_DIPOM	No assigned EC number	0.9215	0.75	0.2339	N/A	no
O04486	RAA2A_ARATH	No assigned EC number	0.9821	0.8235	0.2580	yes	no
P62491	RB11A_HUMAN	No assigned EC number	0.9215	0.75	0.2361	yes	no
P62490	RB11A_CANFA	No assigned EC number	0.9215	0.75	0.2361	yes	no
P62493	RB11A_RABIT	No assigned EC number	0.9215	0.75	0.2361	yes	no
P62492	RB11A_MOUSE	No assigned EC number	0.9215	0.75	0.2361	yes	no
P62494	RB11A_RAT	No assigned EC number	0.9215	0.75	0.2361	yes	no

EC Number Prediction by Ezypred Server

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software

No EC number assignment, probably not an enzyme!

---

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING

Original result from the STRING server

Fail to connect to STRING server

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database part I

ID	Length	Definition	E-value
Query	68
PLN03110	216	PLN03110, PLN03110, Rab GTPase; Provisional	3e-35
cd01868	165	cd01868, Rab11_like, Rab GTPase family 11 (Rab11)-	4e-33
smart00175	164	smart00175, RAB, Rab subfamily of small GTPases	3e-23
cd00154	159	cd00154, Rab, Ras-related in brain (Rab) family of	2e-18
pfam00071	162	pfam00071, Ras, Ras family	1e-16
cd04110	199	cd04110, Rab35, Rab GTPase family 35 (Rab35)	5e-14
cd01867	167	cd01867, Rab8_Rab10_Rab13_like, Rab GTPase familie	7e-14
cd01860	163	cd01860, Rab5_related, Rab-related GTPase family i	1e-13
cd01869	166	cd01869, Rab1_Ypt1, Rab GTPase family 1 includes t	2e-13
cd04122	166	cd04122, Rab14, Rab GTPase family 14 (Rab14)	2e-13
cd01863	161	cd01863, Rab18, Rab GTPase family 18 (Rab18)	2e-13
cd04114	169	cd04114, Rab30, Rab GTPase family 30 (Rab30)	3e-13
cd01866	168	cd01866, Rab2, Rab GTPase family 2 (Rab2)	3e-12
cd04117	164	cd04117, Rab15, Rab GTPase family 15 (Rab15)	4e-12
cd01864	165	cd01864, Rab19, Rab GTPase family 19 (Rab19)	6e-12
PLN03108	210	PLN03108, PLN03108, Rab family protein; Provisiona	2e-11
cd04107	201	cd04107, Rab32_Rab38, Rab GTPase families 18 (Rab1	4e-11
cd04116	170	cd04116, Rab9, Rab GTPase family 9 (Rab9)	7e-11
cd01862	172	cd01862, Rab7, Rab GTPase family 7 (Rab7)	2e-10
cd01861	161	cd01861, Rab6, Rab GTPase family 6 (Rab6)	3e-10
cd04111	211	cd04111, Rab39, Rab GTPase family 39 (Rab39)	3e-10
cd04115	170	cd04115, Rab33B_Rab33A, Rab GTPase family 33 inclu	4e-10
COG1100	219	COG1100, COG1100, GTPase SAR1 and related small G	1e-09
cd04113	161	cd04113, Rab4, Rab GTPase family 4 (Rab4)	2e-09
cd04106	162	cd04106, Rab23_like, Rab GTPase family 23 (Rab23)-	3e-09
cd04127	180	cd04127, Rab27A, Rab GTPase family 27a (Rab27a)	7e-09
TIGR00231	162	TIGR00231, small_GTP, small GTP-binding protein do	7e-09
PLN03118	211	PLN03118, PLN03118, Rab family protein; Provisiona	5e-07
cd04123	162	cd04123, Rab21, Rab GTPase family 21 (Rab21)	1e-06
cd04120	202	cd04120, Rab12, Rab GTPase family 12 (Rab12)	1e-06
cd04109	213	cd04109, Rab28, Rab GTPase family 28 (Rab28)	3e-06
cd04112	191	cd04112, Rab26, Rab GTPase family 26 (Rab26)	4e-06
cd00877	166	cd00877, Ran, Ras-related nuclear proteins (Ran)/T	8e-06
cd04128	182	cd04128, Spg1, Septum-promoting GTPase (Spg1)	8e-06
cd00157	171	cd00157, Rho, Ras homology family (Rho) of small g	1e-05
PLN03071	219	PLN03071, PLN03071, GTP-binding nuclear protein Ra	1e-05
PTZ00132	215	PTZ00132, PTZ00132, GTP-binding nuclear protein Ra	2e-05
cd04132	197	cd04132, Rho4_like, Ras homology family 4 (Rho4) o	2e-05
cd04119	168	cd04119, RJL, Rab GTPase family J-like (RabJ-like)	2e-05
cd00876	160	cd00876, Ras, Rat sarcoma (Ras) family of small gu	4e-05
cd01865	165	cd01865, Rab3, Rab GTPase family 3 contains Rab3A,	4e-05
cd04108	170	cd04108, Rab36_Rab34, Rab GTPase families 34 (Rab3	5e-05
pfam08477	116	pfam08477, Miro, Miro-like protein	5e-05
smart00174	174	smart00174, RHO, Rho (Ras homology) subfamily of R	2e-04
cd04148	219	cd04148, RGK, Rem, Rem2, Rad, Gem/Kir (RGK) subfam	3e-04
smart00173	164	smart00173, RAS, Ras subfamily of RAS small GTPase	4e-04
cd04126	220	cd04126, Rab20, Rab GTPase family 20 (Rab20)	5e-04
smart00010	166	smart00010, small_GTPase, Small GTPase of the Ras	6e-04
cd04118	193	cd04118, Rab24, Rab GTPase family 24 (Rab24)	8e-04
cd04121	189	cd04121, Rab40, Rab GTPase family 40 (Rab40) conta	0.001
cd04124	161	cd04124, RabL2, Rab GTPase-like family 2 (Rab-like	0.002
cd04138	162	cd04138, H_N_K_Ras_like, Ras GTPase family contain	0.002
cd01893	168	cd01893, Miro1, Mitochondrial Rho family 1 (Miro1)	0.003

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

 Score =  117 bits (295), Expect = 3e-35
 Identities = 51/56 (91%), Positives = 53/56 (94%)

Query: 1  MARRADEEYDYLFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQV 56
          MA R D EYDYLFK+VLIGDSGVGKSN+LSRFTRNEFCLESKSTIGVEFATRTLQV
Sbjct: 1  MAHRVDHEYDYLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQV 56

Length = 216

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

 Score =  110 bits (278), Expect = 4e-33
 Identities = 42/49 (85%), Positives = 46/49 (93%)

Query: 10 DYLFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQVTN 58
          DYLFK+VLIGDSGVGKSNLLSRFTRNEF L+SKSTIGVEFATRT+Q+  
Sbjct: 1  DYLFKIVLIGDSGVGKSNLLSRFTRNEFNLDSKSTIGVEFATRTIQIDG 49

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|197555 smart00175, RAB, Rab subfamily of small GTPases

 Score = 85.6 bits (213), Expect = 3e-23
 Identities = 29/44 (65%), Positives = 38/44 (86%)

Query: 13 FKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQV 56
          FK++LIGDSGVGKS+LLSRFT  +F  + KSTIGV+F T+T++V
Sbjct: 1  FKIILIGDSGVGKSSLLSRFTDGKFSEQYKSTIGVDFKTKTIEV 44

Rab GTPases are implicated in vesicle trafficking. Length = 164

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

 Score = 73.3 bits (181), Expect = 2e-18
 Identities = 27/44 (61%), Positives = 36/44 (81%)

Query: 13 FKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQV 56
          FK+VLIGDSGVGK++LL RF  N+F    KSTIGV+F ++T++V
Sbjct: 1  FKIVLIGDSGVGKTSLLLRFVDNKFSENYKSTIGVDFKSKTIEV 44

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|215692 pfam00071, Ras, Ras family

 Score = 68.7 bits (169), Expect = 1e-16
 Identities = 26/43 (60%), Positives = 35/43 (81%)

Query: 14 KVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQV 56
          K+VL+GD GVGKS+LL RFT+N+F  E   TIGV+F T+T++V
Sbjct: 1  KLVLVGDGGVGKSSLLIRFTQNKFPEEYIPTIGVDFYTKTIEV 43

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

 Score = 62.6 bits (152), Expect = 5e-14
 Identities = 27/49 (55%), Positives = 38/49 (77%)

Query: 8  EYDYLFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQV 56
          +YD+LFK+++IGDSGVGKS+LL RF  N F     +TIGV+F  RT+++
Sbjct: 2  DYDHLFKLLIIGDSGVGKSSLLLRFADNTFSGSYITTIGVDFKIRTVEI 50

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

 Score = 61.5 bits (150), Expect = 7e-14
 Identities = 27/47 (57%), Positives = 36/47 (76%)

Query: 10 DYLFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQV 56
          DYLFK++LIGDSGVGKS LL RF+ + F     STIG++F  RT+++
Sbjct: 1  DYLFKLLLIGDSGVGKSCLLLRFSEDSFNPSFISTIGIDFKIRTIEL 47

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

 Score = 61.0 bits (149), Expect = 1e-13
 Identities = 23/48 (47%), Positives = 35/48 (72%)

Query: 13 FKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQVTNFS 60
          FK+VL+GDS VGKS+++ RF +NEF    +STIG  F T+T+ + + +
Sbjct: 2  FKLVLLGDSSVGKSSIVLRFVKNEFSENQESTIGAAFLTQTVNLDDTT 49

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

 Score = 60.8 bits (148), Expect = 2e-13
 Identities = 26/46 (56%), Positives = 34/46 (73%)

Query: 11 YLFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQV 56
          YLFK++LIGDSGVGKS LL RF  + +     STIGV+F  RT+++
Sbjct: 1  YLFKLLLIGDSGVGKSCLLLRFADDTYTESYISTIGVDFKIRTIEL 46

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

 Score = 60.6 bits (147), Expect = 2e-13
 Identities = 25/48 (52%), Positives = 33/48 (68%)

Query: 11 YLFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQVTN 58
          Y+FK ++IGD GVGKS LL +FT  +F  +   TIGVEF TR ++V  
Sbjct: 1  YIFKYIIIGDMGVGKSCLLHQFTEKKFMADCPHTIGVEFGTRIIEVNG 48

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

 Score = 60.0 bits (146), Expect = 2e-13
 Identities = 25/44 (56%), Positives = 33/44 (75%)

Query: 13 FKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQV 56
           K++LIGDSGVGKS+LL RFT + F  +  STIGV+F  +T+ V
Sbjct: 1  LKILLIGDSGVGKSSLLLRFTDDTFDEDLSSTIGVDFKVKTVTV 44

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|133314 cd04114, Rab30, Rab GTPase family 30 (Rab30)

 Score = 59.9 bits (145), Expect = 3e-13
 Identities = 25/52 (48%), Positives = 39/52 (75%)

Query: 7  EEYDYLFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQVTN 58
          E+YD+LFK+VLIG++GVGK+ L+ RFT+  F     +TIGV+F  +T+++  
Sbjct: 2  EDYDFLFKIVLIGNAGVGKTCLVRRFTQGLFPPGQGATIGVDFMIKTVEIKG 53

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

 Score = 57.4 bits (139), Expect = 3e-12
 Identities = 25/50 (50%), Positives = 31/50 (62%)

Query: 9  YDYLFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQVTN 58
          Y YLFK ++IGD+GVGKS LL +FT   F      TIGVEF  R + +  
Sbjct: 1  YAYLFKYIIIGDTGVGKSCLLLQFTDKRFQPVHDLTIGVEFGARMITIDG 50

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 = 56.9 bits (137), Expect = 4e-12
 Identities = 26/44 (59%), Positives = 34/44 (77%)

Query: 13 FKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQV 56
          F+++LIGDSGVGK+ LL RFT NEF     STIGV+F  +T++V
Sbjct: 1  FRLLLIGDSGVGKTCLLCRFTDNEFHSSHISTIGVDFKMKTIEV 44

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

 Score = 56.7 bits (137), Expect = 6e-12
 Identities = 22/47 (46%), Positives = 33/47 (70%)

Query: 10 DYLFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQV 56
          D+LFK++LIGDS VGK+ ++ RF    F     +TIGV+F  +TL++
Sbjct: 1  DFLFKIILIGDSNVGKTCVVQRFKSGTFSERQGNTIGVDFTMKTLEI 47

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|178655 PLN03108, PLN03108, Rab family protein; Provisional

 Score = 55.7 bits (134), Expect = 2e-11
 Identities = 26/50 (52%), Positives = 32/50 (64%)

Query: 9  YDYLFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQVTN 58
          Y YLFK ++IGD+GVGKS LL +FT   F      TIGVEF  R + + N
Sbjct: 3  YAYLFKYIIIGDTGVGKSCLLLQFTDKRFQPVHDLTIGVEFGARMITIDN 52

Length = 210

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

 Score = 54.6 bits (132), Expect = 4e-11
 Identities = 19/44 (43%), Positives = 31/44 (70%)

Query: 13 FKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQV 56
          FKV++IGD GVGK++++ R+    F    K+TIGV+FA + ++ 
Sbjct: 1  FKVLVIGDLGVGKTSIIKRYVHGVFSQHYKATIGVDFALKVIEW 44

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|206697 cd04116, Rab9, Rab GTPase family 9 (Rab9)

 Score = 53.7 bits (129), Expect = 7e-11
 Identities = 23/45 (51%), Positives = 33/45 (73%)

Query: 12 LFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQV 56
          L KV+L+GD GVGKS+L++R+  N+F  +   TIGVEF  + L+V
Sbjct: 5  LLKVILLGDGGVGKSSLMNRYVTNKFDTQLFHTIGVEFLNKDLEV 49

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

 Score = 52.7 bits (127), Expect = 2e-10
 Identities = 18/44 (40%), Positives = 33/44 (75%)

Query: 13 FKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQV 56
           KV+++GDSGVGK++L++++   +F  + K+TIG +F T+ + V
Sbjct: 1  LKVIILGDSGVGKTSLMNQYVNKKFSNQYKATIGADFLTKEVTV 44

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

 Score = 52.2 bits (126), Expect = 3e-10
 Identities = 16/46 (34%), Positives = 33/46 (71%)

Query: 13 FKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQVTN 58
           K+V +GD  VGK+++++RF  + F  + ++TIG++F ++T+ V +
Sbjct: 1  HKLVFLGDQSVGKTSIITRFMYDTFDNQYQATIGIDFLSKTMYVDD 46

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

 Score = 52.5 bits (126), Expect = 3e-10
 Identities = 22/46 (47%), Positives = 33/46 (71%)

Query: 11 YLFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQV 56
          Y F++++IGDS VGKS+LL RFT   F   S  T+GV+F +R +++
Sbjct: 1  YQFRLIVIGDSTVGKSSLLKRFTEGRFAEVSDPTVGVDFFSRLIEI 46

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

 Score = 51.7 bits (124), Expect = 4e-10
 Identities = 20/46 (43%), Positives = 31/46 (67%)

Query: 13 FKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQVTN 58
          FK+++IGDS VGK+ L  RF    F   +++TIGV+F  RT+++  
Sbjct: 3  FKIIVIGDSNVGKTCLTYRFCAGRFPERTEATIGVDFRERTVEIDG 48

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

 Score = 51.1 bits (122), Expect = 1e-09
 Identities = 18/45 (40%), Positives = 26/45 (57%)

Query: 9  YDYLFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRT 53
          +   FK+V++GD GVGK+ LL+R   +EF      TIG     +T
Sbjct: 2  FMKEFKIVVLGDGGVGKTTLLNRLVGDEFPEGYPPTIGNLDPAKT 46

Length = 219

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

 Score = 50.1 bits (120), Expect = 2e-09
 Identities = 22/44 (50%), Positives = 30/44 (68%)

Query: 13 FKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQV 56
          FK ++IG +G GKS LL +F  N+F  +S  TIGVEF +R + V
Sbjct: 1  FKFLIIGSAGTGKSCLLHQFIENKFKQDSNHTIGVEFGSRVVNV 44

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

 Score = 49.7 bits (119), Expect = 3e-09
 Identities = 16/43 (37%), Positives = 29/43 (67%)

Query: 14 KVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQV 56
          KV+++G+  VGKS+++ RF +  F  + K TIGV+F  + + +
Sbjct: 2  KVIVVGNGNVGKSSMIQRFVKGIFTKDYKKTIGVDFLEKQIFL 44

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

 Score = 48.7 bits (116), Expect = 7e-09
 Identities = 20/41 (48%), Positives = 31/41 (75%)

Query: 9  YDYLFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEF 49
          YDYL K++ +GDSGVGK+  L R+T N+F  +  +T+G++F
Sbjct: 1  YDYLIKLLALGDSGVGKTTFLYRYTDNKFNPKFITTVGIDF 41

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

 Score = 48.5 bits (116), Expect = 7e-09
 Identities = 15/45 (33%), Positives = 23/45 (51%), Gaps = 1/45 (2%)

Query: 13 FKVVLIGDSGVGKSNLLSRFTRNE-FCLESKSTIGVEFATRTLQV 56
           K+V++GD  VGKS LL+R   N+    E K      + T  ++ 
Sbjct: 2  IKIVIVGDPNVGKSTLLNRLLGNKISITEYKPGTTRNYVTTVIEE 46

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|215587 PLN03118, PLN03118, Rab family protein; Provisional

 Score = 43.9 bits (103), Expect = 5e-07
 Identities = 24/48 (50%), Positives = 31/48 (64%), Gaps = 1/48 (2%)

Query: 9  YDYLFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQV 56
          YD  FK++LIGDSGVGKS+LL  F  +    +   TIGV+F  + L V
Sbjct: 11 YDLSFKILLIGDSGVGKSSLLVSFISSS-VEDLAPTIGVDFKIKQLTV 57

Length = 211

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

 Score = 42.6 bits (101), Expect = 1e-06
 Identities = 17/44 (38%), Positives = 29/44 (65%)

Query: 13 FKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQV 56
          FKVVL+G+  VGK++L+ R+  N+F  + +ST    F  +T+ +
Sbjct: 1  FKVVLLGEGRVGKTSLVLRYVENKFNEKHESTTQASFFQKTVNI 44

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|206699 cd04120, Rab12, Rab GTPase family 12 (Rab12)

 Score = 42.7 bits (100), Expect = 1e-06
 Identities = 20/43 (46%), Positives = 33/43 (76%)

Query: 14 KVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQV 56
          +V++IG  GVGK++L+ RFT + FC   KST+GV+F  +T+++
Sbjct: 2  QVIIIGSRGVGKTSLMERFTDDTFCEACKSTVGVDFKIKTVEL 44

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

 Score = 42.1 bits (99), Expect = 3e-06
 Identities = 16/44 (36%), Positives = 28/44 (63%)

Query: 13 FKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQV 56
           K+V++GD   GK++L+ RF +  F    K TIG++F +R + +
Sbjct: 1  IKIVVLGDGASGKTSLIRRFAQEGFGKSYKQTIGLDFFSRRITL 44

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|206695 cd04112, Rab26, Rab GTPase family 26 (Rab26)

 Score = 41.4 bits (97), Expect = 4e-06
 Identities = 21/47 (44%), Positives = 29/47 (61%), Gaps = 1/47 (2%)

Query: 13 FKVVLIGDSGVGKSNLLSRFTRNEFCLESKS-TIGVEFATRTLQVTN 58
          FKV+L+GDSGVGK+ LL RF    F   S   T+G++F  + + V  
Sbjct: 1  FKVMLVGDSGVGKTCLLVRFKDGAFLAGSFIATVGIQFTNKVVTVDG 47

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

 Score = 40.4 bits (95), Expect = 8e-06
 Identities = 16/36 (44%), Positives = 23/36 (63%)

Query: 13 FKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVE 48
          FK+VL+GD G GK+  + R    EF  +  +T+GVE
Sbjct: 1  FKLVLVGDGGTGKTTFVKRHLTGEFEKKYVATLGVE 36

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

 Score = 40.5 bits (95), Expect = 8e-06
 Identities = 15/45 (33%), Positives = 28/45 (62%)

Query: 14 KVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQVTN 58
          K+ L+GD+ +GK++L+ ++   EF  E   T+GV F  +T+ +  
Sbjct: 2  KIGLLGDAQIGKTSLMVKYVEGEFDEEYIQTLGVNFMEKTISIRG 46

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

 Score = 40.2 bits (95), Expect = 1e-05
 Identities = 12/24 (50%), Positives = 18/24 (75%)

Query: 14 KVVLIGDSGVGKSNLLSRFTRNEF 37
          K+V++GD  VGK+ LL  +T N+F
Sbjct: 2  KIVVVGDGAVGKTCLLISYTTNKF 25

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

 Score = 40.1 bits (94), Expect = 1e-05
 Identities = 16/36 (44%), Positives = 23/36 (63%)

Query: 13 FKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVE 48
          FK+V++GD G GK+  + R    EF  + + TIGVE
Sbjct: 14 FKLVIVGDGGTGKTTFVKRHLTGEFEKKYEPTIGVE 49

Length = 219

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

 Score = 39.7 bits (93), Expect = 2e-05
 Identities = 20/49 (40%), Positives = 26/49 (53%), Gaps = 5/49 (10%)

Query: 13 FKVVLIGDSGVGKSNLLSRFTRNEFCLESK--STIGVEFATRTLQVTNF 59
          FK++L+GD GVGK+  + R    EF  E K   T+GVE        TN 
Sbjct: 10 FKLILVGDGGVGKTTFVKRHLTGEF--EKKYIPTLGVEVHPLKFY-TNC 55

Length = 215

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

 Score = 39.6 bits (93), Expect = 2e-05
 Identities = 19/49 (38%), Positives = 26/49 (53%), Gaps = 1/49 (2%)

Query: 10 DYLFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQVTN 58
          D   K+V++GD G GK+ LL  + +  F  E   T+  E    TLQV N
Sbjct: 1  DLKVKIVVVGDGGCGKTCLLMVYAQGSFPEEYVPTV-FENYVTTLQVPN 48

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

 Score = 38.9 bits (91), Expect = 2e-05
 Identities = 16/47 (34%), Positives = 28/47 (59%)

Query: 14 KVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQVTNFS 60
          KV+ +G+SGVGKS ++ R+    F  +   TIG+++  + + V N  
Sbjct: 2  KVISMGNSGVGKSCIIKRYCEGRFVSKYLPTIGIDYGVKKVSVRNKE 48

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 = 38.3 bits (90), Expect = 4e-05
 Identities = 13/24 (54%), Positives = 16/24 (66%)

Query: 14 KVVLIGDSGVGKSNLLSRFTRNEF 37
          K+V++G  GVGKS L  RF   EF
Sbjct: 1  KLVVLGAGGVGKSALTIRFVSGEF 24

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

 Score = 38.4 bits (89), Expect = 4e-05
 Identities = 16/43 (37%), Positives = 30/43 (69%)

Query: 12 LFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTL 54
          +FK+++IG+S VGK++ L R+  + F     ST+G++F  +T+
Sbjct: 1  MFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTV 43

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

 Score = 38.3 bits (89), Expect = 5e-05
 Identities = 18/43 (41%), Positives = 29/43 (67%)

Query: 14 KVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQV 56
          KV+++GD  VGK+ L++RF ++ F    K+TIGV+F     +V
Sbjct: 2  KVIVVGDLSVGKTCLINRFCKDVFDKNYKATIGVDFEMERFEV 44

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|219856 pfam08477, Miro, Miro-like protein

 Score = 37.4 bits (87), Expect = 5e-05
 Identities = 21/43 (48%), Positives = 25/43 (58%)

Query: 14 KVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQV 56
          KVV+IGD G GKS+LLS+    EF  E     G   A  TL+V
Sbjct: 1  KVVVIGDKGSGKSSLLSQLVGGEFPPEPLEIQGDTLAVDTLEV 43

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

 Score = 36.4 bits (85), Expect = 2e-04
 Identities = 11/23 (47%), Positives = 16/23 (69%)

Query: 15 VVLIGDSGVGKSNLLSRFTRNEF 37
          +V++GD  VGK+ LL  +T N F
Sbjct: 1  LVVVGDGAVGKTCLLIVYTTNAF 23

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

>gnl|CDD|206715 cd04148, RGK, Rem, Rem2, Rad, Gem/Kir (RGK) subfamily of Ras GTPases

 Score = 36.6 bits (85), Expect = 3e-04
 Identities = 18/44 (40%), Positives = 27/44 (61%)

Query: 13 FKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQV 56
          ++VVL+GDSGVGKS+L + FT   +   +    G +   RT+ V
Sbjct: 1  YRVVLLGDSGVGKSSLANIFTAGVYEDSAYEASGDDTYERTVSV 44

RGK subfamily. 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 Ras superfamily members. The N-terminal extension is not conserved among family members; the C-terminal extension is reported to be conserved among the family and lack the CaaX prenylation motif typical of membrane-associated Ras proteins. However, a putative CaaX motif has been identified in the alignment of the C-terminal residues of this CD. Length = 219

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

 Score = 35.6 bits (83), Expect = 4e-04
 Identities = 13/33 (39%), Positives = 20/33 (60%)

Query: 13 FKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTI 45
          +K+V++G  GVGKS L  +F +  F  +   TI
Sbjct: 1  YKLVVLGSGGVGKSALTIQFIQGHFVDDYDPTI 33

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

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

 Score = 35.7 bits (82), Expect = 5e-04
 Identities = 17/36 (47%), Positives = 24/36 (66%), Gaps = 1/36 (2%)

Query: 14 KVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEF 49
          KVVL+GD  VGK++LL R+    F  ++ ST+G  F
Sbjct: 2  KVVLLGDMNVGKTSLLHRYMERRF-KDTVSTVGGAF 36

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

 Score = 35.2 bits (82), Expect = 6e-04
 Identities = 14/33 (42%), Positives = 20/33 (60%)

Query: 13 FKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTI 45
          +K+V++G  GVGKS L  +F +  F  E   TI
Sbjct: 3  YKLVVLGGGGVGKSALTIQFVQGHFVDEYDPTI 35

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

>gnl|CDD|133318 cd04118, Rab24, Rab GTPase family 24 (Rab24)

 Score = 34.8 bits (80), Expect = 8e-04
 Identities = 15/44 (34%), Positives = 27/44 (61%), Gaps = 1/44 (2%)

Query: 14 KVVLIGDSGVGKSNLLSRFTRNEFCL-ESKSTIGVEFATRTLQV 56
          KVV++G   VGK++L+ R+  + F +   ++TIG  F  + + V
Sbjct: 2  KVVMLGKESVGKTSLVERYVHHRFLVGPYQNTIGAAFVAKRMVV 45

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

 Score = 34.5 bits (79), Expect = 0.001
 Identities = 13/24 (54%), Positives = 18/24 (75%)

Query: 7  EEYDYLFKVVLIGDSGVGKSNLLS 30
          + YDYL K +L+GDS VGK  +L+
Sbjct: 1  KAYDYLLKFLLVGDSDVGKGEILA 24

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

 Score = 33.7 bits (77), Expect = 0.002
 Identities = 14/31 (45%), Positives = 21/31 (67%)

Query: 14 KVVLIGDSGVGKSNLLSRFTRNEFCLESKST 44
          K++L+GDS VGKS L+ RF  + +  +  ST
Sbjct: 2  KIILLGDSAVGKSKLVERFLMDGYEPQQLST 32

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|133338 cd04138, H_N_K_Ras_like, Ras GTPase family containing H-Ras,N-Ras and K-Ras4A/4B

 Score = 33.5 bits (77), Expect = 0.002
 Identities = 14/33 (42%), Positives = 20/33 (60%)

Query: 13 FKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTI 45
          +K+V++G  GVGKS L  +  +N F  E   TI
Sbjct: 2  YKLVVVGAGGVGKSALTIQLIQNHFVDEYDPTI 34

H-Ras/N-Ras/K-Ras subfamily. 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. Others are proposed to play negative regulatory roles in oncogenesis, including RASSF 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 = 162

>gnl|CDD|206680 cd01893, Miro1, Mitochondrial Rho family 1 (Miro1), N-terminal

 Score = 33.1 bits (76), Expect = 0.003
 Identities = 13/24 (54%), Positives = 17/24 (70%)

Query: 14 KVVLIGDSGVGKSNLLSRFTRNEF 37
          ++VLIGD GVGKS+L+      EF
Sbjct: 4  RIVLIGDEGVGKSSLIMSLVSEEF 27

Miro1 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 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. Length = 168

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	68
KOG0084	205	consensus GTPase Rab1/YPT1, small G protein superf	99.88
KOG0080	209	consensus GTPase Rab18, small G protein superfamil	99.8
KOG0078	207	consensus GTP-binding protein SEC4, small G protei	99.8
KOG0094	221	consensus GTPase Rab6/YPT6/Ryh1, small G protein s	99.8
KOG0095	213	consensus GTPase Rab30, small G protein superfamil	99.77
KOG0394	210	consensus Ras-related GTPase [General function pre	99.75
KOG0098	216	consensus GTPase Rab2, small G protein superfamily	99.74
KOG0087	222	consensus GTPase Rab11/YPT3, small G protein super	99.73
KOG0079	198	consensus GTP-binding protein H-ray, small G prote	99.73
KOG0086	214	consensus GTPase Rab4, small G protein superfamily	99.7
KOG0093	193	consensus GTPase Rab3, small G protein superfamily	99.69
PLN03110	216	Rab GTPase; Provisional	99.66
KOG0092	200	consensus GTPase Rab5/YPT51 and related small G pr	99.66
cd04128	182	Spg1 Spg1p. Spg1p (septum-promoting GTPase) was fi	99.65
cd04172	182	Rnd3_RhoE_Rho8 Rnd3/RhoE/Rho8 subfamily. Rnd3/RhoE	99.65
cd04121	189	Rab40 Rab40 subfamily. This subfamily contains Rab	99.64
cd04174	232	Rnd1_Rho6 Rnd1/Rho6 subfamily. Rnd1/Rho6 is a memb	99.62
cd04131	178	Rnd Rnd subfamily. The Rnd subfamily contains Rnd1	99.62
cd04120	202	Rab12 Rab12 subfamily. Rab12 was first identified	99.61
cd01892	169	Miro2 Miro2 subfamily. Miro (mitochondrial Rho) pr	99.61
cd04108	170	Rab36_Rab34 Rab34/Rab36 subfamily. Rab34, found pr	99.6
cd01867	167	Rab8_Rab10_Rab13_like Rab8/Sec4/Ypt2. Rab8/Sec4/Yp	99.59
cd01875	191	RhoG RhoG subfamily. RhoG is a GTPase with high se	99.59
cd04133	176	Rop_like Rop subfamily. The Rop (Rho-related prote	99.59
KOG0097	215	consensus GTPase Rab14, small G protein superfamil	99.59
PLN03071	219	GTP-binding nuclear protein Ran; Provisional	99.58
cd04119	168	RJL RJL (RabJ-Like) subfamily. RJLs are found in m	99.58
PF00071	162	Ras: Ras family; InterPro: IPR001806 Small GTPases	99.58
cd04173	222	Rnd2_Rho7 Rnd2/Rho7 subfamily. Rnd2/Rho7 is a memb	99.58
cd04117	161	Rab15 Rab15 subfamily. Rab15 colocalizes with the	99.58
cd01874	175	Cdc42 Cdc42 subfamily. Cdc42 is an essential GTPas	99.58
cd04107	201	Rab32_Rab38 Rab38/Rab32 subfamily. Rab32 and Rab38	99.57
cd04110	199	Rab35 Rab35 subfamily. Rab35 is one of several Rab	99.57
cd04122	166	Rab14 Rab14 subfamily. Rab14 GTPases are localized	99.57
cd01865	165	Rab3 Rab3 subfamily. The Rab3 subfamily contains R	99.57
KOG0091	213	consensus GTPase Rab39, small G protein superfamil	99.56
cd04116	170	Rab9 Rab9 subfamily. Rab9 is found in late endosom	99.55
PLN03108	210	Rab family protein; Provisional	99.55
cd04125	188	RabA_like RabA-like subfamily. RabA was first iden	99.54
cd04102	202	RabL3 RabL3 (Rab-like3) subfamily. RabL3s are nove	99.54
cd04109	215	Rab28 Rab28 subfamily. First identified in maize,	99.54
cd01869	166	Rab1_Ypt1 Rab1/Ypt1 subfamily. Rab1 is found in ev	99.53
cd04111	211	Rab39 Rab39 subfamily. Found in eukaryotes, Rab39	99.53
PTZ00132	215	GTP-binding nuclear protein Ran; Provisional	99.53
cd01864	165	Rab19 Rab19 subfamily. Rab19 proteins are associat	99.53
cd04127	180	Rab27A Rab27a subfamily. The Rab27a subfamily cons	99.53
cd01868	165	Rab11_like Rab11-like. Rab11a, Rab11b, and Rab25 a	99.53
cd01866	168	Rab2 Rab2 subfamily. Rab2 is localized on cis-Golg	99.52
cd04115	170	Rab33B_Rab33A Rab33B/Rab33A subfamily. Rab33B is u	99.52
cd04141	172	Rit_Rin_Ric Rit/Rin/Ric subfamily. Rit (Ras-like p	99.52
cd04118	193	Rab24 Rab24 subfamily. Rab24 is distinct from othe	99.52
PLN00023	334	GTP-binding protein; Provisional	99.52
cd04106	162	Rab23_lke Rab23-like subfamily. Rab23 is a member	99.51
cd04142	198	RRP22 RRP22 subfamily. RRP22 (Ras-related protein	99.51
cd04113	161	Rab4 Rab4 subfamily. Rab4 has been implicated in n	99.5
cd04136	163	Rap_like Rap-like subfamily. The Rap subfamily con	99.5
cd04138	162	H_N_K_Ras_like H-Ras/N-Ras/K-Ras subfamily. H-Ras,	99.49
PTZ00369	189	Ras-like protein; Provisional	99.49
cd00877	166	Ran Ran (Ras-related nuclear proteins) /TC4 subfam	99.49
cd04124	161	RabL2 RabL2 subfamily. RabL2 (Rab-like2) subfamily	99.49
cd01871	174	Rac1_like Rac1-like subfamily. The Rac1-like subfa	99.48
cd04143	247	Rhes_like Rhes_like subfamily. This subfamily incl	99.47
cd04134	189	Rho3 Rho3 subfamily. Rho3 is a member of the Rho f	99.47
cd04176	163	Rap2 Rap2 subgroup. The Rap2 subgroup is part of t	99.47
cd01860	163	Rab5_related Rab5-related subfamily. This subfamil	99.47
cd01861	161	Rab6 Rab6 subfamily. Rab6 is involved in microtubu	99.46
cd04101	164	RabL4 RabL4 (Rab-like4) subfamily. RabL4s are nove	99.46
cd04175	164	Rap1 Rap1 subgroup. The Rap1 subgroup is part of t	99.45
cd01862	172	Rab7 Rab7 subfamily. Rab7 is a small Rab GTPase th	99.45
PLN03118	211	Rab family protein; Provisional	99.45
smart00175	164	RAB Rab subfamily of small GTPases. Rab GTPases ar	99.44
KOG0081	219	consensus GTPase Rab27, small G protein superfamil	99.44
cd04148	221	RGK RGK subfamily. The RGK (Rem, Rem2, Rad, Gem/Ki	99.43
cd01870	175	RhoA_like RhoA-like subfamily. The RhoA subfamily	99.43
cd04114	169	Rab30 Rab30 subfamily. Rab30 appears to be associa	99.43
KOG0088	218	consensus GTPase Rab21, small G protein superfamil	99.42
cd04112	191	Rab26 Rab26 subfamily. First identified in rat pan	99.42
cd04132	187	Rho4_like Rho4-like subfamily. Rho4 is a GTPase th	99.41
cd04103	158	Centaurin_gamma Centaurin gamma. The centaurins (a	99.41
cd04140	165	ARHI_like ARHI subfamily. ARHI (A Ras homolog memb	99.41
cd04130	173	Wrch_1 Wrch-1 subfamily. Wrch-1 (Wnt-1 responsive	99.4
cd04144	190	Ras2 Ras2 subfamily. The Ras2 subfamily, found exc	99.4
smart00173	164	RAS Ras subfamily of RAS small GTPases. Similar in	99.4
cd01863	161	Rab18 Rab18 subfamily. Mammalian Rab18 is implicat	99.4
COG1100	219	GTPase SAR1 and related small G proteins [General	99.4
cd04135	174	Tc10 TC10 subfamily. TC10 is a Rho family protein	99.39
cd04145	164	M_R_Ras_like M-Ras/R-Ras-like subfamily. This subf	99.38
smart00174	174	RHO Rho (Ras homology) subfamily of Ras-like small	99.37
cd04177	168	RSR1 RSR1 subgroup. RSR1/Bud1p is a member of the	99.37
cd00154	159	Rab Rab family. Rab GTPases form the largest famil	99.36
smart00176	200	RAN Ran (Ras-related nuclear proteins) /TC4 subfam	99.34
cd04146	165	RERG_RasL11_like RERG/RasL11-like subfamily. RERG	99.34
cd04123	162	Rab21 Rab21 subfamily. The localization and functi	99.33
cd00157	171	Rho Rho (Ras homology) family. Members of the Rho	99.31
cd04139	164	RalA_RalB RalA/RalB subfamily. The Ral (Ras-like)	99.31
KOG0393	198	consensus Ras-related small GTPase, Rho type [Gene	99.29
cd01873	195	RhoBTB RhoBTB subfamily. Members of the RhoBTB sub	99.28
TIGR00231	161	small_GTP small GTP-binding protein domain. This m	99.28
KOG4252	246	consensus GTP-binding protein [Signal transduction	99.27
cd04129	187	Rho2 Rho2 subfamily. Rho2 is a fungal GTPase that	99.25
cd04147	198	Ras_dva Ras-dva subfamily. Ras-dva (Ras - dorsal-v	99.24
cd04137	180	RheB Rheb (Ras Homolog Enriched in Brain) subfamil	99.23
cd04152	183	Arl4_Arl7 Arl4/Arl7 subfamily. Arl4 (Arf-like 4) i	99.23
cd00876	160	Ras Ras family. The Ras family of the Ras superfam	99.23
KOG0395	196	consensus Ras-related GTPase [General function pre	99.21
cd04126	220	Rab20 Rab20 subfamily. Rab20 is one of several Rab	99.21
cd04162	164	Arl9_Arfrp2_like Arl9/Arfrp2-like subfamily. Arl9	99.2
PF08477	119	Miro: Miro-like protein; InterPro: IPR013684 Mitoc	99.17
cd01893	166	Miro1 Miro1 subfamily. Miro (mitochondrial Rho) pr	99.16
KOG0083	192	consensus GTPase Rab26/Rab37, small G protein supe	99.16
cd04150	159	Arf1_5_like Arf1-Arf5-like subfamily. This subfami	99.13
PTZ00133	182	ADP-ribosylation factor; Provisional	99.11
PLN00223	181	ADP-ribosylation factor; Provisional	99.1
smart00177	175	ARF ARF-like small GTPases; ARF, ADP-ribosylation	99.09
cd04158	169	ARD1 ARD1 subfamily. ARD1 (ADP-ribosylation factor	99.09
TIGR02528	142	EutP ethanolamine utilization protein, EutP. This	99.08
cd04159	159	Arl10_like Arl10-like subfamily. Arl9/Arl10 was id	99.08
cd04154	173	Arl2 Arl2 subfamily. Arl2 (Arf-like 2) GTPases are	99.07
cd04149	168	Arf6 Arf6 subfamily. Arf6 (ADP ribosylation factor	99.07
PRK04213	201	GTP-binding protein; Provisional	99.07
cd01850	276	CDC_Septin CDC/Septin. Septins are a conserved fam	99.06
cd04161	167	Arl2l1_Arl13_like Arl2l1/Arl13 subfamily. Arl2l1 (	99.04
PRK00454	196	engB GTP-binding protein YsxC; Reviewed	99.01
cd04156	160	ARLTS1 ARLTS1 subfamily. ARLTS1 (Arf-like tumor su	99.01
KOG1673	205	consensus Ras GTPases [General function prediction	99.0
KOG4423	229	consensus GTP-binding protein-like, RAS superfamil	99.0
cd00879	190	Sar1 Sar1 subfamily. Sar1 is an essential componen	98.98
cd04157	162	Arl6 Arl6 subfamily. Arl6 (Arf-like 6) forms a sub	98.98
cd04153	174	Arl5_Arl8 Arl5/Arl8 subfamily. Arl5 (Arf-like 5) a	98.95
PF00025	175	Arf: ADP-ribosylation factor family The prints ent	98.92
TIGR03598	179	GTPase_YsxC ribosome biogenesis GTP-binding protei	98.92
cd04155	173	Arl3 Arl3 subfamily. Arl3 (Arf-like 3) is an Arf f	98.92
cd01878	204	HflX HflX subfamily. A distinct conserved domain w	98.9
cd00878	158	Arf_Arl Arf (ADP-ribosylation factor)/Arl (Arf-lik	98.9
smart00178	184	SAR Sar1p-like members of the Ras-family of small	98.9
cd04160	167	Arfrp1 Arfrp1 subfamily. Arfrp1 (Arf-related prote	98.9
cd04151	158	Arl1 Arl1 subfamily. Arl1 (Arf-like 1) localizes t	98.88
KOG0073	185	consensus GTP-binding ADP-ribosylation factor-like	98.86
cd01876	170	YihA_EngB The YihA (EngB) subfamily. This subfamil	98.81
cd01891	194	TypA_BipA TypA (tyrosine phosphorylated protein A)	98.81
smart00010	124	small_GTPase Small GTPase of the Ras superfamily;	98.81
KOG0096	216	consensus GTPase Ran/TC4/GSP1 (nuclear protein tra	98.81
cd01897	168	NOG NOG1 is a nucleolar GTP-binding protein presen	98.8
cd04171	164	SelB SelB subfamily. SelB is an elongation factor	98.79
cd04164	157	trmE TrmE (MnmE, ThdF, MSS1) is a 3-domain protein	98.72
TIGR00450	442	mnmE_trmE_thdF tRNA modification GTPase TrmE. TrmE	98.72
cd01879	158	FeoB Ferrous iron transport protein B (FeoB) subfa	98.69
PF02421	156	FeoB_N: Ferrous iron transport protein B; InterPro	98.68
cd04105	203	SR_beta Signal recognition particle receptor, beta	98.66
PF10662	143	PduV-EutP: Ethanolamine utilisation - propanediol	98.66
cd01887	168	IF2_eIF5B IF2/eIF5B (initiation factors 2/ eukaryo	98.66
cd04104	197	p47_IIGP_like p47 (47-kDa) family. The p47 GTPase	98.65
PRK15494	339	era GTPase Era; Provisional	98.64
PRK03003	472	GTP-binding protein Der; Reviewed	98.64
cd01890	179	LepA LepA subfamily. LepA belongs to the GTPase fa	98.63
cd00882	157	Ras_like_GTPase Ras-like GTPase superfamily. The R	98.62
cd01895	174	EngA2 EngA2 subfamily. This CD represents the seco	98.61
TIGR03156	351	GTP_HflX GTP-binding protein HflX. This protein fa	98.61
cd04163	168	Era Era subfamily. Era (E. coli Ras-like protein)	98.59
PF00735	281	Septin: Septin; InterPro: IPR000038 Septins consti	98.59
PRK03003	472	GTP-binding protein Der; Reviewed	98.58
PF01926	116	MMR_HSR1: 50S ribosome-binding GTPase; InterPro: I	98.53
PRK05291	449	trmE tRNA modification GTPase TrmE; Reviewed	98.53
cd01898	170	Obg Obg subfamily. The Obg nucleotide binding prot	98.51
PRK00093	435	GTP-binding protein Der; Reviewed	98.51
COG0218	200	Predicted GTPase [General function prediction only	98.5
cd01896	233	DRG The developmentally regulated GTP-binding prot	98.5
cd01857	141	HSR1_MMR1 HSR1/MMR1. Human HSR1, is localized to t	98.48
KOG0070	181	consensus GTP-binding ADP-ribosylation factor Arf1	98.47
PRK11058	426	GTPase HflX; Provisional	98.45
cd01889	192	SelB_euk SelB subfamily. SelB is an elongation fac	98.43
TIGR00436	270	era GTP-binding protein Era. Era is an essential G	98.43
cd01853	249	Toc34_like Toc34-like (Translocon at the Outer-env	98.42
cd01856	171	YlqF YlqF. Proteins of the YlqF family contain all	98.4
KOG1707	625	consensus Predicted Ras related/Rac-GTP binding pr	98.39
cd01881	176	Obg_like The Obg-like subfamily consists of five w	98.38
TIGR03594	429	GTPase_EngA ribosome-associated GTPase EngA. EngA	98.38
COG3839	338	MalK ABC-type sugar transport systems, ATPase comp	98.37
COG1116	248	TauB ABC-type nitrate/sulfonate/bicarbonate transp	98.36
cd01859	156	MJ1464 MJ1464. This family represents archaeal GTP	98.34
TIGR00487	587	IF-2 translation initiation factor IF-2. This mode	98.33
COG3842	352	PotA ABC-type spermidine/putrescine transport syst	98.31
COG1126	240	GlnQ ABC-type polar amino acid transport system, A	98.31
PRK09518	712	bifunctional cytidylate kinase/GTPase Der; Reviewe	98.31
PF03193	161	DUF258: Protein of unknown function, DUF258; Inter	98.29
PRK09518	712	bifunctional cytidylate kinase/GTPase Der; Reviewe	98.28
cd01894	157	EngA1 EngA1 subfamily. This CD represents the firs	98.27
cd01858	157	NGP_1 NGP-1. Autoantigen NGP-1 (Nucleolar G-protei	98.26
TIGR00991	313	3a0901s02IAP34 GTP-binding protein (Chloroplast En	98.26
PF04548	212	AIG1: AIG1 family; InterPro: IPR006703 This entry	98.23
cd01852	196	AIG1 AIG1 (avrRpt2-induced gene 1). This represent	98.23
cd01899	318	Ygr210 Ygr210 subfamily. Ygr210 is a member of Obg	98.22
KOG0071	180	consensus GTP-binding ADP-ribosylation factor Arf6	98.19
TIGR03594	429	GTPase_EngA ribosome-associated GTPase EngA. EngA	98.19
TIGR00437	591	feoB ferrous iron transporter FeoB. FeoB (773 amin	98.18
PRK00089	292	era GTPase Era; Reviewed	98.18
TIGR00475	581	selB selenocysteine-specific elongation factor Sel	98.18
PRK09602	396	translation-associated GTPase; Reviewed	98.18
PRK09554	772	feoB ferrous iron transport protein B; Reviewed	98.17
PRK15467	158	ethanolamine utilization protein EutP; Provisional	98.17
COG1136	226	SalX ABC-type antimicrobial peptide transport syst	98.15
COG3840	231	ThiQ ABC-type thiamine transport system, ATPase co	98.14
KOG0074	185	consensus GTP-binding ADP-ribosylation factor-like	98.13
PRK00093	435	GTP-binding protein Der; Reviewed	98.13
COG4525	259	TauB ABC-type taurine transport system, ATPase com	98.11
TIGR03596	276	GTPase_YlqF ribosome biogenesis GTP-binding protei	98.09
cd00881	189	GTP_translation_factor GTP translation factor fami	98.09
COG0486	454	ThdF Predicted GTPase [General function prediction	98.08
KOG1707	625	consensus Predicted Ras related/Rac-GTP binding pr	98.07
PRK09563	287	rbgA GTPase YlqF; Reviewed	98.07
PF13207	121	AAA_17: AAA domain; PDB: 3AKC_A 3AKE_A 3AKD_A 2QL6	98.07
TIGR01393	595	lepA GTP-binding protein LepA. LepA (GUF1 in Sacca	98.05
cd03222	177	ABC_RNaseL_inhibitor The ABC ATPase RNase L inhibi	98.05
cd00880	163	Era_like Era (E. coli Ras-like protein)-like. This	98.04
cd03255	218	ABC_MJ0796_Lo1CDE_FtsE This family is comprised of	98.04
TIGR00960	216	3a0501s02 Type II (General) Secretory Pathway (IIS	98.03
cd04178	172	Nucleostemin_like Nucleostemin-like. Nucleostemin	98.03
cd03226	205	ABC_cobalt_CbiO_domain2 Domain II of the ABC compo	98.03
PRK08118	167	topology modulation protein; Reviewed	98.03
COG3596	296	Predicted GTPase [General function prediction only	98.03
PRK13540	200	cytochrome c biogenesis protein CcmA; Provisional	98.02
cd03262	213	ABC_HisP_GlnQ_permeases HisP and GlnQ are the ATP-	98.02
COG0370	653	FeoB Fe2+ transport system protein B [Inorganic io	98.02
PF00005	137	ABC_tran: ABC transporter This structure is on hol	98.02
TIGR02673	214	FtsE cell division ATP-binding protein FtsE. This	98.02
TIGR02729	329	Obg_CgtA Obg family GTPase CgtA. This model descri	98.01
cd03225	211	ABC_cobalt_CbiO_domain1 Domain I of the ABC compon	98.01
PF05049	376	IIGP: Interferon-inducible GTPase (IIGP); InterPro	98.01
cd03269	210	ABC_putative_ATPase This subfamily is involved in	98.01
PRK05306	787	infB translation initiation factor IF-2; Validated	98.01
PRK07261	171	topology modulation protein; Provisional	98.0
cd03224	222	ABC_TM1139_LivF_branched LivF (TM1139) is part of	98.0
PF03266	168	NTPase_1: NTPase; InterPro: IPR004948 This entry r	98.0
TIGR02211	221	LolD_lipo_ex lipoprotein releasing system, ATP-bin	98.0
cd03261	235	ABC_Org_Solvent_Resistant ABC (ATP-binding cassett	97.99
TIGR03608	206	L_ocin_972_ABC putative bacteriocin export ABC tra	97.99
TIGR02315	243	ABC_phnC phosphonate ABC transporter, ATP-binding	97.99
cd03257	228	ABC_NikE_OppD_transporters The ABC transporter sub	97.99
PF05783	472	DLIC: Dynein light intermediate chain (DLIC); Inte	97.99
cd03235	213	ABC_Metallic_Cations ABC component of the metal-ty	97.99
cd03266	218	ABC_NatA_sodium_exporter NatA is the ATPase compon	97.99
cd03292	214	ABC_FtsE_transporter FtsE is a hydrophilic nucleot	97.98
PRK12288	347	GTPase RsgA; Reviewed	97.98
PRK11629	233	lolD lipoprotein transporter ATP-binding subunit;	97.98
PF00350	168	Dynamin_N: Dynamin family; InterPro: IPR001401 Mem	97.98
cd03293	220	ABC_NrtD_SsuB_transporters NrtD and SsuB are the A	97.97
cd03218	232	ABC_YhbG The ABC transporters belonging to the Yhb	97.97
COG1120	258	FepC ABC-type cobalamin/Fe3+-siderophores transpor	97.97
COG1118	345	CysA ABC-type sulfate/molybdate transport systems,	97.97
cd03259	213	ABC_Carb_Solutes_like ABC Carbohydrate and Solute	97.97
PF09439	181	SRPRB: Signal recognition particle receptor beta s	97.97
cd03265	220	ABC_DrrA DrrA is the ATP-binding protein component	97.97
TIGR01166	190	cbiO cobalt transport protein ATP-binding subunit.	97.97
cd03216	163	ABC_Carb_Monos_I This family represents the domain	97.97
cd04167	213	Snu114p Snu114p subfamily. Snu114p is one of sever	97.96
PF04670	232	Gtr1_RagA: Gtr1/RagA G protein conserved region; I	97.96
COG5019	373	CDC3 Septin family protein [Cell division and chro	97.96
COG0563	178	Adk Adenylate kinase and related kinases [Nucleoti	97.96
PRK11247	257	ssuB aliphatic sulfonates transport ATP-binding su	97.96
PRK11248	255	tauB taurine transporter ATP-binding subunit; Prov	97.96
cd03264	211	ABC_drug_resistance_like ABC-type multidrug transp	97.96
cd03301	213	ABC_MalK_N The N-terminal ATPase domain of the mal	97.95
PRK15177	213	Vi polysaccharide export ATP-binding protein VexC;	97.95
TIGR02868	529	CydC thiol reductant ABC exporter, CydC subunit. T	97.95
PRK13541	195	cytochrome c biogenesis protein CcmA; Provisional	97.95
cd03256	241	ABC_PhnC_transporter ABC-type phosphate/phosphonat	97.95
cd03263	220	ABC_subfamily_A The ABCA subfamily mediates the tr	97.94
TIGR03410	230	urea_trans_UrtE urea ABC transporter, ATP-binding	97.94
cd03268	208	ABC_BcrA_bacitracin_resist The BcrA subfamily repr	97.94
cd03215	182	ABC_Carb_Monos_II This family represents domain II	97.94
PRK10908	222	cell division protein FtsE; Provisional	97.94
TIGR03864	236	PQQ_ABC_ATP ABC transporter, ATP-binding subunit,	97.94
COG1124	252	DppF ABC-type dipeptide/oligopeptide/nickel transp	97.94
cd03237	246	ABC_RNaseL_inhibitor_domain2 The ATPase domain 2 o	97.94
PRK10895	241	lipopolysaccharide ABC transporter ATP-binding pro	97.94
cd03258	233	ABC_MetN_methionine_transporter MetN (also known a	97.94
PRK11124	242	artP arginine transporter ATP-binding subunit; Pro	97.94
PRK13539	207	cytochrome c biogenesis protein CcmA; Provisional	97.93
PRK10247	225	putative ABC transporter ATP-binding protein YbbL;	97.93
TIGR02323	253	CP_lyasePhnK phosphonate C-P lyase system protein	97.93
cd03260	227	ABC_PstB_phosphate_transporter Phosphate uptake is	97.93
TIGR01189	198	ccmA heme ABC exporter, ATP-binding protein CcmA.	97.93
cd03296	239	ABC_CysA_sulfate_importer Part of the ABC transpor	97.92
cd03214	180	ABC_Iron-Siderophores_B12_Hemin ABC transporters,	97.92
PRK13538	204	cytochrome c biogenesis protein CcmA; Provisional	97.92
PRK10078	186	ribose 1,5-bisphosphokinase; Provisional	97.92
cd03219	236	ABC_Mj1267_LivG_branched The Mj1267/LivG ABC trans	97.92
PRK10218	607	GTP-binding protein; Provisional	97.92
cd03229	178	ABC_Class3 This class is comprised of all BPD (Bin	97.91
PRK12299	335	obgE GTPase CgtA; Reviewed	97.91
PF13555	62	AAA_29: P-loop containing region of AAA domain	97.91
PRK14250	241	phosphate ABC transporter ATP-binding protein; Pro	97.91
PRK13543	214	cytochrome c biogenesis protein CcmA; Provisional	97.91
cd03297	214	ABC_ModC_molybdenum_transporter ModC is an ABC-typ	97.9
PRK10584	228	putative ABC transporter ATP-binding protein YbbA;	97.9
PRK12296	500	obgE GTPase CgtA; Reviewed	97.89
cd03221	144	ABCF_EF-3 ABCF_EF-3 Elongation factor 3 (EF-3) is	97.89
cd03298	211	ABC_ThiQ_thiamine_transporter ABC-type thiamine tr	97.89
TIGR03411	242	urea_trans_UrtD urea ABC transporter, ATP-binding	97.89
PRK11300	255	livG leucine/isoleucine/valine transporter ATP-bin	97.89
PRK15112	267	antimicrobial peptide ABC system ATP-binding prote	97.89
TIGR02769	265	nickel_nikE nickel import ATP-binding protein NikE	97.89
PRK11701	258	phnK phosphonate C-P lyase system protein PhnK; Pr	97.89
PRK11264	250	putative amino-acid ABC transporter ATP-binding pr	97.89
TIGR00157	245	ribosome small subunit-dependent GTPase A. The Aqu	97.89
TIGR01184	230	ntrCD nitrate transport ATP-binding subunits C and	97.89
cd03231	201	ABC_CcmA_heme_exporter CcmA, the ATP-binding compo	97.89
cd03230	173	ABC_DR_subfamily_A This family of ATP-binding prot	97.88
cd03267	236	ABC_NatA_like Similar in sequence to NatA, this is	97.88
cd03254	229	ABCC_Glucan_exporter_like Glucan exporter ATP-bind	97.88
PRK13649	280	cbiO cobalt transporter ATP-binding subunit; Provi	97.88
PRK13645	289	cbiO cobalt transporter ATP-binding subunit; Provi	97.88
PRK13638	271	cbiO cobalt transporter ATP-binding subunit; Provi	97.88
CHL00189	742	infB translation initiation factor 2; Provisional	97.88
PRK12289	352	GTPase RsgA; Reviewed	97.88
cd03247	178	ABCC_cytochrome_bd The CYD subfamily implicated in	97.87
cd03252	237	ABCC_Hemolysin The ABC-transporter hemolysin B is	97.87
PRK11650	356	ugpC glycerol-3-phosphate transporter ATP-binding	97.87
cd03245	220	ABCC_bacteriocin_exporters ABC-type bacteriocin ex	97.87
COG3638	258	ABC-type phosphate/phosphonate transport system, A	97.87
PRK11432	351	fbpC ferric transporter ATP-binding subunit; Provi	97.86
PRK15056	272	manganese/iron transporter ATP-binding protein; Pr	97.86
COG1162	301	Predicted GTPases [General function prediction onl	97.86
cd03246	173	ABCC_Protease_Secretion This family represents the	97.86
cd03295	242	ABC_OpuCA_Osmoprotection OpuCA is a the ATP bindin	97.86
cd03251	234	ABCC_MsbA MsbA is an essential ABC transporter, cl	97.86
PRK10771	232	thiQ thiamine transporter ATP-binding subunit; Pro	97.86
cd04165	224	GTPBP1_like GTPBP1-like. Mammalian GTP binding pro	97.86
PRK14738	206	gmk guanylate kinase; Provisional	97.86
cd03294	269	ABC_Pro_Gly_Bertaine This family comprises the gly	97.86
TIGR02324	224	CP_lyasePhnL phosphonate C-P lyase system protein	97.86
cd03223	166	ABCD_peroxisomal_ALDP Peroxisomal ATP-binding cass	97.85
TIGR03005	252	ectoine_ehuA ectoine/hydroxyectoine ABC transporte	97.85
PF13521	163	AAA_28: AAA domain; PDB: 1LW7_A.	97.85
PRK13548	258	hmuV hemin importer ATP-binding subunit; Provision	97.85
PRK11831	269	putative ABC transporter ATP-binding protein YrbF;	97.85
PRK11000	369	maltose/maltodextrin transporter ATP-binding prote	97.85
TIGR01188	302	drrA daunorubicin resistance ABC transporter ATP-b	97.84
cd03290	218	ABCC_SUR1_N The SUR domain 1. The sulfonylurea rec	97.84
PRK10619	257	histidine/lysine/arginine/ornithine transporter su	97.84
PRK10575	265	iron-hydroxamate transporter ATP-binding subunit;	97.84
TIGR01288	303	nodI ATP-binding ABC transporter family nodulation	97.84
PRK13641	287	cbiO cobalt transporter ATP-binding subunit; Provi	97.84
PF13671	143	AAA_33: AAA domain; PDB: 1LTQ_A 2IA5_K 1RC8_A 1LY1	97.84
cd03220	224	ABC_KpsT_Wzt ABC_KpsT_Wzt The KpsT/Wzt ABC transpo	97.84
PRK12297	424	obgE GTPase CgtA; Reviewed	97.84
TIGR03265	353	PhnT2 putative 2-aminoethylphosphonate ABC transpo	97.84
PRK09452	375	potA putrescine/spermidine ABC transporter ATPase	97.84
TIGR02322	179	phosphon_PhnN phosphonate metabolism protein/1,5-b	97.84
PRK06217	183	hypothetical protein; Validated	97.84
cd03253	236	ABCC_ATM1_transporter ATM1 is an ABC transporter t	97.84
smart00382	148	AAA ATPases associated with a variety of cellular	97.83
PRK13646	286	cbiO cobalt transporter ATP-binding subunit; Provi	97.83
cd01855	190	YqeH YqeH. YqeH is an essential GTP-binding protei	97.83
PRK11153	343	metN DL-methionine transporter ATP-binding subunit	97.83
TIGR03740	223	galliderm_ABC gallidermin-class lantibiotic protec	97.83
COG0194	191	Gmk Guanylate kinase [Nucleotide transport and met	97.83
cd03250	204	ABCC_MRP_domain1 Domain 1 of the ABC subfamily C.	97.83
PRK11176	582	lipid transporter ATP-binding/permease protein; Pr	97.83
PRK13651	305	cobalt transporter ATP-binding subunit; Provisiona	97.83
COG1131	293	CcmA ABC-type multidrug transport system, ATPase c	97.83
TIGR03771	223	anch_rpt_ABC anchored repeat-type ABC transporter,	97.83
PRK13643	288	cbiO cobalt transporter ATP-binding subunit; Provi	97.82
cd03238	176	ABC_UvrA The excision repair protein UvrA; Nucleot	97.82
cd03228	171	ABCC_MRP_Like The MRP (Mutidrug Resistance Protein	97.82
PRK11144	352	modC molybdate transporter ATP-binding protein; Pr	97.82
PRK13632	271	cbiO cobalt transporter ATP-binding subunit; Provi	97.82
cd03244	221	ABCC_MRP_domain2 Domain 2 of the ABC subfamily C.	97.82
PRK10851	353	sulfate/thiosulfate transporter subunit; Provision	97.81
cd03369	207	ABCC_NFT1 Domain 2 of NFT1 (New full-length MRP-ty	97.81
PRK13631	320	cbiO cobalt transporter ATP-binding subunit; Provi	97.81
COG1121	254	ZnuC ABC-type Mn/Zn transport systems, ATPase comp	97.81
PRK10636	638	putative ABC transporter ATP-binding protein; Prov	97.8
TIGR01277	213	thiQ thiamine ABC transporter, ATP-binding protein	97.8
TIGR03873	256	F420-0_ABC_ATP proposed F420-0 ABC transporter, AT	97.8
PRK00098	298	GTPase RsgA; Reviewed	97.8
PRK13648	269	cbiO cobalt transporter ATP-binding subunit; Provi	97.8
TIGR00993	763	3a0901s04IAP86 chloroplast protein import componen	97.8
cd03249	238	ABC_MTABC3_MDL1_MDL2 MTABC3 (also known as ABCB6)	97.8
PRK09544	251	znuC high-affinity zinc transporter ATPase; Review	97.8
KOG2655	366	consensus Septin family protein (P-loop GTPase) [C	97.8
cd00071	137	GMPK Guanosine monophosphate kinase (GMPK, EC 2.7.	97.8
PTZ00258	390	GTP-binding protein; Provisional	97.79
PRK11147	635	ABC transporter ATPase component; Reviewed	97.79
PRK09493	240	glnQ glutamine ABC transporter ATP-binding protein	97.79
cd03248	226	ABCC_TAP TAP, the Transporter Associated with Anti	97.79
TIGR02770	230	nickel_nikD nickel import ATP-binding protein NikD	97.79
cd03236	255	ABC_RNaseL_inhibitor_domain1 The ATPase domain 1 o	97.79
PRK11174	588	cysteine/glutathione ABC transporter membrane/ATP-	97.79
cd03233	202	ABC_PDR_domain1 The pleiotropic drug resistance (P	97.79
TIGR02203	571	MsbA_lipidA lipid A export permease/ATP-binding pr	97.78
PRK10253	265	iron-enterobactin transporter ATP-binding protein;	97.78
PRK13637	287	cbiO cobalt transporter ATP-binding subunit; Provi	97.78
TIGR03263	180	guanyl_kin guanylate kinase. Members of this famil	97.78
PF00004	132	AAA: ATPase family associated with various cellula	97.78
COG2274	709	SunT ABC-type bacteriocin/lantibiotic exporters, c	97.78
KOG1191	531	consensus Mitochondrial GTPase [Translation, ribos	97.78
PRK11231	255	fecE iron-dicitrate transporter ATP-binding subuni	97.78
TIGR00972	247	3a0107s01c2 phosphate ABC transporter, ATP-binding	97.77
PRK13546	264	teichoic acids export protein ATP-binding subunit;	97.77
TIGR01978	243	sufC FeS assembly ATPase SufC. SufC is part of the	97.77
PRK13652	277	cbiO cobalt transporter ATP-binding subunit; Provi	97.77
PRK13635	279	cbiO cobalt transporter ATP-binding subunit; Provi	97.77
PRK10636	638	putative ABC transporter ATP-binding protein; Prov	97.77
COG1160	444	Predicted GTPases [General function prediction onl	97.77
PRK11607	377	potG putrescine transporter ATP-binding subunit; P	97.77
PRK11614	237	livF leucine/isoleucine/valine transporter ATP-bin	97.77
cd03291	282	ABCC_CFTR1 The CFTR subfamily domain 1. The cystic	97.77
PRK13647	274	cbiO cobalt transporter ATP-binding subunit; Provi	97.76
TIGR02314	343	ABC_MetN D-methionine ABC transporter, ATP-binding	97.76
COG0488	530	Uup ATPase components of ABC transporters with dup	97.76
PRK13644	274	cbiO cobalt transporter ATP-binding subunit; Provi	97.76
TIGR02142	354	modC_ABC molybdenum ABC transporter, ATP-binding p	97.76
PRK13650	279	cbiO cobalt transporter ATP-binding subunit; Provi	97.76
cd03234	226	ABCG_White The White subfamily represents ABC tran	97.76
PRK15064	530	ABC transporter ATP-binding protein; Provisional	97.76
TIGR03797	686	NHPM_micro_ABC2 NHPM bacteriocin system ABC transp	97.76
PRK10419	268	nikE nickel transporter ATP-binding protein NikE;	97.76
cd03300	232	ABC_PotA_N PotA is an ABC-type transporter and the	97.76
TIGR00101	199	ureG urease accessory protein UreG. This model rep	97.75
COG0410	237	LivF ABC-type branched-chain amino acid transport	97.75
KOG3905	473	consensus Dynein light intermediate chain [Cell mo	97.75
PRK14273	254	phosphate ABC transporter ATP-binding protein; Pro	97.75
PRK13633	280	cobalt transporter ATP-binding subunit; Provisiona	97.74
TIGR03796	710	NHPM_micro_ABC1 NHPM bacteriocin system ABC transp	97.74
cd01854	287	YjeQ_engC YjeQ/EngC. YjeQ (YloQ in Bacillus subtil	97.74
cd00267	157	ABC_ATPase ABC (ATP-binding cassette) transporter	97.74
PRK10418	254	nikD nickel transporter ATP-binding protein NikD;	97.74
TIGR01193	708	bacteriocin_ABC ABC-type bacteriocin transporter.	97.74
TIGR01186	363	proV glycine betaine/L-proline transport ATP bindi	97.74
TIGR03522	301	GldA_ABC_ATP gliding motility-associated ABC trans	97.74
TIGR00968	237	3a0106s01 sulfate ABC transporter, ATP-binding pro	97.74
cd00820	107	PEPCK_HprK Phosphoenolpyruvate carboxykinase (PEPC	97.74
PRK11147	635	ABC transporter ATPase component; Reviewed	97.74
COG1117	253	PstB ABC-type phosphate transport system, ATPase c	97.74
COG4559	259	ABC-type hemin transport system, ATPase component	97.74
TIGR02857	529	CydD thiol reductant ABC exporter, CydD subunit. U	97.74
PRK11819	556	putative ABC transporter ATP-binding protein; Revi	97.74
cd03299	235	ABC_ModC_like Archeal protein closely related to M	97.73
TIGR03258	362	PhnT 2-aminoethylphosphonate ABC transport system,	97.73
PRK13639	275	cbiO cobalt transporter ATP-binding subunit; Provi	97.73
PF07728	139	AAA_5: AAA domain (dynein-related subfamily); Inte	97.73
PF13191	185	AAA_16: AAA ATPase domain; PDB: 2V1U_A.	97.73
PRK13657	588	cyclic beta-1,2-glucan ABC transporter; Provisiona	97.73
COG0488	530	Uup ATPase components of ABC transporters with dup	97.73
PRK13536	340	nodulation factor exporter subunit NodI; Provision	97.73
PRK13537	306	nodulation ABC transporter NodI; Provisional	97.73
PRK00300	205	gmk guanylate kinase; Provisional	97.73
TIGR02204	576	MsbA_rel ABC transporter, permease/ATP-binding pro	97.72
PRK10070	400	glycine betaine transporter ATP-binding subunit; P	97.72
PRK14249	251	phosphate ABC transporter ATP-binding protein; Pro	97.72
PRK10938	490	putative molybdenum transport ATP-binding protein	97.72
PRK14242	253	phosphate transporter ATP-binding protein; Provisi	97.71
PRK13634	290	cbiO cobalt transporter ATP-binding subunit; Provi	97.71
COG1161	322	Predicted GTPases [General function prediction onl	97.71
TIGR03719	552	ABC_ABC_ChvD ATP-binding cassette protein, ChvD fa	97.71
PRK13636	283	cbiO cobalt transporter ATP-binding subunit; Provi	97.71
PRK10762	501	D-ribose transporter ATP binding protein; Provisio	97.7
COG4987	573	CydC ABC-type transport system involved in cytochr	97.7
PRK14247	250	phosphate ABC transporter ATP-binding protein; Pro	97.7
cd02023	198	UMPK Uridine monophosphate kinase (UMPK, EC 2.7.1.	97.7
PRK10790	592	putative multidrug transporter membrane\ATP-bindin	97.7
PRK10522	547	multidrug transporter membrane component/ATP-bindi	97.7
PRK14737	186	gmk guanylate kinase; Provisional	97.7
PRK11308	327	dppF dipeptide transporter ATP-binding subunit; Pr	97.7
COG2884	223	FtsE Predicted ATPase involved in cell division [C	97.69
TIGR02982	220	heterocyst_DevA ABC exporter ATP-binding subunit,	97.69
TIGR00235	207	udk uridine kinase. Model contains a number of lon	97.69
COG1618	179	Predicted nucleotide kinase [Nucleotide transport	97.69
PRK09601	364	GTP-binding protein YchF; Reviewed	97.69
PRK14267	253	phosphate ABC transporter ATP-binding protein; Pro	97.69
cd02019	69	NK Nucleoside/nucleotide kinase (NK) is a protein	97.69
PRK14241	258	phosphate transporter ATP-binding protein; Provisi	97.68
cd01130	186	VirB11-like_ATPase Type IV secretory pathway compo	97.68
PRK14239	252	phosphate transporter ATP-binding protein; Provisi	97.68
cd03217	200	ABC_FeS_Assembly ABC-type transport system involve	97.68
COG1134	249	TagH ABC-type polysaccharide/polyol phosphate tran	97.67
TIGR03375	694	type_I_sec_LssB type I secretion system ATPase, Ls	97.67
PRK14274	259	phosphate ABC transporter ATP-binding protein; Pro	97.67
cd03213	194	ABCG_EPDR ABCG transporters are involved in eye pi	97.67
PRK11160	574	cysteine/glutathione ABC transporter membrane/ATP-	97.67
PF13401	131	AAA_22: AAA domain; PDB: 2QBY_B 1FNN_B 1W5T_A 1W5S	97.67
PF04665	241	Pox_A32: Poxvirus A32 protein; InterPro: IPR006758	97.67
cd03232	192	ABC_PDR_domain2 The pleiotropic drug resistance-li	97.67
PRK13640	282	cbiO cobalt transporter ATP-binding subunit; Provi	97.66
COG4917	148	EutP Ethanolamine utilization protein [Amino acid	97.66
COG4619	223	ABC-type uncharacterized transport system, ATPase	97.66
PRK09700	510	D-allose transporter ATP-binding protein; Provisio	97.66
PF05729	166	NACHT: NACHT domain	97.65
PRK10261	623	glutathione transporter ATP-binding protein; Provi	97.65
cd03288	257	ABCC_SUR2 The SUR domain 2. The sulfonylurea recep	97.65
PRK15079	331	oligopeptide ABC transporter ATP-binding protein O	97.65
PRK13547	272	hmuV hemin importer ATP-binding subunit; Provision	97.65
CHL00131	252	ycf16 sulfate ABC transporter protein; Validated	97.65
PRK10744	260	pstB phosphate transporter ATP-binding protein; Pr	97.64
COG1119	257	ModF ABC-type molybdenum transport system, ATPase	97.64
smart00053	240	DYNc Dynamin, GTPase. Large GTPases that mediate v	97.64
PRK10789	569	putative multidrug transporter membrane\ATP-bindin	97.64
PRK15439	510	autoinducer 2 ABC transporter ATP-binding protein	97.64
PRK14240	250	phosphate transporter ATP-binding protein; Provisi	97.64

>KOG0084 consensus GTPase Rab1/YPT1, small G protein superfamily, and related GTP-binding proteins [Signal transduction mechanisms; Intracellular trafficking, secretion, and vesicular transport]

Probab=99.88  E-value=3.4e-22  Score=110.30  Aligned_cols=61  Identities=49%  Similarity=0.838  Sum_probs=58.3

Q ss_pred             CcCCceeeEEEEECCCCChHHHHHHHHhcCcCcCCCccceeeEeEEEEEEECCeEEEEEEEeC
Q 035301            6 DEEYDYLFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQVTNFSSFTSLHFY   68 (68)
Q Consensus         6 ~~~~~~~~ki~~iG~~~vGKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~~w   68 (68)
                      +...++.||++++||+|||||||+.||+++.|++.|..|+|+||..+++.++++.+  +||+|
T Consensus         3 ~~~~dylFKiiliGds~VGKtCL~~Rf~~~~f~e~~~sTIGVDf~~rt~e~~gk~i--KlQIW   63 (205)
T KOG0084|consen    3 NPEYDYLFKIILIGDSGVGKTCLLLRFKDDTFTESYISTIGVDFKIRTVELDGKTI--KLQIW   63 (205)
T ss_pred             CcccceEEEEEEECCCCcChhhhhhhhccCCcchhhcceeeeEEEEEEeeecceEE--EEEee
Confidence            45688999999999999999999999999999999999999999999999999996  89999

>KOG0080 consensus GTPase Rab18, small G protein superfamily [General function prediction only]

Probab=99.80  E-value=5.9e-19  Score=95.61  Aligned_cols=60  Identities=45%  Similarity=0.698  Sum_probs=56.3

Q ss_pred             cCCceeeEEEEECCCCChHHHHHHHHhcCcCcCCCccceeeEeEEEEEEECCeEEEEEEEeC
Q 035301            7 EEYDYLFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQVTNFSSFTSLHFY   68 (68)
Q Consensus         7 ~~~~~~~ki~~iG~~~vGKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~~w   68 (68)
                      +.+...+|+++||++|||||+|+.+|..+.|.+....|||.||..+.+++++++.  ++.||
T Consensus         6 s~~~~t~KiLlIGeSGVGKSSLllrFv~~~fd~~~~~tIGvDFkvk~m~vdg~~~--KlaiW   65 (209)
T KOG0080|consen    6 SGYDTTFKILLIGESGVGKSSLLLRFVSNTFDDLHPTTIGVDFKVKVMQVDGKRL--KLAIW   65 (209)
T ss_pred             cCcceeEEEEEEccCCccHHHHHHHHHhcccCccCCceeeeeEEEEEEEEcCceE--EEEEE
Confidence            5577889999999999999999999999999998988999999999999999995  88998

>KOG0078 consensus GTP-binding protein SEC4, small G protein superfamily, and related Ras family GTP-binding proteins [Signal transduction mechanisms; Intracellular trafficking, secretion, and vesicular transport]

Probab=99.80  E-value=5.4e-19  Score=98.37  Aligned_cols=64  Identities=45%  Similarity=0.785  Sum_probs=59.0

Q ss_pred             CCCCcCCceeeEEEEECCCCChHHHHHHHHhcCcCcCCCccceeeEeEEEEEEECCeEEEEEEEeC
Q 035301            3 RRADEEYDYLFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQVTNFSSFTSLHFY   68 (68)
Q Consensus         3 ~~~~~~~~~~~ki~~iG~~~vGKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~~w   68 (68)
                      .+...++++.+|++++||++|||||++.+|..+.|...+..|+|+||..+++.+++..+  .+|+|
T Consensus         3 ~~~~~~~d~~~kvlliGDs~vGKt~~l~rf~d~~f~~~~~sTiGIDFk~kti~l~g~~i--~lQiW   66 (207)
T KOG0078|consen    3 AMAKEDYDYLFKLLLIGDSGVGKTCLLLRFSDDSFNTSFISTIGIDFKIKTIELDGKKI--KLQIW   66 (207)
T ss_pred             ccccCCcceEEEEEEECCCCCchhHhhhhhhhccCcCCccceEEEEEEEEEEEeCCeEE--EEEEE
Confidence            34455789999999999999999999999999999999999999999999999999885  88998

>KOG0094 consensus GTPase Rab6/YPT6/Ryh1, small G protein superfamily [Intracellular trafficking, secretion, and vesicular transport]

Probab=99.80  E-value=4e-19  Score=98.35  Aligned_cols=58  Identities=29%  Similarity=0.585  Sum_probs=54.3

Q ss_pred             CceeeEEEEECCCCChHHHHHHHHhcCcCcCCCccceeeEeEEEEEEECCeEEEEEEEeC
Q 035301            9 YDYLFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQVTNFSSFTSLHFY   68 (68)
Q Consensus         9 ~~~~~ki~~iG~~~vGKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~~w   68 (68)
                      +-..+|++++|+.+||||||+.||+.+.|...|.+|||+||.++++.+.+.++  +||+|
T Consensus        19 ~~k~~KlVflGdqsVGKTslItRf~yd~fd~~YqATIGiDFlskt~~l~d~~v--rLQlW   76 (221)
T KOG0094|consen   19 PLKKYKLVFLGDQSVGKTSLITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTV--RLQLW   76 (221)
T ss_pred             cceEEEEEEEccCccchHHHHHHHHHhhhcccccceeeeEEEEEEEEEcCcEE--EEEEE
Confidence            34569999999999999999999999999999999999999999999999985  89999

>KOG0095 consensus GTPase Rab30, small G protein superfamily [Intracellular trafficking, secretion, and vesicular transport]

Probab=99.77  E-value=2.9e-18  Score=92.22  Aligned_cols=60  Identities=42%  Similarity=0.775  Sum_probs=56.7

Q ss_pred             cCCceeeEEEEECCCCChHHHHHHHHhcCcCcCCCccceeeEeEEEEEEECCeEEEEEEEeC
Q 035301            7 EEYDYLFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQVTNFSSFTSLHFY   68 (68)
Q Consensus         7 ~~~~~~~ki~~iG~~~vGKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~~w   68 (68)
                      +++.+.||++++|+.|||||||+++|.++-|+.....|+|++|..++++++|+++  ++|||
T Consensus         2 edykflfkivlvgnagvgktclvrrftqglfppgqgatigvdfmiktvev~geki--klqiw   61 (213)
T KOG0095|consen    2 EDYKFLFKIVLVGNAGVGKTCLVRRFTQGLFPPGQGATIGVDFMIKTVEVNGEKI--KLQIW   61 (213)
T ss_pred             cccceeEEEEEEccCCcCcchhhhhhhccCCCCCCCceeeeeEEEEEEEECCeEE--EEEEe
Confidence            4678899999999999999999999999999988889999999999999999995  89999

>KOG0394 consensus Ras-related GTPase [General function prediction only]

Probab=99.75  E-value=2e-18  Score=94.93  Aligned_cols=59  Identities=37%  Similarity=0.712  Sum_probs=54.5

Q ss_pred             CCceeeEEEEECCCCChHHHHHHHHhcCcCcCCCccceeeEeEEEEEEECCeEEEEEEEeC
Q 035301            8 EYDYLFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQVTNFSSFTSLHFY   68 (68)
Q Consensus         8 ~~~~~~ki~~iG~~~vGKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~~w   68 (68)
                      .....+|++++||+|||||||+++|...+|...|..|||.+|.+|.+.+|++.+  .+|||
T Consensus         5 ~K~~lLKViiLGDsGVGKtSLmn~yv~~kF~~qykaTIgadFltKev~Vd~~~v--tlQiW   63 (210)
T KOG0394|consen    5 RKRTLLKVIILGDSGVGKTSLMNQYVNKKFSQQYKATIGADFLTKEVQVDDRSV--TLQIW   63 (210)
T ss_pred             CcccceEEEEeCCCCccHHHHHHHHHHHHHHHHhccccchhheeeEEEEcCeEE--EEEEE
Confidence            445679999999999999999999999999999999999999999999997775  68998

>KOG0098 consensus GTPase Rab2, small G protein superfamily [Intracellular trafficking, secretion, and vesicular transport]

Probab=99.74  E-value=1.4e-17  Score=91.78  Aligned_cols=58  Identities=47%  Similarity=0.770  Sum_probs=55.5

Q ss_pred             CceeeEEEEECCCCChHHHHHHHHhcCcCcCCCccceeeEeEEEEEEECCeEEEEEEEeC
Q 035301            9 YDYLFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQVTNFSSFTSLHFY   68 (68)
Q Consensus         9 ~~~~~ki~~iG~~~vGKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~~w   68 (68)
                      +.+.+|++++||.|||||+|+.+|+++.|...+..|+|++|..+.+.+|++++  +||+|
T Consensus         3 ~~~~fKyIiiGd~gVGKSclllrf~~krF~~~hd~TiGvefg~r~~~id~k~I--Klqiw   60 (216)
T KOG0098|consen    3 YAYLFKYIIIGDTGVGKSCLLLRFTDKRFQPVHDLTIGVEFGARMVTIDGKQI--KLQIW   60 (216)
T ss_pred             ccceEEEEEECCCCccHHHHHHHHhccCccccccceeeeeeceeEEEEcCceE--EEEEE
Confidence            56789999999999999999999999999999999999999999999999996  89998

>KOG0087 consensus GTPase Rab11/YPT3, small G protein superfamily [Intracellular trafficking, secretion, and vesicular transport]

Probab=99.73  E-value=3.3e-17  Score=91.49  Aligned_cols=63  Identities=71%  Similarity=1.035  Sum_probs=58.9

Q ss_pred             CCCcCCceeeEEEEECCCCChHHHHHHHHhcCcCcCCCccceeeEeEEEEEEECCeEEEEEEEeC
Q 035301            4 RADEEYDYLFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQVTNFSSFTSLHFY   68 (68)
Q Consensus         4 ~~~~~~~~~~ki~~iG~~~vGKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~~w   68 (68)
                      ..+.++++.||+++|||++||||-|+.||..++|..+..+|+|++|.++++.++++.+  +.|||
T Consensus         6 ~~~~~~dylFKiVliGDS~VGKsnLlsRftrnEF~~~SksTIGvef~t~t~~vd~k~v--kaqIW   68 (222)
T KOG0087|consen    6 DKSEEYDYLFKIVLIGDSAVGKSNLLSRFTRNEFSLESKSTIGVEFATRTVNVDGKTV--KAQIW   68 (222)
T ss_pred             CCccccceEEEEEEeCCCccchhHHHHHhcccccCcccccceeEEEEeeceeecCcEE--EEeee
Confidence            3457889999999999999999999999999999999999999999999999999995  88999

>KOG0079 consensus GTP-binding protein H-ray, small G protein superfamily [General function prediction only]

Probab=99.73  E-value=3.5e-18  Score=91.63  Aligned_cols=59  Identities=46%  Similarity=0.781  Sum_probs=55.6

Q ss_pred             CCceeeEEEEECCCCChHHHHHHHHhcCcCcCCCccceeeEeEEEEEEECCeEEEEEEEeC
Q 035301            8 EYDYLFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQVTNFSSFTSLHFY   68 (68)
Q Consensus         8 ~~~~~~ki~~iG~~~vGKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~~w   68 (68)
                      +++..+|+++|||+|||||+|+.+|..+.|..+|..|+|.||..+++.++|.++  +++||
T Consensus         4 ~~dhLfkllIigDsgVGKssLl~rF~ddtFs~sYitTiGvDfkirTv~i~G~~V--kLqIw   62 (198)
T KOG0079|consen    4 DYDHLFKLLIIGDSGVGKSSLLLRFADDTFSGSYITTIGVDFKIRTVDINGDRV--KLQIW   62 (198)
T ss_pred             cHHHHHHHHeecCCcccHHHHHHHHhhcccccceEEEeeeeEEEEEeecCCcEE--EEEEe
Confidence            456789999999999999999999999999999999999999999999999995  89998

>KOG0086 consensus GTPase Rab4, small G protein superfamily [Intracellular trafficking, secretion, and vesicular transport]

Probab=99.70  E-value=3.3e-17  Score=88.40  Aligned_cols=62  Identities=45%  Similarity=0.767  Sum_probs=57.8

Q ss_pred             CCcCCceeeEEEEECCCCChHHHHHHHHhcCcCcCCCccceeeEeEEEEEEECCeEEEEEEEeC
Q 035301            5 ADEEYDYLFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQVTNFSSFTSLHFY   68 (68)
Q Consensus         5 ~~~~~~~~~ki~~iG~~~vGKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~~w   68 (68)
                      ..+.+++.+|++++|++|.|||||+++|..+.|.+....|+|++|.++.+.+.++.+  ++|||
T Consensus         2 msEtYDyLfKfl~iG~aGtGKSCLLh~Fie~kfkDdssHTiGveFgSrIinVGgK~v--KLQIW   63 (214)
T KOG0086|consen    2 MSETYDYLFKFLVIGSAGTGKSCLLHQFIENKFKDDSSHTIGVEFGSRIVNVGGKTV--KLQIW   63 (214)
T ss_pred             cchhhhhhheeEEeccCCCChhHHHHHHHHhhhcccccceeeeeecceeeeecCcEE--EEEEe
Confidence            345789999999999999999999999999999999999999999999999999885  89999

>KOG0093 consensus GTPase Rab3, small G protein superfamily [Intracellular trafficking, secretion, and vesicular transport]

Probab=99.69  E-value=1.3e-16  Score=85.57  Aligned_cols=62  Identities=32%  Similarity=0.700  Sum_probs=56.4

Q ss_pred             CCcCCceeeEEEEECCCCChHHHHHHHHhcCcCcCCCccceeeEeEEEEEEECCeEEEEEEEeC
Q 035301            5 ADEEYDYLFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQVTNFSSFTSLHFY   68 (68)
Q Consensus         5 ~~~~~~~~~ki~~iG~~~vGKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~~w   68 (68)
                      .++..++++|++++|++.||||+++.+++++.|...+..|+|++|..+++.-..++  +++|+|
T Consensus        14 ~dqnFDymfKlliiGnssvGKTSfl~ry~ddSFt~afvsTvGidFKvKTvyr~~kR--iklQiw   75 (193)
T KOG0093|consen   14 IDQNFDYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVYRSDKR--IKLQIW   75 (193)
T ss_pred             ccccccceeeEEEEccCCccchhhhHHhhccccccceeeeeeeeEEEeEeeecccE--EEEEEE
Confidence            34567889999999999999999999999999999999999999999998877777  589998

>PLN03110 Rab GTPase; Provisional

Probab=99.66  E-value=1.6e-15  Score=85.34  Aligned_cols=66  Identities=77%  Similarity=1.161  Sum_probs=57.0

Q ss_pred             CCCCCCcCCceeeEEEEECCCCChHHHHHHHHhcCcCcCCCccceeeEeEEEEEEECCeEEEEEEEeC
Q 035301            1 MARRADEEYDYLFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQVTNFSSFTSLHFY   68 (68)
Q Consensus         1 m~~~~~~~~~~~~ki~~iG~~~vGKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~~w   68 (68)
                      |..+...++++.+|++++|+++||||+|++++.+..+...+.+|++.++..+.+.+++..+  .+++|
T Consensus         1 ~~~~~~~~~~~~~Ki~ivG~~~vGKStLi~~l~~~~~~~~~~~t~g~~~~~~~v~~~~~~~--~l~l~   66 (216)
T PLN03110          1 MAHRVDHEYDYLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTV--KAQIW   66 (216)
T ss_pred             CCCCcccccCceeEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeEEEEEEEEEECCEEE--EEEEE
Confidence            4455666677889999999999999999999999999888899999999889999988764  67776

>KOG0092 consensus GTPase Rab5/YPT51 and related small G protein superfamily GTPases [Intracellular trafficking, secretion, and vesicular transport]

Probab=99.66  E-value=5e-16  Score=85.75  Aligned_cols=57  Identities=42%  Similarity=0.706  Sum_probs=52.9

Q ss_pred             ceeeEEEEECCCCChHHHHHHHHhcCcCcCCCccceeeEeEEEEEEECCeEEEEEEEeC
Q 035301           10 DYLFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQVTNFSSFTSLHFY   68 (68)
Q Consensus        10 ~~~~ki~~iG~~~vGKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~~w   68 (68)
                      ...+|++++|+++||||||+.||..+.|.+...||+|..|.++++.+++..  +++.||
T Consensus         3 ~~~~KvvLLG~~~VGKSSlV~Rfvk~~F~e~~e~TIGaaF~tktv~~~~~~--ikfeIW   59 (200)
T KOG0092|consen    3 TREFKVVLLGDSGVGKSSLVLRFVKDQFHENIEPTIGAAFLTKTVTVDDNT--IKFEIW   59 (200)
T ss_pred             cceEEEEEECCCCCCchhhhhhhhhCccccccccccccEEEEEEEEeCCcE--EEEEEE
Confidence            357999999999999999999999999998889999999999999999986  488888

>cd04128 Spg1 Spg1p

Probab=99.65  E-value=1.2e-15  Score=83.92  Aligned_cols=54  Identities=26%  Similarity=0.586  Sum_probs=49.2

Q ss_pred             eEEEEECCCCChHHHHHHHHhcCcCcCCCccceeeEeEEEEEEECCeEEEEEEEeC
Q 035301           13 FKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQVTNFSSFTSLHFY   68 (68)
Q Consensus        13 ~ki~~iG~~~vGKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~~w   68 (68)
                      +|++++|+++||||||+++++++.|.+.+.||+|.++..+.+.+++..+  .+++|
T Consensus         1 ~Ki~vlG~~~vGKTsLi~~~~~~~f~~~~~~T~g~~~~~~~i~~~~~~~--~l~iw   54 (182)
T cd04128           1 LKIGLLGDAQIGKTSLMVKYVEGEFDEDYIQTLGVNFMEKTISIRGTEI--TFSIW   54 (182)
T ss_pred             CEEEEECCCCCCHHHHHHHHHhCCCCCCCCCccceEEEEEEEEECCEEE--EEEEE
Confidence            5899999999999999999999999988999999999888899998764  77887

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

>cd04172 Rnd3_RhoE_Rho8 Rnd3/RhoE/Rho8 subfamily

Probab=99.65  E-value=1.8e-15  Score=83.45  Aligned_cols=57  Identities=25%  Similarity=0.407  Sum_probs=50.6

Q ss_pred             CceeeEEEEECCCCChHHHHHHHHhcCcCcCCCccceeeEeEEEEEEECCeEEEEEEEeC
Q 035301            9 YDYLFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQVTNFSSFTSLHFY   68 (68)
Q Consensus         9 ~~~~~ki~~iG~~~vGKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~~w   68 (68)
                      +...+|++++|+++||||||+.+++.+.|.+.+.||++.++ .+.+.+++..+  ++++|
T Consensus         2 ~~~~~KivvvGd~~vGKTsli~~~~~~~f~~~~~pT~~~~~-~~~~~~~~~~~--~l~iw   58 (182)
T cd04172           2 QNVKCKIVVVGDSQCGKTALLHVFAKDCFPENYVPTVFENY-TASFEIDTQRI--ELSLW   58 (182)
T ss_pred             CcceEEEEEECCCCCCHHHHHHHHHhCCCCCccCCceeeee-EEEEEECCEEE--EEEEE
Confidence            45678999999999999999999999999999999999877 57788888875  78887

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

>cd04121 Rab40 Rab40 subfamily

Probab=99.64  E-value=3.1e-15  Score=82.96  Aligned_cols=58  Identities=29%  Similarity=0.571  Sum_probs=51.9

Q ss_pred             CceeeEEEEECCCCChHHHHHHHHhcCcCcCCCccceeeEeEEEEEEECCeEEEEEEEeC
Q 035301            9 YDYLFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQVTNFSSFTSLHFY   68 (68)
Q Consensus         9 ~~~~~ki~~iG~~~vGKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~~w   68 (68)
                      .+..+||+++|+.+||||||+.++.++.|.+.+.++++.++..+.+.+++..+  ++++|
T Consensus         3 ~~~~~KivviG~~~vGKTsll~~~~~~~~~~~~~~t~~~~~~~~~i~~~~~~~--~l~iw   60 (189)
T cd04121           3 YDYLLKFLLVGDSDVGKGEILASLQDGSTESPYGYNMGIDYKTTTILLDGRRV--KLQLW   60 (189)
T ss_pred             CCceeEEEEECCCCCCHHHHHHHHHcCCCCCCCCCcceeEEEEEEEEECCEEE--EEEEE
Confidence            45679999999999999999999999999888889999999888899998774  77877

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

>cd04174 Rnd1_Rho6 Rnd1/Rho6 subfamily

Probab=99.62  E-value=6.5e-15  Score=83.98  Aligned_cols=58  Identities=21%  Similarity=0.304  Sum_probs=50.8

Q ss_pred             CCceeeEEEEECCCCChHHHHHHHHhcCcCcCCCccceeeEeEEEEEEECCeEEEEEEEeC
Q 035301            8 EYDYLFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQVTNFSSFTSLHFY   68 (68)
Q Consensus         8 ~~~~~~ki~~iG~~~vGKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~~w   68 (68)
                      .....+||+++|+++||||+|+.+|+++.|.+.|.||++.+| .+.+.+++..+  .++||
T Consensus         9 ~~~~~~KIvvvGd~~VGKTsLi~r~~~~~F~~~y~pTi~~~~-~~~i~~~~~~v--~l~iw   66 (232)
T cd04174           9 PLVMRCKLVLVGDVQCGKTAMLQVLAKDCYPETYVPTVFENY-TAGLETEEQRV--ELSLW   66 (232)
T ss_pred             CceeeEEEEEECCCCCcHHHHHHHHhcCCCCCCcCCceeeee-EEEEEECCEEE--EEEEE
Confidence            334688999999999999999999999999999999999888 46788888875  78888

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.

>cd04131 Rnd Rnd subfamily

Probab=99.62  E-value=4.8e-15  Score=81.38  Aligned_cols=54  Identities=22%  Similarity=0.400  Sum_probs=48.1

Q ss_pred             eeEEEEECCCCChHHHHHHHHhcCcCcCCCccceeeEeEEEEEEECCeEEEEEEEeC
Q 035301           12 LFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQVTNFSSFTSLHFY   68 (68)
Q Consensus        12 ~~ki~~iG~~~vGKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~~w   68 (68)
                      .+|++++|+++||||||+.+++++.|+..+.||++.++ .+.+.+++..+  ++++|
T Consensus         1 ~~Kiv~vG~~~vGKTsli~~~~~~~f~~~~~~t~~~~~-~~~~~~~~~~~--~l~iw   54 (178)
T cd04131           1 RCKIVVVGDVQCGKTALLQVFAKDCYPETYVPTVFENY-TASFEIDEQRI--ELSLW   54 (178)
T ss_pred             CeEEEEECCCCCCHHHHHHHHHhCcCCCCcCCceEEEE-EEEEEECCEEE--EEEEE
Confidence            37999999999999999999999999999999999887 57788888774  78887

The Rnd subfamily contains Rnd1/Rho6, Rnd2/Rho7, and Rnd3/RhoE/Rho8. These novel Rho family proteins have substantial structural differences compared to other Rho members, including N- and C-terminal extensions relative to other Rhos. Rnd3/RhoE is farnesylated at the C-terminal prenylation site, unlike most other Rho proteins that are geranylgeranylated. In addition, Rnd members are unable to hydrolyze GTP and are resistant to GAP activity. They are believed to exist only in the GTP-bound conformation, and are antagonists of RhoA activity. Most Rho proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an aliphatic amino acid and X = any amino acid. Lipid binding is essential for membrane attachment, a key feature of most Rho proteins. Due to the presence of truncated sequences in this CD, the lipid modification site is not available for annotation.

>cd04120 Rab12 Rab12 subfamily

Probab=99.61  E-value=5.3e-15  Score=82.79  Aligned_cols=54  Identities=37%  Similarity=0.779  Sum_probs=49.0

Q ss_pred             eEEEEECCCCChHHHHHHHHhcCcCcCCCccceeeEeEEEEEEECCeEEEEEEEeC
Q 035301           13 FKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQVTNFSSFTSLHFY   68 (68)
Q Consensus        13 ~ki~~iG~~~vGKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~~w   68 (68)
                      +.++++|++|||||||+.+|..+.|.+.+.+|++.+|..+.+.+++..+  ++++|
T Consensus         1 ~~vvvlG~~gVGKTSli~r~~~~~f~~~~~~Ti~~~~~~~~i~~~~~~v--~l~iw   54 (202)
T cd04120           1 LQVIIIGSRGVGKTSLMRRFTDDTFCEACKSGVGVDFKIKTVELRGKKI--RLQIW   54 (202)
T ss_pred             CEEEEECcCCCCHHHHHHHHHhCCCCCcCCCcceeEEEEEEEEECCEEE--EEEEE
Confidence            3689999999999999999999999999999999999889999998774  77887

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

>cd01892 Miro2 Miro2 subfamily

Probab=99.61  E-value=6.3e-15  Score=80.09  Aligned_cols=57  Identities=28%  Similarity=0.387  Sum_probs=49.6

Q ss_pred             ceeeEEEEECCCCChHHHHHHHHhcCcCc-CCCccceeeEeEEEEEEECCeEEEEEEEeC
Q 035301           10 DYLFKVVLIGDSGVGKSNLLSRFTRNEFC-LESKSTIGVEFATRTLQVTNFSSFTSLHFY   68 (68)
Q Consensus        10 ~~~~ki~~iG~~~vGKtsl~~~~~~~~~~-~~~~~t~~~~~~~~~~~~~~~~~~~~l~~w   68 (68)
                      ...+|++++|++|||||||++++.++.|. ..+.||++.++..+.+.+++...  .+.+|
T Consensus         2 ~~~~kv~~vG~~~vGKTsli~~~~~~~f~~~~~~~T~~~~~~~~~~~~~~~~~--~l~~~   59 (169)
T cd01892           2 RNVFLCFVLGAKGSGKSALLRAFLGRSFSLNAYSPTIKPRYAVNTVEVYGQEK--YLILR   59 (169)
T ss_pred             CeEEEEEEECCCCCcHHHHHHHHhCCCCCcccCCCccCcceEEEEEEECCeEE--EEEEE
Confidence            45799999999999999999999999998 88999999998778888888764  45555

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.

>cd04108 Rab36_Rab34 Rab34/Rab36 subfamily

Probab=99.60  E-value=8.9e-15  Score=79.62  Aligned_cols=53  Identities=36%  Similarity=0.673  Sum_probs=48.4

Q ss_pred             EEEEECCCCChHHHHHHHHhcCcCcCCCccceeeEeEEEEEEECCeEEEEEEEeC
Q 035301           14 KVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQVTNFSSFTSLHFY   68 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~~w   68 (68)
                      ||+++|+.+||||+|+++++++.|.++|.||++.++..+.+.+++...  .+++|
T Consensus         2 ki~ivG~~~vGKTsli~~~~~~~f~~~~~~t~~~~~~~~~~~~~~~~~--~l~i~   54 (170)
T cd04108           2 KVIVVGDLSVGKTCLINRFCKDVFDKNYKATIGVDFEMERFEILGVPF--SLQLW   54 (170)
T ss_pred             EEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeeEEEEEEEEECCEEE--EEEEE
Confidence            899999999999999999999999999999999999888888888774  67777

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

>cd01867 Rab8_Rab10_Rab13_like Rab8/Sec4/Ypt2

Probab=99.59  E-value=9.9e-15  Score=78.86  Aligned_cols=57  Identities=49%  Similarity=0.810  Sum_probs=50.6

Q ss_pred             ceeeEEEEECCCCChHHHHHHHHhcCcCcCCCccceeeEeEEEEEEECCeEEEEEEEeC
Q 035301           10 DYLFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQVTNFSSFTSLHFY   68 (68)
Q Consensus        10 ~~~~ki~~iG~~~vGKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~~w   68 (68)
                      ++.+||+++|+++||||||++++.+..|...+.++++.++..+.+.+++..+  .+++|
T Consensus         1 ~~~~ki~vvG~~~~GKSsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~~~~--~l~l~   57 (167)
T cd01867           1 DYLFKLLLIGDSGVGKSCLLLRFSEDSFNPSFISTIGIDFKIRTIELDGKKI--KLQIW   57 (167)
T ss_pred             CcceEEEEECCCCCCHHHHHHHHhhCcCCcccccCccceEEEEEEEECCEEE--EEEEE
Confidence            3568999999999999999999999999999999999999888888888764  66776

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

>cd01875 RhoG RhoG subfamily

Probab=99.59  E-value=1.4e-14  Score=80.16  Aligned_cols=54  Identities=31%  Similarity=0.433  Sum_probs=47.4

Q ss_pred             eeEEEEECCCCChHHHHHHHHhcCcCcCCCccceeeEeEEEEEEECCeEEEEEEEeC
Q 035301           12 LFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQVTNFSSFTSLHFY   68 (68)
Q Consensus        12 ~~ki~~iG~~~vGKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~~w   68 (68)
                      .+|++++|+++||||+|+.++..+.|++.+.||++.++ .+.+.+++..+  ++++|
T Consensus         3 ~~ki~~vG~~~vGKTsli~~~~~~~f~~~~~~t~~~~~-~~~~~~~~~~~--~l~i~   56 (191)
T cd01875           3 SIKCVVVGDGAVGKTCLLICYTTNAFPKEYIPTVFDNY-SAQTAVDGRTV--SLNLW   56 (191)
T ss_pred             cEEEEEECCCCCCHHHHHHHHHhCCCCcCCCCceEeee-EEEEEECCEEE--EEEEE
Confidence            48999999999999999999999999999999999777 46677888774  77887

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=99.59  E-value=1.3e-14  Score=79.75  Aligned_cols=53  Identities=28%  Similarity=0.447  Sum_probs=47.1

Q ss_pred             eEEEEECCCCChHHHHHHHHhcCcCcCCCccceeeEeEEEEEEECCeEEEEEEEeC
Q 035301           13 FKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQVTNFSSFTSLHFY   68 (68)
Q Consensus        13 ~ki~~iG~~~vGKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~~w   68 (68)
                      +|++++|+.+||||+|+.++..+.|.+++.||++..+ .+.+.+++..+  +++||
T Consensus         2 ~kivv~G~~~vGKTsli~~~~~~~f~~~~~~Ti~~~~-~~~~~~~~~~v--~l~i~   54 (176)
T cd04133           2 IKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNF-SANVSVDGNTV--NLGLW   54 (176)
T ss_pred             eEEEEECCCCCcHHHHHHHHhcCCCCCCCCCcceeee-EEEEEECCEEE--EEEEE
Confidence            6999999999999999999999999999999999877 56678888764  78887

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,

>KOG0097 consensus GTPase Rab14, small G protein superfamily [Intracellular trafficking, secretion, and vesicular transport]

Probab=99.59  E-value=6.3e-15  Score=78.92  Aligned_cols=62  Identities=45%  Similarity=0.785  Sum_probs=57.5

Q ss_pred             CCcCCceeeEEEEECCCCChHHHHHHHHhcCcCcCCCccceeeEeEEEEEEECCeEEEEEEEeC
Q 035301            5 ADEEYDYLFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQVTNFSSFTSLHFY   68 (68)
Q Consensus         5 ~~~~~~~~~ki~~iG~~~vGKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~~w   68 (68)
                      .+..+.+.||.++|||-|||||||+++|...+|...-+.|+|++|..+.+++.+.++  +++||
T Consensus         4 ~pynysyifkyiiigdmgvgkscllhqftekkfmadcphtigvefgtriievsgqki--klqiw   65 (215)
T KOG0097|consen    4 APYNYSYIFKYIIIGDMGVGKSCLLHQFTEKKFMADCPHTIGVEFGTRIIEVSGQKI--KLQIW   65 (215)
T ss_pred             CccchhheEEEEEEccccccHHHHHHHHHHHHHhhcCCcccceecceeEEEecCcEE--EEEEe
Confidence            456678899999999999999999999999999988889999999999999999995  89999

>PLN03071 GTP-binding nuclear protein Ran; Provisional

Probab=99.58  E-value=2.1e-14  Score=81.05  Aligned_cols=57  Identities=28%  Similarity=0.402  Sum_probs=50.2

Q ss_pred             ceeeEEEEECCCCChHHHHHHHHhcCcCcCCCccceeeEeEEEEEEECCeEEEEEEEeC
Q 035301           10 DYLFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQVTNFSSFTSLHFY   68 (68)
Q Consensus        10 ~~~~ki~~iG~~~vGKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~~w   68 (68)
                      ...+|++++|++|||||||+++++.+.|...+.+|+|.++....+..++..+  ++++|
T Consensus        11 ~~~~Ki~vvG~~gvGKTsli~~~~~~~f~~~~~~tig~~~~~~~~~~~~~~~--~l~i~   67 (219)
T PLN03071         11 YPSFKLVIVGDGGTGKTTFVKRHLTGEFEKKYEPTIGVEVHPLDFFTNCGKI--RFYCW   67 (219)
T ss_pred             CCceEEEEECcCCCCHHHHHHHHhhCCCCCccCCccceeEEEEEEEECCeEE--EEEEE
Confidence            6689999999999999999999999999999999999998777777777664  67777

>cd04119 RJL RJL (RabJ-Like) subfamily

Probab=99.58  E-value=1.7e-14  Score=77.27  Aligned_cols=54  Identities=31%  Similarity=0.668  Sum_probs=48.6

Q ss_pred             eEEEEECCCCChHHHHHHHHhcCcCcCCCccceeeEeEEEEEEECCeEEEEEEEeC
Q 035301           13 FKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQVTNFSSFTSLHFY   68 (68)
Q Consensus        13 ~ki~~iG~~~vGKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~~w   68 (68)
                      +||+++|+++||||||+++++++.+...+.++++.++..+.+.+++...  .+++|
T Consensus         1 ~ki~~vG~~~vGKTsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~--~l~i~   54 (168)
T cd04119           1 IKVISMGNSGVGKSCIIKRYCEGRFVSKYLPTIGIDYGVKKVSVRNKEV--RVNFF   54 (168)
T ss_pred             CEEEEECCCCCCHHHHHHHHHhCCCCCCCCCccceeEEEEEEEECCeEE--EEEEE
Confidence            5899999999999999999999999999999999999888888888775  66776

RJLs are found in many protists and as chimeras with C-terminal DNAJ domains in deuterostome metazoa. They are not found in plants, fungi, and protostome metazoa, suggesting a horizontal gene transfer between protists and deuterostome metazoa. RJLs lack any known membrane targeting signal and contain a degenerate phosphate/magnesium-binding 3 (PM3) motif, suggesting an impaired ability to hydrolyze GTP. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization.

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

Probab=99.58  E-value=1.3e-14  Score=77.66  Aligned_cols=53  Identities=32%  Similarity=0.609  Sum_probs=48.8

Q ss_pred             EEEEECCCCChHHHHHHHHhcCcCcCCCccceeeEeEEEEEEECCeEEEEEEEeC
Q 035301           14 KVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQVTNFSSFTSLHFY   68 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~~w   68 (68)
                      ||+++|+.+||||+|++++.++.|++.+.+|+|.++..+.+.+++..+  .+++|
T Consensus         1 Ki~vvG~~~vGKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~--~l~i~   53 (162)
T PF00071_consen    1 KIVVVGDSGVGKTSLINRLINGEFPENYIPTIGIDSYSKEVSIDGKPV--NLEIW   53 (162)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHSSTTSSSETTSSEEEEEEEEEETTEEE--EEEEE
T ss_pred             CEEEECCCCCCHHHHHHHHHhhcccccccccccccccccccccccccc--ccccc
Confidence            899999999999999999999999999999999999899999998886  66666

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 ....

>cd04173 Rnd2_Rho7 Rnd2/Rho7 subfamily

Probab=99.58  E-value=1.2e-14  Score=82.41  Aligned_cols=53  Identities=23%  Similarity=0.448  Sum_probs=47.7

Q ss_pred             eEEEEECCCCChHHHHHHHHhcCcCcCCCccceeeEeEEEEEEECCeEEEEEEEeC
Q 035301           13 FKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQVTNFSSFTSLHFY   68 (68)
Q Consensus        13 ~ki~~iG~~~vGKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~~w   68 (68)
                      +||+++|+.+||||+|+.++..+.|++.|.||++.++ ...+.+++..+  +++||
T Consensus         2 ~KIvvvGd~~vGKTsLi~~~~~~~f~~~y~pTi~~~~-~~~~~~~~~~v--~L~iw   54 (222)
T cd04173           2 CKIVVVGDAECGKTALLQVFAKDAYPGSYVPTVFENY-TASFEIDKRRI--ELNMW   54 (222)
T ss_pred             eEEEEECCCCCCHHHHHHHHHcCCCCCccCCccccce-EEEEEECCEEE--EEEEE
Confidence            7999999999999999999999999999999999887 46788888875  77887

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

>cd04117 Rab15 Rab15 subfamily

Probab=99.58  E-value=2.3e-14  Score=77.24  Aligned_cols=54  Identities=48%  Similarity=0.834  Sum_probs=48.3

Q ss_pred             eEEEEECCCCChHHHHHHHHhcCcCcCCCccceeeEeEEEEEEECCeEEEEEEEeC
Q 035301           13 FKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQVTNFSSFTSLHFY   68 (68)
Q Consensus        13 ~ki~~iG~~~vGKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~~w   68 (68)
                      +||+++|++++|||||++++..+.|...+.+|++.++..+.+.+++..+  ++++|
T Consensus         1 ~ki~vvG~~~~GKTsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~--~l~i~   54 (161)
T cd04117           1 FRLLLIGDSGVGKTCLLCRFTDNEFHSSHISTIGVDFKMKTIEVDGIKV--RIQIW   54 (161)
T ss_pred             CEEEEECcCCCCHHHHHHHHhcCCCCCCCCCceeeEEEEEEEEECCEEE--EEEEE
Confidence            5899999999999999999999999988999999998888888888664  67777

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

>cd01874 Cdc42 Cdc42 subfamily

Probab=99.58  E-value=2e-14  Score=78.60  Aligned_cols=53  Identities=30%  Similarity=0.452  Sum_probs=46.6

Q ss_pred             eEEEEECCCCChHHHHHHHHhcCcCcCCCccceeeEeEEEEEEECCeEEEEEEEeC
Q 035301           13 FKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQVTNFSSFTSLHFY   68 (68)
Q Consensus        13 ~ki~~iG~~~vGKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~~w   68 (68)
                      +|++++|+.+||||||+.++..+.|++.+.||++.++ .+.+.++++.+  ++++|
T Consensus         2 ~ki~vvG~~~vGKTsl~~~~~~~~f~~~~~pt~~~~~-~~~~~~~~~~~--~l~i~   54 (175)
T cd01874           2 IKCVVVGDGAVGKTCLLISYTTNKFPSEYVPTVFDNY-AVTVMIGGEPY--TLGLF   54 (175)
T ss_pred             eEEEEECCCCCCHHHHHHHHHcCCCCCCCCCceeeee-EEEEEECCEEE--EEEEE
Confidence            7999999999999999999999999989999999877 45677888774  67777

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

>cd04107 Rab32_Rab38 Rab38/Rab32 subfamily

Probab=99.57  E-value=2e-14  Score=79.84  Aligned_cols=54  Identities=37%  Similarity=0.693  Sum_probs=48.0

Q ss_pred             eEEEEECCCCChHHHHHHHHhcCcCcCCCccceeeEeEEEEEEEC-CeEEEEEEEeC
Q 035301           13 FKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQVT-NFSSFTSLHFY   68 (68)
Q Consensus        13 ~ki~~iG~~~vGKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~-~~~~~~~l~~w   68 (68)
                      +||+++|+++||||||++++.++.|...+.+|++.++..+.+.++ +..+  .+++|
T Consensus         1 ~KivivG~~~vGKTsli~~l~~~~~~~~~~~t~~~d~~~~~v~~~~~~~~--~l~l~   55 (201)
T cd04107           1 LKVLVIGDLGVGKTSIIKRYVHGIFSQHYKATIGVDFALKVIEWDPNTVV--RLQLW   55 (201)
T ss_pred             CEEEEECCCCCCHHHHHHHHHcCCCCCCCCCceeEEEEEEEEEECCCCEE--EEEEE
Confidence            589999999999999999999999998999999999988888888 6664  66776

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.

>cd04110 Rab35 Rab35 subfamily

Probab=99.57  E-value=2.4e-14  Score=79.59  Aligned_cols=58  Identities=48%  Similarity=0.796  Sum_probs=50.4

Q ss_pred             CceeeEEEEECCCCChHHHHHHHHhcCcCcCCCccceeeEeEEEEEEECCeEEEEEEEeC
Q 035301            9 YDYLFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQVTNFSSFTSLHFY   68 (68)
Q Consensus         9 ~~~~~ki~~iG~~~vGKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~~w   68 (68)
                      ++..+||+++|++|||||||++++.+..|...+.+|++.++....+.+++..+  .+.+|
T Consensus         3 ~~~~~kivvvG~~~vGKTsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~--~l~l~   60 (199)
T cd04110           3 YDHLFKLLIIGDSGVGKSSLLLRFADNTFSGSYITTIGVDFKIRTVEINGERV--KLQIW   60 (199)
T ss_pred             CCceeEEEEECCCCCCHHHHHHHHhcCCCCCCcCccccceeEEEEEEECCEEE--EEEEE
Confidence            34579999999999999999999999999888999999999888888888765  56665

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

>cd04122 Rab14 Rab14 subfamily

Probab=99.57  E-value=2.3e-14  Score=77.30  Aligned_cols=55  Identities=45%  Similarity=0.782  Sum_probs=49.1

Q ss_pred             eeEEEEECCCCChHHHHHHHHhcCcCcCCCccceeeEeEEEEEEECCeEEEEEEEeC
Q 035301           12 LFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQVTNFSSFTSLHFY   68 (68)
Q Consensus        12 ~~ki~~iG~~~vGKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~~w   68 (68)
                      .+|++++|+.+||||||++++....|...+.+|++.++..+.+.+++..+  ++++|
T Consensus         2 ~~ki~iiG~~~vGKTsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~--~l~i~   56 (166)
T cd04122           2 IFKYIIIGDMGVGKSCLLHQFTEKKFMADCPHTIGVEFGTRIIEVNGQKI--KLQIW   56 (166)
T ss_pred             ceEEEEECCCCCCHHHHHHHHhcCCCCCCCCcccceeEEEEEEEECCEEE--EEEEE
Confidence            48999999999999999999999999988989999999888888888775  66776

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

>cd01865 Rab3 Rab3 subfamily

Probab=99.57  E-value=3.5e-14  Score=76.57  Aligned_cols=54  Identities=31%  Similarity=0.624  Sum_probs=47.9

Q ss_pred             eEEEEECCCCChHHHHHHHHhcCcCcCCCccceeeEeEEEEEEECCeEEEEEEEeC
Q 035301           13 FKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQVTNFSSFTSLHFY   68 (68)
Q Consensus        13 ~ki~~iG~~~vGKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~~w   68 (68)
                      +|++++|+++||||||++++.++.|...+.+|++.++..+++..++..+  .+++|
T Consensus         2 ~ki~i~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~--~~~l~   55 (165)
T cd01865           2 FKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRNDKRV--KLQIW   55 (165)
T ss_pred             eEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeeEEEEEEEEECCEEE--EEEEE
Confidence            7999999999999999999999999888999999888878888887664  67776

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

>KOG0091 consensus GTPase Rab39, small G protein superfamily [General function prediction only]

Probab=99.56  E-value=1.6e-15  Score=82.57  Aligned_cols=58  Identities=38%  Similarity=0.761  Sum_probs=52.9

Q ss_pred             CceeeEEEEECCCCChHHHHHHHHhcCcCcCCCccceeeEeEEEEEEEC-CeEEEEEEEeC
Q 035301            9 YDYLFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQVT-NFSSFTSLHFY   68 (68)
Q Consensus         9 ~~~~~ki~~iG~~~vGKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~-~~~~~~~l~~w   68 (68)
                      ..+++++++|||+.||||||++.|.+++|.+-.+||+|+||+.+-+++. |.+  +++|+|
T Consensus         5 f~yqfrlivigdstvgkssll~~ft~gkfaelsdptvgvdffarlie~~pg~r--iklqlw   63 (213)
T KOG0091|consen    5 FHYQFRLIVIGDSTVGKSSLLRYFTEGKFAELSDPTVGVDFFARLIELRPGYR--IKLQLW   63 (213)
T ss_pred             eEEEEEEEEEcCCcccHHHHHHHHhcCcccccCCCccchHHHHHHHhcCCCcE--EEEEEe
Confidence            5689999999999999999999999999999999999999999988875 555  589999

>cd04116 Rab9 Rab9 subfamily

Probab=99.55  E-value=9e-14  Score=75.09  Aligned_cols=57  Identities=42%  Similarity=0.720  Sum_probs=50.4

Q ss_pred             ceeeEEEEECCCCChHHHHHHHHhcCcCcCCCccceeeEeEEEEEEECCeEEEEEEEeC
Q 035301           10 DYLFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQVTNFSSFTSLHFY   68 (68)
Q Consensus        10 ~~~~ki~~iG~~~vGKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~~w   68 (68)
                      ...+|++++|+++||||||++++.++.|...+.++++.++..+.+.+++..+  .++||
T Consensus         3 ~~~~ki~vvG~~~~GKTsli~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~l~i~   59 (170)
T cd04116           3 SSLLKVILLGDGGVGKSSLMNRYVTNKFDTQLFHTIGVEFLNKDLEVDGHFV--TLQIW   59 (170)
T ss_pred             ceEEEEEEECCCCCCHHHHHHHHHcCCCCcCcCCceeeEEEEEEEEECCeEE--EEEEE
Confidence            4579999999999999999999999999888889999998888888888875  66776

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

>PLN03108 Rab family protein; Provisional

Probab=99.55  E-value=5.5e-14  Score=78.79  Aligned_cols=58  Identities=47%  Similarity=0.778  Sum_probs=51.1

Q ss_pred             CceeeEEEEECCCCChHHHHHHHHhcCcCcCCCccceeeEeEEEEEEECCeEEEEEEEeC
Q 035301            9 YDYLFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQVTNFSSFTSLHFY   68 (68)
Q Consensus         9 ~~~~~ki~~iG~~~vGKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~~w   68 (68)
                      +++.+||+++|+.++|||||++++.+..|...+.+|++.++..+.+.+++..+  .+++|
T Consensus         3 ~~~~~kivivG~~gvGKStLi~~l~~~~~~~~~~~ti~~~~~~~~i~~~~~~i--~l~l~   60 (210)
T PLN03108          3 YAYLFKYIIIGDTGVGKSCLLLQFTDKRFQPVHDLTIGVEFGARMITIDNKPI--KLQIW   60 (210)
T ss_pred             CCcceEEEEECCCCCCHHHHHHHHHhCCCCCCCCCCccceEEEEEEEECCEEE--EEEEE
Confidence            35679999999999999999999999999888899999999888889988775  56666

>cd04125 RabA_like RabA-like subfamily

Probab=99.54  E-value=6.2e-14  Score=77.07  Aligned_cols=54  Identities=54%  Similarity=0.844  Sum_probs=48.1

Q ss_pred             eEEEEECCCCChHHHHHHHHhcCcCcCCCccceeeEeEEEEEEECCeEEEEEEEeC
Q 035301           13 FKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQVTNFSSFTSLHFY   68 (68)
Q Consensus        13 ~ki~~iG~~~vGKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~~w   68 (68)
                      +||+++|+++||||||++++.++.|...+.+|++.++..+.+.+++..+  .+++|
T Consensus         1 ~ki~v~G~~~vGKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~--~~~i~   54 (188)
T cd04125           1 FKVVIIGDYGVGKSSLLKRFTEDEFSESTKSTIGVDFKIKTVYIENKII--KLQIW   54 (188)
T ss_pred             CEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeeEEEEEEEEECCEEE--EEEEE
Confidence            5899999999999999999999999888999999999888888888764  67776

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.

>cd04102 RabL3 RabL3 (Rab-like3) subfamily

Probab=99.54  E-value=5.7e-14  Score=78.71  Aligned_cols=54  Identities=24%  Similarity=0.416  Sum_probs=47.1

Q ss_pred             eEEEEECCCCChHHHHHHHHhcCcCcCCCccceeeEeEEEEEEEC-----CeEEEEEEEeC
Q 035301           13 FKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQVT-----NFSSFTSLHFY   68 (68)
Q Consensus        13 ~ki~~iG~~~vGKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~-----~~~~~~~l~~w   68 (68)
                      +||+++|+++||||||+++++++.|.+.+.+|+|.++..+.+.++     ++.  +.++||
T Consensus         1 vKIvlvGd~gVGKTSLi~~~~~~~f~~~~~~Tig~~~~~k~~~~~~~~~~~~~--~~l~Iw   59 (202)
T cd04102           1 VRVLVVGDSGVGKSSLVHLICKNQVLGRPSWTVGCSVDVKHHTYKEGTPEEKT--FFVELW   59 (202)
T ss_pred             CEEEEECCCCCCHHHHHHHHHcCCCCCCCCcceeeeEEEEEEEEcCCCCCCcE--EEEEEE
Confidence            589999999999999999999999999999999998888888875     344  477887

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.

>cd04109 Rab28 Rab28 subfamily

Probab=99.54  E-value=6.6e-14  Score=78.62  Aligned_cols=55  Identities=33%  Similarity=0.655  Sum_probs=47.9

Q ss_pred             eEEEEECCCCChHHHHHHHHhcCcCcCCCccceeeEeEEEEEEECCeEEEEEEEeC
Q 035301           13 FKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQVTNFSSFTSLHFY   68 (68)
Q Consensus        13 ~ki~~iG~~~vGKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~~w   68 (68)
                      +|++++|+++||||||++++.++.|...+.+|++.++..+.+.+++... +.+++|
T Consensus         1 ~Ki~ivG~~~vGKSsLi~~l~~~~~~~~~~~T~~~d~~~~~i~~~~~~~-~~~~i~   55 (215)
T cd04109           1 FKIVVLGDGAVGKTSLCRRFAKEGFGKSYKQTIGLDFFSKRVTLPGNLN-VTLQVW   55 (215)
T ss_pred             CEEEEECcCCCCHHHHHHHHhcCCCCCCCCCceeEEEEEEEEEeCCCCE-EEEEEE
Confidence            5899999999999999999999999999999999999888898876421 467777

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

>cd01869 Rab1_Ypt1 Rab1/Ypt1 subfamily

Probab=99.53  E-value=9.4e-14  Score=74.77  Aligned_cols=55  Identities=47%  Similarity=0.761  Sum_probs=48.4

Q ss_pred             eeEEEEECCCCChHHHHHHHHhcCcCcCCCccceeeEeEEEEEEECCeEEEEEEEeC
Q 035301           12 LFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQVTNFSSFTSLHFY   68 (68)
Q Consensus        12 ~~ki~~iG~~~vGKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~~w   68 (68)
                      .+|++++|+++||||+|++++.++.|...+.++++.++..+.+.+++...  .+++|
T Consensus         2 ~~ki~i~G~~~vGKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~--~~~i~   56 (166)
T cd01869           2 LFKLLLIGDSGVGKSCLLLRFADDTYTESYISTIGVDFKIRTIELDGKTI--KLQIW   56 (166)
T ss_pred             eEEEEEECCCCCCHHHHHHHHhcCCCCCCCCCccceeEEEEEEEECCEEE--EEEEE
Confidence            48999999999999999999999999888899999998888888888764  56665

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

>cd04111 Rab39 Rab39 subfamily

Probab=99.53  E-value=8.2e-14  Score=78.22  Aligned_cols=55  Identities=40%  Similarity=0.741  Sum_probs=47.9

Q ss_pred             eeEEEEECCCCChHHHHHHHHhcCcCcCCCccceeeEeEEEEEEEC-CeEEEEEEEeC
Q 035301           12 LFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQVT-NFSSFTSLHFY   68 (68)
Q Consensus        12 ~~ki~~iG~~~vGKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~-~~~~~~~l~~w   68 (68)
                      .+||+++|+++||||+|++++.+..+...+.+|++.++..+.+.+. +..+  .+++|
T Consensus         2 ~~KIvvvG~~~vGKTsLi~~l~~~~~~~~~~~ti~~d~~~~~i~~~~~~~~--~l~i~   57 (211)
T cd04111           2 QFRLIVIGDSTVGKSSLLKRFTEGRFAEVSDPTVGVDFFSRLIEIEPGVRI--KLQLW   57 (211)
T ss_pred             ceEEEEECCCCCCHHHHHHHHHcCCCCCCCCceeceEEEEEEEEECCCCEE--EEEEE
Confidence            5899999999999999999999999988889999999988888874 4443  67776

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.

>PTZ00132 GTP-binding nuclear protein Ran; Provisional

Probab=99.53  E-value=1.1e-13  Score=77.61  Aligned_cols=60  Identities=27%  Similarity=0.398  Sum_probs=50.6

Q ss_pred             cCCceeeEEEEECCCCChHHHHHHHHhcCcCcCCCccceeeEeEEEEEEECCeEEEEEEEeC
Q 035301            7 EEYDYLFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQVTNFSSFTSLHFY   68 (68)
Q Consensus         7 ~~~~~~~ki~~iG~~~vGKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~~w   68 (68)
                      .+....+|++++|++|||||||+++++.+.+...+.+|++.++....+..++..+  .+++|
T Consensus         4 ~~~~~~~kv~liG~~g~GKTtLi~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~i--~i~~~   63 (215)
T PTZ00132          4 MDEVPEFKLILVGDGGVGKTTFVKRHLTGEFEKKYIPTLGVEVHPLKFYTNCGPI--CFNVW   63 (215)
T ss_pred             ccCCCCceEEEECCCCCCHHHHHHHHHhCCCCCCCCCccceEEEEEEEEECCeEE--EEEEE
Confidence            3445569999999999999999999998889889999999999877777777775  56666

>cd01864 Rab19 Rab19 subfamily

Probab=99.53  E-value=1.1e-13  Score=74.46  Aligned_cols=56  Identities=39%  Similarity=0.756  Sum_probs=49.2

Q ss_pred             eeeEEEEECCCCChHHHHHHHHhcCcCcCCCccceeeEeEEEEEEECCeEEEEEEEeC
Q 035301           11 YLFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQVTNFSSFTSLHFY   68 (68)
Q Consensus        11 ~~~ki~~iG~~~vGKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~~w   68 (68)
                      +.+|++++|++|+|||||++++..+.+...+.++.+.++..+.+.+++...  .+++|
T Consensus         2 ~~~kv~vvG~~~~GKTsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~--~l~i~   57 (165)
T cd01864           2 FLFKIILIGDSNVGKTCVVQRFKSGTFSERQGNTIGVDFTMKTLEIEGKRV--KLQIW   57 (165)
T ss_pred             ceeEEEEECCCCCCHHHHHHHHhhCCCcccCCCccceEEEEEEEEECCEEE--EEEEE
Confidence            568999999999999999999999999888889999888888888888764  56666

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.

>cd04127 Rab27A Rab27a subfamily

Probab=99.53  E-value=1.2e-13  Score=75.23  Aligned_cols=48  Identities=38%  Similarity=0.729  Sum_probs=43.3

Q ss_pred             ceeeEEEEECCCCChHHHHHHHHhcCcCcCCCccceeeEeEEEEEEEC
Q 035301           10 DYLFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQVT   57 (68)
Q Consensus        10 ~~~~ki~~iG~~~vGKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~   57 (68)
                      ++.+|++++|+++||||||++++.+..|...+.+|++.++..+.+.+.
T Consensus         2 ~~~~ki~ivG~~~vGKTsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~   49 (180)
T cd04127           2 DYLIKFLALGDSGVGKTSFLYQYTDNKFNPKFITTVGIDFREKRVVYN   49 (180)
T ss_pred             CceEEEEEECCCCCCHHHHHHHHhcCCCCccCCCccceEEEEEEEEEc
Confidence            467999999999999999999999999999999999999877777665

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

>cd01868 Rab11_like Rab11-like

Probab=99.53  E-value=1.2e-13  Score=74.20  Aligned_cols=56  Identities=71%  Similarity=1.074  Sum_probs=49.2

Q ss_pred             eeeEEEEECCCCChHHHHHHHHhcCcCcCCCccceeeEeEEEEEEECCeEEEEEEEeC
Q 035301           11 YLFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQVTNFSSFTSLHFY   68 (68)
Q Consensus        11 ~~~ki~~iG~~~vGKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~~w   68 (68)
                      +.+|++++|+++||||+|++++.+..+...+.++++.++..+.+..++...  ++++|
T Consensus         2 ~~~ki~vvG~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~--~~~l~   57 (165)
T cd01868           2 YLFKIVLIGDSGVGKSNLLSRFTRNEFNLDSKSTIGVEFATRSIQIDGKTI--KAQIW   57 (165)
T ss_pred             CceEEEEECCCCCCHHHHHHHHhcCCCCCCCCCccceEEEEEEEEECCEEE--EEEEE
Confidence            458999999999999999999999999888889999999888888888764  56665

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

>cd01866 Rab2 Rab2 subfamily

Probab=99.52  E-value=1.4e-13  Score=74.43  Aligned_cols=57  Identities=44%  Similarity=0.725  Sum_probs=49.9

Q ss_pred             ceeeEEEEECCCCChHHHHHHHHhcCcCcCCCccceeeEeEEEEEEECCeEEEEEEEeC
Q 035301           10 DYLFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQVTNFSSFTSLHFY   68 (68)
Q Consensus        10 ~~~~ki~~iG~~~vGKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~~w   68 (68)
                      ++.+||+++|+++||||+|++++.+..+...+.++.+.++....+.+++...  .+.+|
T Consensus         2 ~~~~ki~vvG~~~vGKSsLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~--~~~i~   58 (168)
T cd01866           2 AYLFKYIIIGDTGVGKSCLLLQFTDKRFQPVHDLTIGVEFGARMITIDGKQI--KLQIW   58 (168)
T ss_pred             CcceEEEEECCCCCCHHHHHHHHHcCCCCCCCCCccceeEEEEEEEECCEEE--EEEEE
Confidence            4679999999999999999999999999888889999998888888888764  56666

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

>cd04115 Rab33B_Rab33A Rab33B/Rab33A subfamily

Probab=99.52  E-value=1.4e-13  Score=74.65  Aligned_cols=55  Identities=36%  Similarity=0.681  Sum_probs=49.0

Q ss_pred             eeEEEEECCCCChHHHHHHHHhcCcCcCCCccceeeEeEEEEEEECCeEEEEEEEeC
Q 035301           12 LFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQVTNFSSFTSLHFY   68 (68)
Q Consensus        12 ~~ki~~iG~~~vGKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~~w   68 (68)
                      .+||+++|++|||||+|++++....++..+.++++.++..+.+.+++..+  .+++|
T Consensus         2 ~~ki~vvG~~~vGKTsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~--~~~i~   56 (170)
T cd04115           2 IFKIIVIGDSNVGKTCLTYRFCAGRFPERTEATIGVDFRERTVEIDGERI--KVQLW   56 (170)
T ss_pred             ceEEEEECCCCCCHHHHHHHHHhCCCCCccccceeEEEEEEEEEECCeEE--EEEEE
Confidence            47999999999999999999999999888999999999888888988775  56666

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

>cd04141 Rit_Rin_Ric Rit/Rin/Ric subfamily

Probab=99.52  E-value=9.8e-14  Score=75.65  Aligned_cols=54  Identities=26%  Similarity=0.431  Sum_probs=46.5

Q ss_pred             eeEEEEECCCCChHHHHHHHHhcCcCcCCCccceeeEeEEEEEEECCeEEEEEEEeC
Q 035301           12 LFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQVTNFSSFTSLHFY   68 (68)
Q Consensus        12 ~~ki~~iG~~~vGKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~~w   68 (68)
                      .+||+++|+.|||||||+.++..+.|+..+.||++..+ .+.+.+++..+  .+++|
T Consensus         2 ~~ki~vvG~~~vGKTsL~~~~~~~~f~~~~~~t~~~~~-~~~~~~~~~~~--~l~i~   55 (172)
T cd04141           2 EYKIVMLGAGGVGKSAVTMQFISHSFPDYHDPTIEDAY-KQQARIDNEPA--LLDIL   55 (172)
T ss_pred             ceEEEEECCCCCcHHHHHHHHHhCCCCCCcCCcccceE-EEEEEECCEEE--EEEEE
Confidence            47999999999999999999999999988999998767 56678888775  56666

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

>cd04118 Rab24 Rab24 subfamily

Probab=99.52  E-value=1.3e-13  Score=75.95  Aligned_cols=54  Identities=30%  Similarity=0.594  Sum_probs=47.3

Q ss_pred             eEEEEECCCCChHHHHHHHHhcCcCcC-CCccceeeEeEEEEEEECCeEEEEEEEeC
Q 035301           13 FKVVLIGDSGVGKSNLLSRFTRNEFCL-ESKSTIGVEFATRTLQVTNFSSFTSLHFY   68 (68)
Q Consensus        13 ~ki~~iG~~~vGKtsl~~~~~~~~~~~-~~~~t~~~~~~~~~~~~~~~~~~~~l~~w   68 (68)
                      +||+++|+++||||||+++++.+.|.. .+.+|++.++..+.+.+++..+  .+++|
T Consensus         1 ~ki~vvG~~~vGKSsLi~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~--~l~i~   55 (193)
T cd04118           1 VKVVMLGKESVGKTSLVERYVHHRFLVGPYQNTIGAAFVAKRMVVGERVV--TLGIW   55 (193)
T ss_pred             CEEEEECCCCCCHHHHHHHHHhCCcCCcCcccceeeEEEEEEEEECCEEE--EEEEE
Confidence            489999999999999999999998874 6889999999888899998875  66776

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

>PLN00023 GTP-binding protein; Provisional

Probab=99.52  E-value=1e-13  Score=82.24  Aligned_cols=60  Identities=22%  Similarity=0.295  Sum_probs=50.5

Q ss_pred             CceeeEEEEECCCCChHHHHHHHHhcCcCcCCCccceeeEeEEEEEEECCe-----------EEEEEEEeC
Q 035301            9 YDYLFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQVTNF-----------SSFTSLHFY   68 (68)
Q Consensus         9 ~~~~~ki~~iG~~~vGKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~-----------~~~~~l~~w   68 (68)
                      +...+||+++|++|||||||+++++++.|...+.+|+|.++..+.+.+++.           ...+.++||
T Consensus        18 ~~~~iKIVLLGdsGVGKTSLI~rf~~g~F~~~~~pTIG~d~~ik~I~~~~~~~~~~~ik~d~~k~v~LqIW   88 (334)
T PLN00023         18 PCGQVRVLVVGDSGVGKSSLVHLIVKGSSIARPPQTIGCTVGVKHITYGSPGSSSNSIKGDSERDFFVELW   88 (334)
T ss_pred             CccceEEEEECCCCCcHHHHHHHHhcCCcccccCCceeeeEEEEEEEECCcccccccccccCCceEEEEEE
Confidence            455799999999999999999999999999889999999998888887641           123578888

>cd04106 Rab23_lke Rab23-like subfamily

Probab=99.51  E-value=1.7e-13  Score=73.32  Aligned_cols=54  Identities=31%  Similarity=0.647  Sum_probs=47.0

Q ss_pred             eEEEEECCCCChHHHHHHHHhcCcCcCCCccceeeEeEEEEEEEC--CeEEEEEEEeC
Q 035301           13 FKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQVT--NFSSFTSLHFY   68 (68)
Q Consensus        13 ~ki~~iG~~~vGKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~--~~~~~~~l~~w   68 (68)
                      +||+++|++++|||||++++.++.|...+.+|++.++..+.+.++  +..  +++++|
T Consensus         1 ~kv~~vG~~~~GKTsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~--~~~~i~   56 (162)
T cd04106           1 IKVIVVGNGNVGKSSMIQRFVKGIFTKDYKKTIGVDFLEKQIFLRQSDED--VRLMLW   56 (162)
T ss_pred             CEEEEECCCCCCHHHHHHHHhcCCCCCCCCCcEEEEEEEEEEEEcCCCCE--EEEEEe
Confidence            489999999999999999999999998899999999977888887  444  467777

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

>cd04142 RRP22 RRP22 subfamily

Probab=99.51  E-value=9.8e-14  Score=77.36  Aligned_cols=54  Identities=24%  Similarity=0.375  Sum_probs=46.6

Q ss_pred             eEEEEECCCCChHHHHHHHHhcCcCcCCCccceeeEeEEEEEEECCeEEEEEEEeC
Q 035301           13 FKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQVTNFSSFTSLHFY   68 (68)
Q Consensus        13 ~ki~~iG~~~vGKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~~w   68 (68)
                      +||+++|+++||||||++++.++.|+..+.||.+.++..+.+.+++..+  ++++|
T Consensus         1 ~kI~ivG~~~vGKTsLi~~~~~~~f~~~~~pt~~~~~~~~~i~~~~~~~--~l~i~   54 (198)
T cd04142           1 VRVAVLGAPGVGKTAIVRQFLAQEFPEEYIPTEHRRLYRPAVVLSGRVY--DLHIL   54 (198)
T ss_pred             CEEEEECCCCCcHHHHHHHHHcCCCCcccCCccccccceeEEEECCEEE--EEEEE
Confidence            5899999999999999999999999988999998777667778888764  56666

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.

>cd04113 Rab4 Rab4 subfamily

Probab=99.50  E-value=2.4e-13  Score=72.79  Aligned_cols=54  Identities=44%  Similarity=0.759  Sum_probs=47.9

Q ss_pred             eEEEEECCCCChHHHHHHHHhcCcCcCCCccceeeEeEEEEEEECCeEEEEEEEeC
Q 035301           13 FKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQVTNFSSFTSLHFY   68 (68)
Q Consensus        13 ~ki~~iG~~~vGKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~~w   68 (68)
                      +|++++|+++||||||++++.+..+...+.++++.++..+.+.+++...  ++++|
T Consensus         1 ~ki~v~G~~~vGKTsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~l~l~   54 (161)
T cd04113           1 FKFIIIGSSGTGKSCLLHRFVENKFKEDSQHTIGVEFGSKIIRVGGKRV--KLQIW   54 (161)
T ss_pred             CEEEEECCCCCCHHHHHHHHHhCCCCCCCCCceeeeEEEEEEEECCEEE--EEEEE
Confidence            5899999999999999999999999888899999999888888887664  67776

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

>cd04136 Rap_like Rap-like subfamily

Probab=99.50  E-value=1.4e-13  Score=73.60  Aligned_cols=53  Identities=30%  Similarity=0.460  Sum_probs=45.0

Q ss_pred             eEEEEECCCCChHHHHHHHHhcCcCcCCCccceeeEeEEEEEEECCeEEEEEEEeC
Q 035301           13 FKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQVTNFSSFTSLHFY   68 (68)
Q Consensus        13 ~ki~~iG~~~vGKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~~w   68 (68)
                      +|++++|+.+||||||+++++.+.|.+.+.||++. +..+.+.+++...  .+++|
T Consensus         2 ~ki~i~G~~~vGKTsl~~~~~~~~~~~~~~~t~~~-~~~~~~~~~~~~~--~l~i~   54 (163)
T cd04136           2 YKVVVLGSGGVGKSALTVQFVQGIFVEKYDPTIED-SYRKQIEVDGQQC--MLEIL   54 (163)
T ss_pred             eEEEEECCCCCCHHHHHHHHHhCCCCcccCCchhh-hEEEEEEECCEEE--EEEEE
Confidence            79999999999999999999999998889999874 4467788888764  56666

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.

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

Probab=99.49  E-value=2.1e-13  Score=72.64  Aligned_cols=53  Identities=28%  Similarity=0.487  Sum_probs=44.8

Q ss_pred             eEEEEECCCCChHHHHHHHHhcCcCcCCCccceeeEeEEEEEEECCeEEEEEEEeC
Q 035301           13 FKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQVTNFSSFTSLHFY   68 (68)
Q Consensus        13 ~ki~~iG~~~vGKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~~w   68 (68)
                      +||+++|++|||||||++++.++.|...+.+|.+..+ .+.+.+++...  .+++|
T Consensus         2 ~ki~iiG~~~vGKTsl~~~~~~~~~~~~~~~t~~~~~-~~~~~~~~~~~--~~~i~   54 (162)
T cd04138           2 YKLVVVGAGGVGKSALTIQLIQNHFVDEYDPTIEDSY-RKQVVIDGETC--LLDIL   54 (162)
T ss_pred             eEEEEECCCCCCHHHHHHHHHhCCCcCCcCCcchheE-EEEEEECCEEE--EEEEE
Confidence            7999999999999999999999999888999988666 56777887764  45555

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.

>PTZ00369 Ras-like protein; Provisional

Probab=99.49  E-value=1.9e-13  Score=75.35  Aligned_cols=54  Identities=30%  Similarity=0.470  Sum_probs=47.3

Q ss_pred             eeEEEEECCCCChHHHHHHHHhcCcCcCCCccceeeEeEEEEEEECCeEEEEEEEeC
Q 035301           12 LFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQVTNFSSFTSLHFY   68 (68)
Q Consensus        12 ~~ki~~iG~~~vGKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~~w   68 (68)
                      .+|++++|+++||||||++++.++.|...+.+|++..+ .+.+.+++..+  .+++|
T Consensus         5 ~~Ki~iiG~~~~GKTsLi~~~~~~~~~~~~~~t~~~~~-~~~~~~~~~~~--~l~i~   58 (189)
T PTZ00369          5 EYKLVVVGGGGVGKSALTIQFIQNHFIDEYDPTIEDSY-RKQCVIDEETC--LLDIL   58 (189)
T ss_pred             ceEEEEECCCCCCHHHHHHHHhcCCCCcCcCCchhhEE-EEEEEECCEEE--EEEEE
Confidence            58999999999999999999999999888999998777 67788888775  66666

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

Probab=99.49  E-value=2.9e-13  Score=73.34  Aligned_cols=54  Identities=30%  Similarity=0.523  Sum_probs=46.1

Q ss_pred             eEEEEECCCCChHHHHHHHHhcCcCcCCCccceeeEeEEEEEEECCeEEEEEEEeC
Q 035301           13 FKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQVTNFSSFTSLHFY   68 (68)
Q Consensus        13 ~ki~~iG~~~vGKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~~w   68 (68)
                      +|++++|+++||||||++++..+.+...+.+|++.++....+..++..+  .+.+|
T Consensus         1 ~ki~vvG~~~vGKTsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~--~l~i~   54 (166)
T cd00877           1 FKLVLVGDGGTGKTTFVKRHLTGEFEKKYVATLGVEVHPLDFHTNRGKI--RFNVW   54 (166)
T ss_pred             CEEEEECCCCCCHHHHHHHHHhCCCCCCCCCceeeEEEEEEEEECCEEE--EEEEE
Confidence            5899999999999999999999998888999999888777777666654  66666

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

>cd04124 RabL2 RabL2 subfamily

Probab=99.49  E-value=3.6e-13  Score=72.47  Aligned_cols=54  Identities=28%  Similarity=0.480  Sum_probs=46.3

Q ss_pred             eEEEEECCCCChHHHHHHHHhcCcCcCCCccceeeEeEEEEEEECCeEEEEEEEeC
Q 035301           13 FKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQVTNFSSFTSLHFY   68 (68)
Q Consensus        13 ~ki~~iG~~~vGKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~~w   68 (68)
                      +||+++|+++||||||++++..+.|.+.+.++.+.++..+.+.+++..+  .+++|
T Consensus         1 ~ki~vvG~~~vGKTsli~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~i~   54 (161)
T cd04124           1 VKIILLGDSAVGKSKLVERFLMDGYEPQQLSTYALTLYKHNAKFEGKTI--LVDFW   54 (161)
T ss_pred             CEEEEECCCCCCHHHHHHHHHhCCCCCCcCCceeeEEEEEEEEECCEEE--EEEEE
Confidence            5899999999999999999999999888888888887777778887764  66776

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

>cd01871 Rac1_like Rac1-like subfamily

Probab=99.48  E-value=3.4e-13  Score=73.68  Aligned_cols=53  Identities=30%  Similarity=0.438  Sum_probs=45.5

Q ss_pred             eEEEEECCCCChHHHHHHHHhcCcCcCCCccceeeEeEEEEEEECCeEEEEEEEeC
Q 035301           13 FKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQVTNFSSFTSLHFY   68 (68)
Q Consensus        13 ~ki~~iG~~~vGKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~~w   68 (68)
                      +|++++|+.+||||+|+.++..+.|.+++.||++..+ ...+.+++..+  +++||
T Consensus         2 ~ki~iiG~~~vGKSsli~~~~~~~f~~~~~~t~~~~~-~~~~~~~~~~~--~l~i~   54 (174)
T cd01871           2 IKCVVVGDGAVGKTCLLISYTTNAFPGEYIPTVFDNY-SANVMVDGKPV--NLGLW   54 (174)
T ss_pred             eEEEEECCCCCCHHHHHHHHhcCCCCCcCCCcceeee-EEEEEECCEEE--EEEEE
Confidence            6999999999999999999999999999999997555 56777887764  67777

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

>cd04143 Rhes_like Rhes_like subfamily

Probab=99.47  E-value=1.9e-13  Score=78.48  Aligned_cols=53  Identities=26%  Similarity=0.478  Sum_probs=46.2

Q ss_pred             eEEEEECCCCChHHHHHHHHhcCcCcCCCccceeeEeEEEEEEECCeEEEEEEEeC
Q 035301           13 FKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQVTNFSSFTSLHFY   68 (68)
Q Consensus        13 ~ki~~iG~~~vGKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~~w   68 (68)
                      +||+++|+.+||||||+++++++.|...+.+|++ ++..+.+.++++.+  .++||
T Consensus         1 ~KVvvlG~~gvGKTSLi~r~~~~~f~~~y~pTi~-d~~~k~~~i~~~~~--~l~I~   53 (247)
T cd04143           1 YRMVVLGASKVGKTAIVSRFLGGRFEEQYTPTIE-DFHRKLYSIRGEVY--QLDIL   53 (247)
T ss_pred             CEEEEECcCCCCHHHHHHHHHcCCCCCCCCCChh-HhEEEEEEECCEEE--EEEEE
Confidence            5899999999999999999999999988999997 56678888888775  67777

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

>cd04134 Rho3 Rho3 subfamily

Probab=99.47  E-value=3.6e-13  Score=74.28  Aligned_cols=53  Identities=30%  Similarity=0.466  Sum_probs=45.3

Q ss_pred             eEEEEECCCCChHHHHHHHHhcCcCcCCCccceeeEeEEEEEEECCeEEEEEEEeC
Q 035301           13 FKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQVTNFSSFTSLHFY   68 (68)
Q Consensus        13 ~ki~~iG~~~vGKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~~w   68 (68)
                      .|++++|++|||||||++++.++.|+..+.||++.++ .+.+.+++...  .++||
T Consensus         1 ~kivivG~~~vGKTsli~~~~~~~~~~~~~~t~~~~~-~~~i~~~~~~~--~l~i~   53 (189)
T cd04134           1 RKVVVLGDGACGKTSLLNVFTRGYFPQVYEPTVFENY-VHDIFVDGLHI--ELSLW   53 (189)
T ss_pred             CEEEEECCCCCCHHHHHHHHhcCCCCCccCCcceeee-EEEEEECCEEE--EEEEE
Confidence            3899999999999999999999999998999998877 46677787664  66766

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.

>cd04176 Rap2 Rap2 subgroup

Probab=99.47  E-value=3.2e-13  Score=72.44  Aligned_cols=54  Identities=33%  Similarity=0.546  Sum_probs=45.8

Q ss_pred             eeEEEEECCCCChHHHHHHHHhcCcCcCCCccceeeEeEEEEEEECCeEEEEEEEeC
Q 035301           12 LFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQVTNFSSFTSLHFY   68 (68)
Q Consensus        12 ~~ki~~iG~~~vGKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~~w   68 (68)
                      .+|++++|++|||||||+++++.+.+.+.+.+|++ ++..+.+.+++...  .+++|
T Consensus         1 ~~ki~i~G~~~vGKTsl~~~~~~~~~~~~~~~t~~-~~~~~~~~~~~~~~--~l~i~   54 (163)
T cd04176           1 EYKVVVLGSGGVGKSALTVQFVSGTFIEKYDPTIE-DFYRKEIEVDSSPS--VLEIL   54 (163)
T ss_pred             CeEEEEECCCCCCHHHHHHHHHcCCCCCCCCCchh-heEEEEEEECCEEE--EEEEE
Confidence            37999999999999999999999999988888886 45567888888764  56776

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

>cd01860 Rab5_related Rab5-related subfamily

Probab=99.47  E-value=5.6e-13  Score=71.33  Aligned_cols=55  Identities=44%  Similarity=0.745  Sum_probs=48.3

Q ss_pred             eeEEEEECCCCChHHHHHHHHhcCcCcCCCccceeeEeEEEEEEECCeEEEEEEEeC
Q 035301           12 LFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQVTNFSSFTSLHFY   68 (68)
Q Consensus        12 ~~ki~~iG~~~vGKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~~w   68 (68)
                      .+|++++|++++|||+|++++.++.+...+.++.+.++..+.+.+++...  ++.+|
T Consensus         1 ~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~v~~~~~~~--~~~i~   55 (163)
T cd01860           1 QFKLVLLGDSSVGKSSLVLRFVKNEFSENQESTIGAAFLTQTVNLDDTTV--KFEIW   55 (163)
T ss_pred             CeEEEEECCCCCCHHHHHHHHHcCCCCCCCCCccceeEEEEEEEECCEEE--EEEEE
Confidence            37999999999999999999999999887889999888888999988764  56665

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

>cd01861 Rab6 Rab6 subfamily

Probab=99.46  E-value=6.8e-13  Score=70.88  Aligned_cols=54  Identities=30%  Similarity=0.661  Sum_probs=47.8

Q ss_pred             eEEEEECCCCChHHHHHHHHhcCcCcCCCccceeeEeEEEEEEECCeEEEEEEEeC
Q 035301           13 FKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQVTNFSSFTSLHFY   68 (68)
Q Consensus        13 ~ki~~iG~~~vGKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~~w   68 (68)
                      +|++++|+++||||||++++.+..+...+.++.+.++..+.+.+++...  .+++|
T Consensus         1 ~ki~liG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~l~~~   54 (161)
T cd01861           1 HKLVFLGDQSVGKTSIITRFMYDTFDNQYQATIGIDFLSKTMYLEDKTV--RLQLW   54 (161)
T ss_pred             CEEEEECCCCCCHHHHHHHHHcCCCCccCCCceeeeEEEEEEEECCEEE--EEEEE
Confidence            4899999999999999999999999888899999999888898888664  56666

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

>cd04101 RabL4 RabL4 (Rab-like4) subfamily

Probab=99.46  E-value=7.2e-13  Score=71.05  Aligned_cols=54  Identities=24%  Similarity=0.490  Sum_probs=45.2

Q ss_pred             eEEEEECCCCChHHHHHHHHhcC--cCcCCCccceeeEeEEEEEEECC-eEEEEEEEeC
Q 035301           13 FKVVLIGDSGVGKSNLLSRFTRN--EFCLESKSTIGVEFATRTLQVTN-FSSFTSLHFY   68 (68)
Q Consensus        13 ~ki~~iG~~~vGKtsl~~~~~~~--~~~~~~~~t~~~~~~~~~~~~~~-~~~~~~l~~w   68 (68)
                      +||+++|+++||||||++++..+  .|+..+.+|+|.++..+.+.+++ ..  +++.+|
T Consensus         1 ~ki~vvG~~~~GKtsl~~~l~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~--~~l~i~   57 (164)
T cd04101           1 LRCAVVGDPAVGKTAFVQMFHSNGAVFPKNYLMTTGCDFVVKEVPVDTDNT--VELFIF   57 (164)
T ss_pred             CEEEEECCCCCCHHHHHHHHhcCCCCcCccCCCceEEEEEEEEEEeCCCCE--EEEEEE
Confidence            58999999999999999999865  68888999999998778887763 34  467776

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.

>cd04175 Rap1 Rap1 subgroup

Probab=99.45  E-value=6e-13  Score=71.50  Aligned_cols=53  Identities=28%  Similarity=0.508  Sum_probs=45.4

Q ss_pred             eEEEEECCCCChHHHHHHHHhcCcCcCCCccceeeEeEEEEEEECCeEEEEEEEeC
Q 035301           13 FKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQVTNFSSFTSLHFY   68 (68)
Q Consensus        13 ~ki~~iG~~~vGKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~~w   68 (68)
                      +||+++|+++||||||+++++.+.+.+.+.+|++..+ .+.+.+++..+  .+++|
T Consensus         2 ~ki~~~G~~~~GKTsli~~~~~~~~~~~~~~t~~~~~-~~~~~~~~~~~--~l~i~   54 (164)
T cd04175           2 YKLVVLGSGGVGKSALTVQFVQGIFVEKYDPTIEDSY-RKQVEVDGQQC--MLEIL   54 (164)
T ss_pred             cEEEEECCCCCCHHHHHHHHHhCCCCcccCCcchheE-EEEEEECCEEE--EEEEE
Confidence            7999999999999999999999989888889998766 57788887764  56666

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

>cd01862 Rab7 Rab7 subfamily

Probab=99.45  E-value=9.1e-13  Score=70.97  Aligned_cols=54  Identities=35%  Similarity=0.725  Sum_probs=47.1

Q ss_pred             eEEEEECCCCChHHHHHHHHhcCcCcCCCccceeeEeEEEEEEECCeEEEEEEEeC
Q 035301           13 FKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQVTNFSSFTSLHFY   68 (68)
Q Consensus        13 ~ki~~iG~~~vGKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~~w   68 (68)
                      +||+++|++++|||||++++.+..+...+.++++.++..+.+.+++..+  .+++|
T Consensus         1 ~ki~viG~~~~GKSsl~~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~--~~~~~   54 (172)
T cd01862           1 LKVIILGDSGVGKTSLMNQYVNKKFSNQYKATIGADFLTKEVTVDDKLV--TLQIW   54 (172)
T ss_pred             CEEEEECCCCCCHHHHHHHHhcCCCCcCcCCccceEEEEEEEEECCEEE--EEEEE
Confidence            5899999999999999999999998888889999888888888888764  56665

Rab7 is a small Rab GTPase that regulates vesicular traffic from early to late endosomal stages of the endocytic pathway. The yeast Ypt7 and mammalian Rab7 are both involved in transport to the vacuole/lysosome, whereas Ypt7 is also required for homotypic vacuole fusion. Mammalian Rab7 is an essential participant in the autophagic pathway for sequestration and targeting of cytoplasmic components to the lytic compartment. Mammalian Rab7 is also proposed to function as a tumor suppressor. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-

>PLN03118 Rab family protein; Provisional

Probab=99.45  E-value=1.3e-12  Score=73.07  Aligned_cols=60  Identities=42%  Similarity=0.664  Sum_probs=49.5

Q ss_pred             CcCCceeeEEEEECCCCChHHHHHHHHhcCcCcCCCccceeeEeEEEEEEECCeEEEEEEEeC
Q 035301            6 DEEYDYLFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQVTNFSSFTSLHFY   68 (68)
Q Consensus         6 ~~~~~~~~ki~~iG~~~vGKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~~w   68 (68)
                      +...+..+||+++|+.+||||||++++++..+. .+.++.+.++....+.+++..+  .+++|
T Consensus         8 ~~~~~~~~kv~ivG~~~vGKTsli~~l~~~~~~-~~~~t~~~~~~~~~~~~~~~~~--~l~l~   67 (211)
T PLN03118          8 SSGYDLSFKILLIGDSGVGKSSLLVSFISSSVE-DLAPTIGVDFKIKQLTVGGKRL--KLTIW   67 (211)
T ss_pred             ccccCcceEEEEECcCCCCHHHHHHHHHhCCCC-CcCCCceeEEEEEEEEECCEEE--EEEEE
Confidence            345567899999999999999999999988774 6778999888888888888764  56665

>smart00175 RAB Rab subfamily of small GTPases

Probab=99.44  E-value=1.3e-12  Score=69.85  Aligned_cols=54  Identities=56%  Similarity=0.887  Sum_probs=47.3

Q ss_pred             eEEEEECCCCChHHHHHHHHhcCcCcCCCccceeeEeEEEEEEECCeEEEEEEEeC
Q 035301           13 FKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQVTNFSSFTSLHFY   68 (68)
Q Consensus        13 ~ki~~iG~~~vGKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~~w   68 (68)
                      +|++++|++++|||||++++.+..+...+.++++.++....+.+++...  .+++|
T Consensus         1 ~kv~v~G~~~~GKTtli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~l~   54 (164)
T smart00175        1 FKIILIGDSGVGKSSLLSRFTDGKFSEQYKSTIGVDFKTKTIEVDGKRV--KLQIW   54 (164)
T ss_pred             CEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeeEEEEEEEEECCEEE--EEEEE
Confidence            5899999999999999999999998888889999998888888888765  55665

Rab GTPases are implicated in vesicle trafficking.

>KOG0081 consensus GTPase Rab27, small G protein superfamily [Intracellular trafficking, secretion, and vesicular transport]

Probab=99.44  E-value=3.1e-15  Score=81.27  Aligned_cols=64  Identities=33%  Similarity=0.648  Sum_probs=55.5

Q ss_pred             CCcCCceeeEEEEECCCCChHHHHHHHHhcCcCcCCCccceeeEeEEEEEEECC-------eEEEEEEEeC
Q 035301            5 ADEEYDYLFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQVTN-------FSSFTSLHFY   68 (68)
Q Consensus         5 ~~~~~~~~~ki~~iG~~~vGKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~-------~~~~~~l~~w   68 (68)
                      .+.++++.+|.+.+||+|||||+++.++..+.|......|+|+||..|.+.++.       +...+-+|+|
T Consensus         2 ~~GdydylikfLaLGDSGVGKTs~Ly~YTD~~F~~qFIsTVGIDFreKrvvY~s~gp~g~gr~~rihLQlW   72 (219)
T KOG0081|consen    2 GDGDYDYLIKFLALGDSGVGKTSFLYQYTDGKFNTQFISTVGIDFREKRVVYNSSGPGGGGRGQRIHLQLW   72 (219)
T ss_pred             CCccHHHHHHHHhhccCCCCceEEEEEecCCcccceeEEEeecccccceEEEeccCCCCCCcceEEEEeee
Confidence            456788999999999999999999999999999999999999999998887743       3444668888

>cd04148 RGK RGK subfamily

Probab=99.43  E-value=7.4e-13  Score=74.84  Aligned_cols=54  Identities=33%  Similarity=0.476  Sum_probs=45.7

Q ss_pred             eEEEEECCCCChHHHHHHHHhcCcCc-CCCccceeeEeEEEEEEECCeEEEEEEEeC
Q 035301           13 FKVVLIGDSGVGKSNLLSRFTRNEFC-LESKSTIGVEFATRTLQVTNFSSFTSLHFY   68 (68)
Q Consensus        13 ~ki~~iG~~~vGKtsl~~~~~~~~~~-~~~~~t~~~~~~~~~~~~~~~~~~~~l~~w   68 (68)
                      +||+++|++|||||||++++..+.+. ..+.++.+.++..+++.+++...  .+++|
T Consensus         1 ~KI~lvG~~gvGKTsLi~~~~~~~~~~~~~~~t~~~~~~~~~i~~~~~~~--~l~i~   55 (221)
T cd04148           1 YRVVMLGSPGVGKSSLASQFTSGEYDDHAYDASGDDDTYERTVSVDGEES--TLVVI   55 (221)
T ss_pred             CEEEEECCCCCcHHHHHHHHhcCCcCccCcCCCccccceEEEEEECCEEE--EEEEE
Confidence            58999999999999999999988886 77888887678788899988765  56665

The RGK (Rem, Rem2, Rad, Gem/Kir) subfamily of Ras GTPases are expressed in a tissue-specific manner and are dynamically regulated by transcriptional and posttranscriptional mechanisms in response to environmental cues. RGK proteins bind to the beta subunit of L-type calcium channels, causing functional down-regulation of these voltage-dependent calcium channels, and either termination of calcium-dependent secretion or modulation of electrical conduction and contractile function. Inhibition of L-type calcium channels by Rem2 may provide a mechanism for modulating calcium-triggered exocytosis in hormone-secreting cells, and has been proposed to influence the secretion of insulin in pancreatic beta cells. RGK proteins also interact with and inhibit the Rho/Rho kinase pathway to modulate remodeling of the cytoskeleton. Two characteristics of RGK proteins cited in the literature are N-terminal and C-terminal extensions beyond the GTPase domain typical of Ra

>cd01870 RhoA_like RhoA-like subfamily

Probab=99.43  E-value=8.8e-13  Score=71.42  Aligned_cols=53  Identities=25%  Similarity=0.414  Sum_probs=44.7

Q ss_pred             eEEEEECCCCChHHHHHHHHhcCcCcCCCccceeeEeEEEEEEECCeEEEEEEEeC
Q 035301           13 FKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQVTNFSSFTSLHFY   68 (68)
Q Consensus        13 ~ki~~iG~~~vGKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~~w   68 (68)
                      .|++++|+++||||||++++.++.|++.+.+|++..+ ...+.++++.+  .+.+|
T Consensus         2 ~ki~iiG~~~~GKTsl~~~~~~~~~~~~~~~t~~~~~-~~~~~~~~~~~--~l~i~   54 (175)
T cd01870           2 KKLVIVGDGACGKTCLLIVFSKDQFPEVYVPTVFENY-VADIEVDGKQV--ELALW   54 (175)
T ss_pred             cEEEEECCCCCCHHHHHHHHhcCCCCCCCCCccccce-EEEEEECCEEE--EEEEE
Confidence            6899999999999999999999999988999998766 35677787764  56665

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

>cd04114 Rab30 Rab30 subfamily

Probab=99.43  E-value=2.5e-12  Score=69.26  Aligned_cols=58  Identities=43%  Similarity=0.791  Sum_probs=49.1

Q ss_pred             CceeeEEEEECCCCChHHHHHHHHhcCcCcCCCccceeeEeEEEEEEECCeEEEEEEEeC
Q 035301            9 YDYLFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQVTNFSSFTSLHFY   68 (68)
Q Consensus         9 ~~~~~ki~~iG~~~vGKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~~w   68 (68)
                      ....+|++++|++|||||||++++....+...+.++++.++..+.+.+++..+  ++++|
T Consensus         4 ~~~~~~v~v~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~--~~~~~   61 (169)
T cd04114           4 YDFLFKIVLIGNAGVGKTCLVRRFTQGLFPPGQGATIGVDFMIKTVEIKGEKI--KLQIW   61 (169)
T ss_pred             CCceeEEEEECCCCCCHHHHHHHHHhCCCCCCCCCceeeEEEEEEEEECCEEE--EEEEE
Confidence            35679999999999999999999998888777889999888888888888775  55555

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.

>KOG0088 consensus GTPase Rab21, small G protein superfamily [General function prediction only]

Probab=99.42  E-value=1e-13  Score=75.40  Aligned_cols=61  Identities=30%  Similarity=0.598  Sum_probs=55.7

Q ss_pred             CcCCceeeEEEEECCCCChHHHHHHHHhcCcCcCCCccceeeEeEEEEEEECCeEEEEEEEeC
Q 035301            6 DEEYDYLFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQVTNFSSFTSLHFY   68 (68)
Q Consensus         6 ~~~~~~~~ki~~iG~~~vGKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~~w   68 (68)
                      -....+.||++++|+..||||+|+-||+.++|...+..|+...|..+.+.+.+.+.  .++||
T Consensus         7 ~~g~s~~FK~VLLGEGCVGKtSLVLRy~EnkFn~kHlsTlQASF~~kk~n~ed~ra--~L~IW   67 (218)
T KOG0088|consen    7 VDGKSFKFKIVLLGEGCVGKTSLVLRYVENKFNCKHLSTLQASFQNKKVNVEDCRA--DLHIW   67 (218)
T ss_pred             ccCCceeeEEEEEcCCccchhHHHHHHHHhhcchhhHHHHHHHHhhccccccccee--eeeee
Confidence            34567899999999999999999999999999999999999999999999988774  89999

>cd04112 Rab26 Rab26 subfamily

Probab=99.42  E-value=1.5e-12  Score=71.85  Aligned_cols=54  Identities=39%  Similarity=0.709  Sum_probs=46.2

Q ss_pred             eEEEEECCCCChHHHHHHHHhcCcCc-CCCccceeeEeEEEEEEECCeEEEEEEEeC
Q 035301           13 FKVVLIGDSGVGKSNLLSRFTRNEFC-LESKSTIGVEFATRTLQVTNFSSFTSLHFY   68 (68)
Q Consensus        13 ~ki~~iG~~~vGKtsl~~~~~~~~~~-~~~~~t~~~~~~~~~~~~~~~~~~~~l~~w   68 (68)
                      +||+++|+.+||||||++++.+..+. ..+.+|++.++..+.+.+++..+  .+++|
T Consensus         1 ~Ki~vvG~~~vGKTSli~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~--~~~i~   55 (191)
T cd04112           1 FKVMLLGDSGVGKTCLLVRFKDGAFLNGNFIATVGIDFRNKVVTVDGVKV--KLQIW   55 (191)
T ss_pred             CEEEEECCCCCCHHHHHHHHhcCCCCccCcCCcccceeEEEEEEECCEEE--EEEEE
Confidence            58999999999999999999998886 46788999888777888888764  67776

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.

>cd04132 Rho4_like Rho4-like subfamily

Probab=99.41  E-value=1.7e-12  Score=71.16  Aligned_cols=53  Identities=26%  Similarity=0.416  Sum_probs=44.0

Q ss_pred             eEEEEECCCCChHHHHHHHHhcCcCcCCCccceeeEeEEEEEEEC-CeEEEEEEEeC
Q 035301           13 FKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQVT-NFSSFTSLHFY   68 (68)
Q Consensus        13 ~ki~~iG~~~vGKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~-~~~~~~~l~~w   68 (68)
                      +||+++|+.+||||||++++.++.|.+.+.++++.++. ..+..+ +..  +++++|
T Consensus         1 ~ki~vvG~~~vGKTsli~~l~~~~~~~~~~~t~~~~~~-~~i~~~~~~~--~~l~i~   54 (187)
T cd04132           1 KKIVVVGDGGCGKTCLLIVYSQGKFPEEYVPTVFENYV-TNIQGPNGKI--IELALW   54 (187)
T ss_pred             CeEEEECCCCCCHHHHHHHHHhCcCCCCCCCeeeeeeE-EEEEecCCcE--EEEEEE
Confidence            48999999999999999999999999999999988874 456665 554  367776

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.

>cd04103 Centaurin_gamma Centaurin gamma

Probab=99.41  E-value=1.5e-12  Score=70.34  Aligned_cols=52  Identities=23%  Similarity=0.372  Sum_probs=42.6

Q ss_pred             eEEEEECCCCChHHHHHHHHhcCcCcCCCccceeeEeEEEEEEECCeEEEEEEEeC
Q 035301           13 FKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQVTNFSSFTSLHFY   68 (68)
Q Consensus        13 ~ki~~iG~~~vGKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~~w   68 (68)
                      +|++++|++|||||||+.++..+.|...+.|+ +.++ .+.+.+++..+  .+++|
T Consensus         1 ~ki~vvG~~gvGKTsli~~~~~~~f~~~~~~~-~~~~-~~~i~~~~~~~--~l~i~   52 (158)
T cd04103           1 LKLGIVGNLQSGKSALVHRYLTGSYVQLESPE-GGRF-KKEVLVDGQSH--LLLIR   52 (158)
T ss_pred             CEEEEECCCCCcHHHHHHHHHhCCCCCCCCCC-ccce-EEEEEECCEEE--EEEEE
Confidence            48999999999999999999999988777665 4455 57788988764  67777

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.

>cd04140 ARHI_like ARHI subfamily

Probab=99.41  E-value=1.9e-12  Score=69.82  Aligned_cols=53  Identities=28%  Similarity=0.496  Sum_probs=43.7

Q ss_pred             eEEEEECCCCChHHHHHHHHhcCcCcCCCccceeeEeEEEEEEECCeEEEEEEEeC
Q 035301           13 FKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQVTNFSSFTSLHFY   68 (68)
Q Consensus        13 ~ki~~iG~~~vGKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~~w   68 (68)
                      +||+++|++|||||||+++++++.|...+.|+++..+ .+.+..++..  +.+++|
T Consensus         2 ~kv~~vG~~~vGKTsli~~~~~~~f~~~~~~t~~~~~-~~~~~~~~~~--~~l~i~   54 (165)
T cd04140           2 YRVVVFGAGGVGKSSLVLRFVKGTFRESYIPTIEDTY-RQVISCSKNI--CTLQIT   54 (165)
T ss_pred             eEEEEECCCCCCHHHHHHHHHhCCCCCCcCCcchheE-EEEEEECCEE--EEEEEE
Confidence            7999999999999999999999999888889988666 4566666655  356666

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

>cd04130 Wrch_1 Wrch-1 subfamily

Probab=99.40  E-value=2.7e-12  Score=69.74  Aligned_cols=53  Identities=28%  Similarity=0.382  Sum_probs=44.2

Q ss_pred             eEEEEECCCCChHHHHHHHHhcCcCcCCCccceeeEeEEEEEEECCeEEEEEEEeC
Q 035301           13 FKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQVTNFSSFTSLHFY   68 (68)
Q Consensus        13 ~ki~~iG~~~vGKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~~w   68 (68)
                      +|++++|++|+|||||+.++.++.|..++.+|.. ++....+.+++..+  .+++|
T Consensus         1 ~k~~i~G~~~~GKtsl~~~~~~~~~~~~~~~t~~-~~~~~~~~~~~~~~--~~~i~   53 (173)
T cd04130           1 LKCVLVGDGAVGKTSLIVSYTTNGYPTEYVPTAF-DNFSVVVLVDGKPV--RLQLC   53 (173)
T ss_pred             CEEEEECCCCCCHHHHHHHHHhCCCCCCCCCcee-eeeeEEEEECCEEE--EEEEE
Confidence            5899999999999999999999999988988875 44466788887664  66776

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,

>cd04144 Ras2 Ras2 subfamily

Probab=99.40  E-value=1.1e-12  Score=72.36  Aligned_cols=52  Identities=29%  Similarity=0.452  Sum_probs=44.0

Q ss_pred             EEEEECCCCChHHHHHHHHhcCcCcCCCccceeeEeEEEEEEECCeEEEEEEEeC
Q 035301           14 KVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQVTNFSSFTSLHFY   68 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~~w   68 (68)
                      |++++|+.+||||||+++++.+.|...+.+|++..+ .+.+.+++..+  .++||
T Consensus         1 ki~ivG~~~vGKTsli~~l~~~~f~~~~~~t~~~~~-~~~~~~~~~~~--~l~i~   52 (190)
T cd04144           1 KLVVLGDGGVGKTALTIQLCLNHFVETYDPTIEDSY-RKQVVVDGQPC--MLEVL   52 (190)
T ss_pred             CEEEECCCCCCHHHHHHHHHhCCCCccCCCchHhhE-EEEEEECCEEE--EEEEE
Confidence            689999999999999999999999888999998766 46677887764  66776

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.

>smart00173 RAS Ras subfamily of RAS small GTPases

Probab=99.40  E-value=1.6e-12  Score=69.67  Aligned_cols=53  Identities=26%  Similarity=0.509  Sum_probs=43.9

Q ss_pred             eEEEEECCCCChHHHHHHHHhcCcCcCCCccceeeEeEEEEEEECCeEEEEEEEeC
Q 035301           13 FKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQVTNFSSFTSLHFY   68 (68)
Q Consensus        13 ~ki~~iG~~~vGKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~~w   68 (68)
                      +||+++|++|||||||++++.+..+...+.++.+..+ .+.+.+++..+  .+++|
T Consensus         1 ~ki~v~G~~~~GKTsli~~~~~~~~~~~~~~t~~~~~-~~~~~~~~~~~--~l~i~   53 (164)
T smart00173        1 YKLVVLGSGGVGKSALTIQFVQGHFVDDYDPTIEDSY-RKQIEIDGEVC--LLDIL   53 (164)
T ss_pred             CEEEEECCCCCCHHHHHHHHHhCcCCcccCCchhhhE-EEEEEECCEEE--EEEEE
Confidence            5899999999999999999999999888888887544 56777787764  56665

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

>cd01863 Rab18 Rab18 subfamily

Probab=99.40  E-value=2.7e-12  Score=68.64  Aligned_cols=54  Identities=48%  Similarity=0.754  Sum_probs=46.1

Q ss_pred             eEEEEECCCCChHHHHHHHHhcCcCcCCCccceeeEeEEEEEEECCeEEEEEEEeC
Q 035301           13 FKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQVTNFSSFTSLHFY   68 (68)
Q Consensus        13 ~ki~~iG~~~vGKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~~w   68 (68)
                      +|++++|+.++|||||++++.+..+...+.++.+.++....+.+++..+  .+++|
T Consensus         1 ~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~l~   54 (161)
T cd01863           1 LKILLIGDSGVGKSSLLLRFTDDTFDPDLAATIGVDFKVKTLTVDGKKV--KLAIW   54 (161)
T ss_pred             CEEEEECCCCCCHHHHHHHHHcCCCCcccCCcccceEEEEEEEECCEEE--EEEEE
Confidence            5899999999999999999999998877889999888777777877664  56665

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

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

Probab=99.40  E-value=3.3e-12  Score=71.35  Aligned_cols=55  Identities=35%  Similarity=0.545  Sum_probs=47.2

Q ss_pred             eeEEEEECCCCChHHHHHHHHhcCcCcCCCccceeeEeEEEEEEECCeEEEEEEEeC
Q 035301           12 LFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQVTNFSSFTSLHFY   68 (68)
Q Consensus        12 ~~ki~~iG~~~vGKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~~w   68 (68)
                      .+|++++|+.|||||||++++.++.+.+.+.+|++..+.......++..  +++++|
T Consensus         5 ~~kivv~G~~g~GKTtl~~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~--~~~~~~   59 (219)
T COG1100           5 EFKIVVLGDGGVGKTTLLNRLVGDEFPEGYPPTIGNLDPAKTIEPYRRN--IKLQLW   59 (219)
T ss_pred             eEEEEEEcCCCccHHHHHHHHhcCcCcccCCCceeeeeEEEEEEeCCCE--EEEEee
Confidence            3899999999999999999999999999999999998877776666553  466766

>cd04135 Tc10 TC10 subfamily

Probab=99.39  E-value=3.5e-12  Score=69.03  Aligned_cols=53  Identities=28%  Similarity=0.426  Sum_probs=43.9

Q ss_pred             eEEEEECCCCChHHHHHHHHhcCcCcCCCccceeeEeEEEEEEECCeEEEEEEEeC
Q 035301           13 FKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQVTNFSSFTSLHFY   68 (68)
Q Consensus        13 ~ki~~iG~~~vGKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~~w   68 (68)
                      +|++++|+.++|||||++++..+.|...+.++++..+ ...+.+++..+  .+++|
T Consensus         1 ~ki~i~G~~~~GKTsl~~~~~~~~~~~~~~~t~~~~~-~~~~~~~~~~~--~~~i~   53 (174)
T cd04135           1 LKCVVVGDGAVGKTCLLMSYANDAFPEEYVPTVFDHY-AVSVTVGGKQY--LLGLY   53 (174)
T ss_pred             CEEEEECCCCCCHHHHHHHHHhCCCCCCCCCceeeee-EEEEEECCEEE--EEEEE
Confidence            5899999999999999999999999888888887555 55677887764  45665

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

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

Probab=99.38  E-value=4e-12  Score=68.01  Aligned_cols=54  Identities=28%  Similarity=0.480  Sum_probs=44.8

Q ss_pred             eeEEEEECCCCChHHHHHHHHhcCcCcCCCccceeeEeEEEEEEECCeEEEEEEEeC
Q 035301           12 LFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQVTNFSSFTSLHFY   68 (68)
Q Consensus        12 ~~ki~~iG~~~vGKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~~w   68 (68)
                      .+|++++|++++|||||++++.+..+...+.++.+..+ .+.+.+++...  .+++|
T Consensus         2 ~~ki~i~G~~~~GKtsl~~~~~~~~~~~~~~~t~~~~~-~~~~~~~~~~~--~~~i~   55 (164)
T cd04145           2 TYKLVVVGGGGVGKSALTIQFIQSYFVTDYDPTIEDSY-TKQCEIDGQWA--ILDIL   55 (164)
T ss_pred             ceEEEEECCCCCcHHHHHHHHHhCCCCcccCCCccceE-EEEEEECCEEE--EEEEE
Confidence            47999999999999999999999998888888888655 56677887764  56665

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

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

Probab=99.37  E-value=4.2e-12  Score=68.70  Aligned_cols=51  Identities=27%  Similarity=0.463  Sum_probs=43.2

Q ss_pred             EEEECCCCChHHHHHHHHhcCcCcCCCccceeeEeEEEEEEECCeEEEEEEEeC
Q 035301           15 VVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQVTNFSSFTSLHFY   68 (68)
Q Consensus        15 i~~iG~~~vGKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~~w   68 (68)
                      |+++|+++||||||+++++++.|...+.++++..+ ...+.+++..+  .+++|
T Consensus         1 i~i~G~~~vGKTsli~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~--~~~i~   51 (174)
T smart00174        1 LVVVGDGAVGKTCLLISYTTNAFPEDYVPTVFENY-SADVEVDGKPV--ELGLW   51 (174)
T ss_pred             CEEECCCCCCHHHHHHHHHhCCCCCCCCCcEEeee-eEEEEECCEEE--EEEEE
Confidence            58999999999999999999999988999988666 56777888764  66766

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

>cd04177 RSR1 RSR1 subgroup

Probab=99.37  E-value=4.7e-12  Score=68.44  Aligned_cols=53  Identities=28%  Similarity=0.531  Sum_probs=45.2

Q ss_pred             eEEEEECCCCChHHHHHHHHhcCcCcCCCccceeeEeEEEEEEECCeEEEEEEEeC
Q 035301           13 FKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQVTNFSSFTSLHFY   68 (68)
Q Consensus        13 ~ki~~iG~~~vGKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~~w   68 (68)
                      +|++++|++|+|||||++++.++.+...+.++++..+ .+.+.+++..+  .+++|
T Consensus         2 ~ki~liG~~~~GKTsli~~~~~~~~~~~~~~t~~~~~-~~~~~~~~~~~--~~~i~   54 (168)
T cd04177           2 YKIVVLGAGGVGKSALTVQFVQNVFIESYDPTIEDSY-RKQVEIDGRQC--DLEIL   54 (168)
T ss_pred             eEEEEECCCCCCHHHHHHHHHhCCCCcccCCcchheE-EEEEEECCEEE--EEEEE
Confidence            6899999999999999999999999888899988665 67778887664  56666

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

>cd00154 Rab Rab family

Probab=99.36  E-value=8.2e-12  Score=65.87  Aligned_cols=54  Identities=48%  Similarity=0.819  Sum_probs=46.4

Q ss_pred             eEEEEECCCCChHHHHHHHHhcCcCcCCCccceeeEeEEEEEEECCeEEEEEEEeC
Q 035301           13 FKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQVTNFSSFTSLHFY   68 (68)
Q Consensus        13 ~ki~~iG~~~vGKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~~w   68 (68)
                      +|++++|++++|||||++++.+..+...+.+|.+.++....+..++...  .+.+|
T Consensus         1 ~~i~~~G~~~~GKStl~~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~--~~~l~   54 (159)
T cd00154           1 FKIVLIGDSGVGKTSLLLRFVDGKFDENYKSTIGVDFKSKTIEIDGKTV--KLQIW   54 (159)
T ss_pred             CeEEEECCCCCCHHHHHHHHHhCcCCCccCCceeeeeEEEEEEECCEEE--EEEEE
Confidence            5899999999999999999999999888889999988888888877654  55555

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

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

Probab=99.34  E-value=5.5e-12  Score=70.58  Aligned_cols=49  Identities=24%  Similarity=0.447  Sum_probs=44.0

Q ss_pred             ECCCCChHHHHHHHHhcCcCcCCCccceeeEeEEEEEEECCeEEEEEEEeC
Q 035301           18 IGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQVTNFSSFTSLHFY   68 (68)
Q Consensus        18 iG~~~vGKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~~w   68 (68)
                      +|+++||||||+.+++.+.|.+.+.+|+|.++..+.+.+++..+  +++||
T Consensus         1 vG~~~vGKTsLi~r~~~~~f~~~~~~Tig~~~~~~~~~~~~~~~--~l~iw   49 (200)
T smart00176        1 VGDGGTGKTTFVKRHLTGEFEKKYVATLGVEVHPLVFHTNRGPI--RFNVW   49 (200)
T ss_pred             CCCCCCCHHHHHHHHhcCCCCCCCCCceeEEEEEEEEEECCEEE--EEEEE
Confidence            69999999999999999999888999999999888888888764  77887

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

>cd04146 RERG_RasL11_like RERG/RasL11-like subfamily

Probab=99.34  E-value=3.3e-12  Score=68.76  Aligned_cols=52  Identities=31%  Similarity=0.512  Sum_probs=42.9

Q ss_pred             EEEEECCCCChHHHHHHHHhcCcCcCCCccceeeEeEEEEEEECCeEEEEEEEeC
Q 035301           14 KVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQVTNFSSFTSLHFY   68 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~~w   68 (68)
                      ||+++|+++||||||+.+++...|...+.++.+..+ .+.+.++++.+  .+++|
T Consensus         1 ki~vvG~~~~GKtsli~~~~~~~~~~~~~~t~~~~~-~~~~~~~~~~~--~~~i~   52 (165)
T cd04146           1 KIAVLGASGVGKSALVVRFLTKRFIGEYDPNLESLY-SRQVTIDGEQV--SLEIL   52 (165)
T ss_pred             CEEEECCCCCcHHHHHHHHHhCccccccCCChHHhc-eEEEEECCEEE--EEEEE
Confidence            689999999999999999999888888888886555 56677887764  56666

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

>cd04123 Rab21 Rab21 subfamily

Probab=99.33  E-value=1.3e-11  Score=65.64  Aligned_cols=54  Identities=33%  Similarity=0.576  Sum_probs=44.6

Q ss_pred             eEEEEECCCCChHHHHHHHHhcCcCcCCCccceeeEeEEEEEEECCeEEEEEEEeC
Q 035301           13 FKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQVTNFSSFTSLHFY   68 (68)
Q Consensus        13 ~ki~~iG~~~vGKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~~w   68 (68)
                      +|++++|++++|||||++++.+..+...+.++...++..+.+.+.+...  .+++|
T Consensus         1 ~ki~i~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~   54 (162)
T cd04123           1 FKVVLLGEGRVGKTSLVLRYVENKFNEKHESTTQASFFQKTVNIGGKRI--DLAIW   54 (162)
T ss_pred             CEEEEECCCCCCHHHHHHHHHhCCCCCCcCCccceeEEEEEEEECCEEE--EEEEE
Confidence            5899999999999999999999988877778887777677777776653  55665

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

>cd00157 Rho Rho (Ras homology) family

Probab=99.31  E-value=2.2e-11  Score=65.54  Aligned_cols=53  Identities=30%  Similarity=0.483  Sum_probs=42.8

Q ss_pred             eEEEEECCCCChHHHHHHHHhcCcCcCCCccceeeEeEEEEEEECCeEEEEEEEeC
Q 035301           13 FKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQVTNFSSFTSLHFY   68 (68)
Q Consensus        13 ~ki~~iG~~~vGKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~~w   68 (68)
                      +|++++|++++|||||++++.+..+...+.++....+ ...+..++..+  ++++|
T Consensus         1 iki~i~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~-~~~~~~~~~~~--~l~~~   53 (171)
T cd00157           1 IKIVVVGDGAVGKTCLLISYTTGKFPTEYVPTVFDNY-SATVTVDGKQV--NLGLW   53 (171)
T ss_pred             CEEEEECCCCCCHHHHHHHHHhCCCCCCCCCceeeee-EEEEEECCEEE--EEEEE
Confidence            5899999999999999999999998878888876555 45666677664  56665

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

>cd04139 RalA_RalB RalA/RalB subfamily

Probab=99.31  E-value=1.3e-11  Score=65.81  Aligned_cols=53  Identities=26%  Similarity=0.489  Sum_probs=43.3

Q ss_pred             eEEEEECCCCChHHHHHHHHhcCcCcCCCccceeeEeEEEEEEECCeEEEEEEEeC
Q 035301           13 FKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQVTNFSSFTSLHFY   68 (68)
Q Consensus        13 ~ki~~iG~~~vGKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~~w   68 (68)
                      +||+++|++|+|||||++++....+...+.++.+..+ .+...+++..+  .+++|
T Consensus         1 ~ki~~~G~~~~GKTsl~~~l~~~~~~~~~~~~~~~~~-~~~~~~~~~~~--~~~i~   53 (164)
T cd04139           1 YKVIVVGAGGVGKSALTLQFMYDEFVEDYEPTKADSY-RKKVVLDGEDV--QLNIL   53 (164)
T ss_pred             CEEEEECCCCCCHHHHHHHHHhCCCccccCCcchhhE-EEEEEECCEEE--EEEEE
Confidence            5899999999999999999999999888888887655 46667777664  45554

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

>KOG0393 consensus Ras-related small GTPase, Rho type [General function prediction only]

Probab=99.29  E-value=1.5e-12  Score=72.72  Aligned_cols=55  Identities=29%  Similarity=0.412  Sum_probs=49.4

Q ss_pred             eeeEEEEECCCCChHHHHHHHHhcCcCcCCCccceeeEeEEEEEEEC-CeEEEEEEEeC
Q 035301           11 YLFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQVT-NFSSFTSLHFY   68 (68)
Q Consensus        11 ~~~ki~~iG~~~vGKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~-~~~~~~~l~~w   68 (68)
                      ..+|++++||.++|||+|+..+..+.|++.|.||+..+| ...+.++ ++.+  ++.+|
T Consensus         3 ~~~K~VvVGDga~GKT~ll~~~t~~~fp~~yvPTVFdny-s~~v~V~dg~~v--~L~Lw   58 (198)
T KOG0393|consen    3 RRIKCVVVGDGAVGKTCLLISYTTNAFPEEYVPTVFDNY-SANVTVDDGKPV--ELGLW   58 (198)
T ss_pred             eeeEEEEECCCCcCceEEEEEeccCcCcccccCeEEccc-eEEEEecCCCEE--EEeee
Confidence            468999999999999999999999999999999998766 7888995 8886  77877

>cd01873 RhoBTB RhoBTB subfamily

Probab=99.28  E-value=2e-11  Score=68.06  Aligned_cols=55  Identities=25%  Similarity=0.350  Sum_probs=39.5

Q ss_pred             eeEEEEECCCCChHHHHHH-HHhcC-----cCcCCCccceee-EeEEEE--------EEECCeEEEEEEEeC
Q 035301           12 LFKVVLIGDSGVGKSNLLS-RFTRN-----EFCLESKSTIGV-EFATRT--------LQVTNFSSFTSLHFY   68 (68)
Q Consensus        12 ~~ki~~iG~~~vGKtsl~~-~~~~~-----~~~~~~~~t~~~-~~~~~~--------~~~~~~~~~~~l~~w   68 (68)
                      .+||+++|+++||||||+. ++.+.     .|...+.||++. +.....        +.+++..+  .+++|
T Consensus         2 ~~Kiv~vG~~~vGKTsLi~~~~~~~~~~~~~f~~~~~pTi~~~~~~~~~~~~~~~~~~~~~~~~v--~l~iw   71 (195)
T cd01873           2 TIKCVVVGDNAVGKTRLICARACNKTLTQYQLLATHVPTVWAIDQYRVCQEVLERSRDVVDGVSV--SLRLW   71 (195)
T ss_pred             ceEEEEECCCCcCHHHHHHHHHhCCCcccccCccccCCceecccceeEEeeeccccceeeCCEEE--EEEEE
Confidence            4799999999999999995 66543     356678899973 322222        25677764  78887

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.

>TIGR00231 small_GTP small GTP-binding protein domain

Probab=99.28  E-value=4.8e-11  Score=62.59  Aligned_cols=49  Identities=33%  Similarity=0.516  Sum_probs=42.3

Q ss_pred             eEEEEECCCCChHHHHHHHHhcCcCcCCCccceeeEeEEEEEEECCeEE
Q 035301           13 FKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQVTNFSS   61 (68)
Q Consensus        13 ~ki~~iG~~~vGKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~   61 (68)
                      +||+++|.+|+|||||++++....++..+.++++.++....+.+++...
T Consensus         2 ~ki~~~G~~~~GKstl~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   50 (161)
T TIGR00231         2 IKIVIVGDPNVGKSTLLNRLLGNKFITEYKPGTTRNYVTTVIEEDGKTY   50 (161)
T ss_pred             eEEEEECCCCCCHHHHHHHHhCCCCcCcCCCCceeeeeEEEEEECCEEE
Confidence            7999999999999999999999888888888888888777677777543

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.

>KOG4252 consensus GTP-binding protein [Signal transduction mechanisms]

Probab=99.27  E-value=1.8e-13  Score=75.70  Aligned_cols=63  Identities=29%  Similarity=0.559  Sum_probs=53.8

Q ss_pred             CCCcCCceeeEEEEECCCCChHHHHHHHHhcCcCcCCCccceeeEeEEEEEEECCeEEEEEEEeC
Q 035301            4 RADEEYDYLFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQVTNFSSFTSLHFY   68 (68)
Q Consensus         4 ~~~~~~~~~~ki~~iG~~~vGKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~~w   68 (68)
                      |.+.+.+..+|++++|..+|||++++++||.+-|...|..|||.+|..+.++++++.+  ++.+|
T Consensus        12 m~e~d~e~aiK~vivGng~VGKssmiqryCkgifTkdykktIgvdflerqi~v~~Edv--r~mlW   74 (246)
T KOG4252|consen   12 MDETDYERAIKFVIVGNGSVGKSSMIQRYCKGIFTKDYKKTIGVDFLERQIKVLIEDV--RSMLW   74 (246)
T ss_pred             CCchhhhhhEEEEEECCCccchHHHHHHHhccccccccccccchhhhhHHHHhhHHHH--HHHHH
Confidence            4455677899999999999999999999999999999999999999888888877664  34444

>cd04129 Rho2 Rho2 subfamily

Probab=99.25  E-value=5.5e-11  Score=65.45  Aligned_cols=53  Identities=32%  Similarity=0.457  Sum_probs=42.6

Q ss_pred             eEEEEECCCCChHHHHHHHHhcCcCcCCCccceeeEeEEEEEEECCeEEEEEEEeC
Q 035301           13 FKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQVTNFSSFTSLHFY   68 (68)
Q Consensus        13 ~ki~~iG~~~vGKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~~w   68 (68)
                      .|++++|++|+|||||++++..+.+.+.+.+++...+ ...+.+++...  .+.+|
T Consensus         2 ~Ki~ivG~~g~GKStLl~~l~~~~~~~~~~~t~~~~~-~~~~~~~~~~~--~l~i~   54 (187)
T cd04129           2 RKLVIVGDGACGKTSLLSVFTLGEFPEEYHPTVFENY-VTDCRVDGKPV--QLALW   54 (187)
T ss_pred             eEEEEECCCCCCHHHHHHHHHhCCCCcccCCcccceE-EEEEEECCEEE--EEEEE
Confidence            5899999999999999999998888888888887666 35667777654  45554

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).

>cd04147 Ras_dva Ras-dva subfamily

Probab=99.24  E-value=3.7e-11  Score=66.72  Aligned_cols=52  Identities=29%  Similarity=0.546  Sum_probs=42.5

Q ss_pred             EEEEECCCCChHHHHHHHHhcCcCcCCCccceeeEeEEEEEEECCeEEEEEEEeC
Q 035301           14 KVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQVTNFSSFTSLHFY   68 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~~w   68 (68)
                      ||+++|+.|||||+|++++.+..+...+.++++ ++..+.+.+++..+  ++++|
T Consensus         1 kv~vvG~~~vGKTsll~~~~~~~~~~~~~~t~~-~~~~~~~~~~~~~~--~l~i~   52 (198)
T cd04147           1 RLVFMGAAGVGKTALIQRFLYDTFEPKYRRTVE-EMHRKEYEVGGVSL--TLDIL   52 (198)
T ss_pred             CEEEECCCCCCHHHHHHHHHhCCCCccCCCchh-hheeEEEEECCEEE--EEEEE
Confidence            689999999999999999999999888888876 45566777777654  56665

Ras-dva (Ras - dorsal-ventral anterior localization) subfamily consists of a set of proteins characterized only in Xenopus leavis, to date. In Xenopus Ras-dva expression is activated by the transcription factor Otx2 and begins during gastrulation throughout the anterior ectoderm. Ras-dva expression is inhibited in the anterior neural plate by factor Xanf1. Downregulation of Ras-dva results in head development abnormalities through the inhibition of several regulators of the anterior neural plate and folds patterning, including Otx2, BF-1, Xag2, Pax6, Slug, and Sox9. Downregulation of Ras-dva also interferes with the FGF-8a signaling within the anterior ectoderm. Most Ras proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an aliphatic amino acid and X = any amino acid. Lipid binding is essential for membrane attachment, a key feature of most Ras proteins.

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

Probab=99.23  E-value=5.6e-11  Score=64.70  Aligned_cols=53  Identities=25%  Similarity=0.387  Sum_probs=42.7

Q ss_pred             eEEEEECCCCChHHHHHHHHhcCcCcCCCccceeeEeEEEEEEECCeEEEEEEEeC
Q 035301           13 FKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQVTNFSSFTSLHFY   68 (68)
Q Consensus        13 ~ki~~iG~~~vGKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~~w   68 (68)
                      .||+++|++|||||||++++.+..+...+.|+.+..+ .+.+.+++...  .+++|
T Consensus         2 ~kv~l~G~~g~GKTtl~~~~~~~~~~~~~~~t~~~~~-~~~~~~~~~~~--~~~l~   54 (180)
T cd04137           2 RKIAVLGSRSVGKSSLTVQFVEGHFVESYYPTIENTF-SKIIRYKGQDY--HLEIV   54 (180)
T ss_pred             eEEEEECCCCCCHHHHHHHHHhCCCccccCcchhhhE-EEEEEECCEEE--EEEEE
Confidence            6899999999999999999999988888888887665 56667776654  44554

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

>cd04152 Arl4_Arl7 Arl4/Arl7 subfamily

Probab=99.23  E-value=4.2e-11  Score=65.79  Aligned_cols=54  Identities=24%  Similarity=0.432  Sum_probs=40.9

Q ss_pred             eeEEEEECCCCChHHHHHHHHhcCcCcCCCccceeeEeEEEEEEEC-CeEEEEEEEeC
Q 035301           12 LFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQVT-NFSSFTSLHFY   68 (68)
Q Consensus        12 ~~ki~~iG~~~vGKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~-~~~~~~~l~~w   68 (68)
                      .+||+++|++|||||||++++..+.+... .||.+.++....+.+. +..  +.+++|
T Consensus         3 ~~kv~~vG~~~~GKTsli~~~~~~~~~~~-~~t~~~~~~~~~~~~~~~~~--~~l~l~   57 (183)
T cd04152           3 SLHIVMLGLDSAGKTTVLYRLKFNEFVNT-VPTKGFNTEKIKVSLGNSKG--ITFHFW   57 (183)
T ss_pred             ceEEEEECCCCCCHHHHHHHHhcCCcCCc-CCccccceeEEEeeccCCCc--eEEEEE
Confidence            58999999999999999999999888754 6888877655555543 233  356666

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.

>cd00876 Ras Ras family

Probab=99.23  E-value=5.6e-11  Score=63.11  Aligned_cols=52  Identities=33%  Similarity=0.495  Sum_probs=41.6

Q ss_pred             EEEEECCCCChHHHHHHHHhcCcCcCCCccceeeEeEEEEEEECCeEEEEEEEeC
Q 035301           14 KVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQVTNFSSFTSLHFY   68 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~~w   68 (68)
                      |++++|++++|||||++++.+..+...+.++.+ +...+....++...  .+++|
T Consensus         1 ki~i~G~~~~GKTsli~~l~~~~~~~~~~~~~~-~~~~~~~~~~~~~~--~~~l~   52 (160)
T cd00876           1 KVVVLGAGGVGKSAITIQFVKGTFVEEYDPTIE-DSYRKTIVVDGETY--TLDIL   52 (160)
T ss_pred             CEEEECCCCCCHHHHHHHHHhCCCCcCcCCChh-HeEEEEEEECCEEE--EEEEE
Confidence            689999999999999999998888888888887 44466777776554  45554

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

>KOG0395 consensus Ras-related GTPase [General function prediction only]

Probab=99.21  E-value=2.1e-11  Score=68.21  Aligned_cols=52  Identities=31%  Similarity=0.409  Sum_probs=46.6

Q ss_pred             eeEEEEECCCCChHHHHHHHHhcCcCcCCCccceeeEeEEEEEEECCeEEEEE
Q 035301           12 LFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQVTNFSSFTS   64 (68)
Q Consensus        12 ~~ki~~iG~~~vGKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~   64 (68)
                      .+|++++|.+|||||+|..+|.++.|.+.|.||++. .+.+.+.++++...+.
T Consensus         3 ~~kvvvlG~~gVGKSal~~qf~~~~f~~~y~ptied-~y~k~~~v~~~~~~l~   54 (196)
T KOG0395|consen    3 EYKVVVLGAGGVGKSALTIQFLTGRFVEDYDPTIED-SYRKELTVDGEVCMLE   54 (196)
T ss_pred             ceEEEEECCCCCCcchheeeecccccccccCCCccc-cceEEEEECCEEEEEE
Confidence            589999999999999999999999999999999995 4489999998887544

>cd04126 Rab20 Rab20 subfamily

Probab=99.21  E-value=9.1e-11  Score=66.57  Aligned_cols=40  Identities=43%  Similarity=0.668  Sum_probs=34.4

Q ss_pred             eEEEEECCCCChHHHHHHHHhcCcCcCCCccceeeEeEEEE
Q 035301           13 FKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRT   53 (68)
Q Consensus        13 ~ki~~iG~~~vGKtsl~~~~~~~~~~~~~~~t~~~~~~~~~   53 (68)
                      +||+++|+.+||||||++++..+.|.. +.+|++.++..+.
T Consensus         1 ~KIvivG~~~vGKTSLi~r~~~~~f~~-~~~Tig~~~~~~~   40 (220)
T cd04126           1 LKVVLLGDMNVGKTSLLHRYMERRFKD-TVSTVGGAFYLKQ   40 (220)
T ss_pred             CEEEEECCCCCcHHHHHHHHhcCCCCC-CCCccceEEEEEE
Confidence            589999999999999999999999875 6789988775443

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

>cd04162 Arl9_Arfrp2_like Arl9/Arfrp2-like subfamily

Probab=99.20  E-value=3.7e-11  Score=65.02  Aligned_cols=48  Identities=17%  Similarity=0.337  Sum_probs=37.4

Q ss_pred             EEEECCCCChHHHHHHHHhcCcCcCCCccceeeEeEEEEEEECCeEEEEEEEeC
Q 035301           15 VVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQVTNFSSFTSLHFY   68 (68)
Q Consensus        15 i~~iG~~~vGKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~~w   68 (68)
                      ++++|+.+||||||++++.+..+...+.||+|.++    ..++...  +++++|
T Consensus         2 i~ivG~~~vGKTsli~~~~~~~~~~~~~pt~g~~~----~~i~~~~--~~l~i~   49 (164)
T cd04162           2 ILVLGLDGAGKTSLLHSLSSERSLESVVPTTGFNS----VAIPTQD--AIMELL   49 (164)
T ss_pred             EEEECCCCCCHHHHHHHHhcCCCcccccccCCcce----EEEeeCC--eEEEEE
Confidence            78999999999999999999988888899998653    2233333  256666

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.

>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=99.17  E-value=1.5e-10  Score=59.39  Aligned_cols=53  Identities=32%  Similarity=0.540  Sum_probs=33.0

Q ss_pred             EEEEECCCCChHHHHHHHHhcCcCc--CCCccceeeEeEEEEEEECCeEEEEEEEeC
Q 035301           14 KVVLIGDSGVGKSNLLSRFTRNEFC--LESKSTIGVEFATRTLQVTNFSSFTSLHFY   68 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~~~~~--~~~~~t~~~~~~~~~~~~~~~~~~~~l~~w   68 (68)
                      ||+++|+.|||||||++++++..+.  ..+.++.+..+......++.....  +++|
T Consensus         1 kI~V~G~~g~GKTsLi~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~   55 (119)
T PF08477_consen    1 KIVVLGDSGVGKTSLIRRLCGGEFPDNSVPEETSEITIGVDVIVVDGDRQS--LQFW   55 (119)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHSS--------SSTTSCEEEEEEEETTEEEE--EEEE
T ss_pred             CEEEECcCCCCHHHHHHHHhcCCCcccccccccCCCcEEEEEEEecCCceE--EEEE
Confidence            7999999999999999999988876  222233333444445555555542  4444

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.

>cd01893 Miro1 Miro1 subfamily

Probab=99.16  E-value=1.8e-10  Score=62.19  Aligned_cols=52  Identities=33%  Similarity=0.388  Sum_probs=37.1

Q ss_pred             eEEEEECCCCChHHHHHHHHhcCcCcCCCccceeeEeEEEEEEECCeEEEEEEEeC
Q 035301           13 FKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQVTNFSSFTSLHFY   68 (68)
Q Consensus        13 ~ki~~iG~~~vGKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~~w   68 (68)
                      .|++++|+.+||||+|++++.++.|+..+..+ ..++ .....+++..+  ++++|
T Consensus         1 ~kv~ivG~~~vGKTsl~~~l~~~~~~~~~~~~-~~~~-~~~~~~~~~~~--~~~i~   52 (166)
T cd01893           1 VRIVLIGDEGVGKSSLIMSLVSEEFPENVPRV-LPEI-TIPADVTPERV--PTTIV   52 (166)
T ss_pred             CEEEEECCCCCCHHHHHHHHHhCcCCccCCCc-ccce-EeeeeecCCeE--EEEEE
Confidence            38999999999999999999999987665443 2233 34445555553  55665

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.

>KOG0083 consensus GTPase Rab26/Rab37, small G protein superfamily [General function prediction only]

Probab=99.16  E-value=2.2e-12  Score=68.64  Aligned_cols=51  Identities=31%  Similarity=0.568  Sum_probs=45.2

Q ss_pred             EEECCCCChHHHHHHHHhcCcCc-CCCccceeeEeEEEEEEECCeEEEEEEEeC
Q 035301           16 VLIGDSGVGKSNLLSRFTRNEFC-LESKSTIGVEFATRTLQVTNFSSFTSLHFY   68 (68)
Q Consensus        16 ~~iG~~~vGKtsl~~~~~~~~~~-~~~~~t~~~~~~~~~~~~~~~~~~~~l~~w   68 (68)
                      +++|++++|||||+.||-.+.|. ....+|+|++|..+.+..+++++  ++|+|
T Consensus         1 mllgds~~gktcllir~kdgafl~~~fistvgid~rnkli~~~~~kv--klqiw   52 (192)
T KOG0083|consen    1 MLLGDSCTGKTCLLIRFKDGAFLAGNFISTVGIDFRNKLIDMDDKKV--KLQIW   52 (192)
T ss_pred             CccccCccCceEEEEEeccCceecCceeeeeeeccccceeccCCcEE--EEEEe
Confidence            46899999999999999988876 44568999999999999999995  89999

>cd04150 Arf1_5_like Arf1-Arf5-like subfamily

Probab=99.13  E-value=2.5e-10  Score=61.47  Aligned_cols=36  Identities=22%  Similarity=0.529  Sum_probs=31.4

Q ss_pred             eEEEEECCCCChHHHHHHHHhcCcCcCCCccceeeEe
Q 035301           13 FKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEF   49 (68)
Q Consensus        13 ~ki~~iG~~~vGKtsl~~~~~~~~~~~~~~~t~~~~~   49 (68)
                      +||+++|+.+||||||++++..+.|. .+.||+|.++
T Consensus         1 ~kv~~~G~~~~GKTsli~~l~~~~~~-~~~pt~g~~~   36 (159)
T cd04150           1 MRILMVGLDAAGKTTILYKLKLGEIV-TTIPTIGFNV   36 (159)
T ss_pred             CEEEEECCCCCCHHHHHHHHhcCCCc-ccCCCCCcce
Confidence            48999999999999999999888886 4788988665

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

>PTZ00133 ADP-ribosylation factor; Provisional

Probab=99.11  E-value=3.6e-10  Score=62.18  Aligned_cols=37  Identities=22%  Similarity=0.457  Sum_probs=32.4

Q ss_pred             eeEEEEECCCCChHHHHHHHHhcCcCcCCCccceeeEe
Q 035301           12 LFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEF   49 (68)
Q Consensus        12 ~~ki~~iG~~~vGKtsl~~~~~~~~~~~~~~~t~~~~~   49 (68)
                      .+||+++|+++||||+|++++..+.+.. +.||++.++
T Consensus        17 ~~kv~lvG~~~vGKTsli~~~~~~~~~~-~~~T~~~~~   53 (182)
T PTZ00133         17 EVRILMVGLDAAGKTTILYKLKLGEVVT-TIPTIGFNV   53 (182)
T ss_pred             ccEEEEEcCCCCCHHHHHHHHhcCCccc-cCCccccce
Confidence            5899999999999999999998888764 678988665

>PLN00223 ADP-ribosylation factor; Provisional

Probab=99.10  E-value=4.5e-10  Score=61.80  Aligned_cols=51  Identities=22%  Similarity=0.448  Sum_probs=38.7

Q ss_pred             eeeEEEEECCCCChHHHHHHHHhcCcCcCCCccceeeEeEEEEEEECCeEEEEEEEeC
Q 035301           11 YLFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQVTNFSSFTSLHFY   68 (68)
Q Consensus        11 ~~~ki~~iG~~~vGKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~~w   68 (68)
                      ..+|++++|+++||||+|++++..+.+. .+.||+|.++.  .+..++    +.+++|
T Consensus        16 ~~~ki~ivG~~~~GKTsl~~~l~~~~~~-~~~pt~g~~~~--~~~~~~----~~~~i~   66 (181)
T PLN00223         16 KEMRILMVGLDAAGKTTILYKLKLGEIV-TTIPTIGFNVE--TVEYKN----ISFTVW   66 (181)
T ss_pred             CccEEEEECCCCCCHHHHHHHHccCCCc-cccCCcceeEE--EEEECC----EEEEEE
Confidence            3589999999999999999999988876 46799987653  344433    245665

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

Probab=99.09  E-value=4.7e-10  Score=61.26  Aligned_cols=51  Identities=22%  Similarity=0.412  Sum_probs=38.5

Q ss_pred             eeeEEEEECCCCChHHHHHHHHhcCcCcCCCccceeeEeEEEEEEECCeEEEEEEEeC
Q 035301           11 YLFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQVTNFSSFTSLHFY   68 (68)
Q Consensus        11 ~~~ki~~iG~~~vGKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~~w   68 (68)
                      ..+|++++|+++||||||++++..+.+. .+.||++.++.  .+..++    +.+++|
T Consensus        12 ~~~ki~l~G~~~~GKTsL~~~~~~~~~~-~~~~t~~~~~~--~~~~~~----~~l~l~   62 (175)
T smart00177       12 KEMRILMVGLDAAGKTTILYKLKLGESV-TTIPTIGFNVE--TVTYKN----ISFTVW   62 (175)
T ss_pred             CccEEEEEcCCCCCHHHHHHHHhcCCCC-CcCCccccceE--EEEECC----EEEEEE
Confidence            3589999999999999999999877774 47789987663  333332    246665

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).

>cd04158 ARD1 ARD1 subfamily

Probab=99.09  E-value=4.8e-10  Score=60.78  Aligned_cols=35  Identities=34%  Similarity=0.630  Sum_probs=30.8

Q ss_pred             EEEEECCCCChHHHHHHHHhcCcCcCCCccceeeEe
Q 035301           14 KVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEF   49 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~~~~~~~~~~t~~~~~   49 (68)
                      |++++|+.+||||||++++.+..+.. +.||++.++
T Consensus         1 ~vvlvG~~~~GKTsl~~~l~~~~~~~-~~~T~~~~~   35 (169)
T cd04158           1 RVVTLGLDGAGKTTILFKLKQDEFMQ-PIPTIGFNV   35 (169)
T ss_pred             CEEEECCCCCCHHHHHHHHhcCCCCC-cCCcCceeE
Confidence            68999999999999999999987764 788988766

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

>TIGR02528 EutP ethanolamine utilization protein, EutP

Probab=99.08  E-value=2.6e-10  Score=60.01  Aligned_cols=44  Identities=25%  Similarity=0.441  Sum_probs=35.3

Q ss_pred             EEEEECCCCChHHHHHHHHhcCcCcCCCccceeeEeEEEEEEECCe
Q 035301           14 KVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQVTNF   59 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~   59 (68)
                      |++++|+++||||||++++.+..+  .+.+|++.++..+.+...|.
T Consensus         2 kv~liG~~~vGKSsL~~~l~~~~~--~~~~t~~~~~~~~~iDt~G~   45 (142)
T TIGR02528         2 RIMFIGSVGCGKTTLTQALQGEEI--LYKKTQAVEYNDGAIDTPGE   45 (142)
T ss_pred             eEEEECCCCCCHHHHHHHHcCCcc--ccccceeEEEcCeeecCchh
Confidence            899999999999999999998876  46678888876655555443

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.

>cd04159 Arl10_like Arl10-like subfamily

Probab=99.08  E-value=5.4e-10  Score=58.96  Aligned_cols=37  Identities=22%  Similarity=0.486  Sum_probs=33.3

Q ss_pred             EEEEECCCCChHHHHHHHHhcCcCcCCCccceeeEeE
Q 035301           14 KVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFA   50 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~~~~~~~~~~t~~~~~~   50 (68)
                      .++++|++|+|||||++++.+.++...+.|+++.++.
T Consensus         1 ~i~i~G~~~~GKssl~~~l~~~~~~~~~~~t~~~~~~   37 (159)
T cd04159           1 EITLVGLQNSGKTTLVNVIAGGQFSEDTIPTVGFNMR   37 (159)
T ss_pred             CEEEEcCCCCCHHHHHHHHccCCCCcCccCCCCcceE
Confidence            3789999999999999999999999889999987763

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.

>cd04154 Arl2 Arl2 subfamily

Probab=99.07  E-value=7e-10  Score=60.22  Aligned_cols=52  Identities=17%  Similarity=0.485  Sum_probs=38.3

Q ss_pred             ceeeEEEEECCCCChHHHHHHHHhcCcCcCCCccceeeEeEEEEEEECCeEEEEEEEeC
Q 035301           10 DYLFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQVTNFSSFTSLHFY   68 (68)
Q Consensus        10 ~~~~ki~~iG~~~vGKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~~w   68 (68)
                      ...+|++++|++++|||||++++.+..+ ..+.+|+|..  .+.+.+++.    .+++|
T Consensus        12 ~~~~kv~ivG~~~~GKTsL~~~l~~~~~-~~~~~t~g~~--~~~~~~~~~----~l~l~   63 (173)
T cd04154          12 EREMRILILGLDNAGKTTILKKLLGEDI-DTISPTLGFQ--IKTLEYEGY----KLNIW   63 (173)
T ss_pred             CCccEEEEECCCCCCHHHHHHHHccCCC-CCcCCccccc--eEEEEECCE----EEEEE
Confidence            4468999999999999999999998755 4567888743  345556532    35555

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.

>cd04149 Arf6 Arf6 subfamily

Probab=99.07  E-value=6.1e-10  Score=60.51  Aligned_cols=50  Identities=14%  Similarity=0.395  Sum_probs=37.9

Q ss_pred             eeEEEEECCCCChHHHHHHHHhcCcCcCCCccceeeEeEEEEEEECCeEEEEEEEeC
Q 035301           12 LFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQVTNFSSFTSLHFY   68 (68)
Q Consensus        12 ~~ki~~iG~~~vGKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~~w   68 (68)
                      .+||+++|+++||||||++++..+.+. .+.||++.++.  .+..+  .  +.+++|
T Consensus         9 ~~kv~i~G~~~~GKTsli~~l~~~~~~-~~~~t~g~~~~--~~~~~--~--~~~~l~   58 (168)
T cd04149           9 EMRILMLGLDAAGKTTILYKLKLGQSV-TTIPTVGFNVE--TVTYK--N--VKFNVW   58 (168)
T ss_pred             ccEEEEECcCCCCHHHHHHHHccCCCc-cccCCcccceE--EEEEC--C--EEEEEE
Confidence            589999999999999999999987775 46788887663  33332  2  346666

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

>PRK04213 GTP-binding protein; Provisional

Probab=99.07  E-value=8.2e-10  Score=61.20  Aligned_cols=38  Identities=26%  Similarity=0.418  Sum_probs=30.8

Q ss_pred             CCceeeEEEEECCCCChHHHHHHHHhcCcCcCCCccce
Q 035301            8 EYDYLFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTI   45 (68)
Q Consensus         8 ~~~~~~ki~~iG~~~vGKtsl~~~~~~~~~~~~~~~t~   45 (68)
                      .+...++++++|+++||||||++++.+..+...+.|+.
T Consensus         5 ~~~~~~~i~i~G~~~~GKSsLin~l~~~~~~~~~~~~~   42 (201)
T PRK04213          5 RPDRKPEIVFVGRSNVGKSTLVRELTGKKVRVGKRPGV   42 (201)
T ss_pred             cCCCCCEEEEECCCCCCHHHHHHHHhCCCCccCCCCce
Confidence            34557899999999999999999999888765555543

>cd01850 CDC_Septin CDC/Septin

Probab=99.06  E-value=2.2e-09  Score=62.70  Aligned_cols=56  Identities=16%  Similarity=0.417  Sum_probs=41.3

Q ss_pred             eeeEEEEECCCCChHHHHHHHHhcCcCcCC----------CccceeeEeEEEEEEECCeEEEEEEEeC
Q 035301           11 YLFKVVLIGDSGVGKSNLLSRFTRNEFCLE----------SKSTIGVEFATRTLQVTNFSSFTSLHFY   68 (68)
Q Consensus        11 ~~~ki~~iG~~~vGKtsl~~~~~~~~~~~~----------~~~t~~~~~~~~~~~~~~~~~~~~l~~w   68 (68)
                      ..++|+++|++|+|||||++++.+..+...          ..+|+..+.....+..+|...  ++.+|
T Consensus         3 ~~f~I~vvG~sg~GKSTliN~L~~~~~~~~~~~~~~~~~~~~~T~~i~~~~~~i~~~g~~~--~l~ii   68 (276)
T cd01850           3 FQFNIMVVGESGLGKSTFINTLFNTKLIPSDYPPDPAEEHIDKTVEIKSSKAEIEENGVKL--KLTVI   68 (276)
T ss_pred             cEEEEEEEcCCCCCHHHHHHHHHcCCCccccCCCCccccccCCceEEEEEEEEEEECCEEE--EEEEE
Confidence            468999999999999999999998876543          345666666556666666553  55554

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.

>cd04161 Arl2l1_Arl13_like Arl2l1/Arl13 subfamily

Probab=99.04  E-value=1.1e-09  Score=59.34  Aligned_cols=42  Identities=19%  Similarity=0.370  Sum_probs=33.6

Q ss_pred             EEEEECCCCChHHHHHHHHhcCcCcCCCccceeeEeEEEEEEECC
Q 035301           14 KVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQVTN   58 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~   58 (68)
                      +|+++|+++||||||++++.+. +...+.||+|..  .+.+..++
T Consensus         1 ~i~~~G~~~~GKTsl~~~l~~~-~~~~~~~t~g~~--~~~~~~~~   42 (167)
T cd04161           1 TLLTVGLDNAGKTTLVSALQGE-IPKKVAPTVGFT--PTKLRLDK   42 (167)
T ss_pred             CEEEECCCCCCHHHHHHHHhCC-CCccccCcccce--EEEEEECC
Confidence            4799999999999999999976 777888999864  34555544

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.

>PRK00454 engB GTP-binding protein YsxC; Reviewed

Probab=99.01  E-value=1.6e-09  Score=59.56  Aligned_cols=40  Identities=28%  Similarity=0.294  Sum_probs=32.3

Q ss_pred             CCceeeEEEEECCCCChHHHHHHHHhcCcCcCCCccceee
Q 035301            8 EYDYLFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGV   47 (68)
Q Consensus         8 ~~~~~~ki~~iG~~~vGKtsl~~~~~~~~~~~~~~~t~~~   47 (68)
                      ..+..++++++|++|+|||||++++++..+...+.++.+.
T Consensus        20 ~~~~~~~v~ivG~~~~GKSsli~~l~~~~~~~~~~~~~~~   59 (196)
T PRK00454         20 PPDDGPEIAFAGRSNVGKSSLINALTNRKNLARTSKTPGR   59 (196)
T ss_pred             CCCCCCEEEEEcCCCCCHHHHHHHHhCCCCcccccCCCCc
Confidence            3456789999999999999999999987765556666553

>cd04156 ARLTS1 ARLTS1 subfamily

Probab=99.01  E-value=1.4e-09  Score=58.03  Aligned_cols=49  Identities=31%  Similarity=0.517  Sum_probs=35.6

Q ss_pred             EEEEECCCCChHHHHHHHHhcCcCcCCCccceeeEeEEEEEEECCeEEEEEEEeC
Q 035301           14 KVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQVTNFSSFTSLHFY   68 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~~w   68 (68)
                      +++++|+++||||||++++.+..+.. +.||++.++  ..+..++.   ..+++|
T Consensus         1 ~i~i~G~~~~GKTsl~~~~~~~~~~~-~~~t~~~~~--~~~~~~~~---~~l~i~   49 (160)
T cd04156           1 QVLLLGLDSAGKSTLLYKLKHAELVT-TIPTVGFNV--EMLQLEKH---LSLTVW   49 (160)
T ss_pred             CEEEEcCCCCCHHHHHHHHhcCCccc-ccCccCcce--EEEEeCCc---eEEEEE
Confidence            58999999999999999999988864 468887554  34444322   245555

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

>KOG1673 consensus Ras GTPases [General function prediction only]

Probab=99.00  E-value=3.1e-10  Score=61.75  Aligned_cols=58  Identities=29%  Similarity=0.532  Sum_probs=52.4

Q ss_pred             CceeeEEEEECCCCChHHHHHHHHhcCcCcCCCccceeeEeEEEEEEECCeEEEEEEEeC
Q 035301            9 YDYLFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQVTNFSSFTSLHFY   68 (68)
Q Consensus         9 ~~~~~ki~~iG~~~vGKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~~w   68 (68)
                      ....+|+.++||+.+|||+|+..|.++++.+++..+.|++|..+++.+.+.++  ...||
T Consensus        17 n~Vslkv~llGD~qiGKTs~mvkYV~~~~de~~~q~~GvN~mdkt~~i~~t~I--sfSIw   74 (205)
T KOG1673|consen   17 NLVSLKVGLLGDAQIGKTSLMVKYVQNEYDEEYTQTLGVNFMDKTVSIRGTDI--SFSIW   74 (205)
T ss_pred             cceEEEEEeecccccCceeeehhhhcchhHHHHHHHhCccceeeEEEecceEE--EEEEE
Confidence            44589999999999999999999999999989999999999999999999885  56666

>KOG4423 consensus GTP-binding protein-like, RAS superfamily [Signal transduction mechanisms]

Probab=99.00  E-value=4.9e-13  Score=74.15  Aligned_cols=59  Identities=37%  Similarity=0.685  Sum_probs=53.0

Q ss_pred             CceeeEEEEECCCCChHHHHHHHHhcCcCcCCCccceeeEeEEEEEEECCeEEEEEEEeC
Q 035301            9 YDYLFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQVTNFSSFTSLHFY   68 (68)
Q Consensus         9 ~~~~~ki~~iG~~~vGKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~~w   68 (68)
                      ....+|++++|+.++|||+++.++....|...|..|||.+|..+.+..|++.+ +++++|
T Consensus        22 r~hL~k~lVig~~~vgkts~i~ryv~~nfs~~yRAtIgvdfalkVl~wdd~t~-vRlqLw   80 (229)
T KOG4423|consen   22 REHLFKVLVIGDLGVGKTSSIKRYVHQNFSYHYRATIGVDFALKVLQWDDKTI-VRLQLW   80 (229)
T ss_pred             hhhhhhhheeeeccccchhHHHHHHHHHHHHHHHHHHhHHHHHHHhccChHHH-HHHHHh
Confidence            46789999999999999999999999999999999999999888888888775 567776

>cd00879 Sar1 Sar1 subfamily

Probab=98.98  E-value=2.5e-09  Score=58.73  Aligned_cols=47  Identities=19%  Similarity=0.333  Sum_probs=36.2

Q ss_pred             ceeeEEEEECCCCChHHHHHHHHhcCcCcCCCccceeeEeEEEEEEECCe
Q 035301           10 DYLFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQVTNF   59 (68)
Q Consensus        10 ~~~~ki~~iG~~~vGKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~   59 (68)
                      ...+|++++|++++|||||++++.++.+. .+.||.+...  ..+.+++.
T Consensus        17 ~~~~ki~ilG~~~~GKStLi~~l~~~~~~-~~~~T~~~~~--~~i~~~~~   63 (190)
T cd00879          17 NKEAKILFLGLDNAGKTTLLHMLKDDRLA-QHVPTLHPTS--EELTIGNI   63 (190)
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHhcCCCc-ccCCccCcce--EEEEECCE
Confidence            34689999999999999999999988774 5777776533  45555553

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.

>cd04157 Arl6 Arl6 subfamily

Probab=98.98  E-value=1.9e-09  Score=57.55  Aligned_cols=36  Identities=14%  Similarity=0.365  Sum_probs=30.1

Q ss_pred             EEEEECCCCChHHHHHHHHhcCc-CcCCCccceeeEe
Q 035301           14 KVVLIGDSGVGKSNLLSRFTRNE-FCLESKSTIGVEF   49 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~~~-~~~~~~~t~~~~~   49 (68)
                      +|+++|+++||||||++++.+.. +...+.||+|..+
T Consensus         1 ~i~~vG~~~~GKTsl~~~l~~~~~~~~~~~~t~g~~~   37 (162)
T cd04157           1 NILVVGLDNSGKTTIINQLKPENAQSQIIVPTVGFNV   37 (162)
T ss_pred             CEEEECCCCCCHHHHHHHHcccCCCcceecCccccce
Confidence            58999999999999999999876 4566788888544

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

>cd04153 Arl5_Arl8 Arl5/Arl8 subfamily

Probab=98.95  E-value=4e-09  Score=57.47  Aligned_cols=37  Identities=30%  Similarity=0.546  Sum_probs=32.2

Q ss_pred             eeEEEEECCCCChHHHHHHHHhcCcCcCCCccceeeEe
Q 035301           12 LFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEF   49 (68)
Q Consensus        12 ~~ki~~iG~~~vGKtsl~~~~~~~~~~~~~~~t~~~~~   49 (68)
                      .+|++++|++++|||||++++..+.+.. +.||++.++
T Consensus        15 ~~kv~~~G~~~~GKTsl~~~l~~~~~~~-~~~t~~~~~   51 (174)
T cd04153          15 EYKVIIVGLDNAGKTTILYQFLLGEVVH-TSPTIGSNV   51 (174)
T ss_pred             ccEEEEECCCCCCHHHHHHHHccCCCCC-cCCccccce
Confidence            5799999999999999999999888865 568888665

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.

>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=98.92  E-value=3.6e-09  Score=57.95  Aligned_cols=49  Identities=29%  Similarity=0.542  Sum_probs=38.4

Q ss_pred             CceeeEEEEECCCCChHHHHHHHHhcCcCcCCCccceeeEeEEEEEEECCeE
Q 035301            9 YDYLFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQVTNFS   60 (68)
Q Consensus         9 ~~~~~ki~~iG~~~vGKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~   60 (68)
                      ....+||+++|..++||||+++++..+.+. ...||.|.+.  ..+..++..
T Consensus        11 ~~~~~~ililGl~~sGKTtll~~l~~~~~~-~~~pT~g~~~--~~i~~~~~~   59 (175)
T PF00025_consen   11 KKKEIKILILGLDGSGKTTLLNRLKNGEIS-ETIPTIGFNI--EEIKYKGYS   59 (175)
T ss_dssp             TTSEEEEEEEESTTSSHHHHHHHHHSSSEE-EEEEESSEEE--EEEEETTEE
T ss_pred             cCcEEEEEEECCCccchHHHHHHhhhcccc-ccCccccccc--ceeeeCcEE
Confidence            356799999999999999999999987654 3778888554  566666544

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 ....

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

Probab=98.92  E-value=6.2e-09  Score=56.97  Aligned_cols=38  Identities=29%  Similarity=0.339  Sum_probs=30.4

Q ss_pred             ceeeEEEEECCCCChHHHHHHHHhcCcCcCCCccceee
Q 035301           10 DYLFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGV   47 (68)
Q Consensus        10 ~~~~ki~~iG~~~vGKtsl~~~~~~~~~~~~~~~t~~~   47 (68)
                      +..++++++|++++|||||++++.+..+...+.++.+.
T Consensus        16 ~~~~~i~ivG~~~~GKStlin~l~~~~~~~~~~~~~~~   53 (179)
T TIGR03598        16 DDGPEIAFAGRSNVGKSSLINALTNRKKLARTSKTPGR   53 (179)
T ss_pred             CCCCEEEEEcCCCCCHHHHHHHHhCCCCcccccCCCCc
Confidence            56789999999999999999999988654444455543

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.

>cd04155 Arl3 Arl3 subfamily

Probab=98.92  E-value=6.8e-09  Score=56.05  Aligned_cols=48  Identities=19%  Similarity=0.416  Sum_probs=35.8

Q ss_pred             ceeeEEEEECCCCChHHHHHHHHhcCcCcCCCccceeeEeEEEEEEECCeE
Q 035301           10 DYLFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQVTNFS   60 (68)
Q Consensus        10 ~~~~ki~~iG~~~vGKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~   60 (68)
                      ...++++++|++|+|||||++++.+..+. .+.++.|.++  ..+..++..
T Consensus        12 ~~~~~v~i~G~~g~GKStLl~~l~~~~~~-~~~~t~g~~~--~~i~~~~~~   59 (173)
T cd04155          12 SEEPRILILGLDNAGKTTILKQLASEDIS-HITPTQGFNI--KTVQSDGFK   59 (173)
T ss_pred             CCccEEEEEccCCCCHHHHHHHHhcCCCc-ccCCCCCcce--EEEEECCEE
Confidence            33789999999999999999999987664 4567777443  345555433

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=98.90  E-value=7.1e-09  Score=57.61  Aligned_cols=29  Identities=28%  Similarity=0.418  Sum_probs=25.2

Q ss_pred             ceeeEEEEECCCCChHHHHHHHHhcCcCc
Q 035301           10 DYLFKVVLIGDSGVGKSNLLSRFTRNEFC   38 (68)
Q Consensus        10 ~~~~ki~~iG~~~vGKtsl~~~~~~~~~~   38 (68)
                      +..++|+++|++|||||||++++.+..+.
T Consensus        39 ~~~~~I~iiG~~g~GKStLl~~l~~~~~~   67 (204)
T cd01878          39 SGIPTVALVGYTNAGKSTLFNALTGADVY   67 (204)
T ss_pred             cCCCeEEEECCCCCCHHHHHHHHhcchhc
Confidence            34589999999999999999999987643

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.

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

Probab=98.90  E-value=6e-09  Score=55.57  Aligned_cols=35  Identities=26%  Similarity=0.592  Sum_probs=29.5

Q ss_pred             EEEEECCCCChHHHHHHHHhcCcCcCCCccceeeEe
Q 035301           14 KVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEF   49 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~~~~~~~~~~t~~~~~   49 (68)
                      |++++|++|||||||++++++..+ ..+.++++...
T Consensus         1 ki~iiG~~~~GKssli~~~~~~~~-~~~~~t~~~~~   35 (158)
T cd00878           1 RILILGLDGAGKTTILYKLKLGEV-VTTIPTIGFNV   35 (158)
T ss_pred             CEEEEcCCCCCHHHHHHHHhcCCC-CCCCCCcCcce
Confidence            689999999999999999998874 45677887554

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=98.90  E-value=8e-09  Score=56.83  Aligned_cols=38  Identities=18%  Similarity=0.339  Sum_probs=31.0

Q ss_pred             ceeeEEEEECCCCChHHHHHHHHhcCcCcCCCccceeeE
Q 035301           10 DYLFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVE   48 (68)
Q Consensus        10 ~~~~ki~~iG~~~vGKtsl~~~~~~~~~~~~~~~t~~~~   48 (68)
                      ...+|++++|++++|||||++++.++.+. .+.||.+..
T Consensus        15 ~~~~~i~ivG~~~~GKTsli~~l~~~~~~-~~~~t~~~~   52 (184)
T smart00178       15 NKHAKILFLGLDNAGKTTLLHMLKNDRLA-QHQPTQHPT   52 (184)
T ss_pred             cccCEEEEECCCCCCHHHHHHHHhcCCCc-ccCCccccc
Confidence            45689999999999999999999988765 356676543

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

>cd04160 Arfrp1 Arfrp1 subfamily

Probab=98.90  E-value=6e-09  Score=55.94  Aligned_cols=43  Identities=23%  Similarity=0.384  Sum_probs=31.2

Q ss_pred             EEEEECCCCChHHHHHHHHhcCc------CcCCCccceeeEeEEEEEEECC
Q 035301           14 KVVLIGDSGVGKSNLLSRFTRNE------FCLESKSTIGVEFATRTLQVTN   58 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~~~------~~~~~~~t~~~~~~~~~~~~~~   58 (68)
                      +++++|++|+|||||++++.+..      +...+.+|++.++.  .+.+++
T Consensus         1 ~i~~vG~~~~GKstLi~~l~~~~~~~~~~~~~~~~~t~~~~~~--~~~~~~   49 (167)
T cd04160           1 SVLILGLDNAGKTTFLEQLKTLFSKYKGLPPSKITPTVGLNIG--TIEVGN   49 (167)
T ss_pred             CEEEEecCCCCHHHHHHHHhhhcccccCCcccccCCccccceE--EEEECC
Confidence            58999999999999999987532      23455678776663  444553

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.

>cd04151 Arl1 Arl1 subfamily

Probab=98.88  E-value=7.1e-09  Score=55.44  Aligned_cols=35  Identities=26%  Similarity=0.534  Sum_probs=29.4

Q ss_pred             EEEEECCCCChHHHHHHHHhcCcCcCCCccceeeEe
Q 035301           14 KVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEF   49 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~~~~~~~~~~t~~~~~   49 (68)
                      |++++|++++|||+|++++....+. .+.||++.++
T Consensus         1 kv~lvG~~~~GKTsl~~~l~~~~~~-~~~~t~~~~~   35 (158)
T cd04151           1 RILILGLDNAGKTTILYRLQLGEVV-TTIPTIGFNV   35 (158)
T ss_pred             CEEEECCCCCCHHHHHHHHccCCCc-CcCCccCcCe
Confidence            6899999999999999999887775 4567887655

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.

>KOG0073 consensus GTP-binding ADP-ribosylation factor-like protein ARL2 [Intracellular trafficking, secretion, and vesicular transport; Cytoskeleton]

Probab=98.86  E-value=1e-08  Score=56.09  Aligned_cols=49  Identities=16%  Similarity=0.432  Sum_probs=40.5

Q ss_pred             CceeeEEEEECCCCChHHHHHHHHhcCcCcCCCccceeeEeEEEEEEECCeE
Q 035301            9 YDYLFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQVTNFS   60 (68)
Q Consensus         9 ~~~~~ki~~iG~~~vGKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~   60 (68)
                      .+..++|+++|..++|||++++++.+.. .+...||.|  |..+++.+++-+
T Consensus        13 kerE~riLiLGLdNsGKTti~~kl~~~~-~~~i~pt~g--f~Iktl~~~~~~   61 (185)
T KOG0073|consen   13 KEREVRILILGLDNSGKTTIVKKLLGED-TDTISPTLG--FQIKTLEYKGYT   61 (185)
T ss_pred             hhheeEEEEEecCCCCchhHHHHhcCCC-ccccCCccc--eeeEEEEecceE
Confidence            3458999999999999999999999876 567789988  556788777665

>cd01876 YihA_EngB The YihA (EngB) subfamily

Probab=98.81  E-value=1.6e-08  Score=53.76  Aligned_cols=42  Identities=24%  Similarity=0.330  Sum_probs=30.0

Q ss_pred             EEEEECCCCChHHHHHHHHhcCcCcCCCccceeeEeEEEEEE
Q 035301           14 KVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQ   55 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~   55 (68)
                      +++++|++|+|||||++.+.++.+.....++.+.........
T Consensus         1 ~i~l~G~~g~GKTtL~~~l~~~~~~~~~~~~~~~t~~~~~~~   42 (170)
T cd01876           1 EIAFAGRSNVGKSSLINALTNRKKLARTSKTPGKTQLINFFN   42 (170)
T ss_pred             CEEEEcCCCCCHHHHHHHHhcCCceeeecCCCCcceeEEEEE
Confidence            478999999999999999997666555555555443333333

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.

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

Probab=98.81  E-value=8.3e-09  Score=57.10  Aligned_cols=54  Identities=15%  Similarity=0.294  Sum_probs=35.7

Q ss_pred             eEEEEECCCCChHHHHHHHHhc--CcCcCCC------------ccceeeEeEEEEEEECCeEEEEEEEeC
Q 035301           13 FKVVLIGDSGVGKSNLLSRFTR--NEFCLES------------KSTIGVEFATRTLQVTNFSSFTSLHFY   68 (68)
Q Consensus        13 ~ki~~iG~~~vGKtsl~~~~~~--~~~~~~~------------~~t~~~~~~~~~~~~~~~~~~~~l~~w   68 (68)
                      -+++++|+.++|||||+++++.  +.|...+            ..+.|..+..+...++....  .+++|
T Consensus         3 r~i~ivG~~~~GKTsL~~~l~~~~~~~~~~~~~~~~~~~~~~~e~~~g~t~~~~~~~~~~~~~--~~~l~   70 (194)
T cd01891           3 RNIAIIAHVDHGKTTLVDALLKQSGTFRENEEVEERVMDSNDLERERGITILAKNTAVTYKDT--KINIV   70 (194)
T ss_pred             cEEEEEecCCCCHHHHHHHHHHHcCCCCccCcccccccccchhHHhcccccccceeEEEECCE--EEEEE
Confidence            4799999999999999999997  5555443            23455555555555544443  34554

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

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

Probab=98.81  E-value=6e-09  Score=53.41  Aligned_cols=34  Identities=53%  Similarity=0.672  Sum_probs=28.5

Q ss_pred             eEEEEECCCCChHHHHHHHHhcCcCcCCCc-ccee
Q 035301           13 FKVVLIGDSGVGKSNLLSRFTRNEFCLESK-STIG   46 (68)
Q Consensus        13 ~ki~~iG~~~vGKtsl~~~~~~~~~~~~~~-~t~~   46 (68)
                      +|++++|+.|||||+|+.++....|...+. ++++
T Consensus         1 ~kvv~~G~~gvGKt~l~~~~~~~~~~~~~~~~t~~   35 (124)
T smart00010        1 FKVVGIGDSGVGKVGKSARFVQFPFDYVPTVFTIG   35 (124)
T ss_pred             CEEEEECCCChhHHHHHHHHhcCCccccCceehhh
Confidence            589999999999999999999888865555 5554

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.

>KOG0096 consensus GTPase Ran/TC4/GSP1 (nuclear protein transport pathway), small G protein superfamily [Intracellular trafficking, secretion, and vesicular transport]

Probab=98.81  E-value=2e-08  Score=56.09  Aligned_cols=57  Identities=33%  Similarity=0.497  Sum_probs=45.7

Q ss_pred             ceeeEEEEECCCCChHHHHHHHHhcCcCcCCCccceeeEeEEEEEEECCeEEEEEEEeC
Q 035301           10 DYLFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQVTNFSSFTSLHFY   68 (68)
Q Consensus        10 ~~~~ki~~iG~~~vGKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~~w   68 (68)
                      ...+|++++|+.|.|||++..+++..+|...|.+|+|.+.. .++...+.. .+++..|
T Consensus         8 ~~~fklvlvGdgg~gKtt~vkr~ltgeFe~~y~at~Gv~~~-pl~f~tn~g-~irf~~w   64 (216)
T KOG0096|consen    8 GLTFKLVLVGDGGTGKTTFVKRHLTGEFEKTYPATLGVEVH-PLLFDTNRG-QIRFNVW   64 (216)
T ss_pred             cceEEEEEecCCcccccchhhhhhcccceecccCcceeEEe-eeeeecccC-cEEEEee
Confidence            56899999999999999999999999999999999998873 444433333 2456665

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

Probab=98.80  E-value=2.4e-08  Score=53.63  Aligned_cols=25  Identities=36%  Similarity=0.546  Sum_probs=23.1

Q ss_pred             EEEEECCCCChHHHHHHHHhcCcCc
Q 035301           14 KVVLIGDSGVGKSNLLSRFTRNEFC   38 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~~~~~   38 (68)
                      +++++|++++|||||++++.+..+.
T Consensus         2 ~i~~~G~~~~GKssli~~l~~~~~~   26 (168)
T cd01897           2 TLVIAGYPNVGKSSLVNKLTRAKPE   26 (168)
T ss_pred             eEEEEcCCCCCHHHHHHHHhcCCCc
Confidence            7899999999999999999988764

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.

>cd04171 SelB SelB subfamily

Probab=98.79  E-value=2.7e-08  Score=52.97  Aligned_cols=44  Identities=20%  Similarity=0.252  Sum_probs=28.3

Q ss_pred             EEEEECCCCChHHHHHHHHhcC---cCcCCCccceeeEeEEEEEEEC
Q 035301           14 KVVLIGDSGVGKSNLLSRFTRN---EFCLESKSTIGVEFATRTLQVT   57 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~~---~~~~~~~~t~~~~~~~~~~~~~   57 (68)
                      -++++|+++||||||++++.+.   .++.++.++...+.....+.++
T Consensus         2 ~i~i~G~~~~GKssl~~~l~~~~~~~~~~~~~~~~t~~~~~~~~~~~   48 (164)
T cd04171           2 IIGTAGHIDHGKTTLIKALTGIETDRLPEEKKRGITIDLGFAYLDLP   48 (164)
T ss_pred             EEEEEecCCCCHHHHHHHHhCcccccchhhhccCceEEeeeEEEEec
Confidence            5789999999999999999863   3443333333333322344544

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

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

Probab=98.72  E-value=8.5e-08  Score=50.61  Aligned_cols=47  Identities=21%  Similarity=0.419  Sum_probs=30.9

Q ss_pred             eEEEEECCCCChHHHHHHHHhcCcCc-CCCccceeeEeEEEEEEECCe
Q 035301           13 FKVVLIGDSGVGKSNLLSRFTRNEFC-LESKSTIGVEFATRTLQVTNF   59 (68)
Q Consensus        13 ~ki~~iG~~~vGKtsl~~~~~~~~~~-~~~~~t~~~~~~~~~~~~~~~   59 (68)
                      ++++++|++|+|||||++++.+..+. ....+....++....+.+++.
T Consensus         2 ~~i~l~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~   49 (157)
T cd04164           2 IKVVIVGKPNVGKSSLLNALAGRDRAIVSDIAGTTRDVIEESIDIGGI   49 (157)
T ss_pred             cEEEEECCCCCCHHHHHHHHHCCceEeccCCCCCccceEEEEEEeCCE
Confidence            58999999999999999999987642 122233333443344444443

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.

>TIGR00450 mnmE_trmE_thdF tRNA modification GTPase TrmE

Probab=98.72  E-value=1.1e-07  Score=58.78  Aligned_cols=49  Identities=18%  Similarity=0.329  Sum_probs=37.0

Q ss_pred             eeeEEEEECCCCChHHHHHHHHhcCcC--cCCCccceeeEeEEEEEEECCeE
Q 035301           11 YLFKVVLIGDSGVGKSNLLSRFTRNEF--CLESKSTIGVEFATRTLQVTNFS   60 (68)
Q Consensus        11 ~~~ki~~iG~~~vGKtsl~~~~~~~~~--~~~~~~t~~~~~~~~~~~~~~~~   60 (68)
                      ..+|++++|+++||||||++++++...  ...+ |....++....+.+++..
T Consensus       202 ~g~kVvIvG~~nvGKSSLiN~L~~~~~aivs~~-pgtTrd~~~~~i~~~g~~  252 (442)
T TIGR00450       202 DGFKLAIVGSPNVGKSSLLNALLKQDRAIVSDI-KGTTRDVVEGDFELNGIL  252 (442)
T ss_pred             cCCEEEEECCCCCcHHHHHHHHhCCCCcccCCC-CCcEEEEEEEEEEECCEE
Confidence            458999999999999999999998653  3333 444456666777787765

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.

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

Probab=98.69  E-value=3.5e-08  Score=52.32  Aligned_cols=43  Identities=21%  Similarity=0.307  Sum_probs=31.2

Q ss_pred             EECCCCChHHHHHHHHhcCcCcCCCccceeeEeEEEEEEECCe
Q 035301           17 LIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQVTNF   59 (68)
Q Consensus        17 ~iG~~~vGKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~   59 (68)
                      ++|+++||||||++++.+..+.....+....+.....+.+++.
T Consensus         1 l~G~~~~GKssl~~~~~~~~~~~~~~~~~t~~~~~~~~~~~~~   43 (158)
T cd01879           1 LVGNPNVGKTTLFNALTGARQKVGNWPGVTVEKKEGRFKLGGK   43 (158)
T ss_pred             CCCCCCCCHHHHHHHHhcCcccccCCCCcccccceEEEeeCCe
Confidence            5799999999999999987655444455455555566667654

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.

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

Probab=98.68  E-value=8.3e-08  Score=52.19  Aligned_cols=49  Identities=20%  Similarity=0.310  Sum_probs=36.4

Q ss_pred             eEEEEECCCCChHHHHHHHHhcCcCcCCCccceeeEeEEEEEEECCeEE
Q 035301           13 FKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQVTNFSS   61 (68)
Q Consensus        13 ~ki~~iG~~~vGKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~   61 (68)
                      ++|.++|.++||||||++++.+.+..-...|..-.+.....+.+++..+
T Consensus         1 i~ialvG~PNvGKStLfN~Ltg~~~~v~n~pG~Tv~~~~g~~~~~~~~~   49 (156)
T PF02421_consen    1 IRIALVGNPNVGKSTLFNALTGAKQKVGNWPGTTVEKKEGIFKLGDQQV   49 (156)
T ss_dssp             -EEEEEESTTSSHHHHHHHHHTTSEEEEESTTSSSEEEEEEEEETTEEE
T ss_pred             CEEEEECCCCCCHHHHHHHHHCCCceecCCCCCCeeeeeEEEEecCceE
Confidence            5899999999999999999999876544445444556556677777554

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 ....

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

Probab=98.66  E-value=1.1e-07  Score=53.29  Aligned_cols=31  Identities=29%  Similarity=0.515  Sum_probs=26.6

Q ss_pred             EEEEECCCCChHHHHHHHHhcCcCcCCCccc
Q 035301           14 KVVLIGDSGVGKSNLLSRFTRNEFCLESKST   44 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~~~~~~~~~~t   44 (68)
                      .++++|++++|||+|++++....+...+.++
T Consensus         2 ~vll~G~~~sGKTsL~~~l~~~~~~~t~~s~   32 (203)
T cd04105           2 TVLLLGPSDSGKTALFTKLTTGKYRSTVTSI   32 (203)
T ss_pred             eEEEEcCCCCCHHHHHHHHhcCCCCCccCcE
Confidence            6899999999999999999998887665443

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

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

Probab=98.66  E-value=6.8e-08  Score=51.85  Aligned_cols=45  Identities=29%  Similarity=0.465  Sum_probs=35.4

Q ss_pred             eEEEEECCCCChHHHHHHHHhcCcCcCCCccceeeEeEEEEEEECCe
Q 035301           13 FKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQVTNF   59 (68)
Q Consensus        13 ~ki~~iG~~~vGKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~   59 (68)
                      -|++++|+.|+|||||++++.+.+.  .+.-|..+.|....+...|+
T Consensus         2 krimliG~~g~GKTTL~q~L~~~~~--~~~KTq~i~~~~~~IDTPGE   46 (143)
T PF10662_consen    2 KRIMLIGPSGSGKTTLAQALNGEEI--RYKKTQAIEYYDNTIDTPGE   46 (143)
T ss_pred             ceEEEECCCCCCHHHHHHHHcCCCC--CcCccceeEecccEEECChh
Confidence            4899999999999999999998765  45566667776666665554

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

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

Probab=98.66  E-value=1.2e-07  Score=50.74  Aligned_cols=32  Identities=22%  Similarity=0.415  Sum_probs=26.2

Q ss_pred             EEEEECCCCChHHHHHHHHhcCcCcCCCccce
Q 035301           14 KVVLIGDSGVGKSNLLSRFTRNEFCLESKSTI   45 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~~~~~~~~~~t~   45 (68)
                      .++++|+.++|||||++++....+.....++.
T Consensus         2 ~i~iiG~~~~GKtsli~~l~~~~~~~~~~~~~   33 (168)
T cd01887           2 VVTVMGHVDHGKTTLLDKIRKTNVAAGEAGGI   33 (168)
T ss_pred             EEEEEecCCCCHHHHHHHHHhcccccccCCCe
Confidence            48999999999999999999888766544333

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.

>cd04104 p47_IIGP_like p47 (47-kDa) family

Probab=98.65  E-value=4.6e-08  Score=54.47  Aligned_cols=34  Identities=24%  Similarity=0.453  Sum_probs=27.5

Q ss_pred             eEEEEECCCCChHHHHHHHHhcCcCcCCCcccee
Q 035301           13 FKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIG   46 (68)
Q Consensus        13 ~ki~~iG~~~vGKtsl~~~~~~~~~~~~~~~t~~   46 (68)
                      +|++++|++|+|||||++.+++..+.....++.+
T Consensus         2 ~kI~i~G~~g~GKSSLin~L~g~~~~~~~~~~~~   35 (197)
T cd04104           2 LNIAVTGESGAGKSSFINALRGVGHEEEGAAPTG   35 (197)
T ss_pred             eEEEEECCCCCCHHHHHHHHhccCCCCCCccccC
Confidence            6899999999999999999998766554444443

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

>PRK15494 era GTPase Era; Provisional

Probab=98.64  E-value=1.6e-07  Score=56.29  Aligned_cols=29  Identities=31%  Similarity=0.503  Sum_probs=25.5

Q ss_pred             ceeeEEEEECCCCChHHHHHHHHhcCcCc
Q 035301           10 DYLFKVVLIGDSGVGKSNLLSRFTRNEFC   38 (68)
Q Consensus        10 ~~~~ki~~iG~~~vGKtsl~~~~~~~~~~   38 (68)
                      ...++++++|+++||||||++++++..+.
T Consensus        50 ~k~~kV~ivG~~nvGKSTLin~l~~~k~~   78 (339)
T PRK15494         50 QKTVSVCIIGRPNSGKSTLLNRIIGEKLS   78 (339)
T ss_pred             cceeEEEEEcCCCCCHHHHHHHHhCCcee
Confidence            34569999999999999999999988764

>PRK03003 GTP-binding protein Der; Reviewed

Probab=98.64  E-value=1.3e-07  Score=58.74  Aligned_cols=51  Identities=22%  Similarity=0.300  Sum_probs=37.6

Q ss_pred             eeeEEEEECCCCChHHHHHHHHhcCcCc-CCCccceeeEeEEEEEEECCeEE
Q 035301           11 YLFKVVLIGDSGVGKSNLLSRFTRNEFC-LESKSTIGVEFATRTLQVTNFSS   61 (68)
Q Consensus        11 ~~~ki~~iG~~~vGKtsl~~~~~~~~~~-~~~~~t~~~~~~~~~~~~~~~~~   61 (68)
                      ..+|++++|.++||||||++++++..+. .+..+....++....+.+++..+
T Consensus       210 ~~~kI~iiG~~nvGKSSLin~l~~~~~~~~s~~~gtT~d~~~~~~~~~~~~~  261 (472)
T PRK03003        210 GPRRVALVGKPNVGKSSLLNKLAGEERSVVDDVAGTTVDPVDSLIELGGKTW  261 (472)
T ss_pred             cceEEEEECCCCCCHHHHHHHHhCCCcccccCCCCccCCcceEEEEECCEEE
Confidence            4689999999999999999999987652 23344444555556677777653

>cd01890 LepA LepA subfamily

Probab=98.63  E-value=1e-07  Score=51.73  Aligned_cols=22  Identities=27%  Similarity=0.342  Sum_probs=20.1

Q ss_pred             EEEEECCCCChHHHHHHHHhcC
Q 035301           14 KVVLIGDSGVGKSNLLSRFTRN   35 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~~   35 (68)
                      +++++|+.++|||||++++++.
T Consensus         2 ni~~vG~~~~GKssL~~~l~~~   23 (179)
T cd01890           2 NFSIIAHIDHGKSTLADRLLEL   23 (179)
T ss_pred             cEEEEeecCCCHHHHHHHHHHH
Confidence            5899999999999999999863

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.

>cd00882 Ras_like_GTPase Ras-like GTPase superfamily

Probab=98.62  E-value=1.2e-07  Score=48.99  Aligned_cols=43  Identities=42%  Similarity=0.716  Sum_probs=31.8

Q ss_pred             EECCCCChHHHHHHHHhcCcC-cCCCccceeeEeEEEEEEECCeE
Q 035301           17 LIGDSGVGKSNLLSRFTRNEF-CLESKSTIGVEFATRTLQVTNFS   60 (68)
Q Consensus        17 ~iG~~~vGKtsl~~~~~~~~~-~~~~~~t~~~~~~~~~~~~~~~~   60 (68)
                      ++|+.|+|||||++++.+... .....++. .++........+..
T Consensus         1 iiG~~~~GKStl~~~l~~~~~~~~~~~~t~-~~~~~~~~~~~~~~   44 (157)
T cd00882           1 VVGDSGVGKTSLLNRLLGGEFVPEEYETTI-IDFYSKTIEVDGKK   44 (157)
T ss_pred             CCCcCCCcHHHHHHHHHhCCcCCcccccch-hheeeEEEEECCEE
Confidence            589999999999999998776 55565666 66655555555444

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

>cd01895 EngA2 EngA2 subfamily

Probab=98.61  E-value=1.9e-07  Score=49.87  Aligned_cols=26  Identities=31%  Similarity=0.538  Sum_probs=23.2

Q ss_pred             eeEEEEECCCCChHHHHHHHHhcCcC
Q 035301           12 LFKVVLIGDSGVGKSNLLSRFTRNEF   37 (68)
Q Consensus        12 ~~ki~~iG~~~vGKtsl~~~~~~~~~   37 (68)
                      .++|+++|+.++|||||++++.+..+
T Consensus         2 ~~~i~i~G~~~~GKstli~~l~~~~~   27 (174)
T cd01895           2 PIRIAIIGRPNVGKSSLVNALLGEER   27 (174)
T ss_pred             CcEEEEEcCCCCCHHHHHHHHhCccc
Confidence            47899999999999999999997653

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.

>TIGR03156 GTP_HflX GTP-binding protein HflX

Probab=98.61  E-value=1.5e-07  Score=56.66  Aligned_cols=46  Identities=26%  Similarity=0.392  Sum_probs=33.0

Q ss_pred             eeeEEEEECCCCChHHHHHHHHhcCcCcCCC--ccceeeEeEEEEEEECC
Q 035301           11 YLFKVVLIGDSGVGKSNLLSRFTRNEFCLES--KSTIGVEFATRTLQVTN   58 (68)
Q Consensus        11 ~~~ki~~iG~~~vGKtsl~~~~~~~~~~~~~--~~t~~~~~~~~~~~~~~   58 (68)
                      ..++++++|.+++|||||++++.+..+....  .+|.  ++..+.+.+++
T Consensus       188 ~~~~ValvG~~NvGKSSLln~L~~~~~~v~~~~~tT~--d~~~~~i~~~~  235 (351)
T TIGR03156       188 DVPTVALVGYTNAGKSTLFNALTGADVYAADQLFATL--DPTTRRLDLPD  235 (351)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhCCceeeccCCcccc--CCEEEEEEeCC
Confidence            3489999999999999999999987643222  2343  44456667743

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).

>cd04163 Era Era subfamily

Probab=98.59  E-value=3.8e-07  Score=48.25  Aligned_cols=26  Identities=31%  Similarity=0.437  Sum_probs=23.6

Q ss_pred             eeEEEEECCCCChHHHHHHHHhcCcC
Q 035301           12 LFKVVLIGDSGVGKSNLLSRFTRNEF   37 (68)
Q Consensus        12 ~~ki~~iG~~~vGKtsl~~~~~~~~~   37 (68)
                      ..+++++|+.|+|||||++++.+...
T Consensus         3 ~~~i~~~G~~g~GKttl~~~l~~~~~   28 (168)
T cd04163           3 SGFVAIVGRPNVGKSTLLNALVGQKI   28 (168)
T ss_pred             eeEEEEECCCCCCHHHHHHHHhCCce
Confidence            57899999999999999999998764

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.

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

Probab=98.59  E-value=2.6e-07  Score=54.29  Aligned_cols=28  Identities=21%  Similarity=0.718  Sum_probs=23.7

Q ss_pred             eeeEEEEECCCCChHHHHHHHHhcCcCc
Q 035301           11 YLFKVVLIGDSGVGKSNLLSRFTRNEFC   38 (68)
Q Consensus        11 ~~~ki~~iG~~~vGKtsl~~~~~~~~~~   38 (68)
                      ..|+++++|++|+|||||++.+++....
T Consensus         3 ~~fnImVvG~sG~GKTTFIntL~~~~~~   30 (281)
T PF00735_consen    3 FNFNIMVVGESGLGKTTFINTLFNSDII   30 (281)
T ss_dssp             EEEEEEEEECTTSSHHHHHHHHHTSS--
T ss_pred             ceEEEEEECCCCCCHHHHHHHHHhcccc
Confidence            4689999999999999999999976543

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.

>PRK03003 GTP-binding protein Der; Reviewed

Probab=98.58  E-value=3e-07  Score=57.11  Aligned_cols=49  Identities=20%  Similarity=0.243  Sum_probs=34.2

Q ss_pred             eeEEEEECCCCChHHHHHHHHhcCcCc-CCCccceeeEeEEEEEEECCeE
Q 035301           12 LFKVVLIGDSGVGKSNLLSRFTRNEFC-LESKSTIGVEFATRTLQVTNFS   60 (68)
Q Consensus        12 ~~ki~~iG~~~vGKtsl~~~~~~~~~~-~~~~~t~~~~~~~~~~~~~~~~   60 (68)
                      ..+|+++|.++||||||++++++..+. ....+.+..+.....+.+++..
T Consensus        38 ~~~V~IvG~~nvGKSSL~nrl~~~~~~~v~~~~gvT~d~~~~~~~~~~~~   87 (472)
T PRK03003         38 LPVVAVVGRPNVGKSTLVNRILGRREAVVEDVPGVTRDRVSYDAEWNGRR   87 (472)
T ss_pred             CCEEEEEcCCCCCHHHHHHHHhCcCcccccCCCCCCEeeEEEEEEECCcE
Confidence            579999999999999999999987642 2233444344444555666654

>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=98.53  E-value=6.3e-07  Score=45.90  Aligned_cols=23  Identities=39%  Similarity=0.705  Sum_probs=21.0

Q ss_pred             EEEEECCCCChHHHHHHHHhcCc
Q 035301           14 KVVLIGDSGVGKSNLLSRFTRNE   36 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~~~   36 (68)
                      +|+++|..++|||||++.+.+..
T Consensus         1 ~V~iiG~~~~GKSTlin~l~~~~   23 (116)
T PF01926_consen    1 RVAIIGRPNVGKSTLINALTGKK   23 (116)
T ss_dssp             EEEEEESTTSSHHHHHHHHHTST
T ss_pred             CEEEECCCCCCHHHHHHHHhccc
Confidence            68999999999999999999753

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 ....

>PRK05291 trmE tRNA modification GTPase TrmE; Reviewed

Probab=98.53  E-value=4.9e-07  Score=56.02  Aligned_cols=49  Identities=22%  Similarity=0.330  Sum_probs=34.9

Q ss_pred             eeEEEEECCCCChHHHHHHHHhcCcCc-CCCccceeeEeEEEEEEECCeE
Q 035301           12 LFKVVLIGDSGVGKSNLLSRFTRNEFC-LESKSTIGVEFATRTLQVTNFS   60 (68)
Q Consensus        12 ~~ki~~iG~~~vGKtsl~~~~~~~~~~-~~~~~t~~~~~~~~~~~~~~~~   60 (68)
                      .++++++|.+++|||||++++.+.... ....+....++....+.+++.+
T Consensus       215 ~~kV~ivG~~nvGKSSLln~L~~~~~a~v~~~~gtT~d~~~~~i~~~g~~  264 (449)
T PRK05291        215 GLKVVIAGRPNVGKSSLLNALLGEERAIVTDIAGTTRDVIEEHINLDGIP  264 (449)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCCCCcccCCCCCcccccEEEEEEECCeE
Confidence            479999999999999999999986642 2222333345556667777655

>cd01898 Obg Obg subfamily

Probab=98.51  E-value=3.6e-07  Score=49.07  Aligned_cols=23  Identities=39%  Similarity=0.537  Sum_probs=20.8

Q ss_pred             EEEEECCCCChHHHHHHHHhcCc
Q 035301           14 KVVLIGDSGVGKSNLLSRFTRNE   36 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~~~   36 (68)
                      .|+++|+.++|||||++++.+..
T Consensus         2 ~v~ivG~~~~GKStl~~~l~~~~   24 (170)
T cd01898           2 DVGLVGLPNAGKSTLLSAISNAK   24 (170)
T ss_pred             CeEEECCCCCCHHHHHHHHhcCC
Confidence            58999999999999999998754

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=98.51  E-value=4.4e-07  Score=55.58  Aligned_cols=48  Identities=19%  Similarity=0.214  Sum_probs=32.5

Q ss_pred             eEEEEECCCCChHHHHHHHHhcCcCc-CCCccceeeEeEEEEEEECCeE
Q 035301           13 FKVVLIGDSGVGKSNLLSRFTRNEFC-LESKSTIGVEFATRTLQVTNFS   60 (68)
Q Consensus        13 ~ki~~iG~~~vGKtsl~~~~~~~~~~-~~~~~t~~~~~~~~~~~~~~~~   60 (68)
                      ++|+++|.++||||||++++.+.... ....+.+..+.....+.+++..
T Consensus         2 ~~I~ivG~~~vGKStL~n~l~~~~~~~v~~~~~~t~d~~~~~~~~~~~~   50 (435)
T PRK00093          2 PVVAIVGRPNVGKSTLFNRLTGKRDAIVADTPGVTRDRIYGEAEWLGRE   50 (435)
T ss_pred             CEEEEECCCCCCHHHHHHHHhCCCceeeCCCCCCcccceEEEEEECCcE
Confidence            58999999999999999999987642 1112333334444556666633

>COG0218 Predicted GTPase [General function prediction only]

Probab=98.50  E-value=6.3e-07  Score=50.39  Aligned_cols=52  Identities=25%  Similarity=0.279  Sum_probs=34.1

Q ss_pred             CCceeeEEEEECCCCChHHHHHHHHhcCcCcCCCccceeeEeEEEEEEECCe
Q 035301            8 EYDYLFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQVTNF   59 (68)
Q Consensus         8 ~~~~~~ki~~iG~~~vGKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~   59 (68)
                      .++....|+++|.|+||||||++.+++..-......|.|..-......++++
T Consensus        20 P~~~~~EIaF~GRSNVGKSSlIN~l~~~k~LArtSktPGrTq~iNff~~~~~   71 (200)
T COG0218          20 PEDDLPEIAFAGRSNVGKSSLINALTNQKNLARTSKTPGRTQLINFFEVDDE   71 (200)
T ss_pred             CCCCCcEEEEEccCcccHHHHHHHHhCCcceeecCCCCCccceeEEEEecCc
Confidence            4456789999999999999999999986632223334443332333444544

>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=98.50  E-value=7.6e-07  Score=50.96  Aligned_cols=23  Identities=48%  Similarity=0.746  Sum_probs=21.3

Q ss_pred             EEEEECCCCChHHHHHHHHhcCc
Q 035301           14 KVVLIGDSGVGKSNLLSRFTRNE   36 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~~~   36 (68)
                      +++++|++++|||||++++.+..
T Consensus         2 ~v~lvG~~~~GKStLl~~Ltg~~   24 (233)
T cd01896           2 RVALVGFPSVGKSTLLSKLTNTK   24 (233)
T ss_pred             EEEEECCCCCCHHHHHHHHHCCC
Confidence            78999999999999999999765

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.

>cd01857 HSR1_MMR1 HSR1/MMR1

Probab=98.48  E-value=9.6e-07  Score=46.85  Aligned_cols=44  Identities=25%  Similarity=0.295  Sum_probs=30.8

Q ss_pred             EEEEECCCCChHHHHHHHHhcCcCcCCCccceeeEeEEEEEEECC
Q 035301           14 KVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQVTN   58 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~   58 (68)
                      +++++|.++||||||++++.+..... .....|.......+.+++
T Consensus        85 ~~~~~G~~~vGKstlin~l~~~~~~~-~~~~~~~~~~~~~~~~~~  128 (141)
T cd01857          85 TIGLVGYPNVGKSSLINALVGKKKVS-VSATPGKTKHFQTIFLTP  128 (141)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCCcee-eCCCCCcccceEEEEeCC
Confidence            89999999999999999999877642 222333333344555554

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.

>KOG0070 consensus GTP-binding ADP-ribosylation factor Arf1 [Intracellular trafficking, secretion, and vesicular transport]

Probab=98.47  E-value=1.1e-07  Score=52.53  Aligned_cols=52  Identities=23%  Similarity=0.476  Sum_probs=40.3

Q ss_pred             ceeeEEEEECCCCChHHHHHHHHhcCcCcCCCccceeeEeEEEEEEECCeEEEEEEEeC
Q 035301           10 DYLFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQVTNFSSFTSLHFY   68 (68)
Q Consensus        10 ~~~~ki~~iG~~~vGKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~~w   68 (68)
                      ....+|+++|-.++||||++.++-..+.... .||+|  |...++++.+-.    +++|
T Consensus        15 ~~e~~IlmlGLD~AGKTTILykLk~~E~vtt-vPTiG--fnVE~v~ykn~~----f~vW   66 (181)
T KOG0070|consen   15 KKEMRILMVGLDAAGKTTILYKLKLGEIVTT-VPTIG--FNVETVEYKNIS----FTVW   66 (181)
T ss_pred             cceEEEEEEeccCCCceeeeEeeccCCcccC-CCccc--cceeEEEEcceE----EEEE
Confidence            4578999999999999999999998877654 89999  444666666433    5555

>PRK11058 GTPase HflX; Provisional

Probab=98.45  E-value=5.9e-07  Score=55.42  Aligned_cols=46  Identities=24%  Similarity=0.351  Sum_probs=31.3

Q ss_pred             eEEEEECCCCChHHHHHHHHhcCcCcCCCccceeeEeEEEEEEECC
Q 035301           13 FKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQVTN   58 (68)
Q Consensus        13 ~ki~~iG~~~vGKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~   58 (68)
                      ++++++|.+++|||||++++.+..+.....+....+.....+.+++
T Consensus       198 p~ValVG~~NaGKSSLlN~Lt~~~~~v~~~~~tTld~~~~~i~l~~  243 (426)
T PRK11058        198 PTVSLVGYTNAGKSTLFNRITEARVYAADQLFATLDPTLRRIDVAD  243 (426)
T ss_pred             CEEEEECCCCCCHHHHHHHHhCCceeeccCCCCCcCCceEEEEeCC
Confidence            6899999999999999999998665322222222344444555554

>cd01889 SelB_euk SelB subfamily

Probab=98.43  E-value=5.6e-07  Score=49.74  Aligned_cols=22  Identities=23%  Similarity=0.442  Sum_probs=20.6

Q ss_pred             eEEEEECCCCChHHHHHHHHhc
Q 035301           13 FKVVLIGDSGVGKSNLLSRFTR   34 (68)
Q Consensus        13 ~ki~~iG~~~vGKtsl~~~~~~   34 (68)
                      ++++++|+.++|||||+++++.
T Consensus         1 ~~i~i~G~~~~GKstLi~~l~~   22 (192)
T cd01889           1 VNVGVLGHVDSGKTSLAKALSE   22 (192)
T ss_pred             CeEEEEecCCCCHHHHHHHHHh
Confidence            4799999999999999999986

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

>TIGR00436 era GTP-binding protein Era

Probab=98.43  E-value=8.6e-07  Score=51.56  Aligned_cols=25  Identities=32%  Similarity=0.573  Sum_probs=22.6

Q ss_pred             EEEEECCCCChHHHHHHHHhcCcCc
Q 035301           14 KVVLIGDSGVGKSNLLSRFTRNEFC   38 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~~~~~   38 (68)
                      +++++|.++||||||++++.+..+.
T Consensus         2 ~V~liG~pnvGKSTLln~L~~~~~~   26 (270)
T TIGR00436         2 FVAILGRPNVGKSTLLNQLHGQKIS   26 (270)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCcEe
Confidence            6899999999999999999987653

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

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

Probab=98.42  E-value=3.1e-06  Score=49.06  Aligned_cols=30  Identities=27%  Similarity=0.583  Sum_probs=26.2

Q ss_pred             CCceeeEEEEECCCCChHHHHHHHHhcCcC
Q 035301            8 EYDYLFKVVLIGDSGVGKSNLLSRFTRNEF   37 (68)
Q Consensus         8 ~~~~~~ki~~iG~~~vGKtsl~~~~~~~~~   37 (68)
                      ..+..++|+++|.+|||||||++.+.+...
T Consensus        27 ~~~~~~~IllvG~tGvGKSSliNaLlg~~~   56 (249)
T cd01853          27 ELDFSLTILVLGKTGVGKSSTINSIFGERK   56 (249)
T ss_pred             hccCCeEEEEECCCCCcHHHHHHHHhCCCC
Confidence            345679999999999999999999998664

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.

>cd01856 YlqF YlqF

Probab=98.40  E-value=3e-06  Score=46.24  Aligned_cols=47  Identities=19%  Similarity=0.353  Sum_probs=32.6

Q ss_pred             ceeeEEEEECCCCChHHHHHHHHhcCcCcCCCccceeeEeEEEEEEEC
Q 035301           10 DYLFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQVT   57 (68)
Q Consensus        10 ~~~~ki~~iG~~~vGKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~   57 (68)
                      ...++++++|.+++|||||++++.+..+. ...+..+..+....+.++
T Consensus       113 ~~~~~~~~~G~~~vGKstlin~l~~~~~~-~~~~~~~~T~~~~~~~~~  159 (171)
T cd01856         113 PRGIRAMVVGIPNVGKSTLINRLRGKKVA-KVGNKPGVTKGIQWIKIS  159 (171)
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHhCCCce-eecCCCCEEeeeEEEEec
Confidence            34579999999999999999999987764 223333444444445544

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.

>KOG1707 consensus Predicted Ras related/Rac-GTP binding protein [Defense mechanisms]

Probab=98.39  E-value=5.5e-07  Score=57.11  Aligned_cols=35  Identities=34%  Similarity=0.487  Sum_probs=30.4

Q ss_pred             CceeeEEEEECCCCChHHHHHHHHhcCcCcCCCcc
Q 035301            9 YDYLFKVVLIGDSGVGKSNLLSRFTRNEFCLESKS   43 (68)
Q Consensus         9 ~~~~~ki~~iG~~~vGKtsl~~~~~~~~~~~~~~~   43 (68)
                      .....+|+++||.|||||||+..++..+|+++.++
T Consensus         6 t~kdVRIvliGD~G~GKtSLImSL~~eef~~~VP~   40 (625)
T KOG1707|consen    6 TLKDVRIVLIGDEGVGKTSLIMSLLEEEFVDAVPR   40 (625)
T ss_pred             CccceEEEEECCCCccHHHHHHHHHhhhccccccc
Confidence            34568999999999999999999999999876543

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

Probab=98.38  E-value=7.6e-07  Score=47.91  Aligned_cols=21  Identities=43%  Similarity=0.581  Sum_probs=18.9

Q ss_pred             EECCCCChHHHHHHHHhcCcC
Q 035301           17 LIGDSGVGKSNLLSRFTRNEF   37 (68)
Q Consensus        17 ~iG~~~vGKtsl~~~~~~~~~   37 (68)
                      ++|+++||||||++++.+..+
T Consensus         1 iiG~~~~GKStll~~l~~~~~   21 (176)
T cd01881           1 LVGLPNVGKSTLLNALTNAKP   21 (176)
T ss_pred             CCCCCCCcHHHHHHHHhcCCc
Confidence            589999999999999998764

Four of these groups (Obg, DRG, YyaF/YchF, and Ygr210) are characterized by a distinct glycine-rich motif immediately following the Walker B motif (G3 box). Obg/CgtA is an essential gene that is involved in the initiation of sporulation and DNA replication in the bacteria Caulobacter and Bacillus, but its exact molecular role is unknown. Furthermore, several OBG family members possess a C-terminal RNA-binding domain, the TGS domain, which is also present in threonyl-tRNA synthetase and in bacterial guanosine polyphosphatase SpoT. Nog1 is a nucleolar protein that might function in ribosome assembly. The DRG and Nog1 subfamilies are ubiquitous in archaea and eukaryotes, the Ygr210 subfamily is present in archaea and fungi, and the Obg and YyaF/YchF subfamilies are ubiquitous in bacteria and eukaryotes. The Obg/Nog1 and DRG subfamilies appear to

>TIGR03594 GTPase_EngA ribosome-associated GTPase EngA

Probab=98.38  E-value=1.3e-06  Score=53.42  Aligned_cols=47  Identities=19%  Similarity=0.259  Sum_probs=30.3

Q ss_pred             EEEEECCCCChHHHHHHHHhcCcCcC-CCccceeeEeEEEEEEECCeE
Q 035301           14 KVVLIGDSGVGKSNLLSRFTRNEFCL-ESKSTIGVEFATRTLQVTNFS   60 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~~~~~~-~~~~t~~~~~~~~~~~~~~~~   60 (68)
                      +|+++|.++||||||++++.+..... ...+.+..+.....+.+++..
T Consensus         1 ~i~ivG~~nvGKStL~n~l~~~~~~~v~~~~g~t~d~~~~~~~~~~~~   48 (429)
T TIGR03594         1 VVAIVGRPNVGKSTLFNRLTGKRDAIVSDTPGVTRDRKYGDAEWGGRE   48 (429)
T ss_pred             CEEEECCCCCCHHHHHHHHhCCCcceecCCCCcccCceEEEEEECCeE
Confidence            58999999999999999999866321 111222223334455555554

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.

>COG3839 MalK ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]

Probab=98.37  E-value=5e-07  Score=54.32  Aligned_cols=33  Identities=39%  Similarity=0.398  Sum_probs=28.1

Q ss_pred             EEEEECCCCChHHHHHHHHhcCcCcCCCcccee
Q 035301           14 KVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIG   46 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~~~~~~~~~~t~~   46 (68)
                      -++++|++||||||+++.+++.+-+.++...++
T Consensus        31 f~vllGPSGcGKSTlLr~IAGLe~~~~G~I~i~   63 (338)
T COG3839          31 FVVLLGPSGCGKSTLLRMIAGLEEPTSGEILID   63 (338)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCCCCCCceEEEC
Confidence            378999999999999999999888777765554

>COG1116 TauB ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]

Probab=98.36  E-value=5.8e-07  Score=51.95  Aligned_cols=29  Identities=34%  Similarity=0.391  Sum_probs=24.8

Q ss_pred             EEEEECCCCChHHHHHHHHhcCcCcCCCc
Q 035301           14 KVVLIGDSGVGKSNLLSRFTRNEFCLESK   42 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~~~~~~~~~   42 (68)
                      -+.++|+||||||||++.+++..-+..+.
T Consensus        31 fvsilGpSGcGKSTLLriiAGL~~p~~G~   59 (248)
T COG1116          31 FVAILGPSGCGKSTLLRLIAGLEKPTSGE   59 (248)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCCCCCCce
Confidence            47899999999999999999977665554

>cd01859 MJ1464 MJ1464

Probab=98.34  E-value=2.6e-06  Score=45.69  Aligned_cols=38  Identities=21%  Similarity=0.254  Sum_probs=29.3

Q ss_pred             eeeEEEEECCCCChHHHHHHHHhcCcCcCCCccceeeEe
Q 035301           11 YLFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEF   49 (68)
Q Consensus        11 ~~~ki~~iG~~~vGKtsl~~~~~~~~~~~~~~~t~~~~~   49 (68)
                      ...+++++|.+++|||++++++.+.. ...+.++.|...
T Consensus       100 ~~~~~~~ig~~~~Gkssl~~~l~~~~-~~~~~~~~~~t~  137 (156)
T cd01859         100 KEGKVGVVGYPNVGKSSIINALKGRH-SASTSPSPGYTK  137 (156)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhCCC-ccccCCCCCeee
Confidence            35788999999999999999999654 344556666544

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.

>TIGR00487 IF-2 translation initiation factor IF-2

Probab=98.33  E-value=3e-06  Score=54.16  Aligned_cols=49  Identities=14%  Similarity=0.180  Sum_probs=35.6

Q ss_pred             eeeEEEEECCCCChHHHHHHHHhcCcCcCCCccceeeEeEEEEEEECCe
Q 035301           11 YLFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQVTNF   59 (68)
Q Consensus        11 ~~~ki~~iG~~~vGKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~   59 (68)
                      ...+++++|..++|||||++++.+..+...+.+.+..++....+.+++.
T Consensus        86 r~p~V~I~Ghvd~GKTSLl~~l~~~~v~~~e~~GIT~~ig~~~v~~~~~  134 (587)
T TIGR00487        86 RPPVVTIMGHVDHGKTSLLDSIRKTKVAQGEAGGITQHIGAYHVENEDG  134 (587)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHhCCcccccCCceeecceEEEEEECCC
Confidence            4679999999999999999999988776655444444443445555443

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.

>COG3842 PotA ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]

Probab=98.31  E-value=8.2e-07  Score=53.67  Aligned_cols=31  Identities=32%  Similarity=0.406  Sum_probs=26.5

Q ss_pred             EEEECCCCChHHHHHHHHhcCcCcCCCccce
Q 035301           15 VVLIGDSGVGKSNLLSRFTRNEFCLESKSTI   45 (68)
Q Consensus        15 i~~iG~~~vGKtsl~~~~~~~~~~~~~~~t~   45 (68)
                      +.++|+|||||||+++.+++-+.+.++...+
T Consensus        34 ~~lLGPSGcGKTTlLR~IAGfe~p~~G~I~l   64 (352)
T COG3842          34 VTLLGPSGCGKTTLLRMIAGFEQPSSGEILL   64 (352)
T ss_pred             EEEECCCCCCHHHHHHHHhCCCCCCCceEEE
Confidence            6799999999999999999988877765444

>COG1126 GlnQ ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]

Probab=98.31  E-value=9.5e-07  Score=50.51  Aligned_cols=32  Identities=41%  Similarity=0.410  Sum_probs=27.6

Q ss_pred             EEEEECCCCChHHHHHHHHhcCcCcCCCccce
Q 035301           14 KVVLIGDSGVGKSNLLSRFTRNEFCLESKSTI   45 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~~~~~~~~~~t~   45 (68)
                      .++++|+||+|||||++++...+-+.++...+
T Consensus        30 vv~iiGpSGSGKSTlLRclN~LE~~~~G~I~i   61 (240)
T COG1126          30 VVVIIGPSGSGKSTLLRCLNGLEEPDSGSITV   61 (240)
T ss_pred             EEEEECCCCCCHHHHHHHHHCCcCCCCceEEE
Confidence            68899999999999999999988777766555

>PRK09518 bifunctional cytidylate kinase/GTPase Der; Reviewed

Probab=98.31  E-value=2.6e-06  Score=55.36  Aligned_cols=50  Identities=26%  Similarity=0.311  Sum_probs=35.1

Q ss_pred             eeeEEEEECCCCChHHHHHHHHhcCcC--cCCCccceeeEeEEEEEEECCeEE
Q 035301           11 YLFKVVLIGDSGVGKSNLLSRFTRNEF--CLESKSTIGVEFATRTLQVTNFSS   61 (68)
Q Consensus        11 ~~~ki~~iG~~~vGKtsl~~~~~~~~~--~~~~~~t~~~~~~~~~~~~~~~~~   61 (68)
                      ..+|++++|.++||||||++++.+...  ...+..| ..+.....+.+++..+
T Consensus       449 ~~~kI~ivG~~nvGKSSLin~l~~~~~~~v~~~~gt-T~d~~~~~~~~~~~~~  500 (712)
T PRK09518        449 GLRRVALVGRPNVGKSSLLNQLTHEERAVVNDLAGT-TRDPVDEIVEIDGEDW  500 (712)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhCccccccCCCCCC-CcCcceeEEEECCCEE
Confidence            358999999999999999999998764  2333333 3344445566676653

>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=98.29  E-value=9.5e-07  Score=48.31  Aligned_cols=24  Identities=42%  Similarity=0.645  Sum_probs=21.1

Q ss_pred             eEEEEECCCCChHHHHHHHHhcCc
Q 035301           13 FKVVLIGDSGVGKSNLLSRFTRNE   36 (68)
Q Consensus        13 ~ki~~iG~~~vGKtsl~~~~~~~~   36 (68)
                      --++++|++|||||||++.+.+..
T Consensus        36 k~~vl~G~SGvGKSSLiN~L~~~~   59 (161)
T PF03193_consen   36 KTSVLLGQSGVGKSSLINALLPEA   59 (161)
T ss_dssp             SEEEEECSTTSSHHHHHHHHHTSS
T ss_pred             CEEEEECCCCCCHHHHHHHHHhhc
Confidence            357899999999999999999764

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.

>PRK09518 bifunctional cytidylate kinase/GTPase Der; Reviewed

Probab=98.28  E-value=7.8e-06  Score=53.17  Aligned_cols=29  Identities=28%  Similarity=0.339  Sum_probs=25.0

Q ss_pred             CceeeEEEEECCCCChHHHHHHHHhcCcC
Q 035301            9 YDYLFKVVLIGDSGVGKSNLLSRFTRNEF   37 (68)
Q Consensus         9 ~~~~~ki~~iG~~~vGKtsl~~~~~~~~~   37 (68)
                      +....+|+++|.++||||||++++++...
T Consensus       272 ~~~~~~V~IvG~~nvGKSSL~n~l~~~~~  300 (712)
T PRK09518        272 PKAVGVVAIVGRPNVGKSTLVNRILGRRE  300 (712)
T ss_pred             cccCcEEEEECCCCCCHHHHHHHHhCCCc
Confidence            34467999999999999999999998654

>cd01894 EngA1 EngA1 subfamily

Probab=98.27  E-value=2.3e-06  Score=45.12  Aligned_cols=21  Identities=38%  Similarity=0.711  Sum_probs=18.8

Q ss_pred             EEECCCCChHHHHHHHHhcCc
Q 035301           16 VLIGDSGVGKSNLLSRFTRNE   36 (68)
Q Consensus        16 ~~iG~~~vGKtsl~~~~~~~~   36 (68)
                      +++|+.|+|||||++++.+..
T Consensus         1 ~l~G~~~~GKssl~~~l~~~~   21 (157)
T cd01894           1 AIVGRPNVGKSTLFNRLTGRR   21 (157)
T ss_pred             CccCCCCCCHHHHHHHHhCCc
Confidence            478999999999999999764

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.

>cd01858 NGP_1 NGP-1

Probab=98.26  E-value=8e-06  Score=43.94  Aligned_cols=26  Identities=27%  Similarity=0.469  Sum_probs=22.9

Q ss_pred             eeEEEEECCCCChHHHHHHHHhcCcC
Q 035301           12 LFKVVLIGDSGVGKSNLLSRFTRNEF   37 (68)
Q Consensus        12 ~~ki~~iG~~~vGKtsl~~~~~~~~~   37 (68)
                      ...++++|.+|||||||++++.+...
T Consensus       102 ~~~v~~~G~~nvGKStliN~l~~~~~  127 (157)
T cd01858         102 QISVGFIGYPNVGKSSIINTLRSKKV  127 (157)
T ss_pred             ceEEEEEeCCCCChHHHHHHHhcCCc
Confidence            46788999999999999999997654

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.

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

Probab=98.26  E-value=1.1e-05  Score=48.25  Aligned_cols=28  Identities=21%  Similarity=0.405  Sum_probs=25.0

Q ss_pred             CceeeEEEEECCCCChHHHHHHHHhcCc
Q 035301            9 YDYLFKVVLIGDSGVGKSNLLSRFTRNE   36 (68)
Q Consensus         9 ~~~~~ki~~iG~~~vGKtsl~~~~~~~~   36 (68)
                      ....++|+++|.+||||||+++++.+..
T Consensus        35 ~~~~~rIllvGktGVGKSSliNsIlG~~   62 (313)
T TIGR00991        35 DVSSLTILVMGKGGVGKSSTVNSIIGER   62 (313)
T ss_pred             cccceEEEEECCCCCCHHHHHHHHhCCC
Confidence            3467899999999999999999999865

>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=98.23  E-value=9.4e-06  Score=45.83  Aligned_cols=47  Identities=21%  Similarity=0.282  Sum_probs=29.8

Q ss_pred             eEEEEECCCCChHHHHHHHHhcCcCcCCCc----cceeeEeEEEEEEECCeEE
Q 035301           13 FKVVLIGDSGVGKSNLLSRFTRNEFCLESK----STIGVEFATRTLQVTNFSS   61 (68)
Q Consensus        13 ~ki~~iG~~~vGKtsl~~~~~~~~~~~~~~----~t~~~~~~~~~~~~~~~~~   61 (68)
                      ++|+++|..|+|||++.+.+++........    .|..  .......+++..+
T Consensus         1 l~IlllG~tGsGKSs~~N~ilg~~~f~~~~~~~~~t~~--~~~~~~~~~g~~v   51 (212)
T PF04548_consen    1 LRILLLGKTGSGKSSLGNSILGKEVFKSGSSAKSVTQE--CQKYSGEVDGRQV   51 (212)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHTSS-SS--TTTSS--SS---EEEEEEETTEEE
T ss_pred             CEEEEECCCCCCHHHHHHHHhcccceeeccccCCcccc--cceeeeeecceEE
Confidence            579999999999999999999876543321    2222  2233346677664

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 ....

>cd01852 AIG1 AIG1 (avrRpt2-induced gene 1)

Probab=98.23  E-value=7e-06  Score=45.60  Aligned_cols=25  Identities=32%  Similarity=0.557  Sum_probs=22.3

Q ss_pred             eEEEEECCCCChHHHHHHHHhcCcC
Q 035301           13 FKVVLIGDSGVGKSNLLSRFTRNEF   37 (68)
Q Consensus        13 ~ki~~iG~~~vGKtsl~~~~~~~~~   37 (68)
                      ++|+++|.+|+||||+++.+++...
T Consensus         1 ~~i~lvG~~g~GKSsl~N~ilg~~~   25 (196)
T cd01852           1 LRLVLVGKTGAGKSATGNTILGREV   25 (196)
T ss_pred             CEEEEECCCCCCHHHHHHHhhCCCc
Confidence            3789999999999999999998654

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).

>cd01899 Ygr210 Ygr210 subfamily

Probab=98.22  E-value=2.9e-06  Score=50.69  Aligned_cols=36  Identities=22%  Similarity=0.417  Sum_probs=27.3

Q ss_pred             EEEECCCCChHHHHHHHHhcCcCc------CCCccceeeEeE
Q 035301           15 VVLIGDSGVGKSNLLSRFTRNEFC------LESKSTIGVEFA   50 (68)
Q Consensus        15 i~~iG~~~vGKtsl~~~~~~~~~~------~~~~~t~~~~~~   50 (68)
                      +.++|.++||||||++++.+..+.      ....|++|..+.
T Consensus         1 i~ivG~pnvGKStLfn~lt~~~~~~~~~pftT~~p~~g~~~~   42 (318)
T cd01899           1 IGLVGKPNAGKSTFFNAATLADVEIANYPFTTIDPNVGVGYV   42 (318)
T ss_pred             CEEECCCCCCHHHHHHHHhCCCCcccCCCCccccceeEEEEE
Confidence            478999999999999999987642      234567776553

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.

>KOG0071 consensus GTP-binding ADP-ribosylation factor Arf6 (dArf3) [Intracellular trafficking, secretion, and vesicular transport]

Probab=98.19  E-value=4.1e-06  Score=45.25  Aligned_cols=46  Identities=20%  Similarity=0.453  Sum_probs=36.0

Q ss_pred             eeEEEEECCCCChHHHHHHHHhcCcCcCCCccceeeEeEEEEEEECCeE
Q 035301           12 LFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQVTNFS   60 (68)
Q Consensus        12 ~~ki~~iG~~~vGKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~   60 (68)
                      .++++++|-.++|||+++..+.-+.. ....||+|  |..+++.+.+..
T Consensus        17 E~~ilmlGLd~aGKTtiLyKLkl~~~-~~~ipTvG--FnvetVtykN~k   62 (180)
T KOG0071|consen   17 EMRILMLGLDAAGKTTILYKLKLGQS-VTTIPTVG--FNVETVTYKNVK   62 (180)
T ss_pred             cceEEEEecccCCceehhhHHhcCCC-cccccccc--eeEEEEEeeeeE
Confidence            68999999999999999999986553 45668988  555677765544

>TIGR03594 GTPase_EngA ribosome-associated GTPase EngA

Probab=98.19  E-value=1.2e-05  Score=49.16  Aligned_cols=28  Identities=36%  Similarity=0.509  Sum_probs=24.5

Q ss_pred             ceeeEEEEECCCCChHHHHHHHHhcCcC
Q 035301           10 DYLFKVVLIGDSGVGKSNLLSRFTRNEF   37 (68)
Q Consensus        10 ~~~~ki~~iG~~~vGKtsl~~~~~~~~~   37 (68)
                      ...++++++|.+++|||||++++++...
T Consensus       170 ~~~~~v~ivG~~~~GKSsLin~l~~~~~  197 (429)
T TIGR03594       170 DGPIKIAIIGRPNVGKSTLVNALLGEER  197 (429)
T ss_pred             CCceEEEEECCCCCCHHHHHHHHHCCCe
Confidence            3468999999999999999999997653

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.

>TIGR00437 feoB ferrous iron transporter FeoB

Probab=98.18  E-value=7.5e-06  Score=52.38  Aligned_cols=42  Identities=24%  Similarity=0.279  Sum_probs=32.4

Q ss_pred             CCCCChHHHHHHHHhcCcCcCCCccceeeEeEEEEEEECCeE
Q 035301           19 GDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQVTNFS   60 (68)
Q Consensus        19 G~~~vGKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~   60 (68)
                      |+++||||||++++.+..+...+.|....+.....+.+++.+
T Consensus         1 G~pNvGKSSL~N~Ltg~~~~v~n~pG~Tv~~~~~~i~~~~~~   42 (591)
T TIGR00437         1 GNPNVGKSTLFNALTGANQTVGNWPGVTVEKKEGKLGFQGED   42 (591)
T ss_pred             CCCCCCHHHHHHHHhCCCCeecCCCCeEEEEEEEEEEECCeE
Confidence            889999999999999887755556666666666667776654

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=98.18  E-value=7.5e-06  Score=47.95  Aligned_cols=28  Identities=29%  Similarity=0.382  Sum_probs=24.1

Q ss_pred             eeeEEEEECCCCChHHHHHHHHhcCcCc
Q 035301           11 YLFKVVLIGDSGVGKSNLLSRFTRNEFC   38 (68)
Q Consensus        11 ~~~ki~~iG~~~vGKtsl~~~~~~~~~~   38 (68)
                      ..-.|+++|++|+|||||++++++....
T Consensus         4 ~~g~V~iiG~pn~GKSTLin~L~g~~~~   31 (292)
T PRK00089          4 KSGFVAIVGRPNVGKSTLLNALVGQKIS   31 (292)
T ss_pred             eeEEEEEECCCCCCHHHHHHHHhCCcee
Confidence            3457999999999999999999987653

>TIGR00475 selB selenocysteine-specific elongation factor SelB

Probab=98.18  E-value=9.6e-06  Score=51.81  Aligned_cols=45  Identities=18%  Similarity=0.306  Sum_probs=33.5

Q ss_pred             EEEEECCCCChHHHHHHHHhc---CcCcCCCccceeeEeEEEEEEECC
Q 035301           14 KVVLIGDSGVGKSNLLSRFTR---NEFCLESKSTIGVEFATRTLQVTN   58 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~---~~~~~~~~~t~~~~~~~~~~~~~~   58 (68)
                      .|+++|..++|||||++++.+   +.+++++..++..++....+..++
T Consensus         2 ~I~iiG~~d~GKTTLi~aLtg~~~d~~~eE~~rGiTid~~~~~~~~~~   49 (581)
T TIGR00475         2 IIATAGHVDHGKTTLLKALTGIAADRLPEEKKRGMTIDLGFAYFPLPD   49 (581)
T ss_pred             EEEEECCCCCCHHHHHHHHhCccCcCChhHhcCCceEEeEEEEEEeCC
Confidence            588999999999999999996   445555655565555545566665

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.

>PRK09602 translation-associated GTPase; Reviewed

Probab=98.18  E-value=1e-05  Score=49.70  Aligned_cols=27  Identities=26%  Similarity=0.450  Sum_probs=24.0

Q ss_pred             eeEEEEECCCCChHHHHHHHHhcCcCc
Q 035301           12 LFKVVLIGDSGVGKSNLLSRFTRNEFC   38 (68)
Q Consensus        12 ~~ki~~iG~~~vGKtsl~~~~~~~~~~   38 (68)
                      ++++.++|.++||||||++++.+..+.
T Consensus         1 ~~kigivG~pnvGKSTlfn~Lt~~~~~   27 (396)
T PRK09602          1 MITIGLVGKPNVGKSTFFNAATLADVE   27 (396)
T ss_pred             CcEEEEECCCCCCHHHHHHHHhCCccc
Confidence            368999999999999999999987654

>PRK09554 feoB ferrous iron transport protein B; Reviewed

Probab=98.17  E-value=1.5e-05  Score=52.35  Aligned_cols=27  Identities=26%  Similarity=0.438  Sum_probs=23.8

Q ss_pred             eeEEEEECCCCChHHHHHHHHhcCcCc
Q 035301           12 LFKVVLIGDSGVGKSNLLSRFTRNEFC   38 (68)
Q Consensus        12 ~~ki~~iG~~~vGKtsl~~~~~~~~~~   38 (68)
                      .+++.++|.++||||||++++.+....
T Consensus         3 ~~~IaLvG~pNvGKSTLfN~Ltg~~~~   29 (772)
T PRK09554          3 KLTIGLIGNPNSGKTTLFNQLTGARQR   29 (772)
T ss_pred             ceEEEEECCCCCCHHHHHHHHhCCCCc
Confidence            468999999999999999999986653

>PRK15467 ethanolamine utilization protein EutP; Provisional

Probab=98.17  E-value=5.3e-06  Score=44.82  Aligned_cols=22  Identities=27%  Similarity=0.696  Sum_probs=20.3

Q ss_pred             EEEEECCCCChHHHHHHHHhcC
Q 035301           14 KVVLIGDSGVGKSNLLSRFTRN   35 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~~   35 (68)
                      +|+++|.+++|||||++++.+.
T Consensus         3 ~i~~iG~~~~GKstl~~~l~~~   24 (158)
T PRK15467          3 RIAFVGAVGAGKTTLFNALQGN   24 (158)
T ss_pred             EEEEECCCCCCHHHHHHHHcCC
Confidence            7999999999999999998764

>COG1136 SalX ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]

Probab=98.15  E-value=3.3e-06  Score=48.39  Aligned_cols=29  Identities=31%  Similarity=0.377  Sum_probs=24.3

Q ss_pred             EEEEECCCCChHHHHHHHHhcCcCcCCCc
Q 035301           14 KVVLIGDSGVGKSNLLSRFTRNEFCLESK   42 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~~~~~~~~~   42 (68)
                      -+.++|++|+|||||++.+.+-.-+..+.
T Consensus        33 ~vaI~GpSGSGKSTLLniig~ld~pt~G~   61 (226)
T COG1136          33 FVAIVGPSGSGKSTLLNLLGGLDKPTSGE   61 (226)
T ss_pred             EEEEECCCCCCHHHHHHHHhcccCCCCce
Confidence            58899999999999999999876654444

>COG3840 ThiQ ABC-type thiamine transport system, ATPase component [Coenzyme metabolism]

Probab=98.14  E-value=3.5e-06  Score=47.45  Aligned_cols=32  Identities=34%  Similarity=0.400  Sum_probs=27.7

Q ss_pred             EEEEECCCCChHHHHHHHHhcCcCcCCCccce
Q 035301           14 KVVLIGDSGVGKSNLLSRFTRNEFCLESKSTI   45 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~~~~~~~~~~t~   45 (68)
                      ++.++|++|+|||||++.+++-..+..+...+
T Consensus        27 ~vAi~GpSGaGKSTLLnLIAGF~~P~~G~i~i   58 (231)
T COG3840          27 IVAILGPSGAGKSTLLNLIAGFETPASGEILI   58 (231)
T ss_pred             EEEEECCCCccHHHHHHHHHhccCCCCceEEE
Confidence            78999999999999999999988877665544

>KOG0074 consensus GTP-binding ADP-ribosylation factor-like protein ARL3 [General function prediction only]

Probab=98.13  E-value=1.2e-05  Score=43.54  Aligned_cols=54  Identities=19%  Similarity=0.342  Sum_probs=40.5

Q ss_pred             CceeeEEEEECCCCChHHHHHHHHhcCcCcCCCccceeeEeEEEEEEECCeEEEEEEEeC
Q 035301            9 YDYLFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQVTNFSSFTSLHFY   68 (68)
Q Consensus         9 ~~~~~ki~~iG~~~vGKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~~w   68 (68)
                      ....+|++++|-.++|||++++++..... ..-.||.|  |..+.++.++.-   .+.+|
T Consensus        14 t~rEirilllGldnAGKTT~LKqL~sED~-~hltpT~G--Fn~k~v~~~g~f---~Lnvw   67 (185)
T KOG0074|consen   14 TRREIRILLLGLDNAGKTTFLKQLKSEDP-RHLTPTNG--FNTKKVEYDGTF---HLNVW   67 (185)
T ss_pred             CcceEEEEEEecCCCcchhHHHHHccCCh-hhccccCC--cceEEEeecCcE---EEEEE
Confidence            35679999999999999999999987653 34557777  666777777643   35555

>PRK00093 GTP-binding protein Der; Reviewed

Probab=98.13  E-value=2.5e-05  Score=48.03  Aligned_cols=26  Identities=35%  Similarity=0.563  Sum_probs=23.7

Q ss_pred             eeeEEEEECCCCChHHHHHHHHhcCc
Q 035301           11 YLFKVVLIGDSGVGKSNLLSRFTRNE   36 (68)
Q Consensus        11 ~~~ki~~iG~~~vGKtsl~~~~~~~~   36 (68)
                      ..++++++|.+++|||||++++++..
T Consensus       172 ~~~~v~ivG~~n~GKStlin~ll~~~  197 (435)
T PRK00093        172 EPIKIAIIGRPNVGKSSLINALLGEE  197 (435)
T ss_pred             cceEEEEECCCCCCHHHHHHHHhCCC
Confidence            46999999999999999999999754

>COG4525 TauB ABC-type taurine transport system, ATPase component [Inorganic ion transport and metabolism]

Probab=98.11  E-value=4.1e-06  Score=47.72  Aligned_cols=31  Identities=29%  Similarity=0.322  Sum_probs=24.8

Q ss_pred             EEEEECCCCChHHHHHHHHhcCcCcCCCccc
Q 035301           14 KVVLIGDSGVGKSNLLSRFTRNEFCLESKST   44 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~~~~~~~~~~t   44 (68)
                      -++++|++|||||||++..++---+..+..+
T Consensus        33 ~vv~lGpSGcGKTTLLnl~AGf~~P~~G~i~   63 (259)
T COG4525          33 LVVVLGPSGCGKTTLLNLIAGFVTPSRGSIQ   63 (259)
T ss_pred             EEEEEcCCCccHHHHHHHHhcCcCcccceEE
Confidence            5789999999999999999986655544433

>TIGR03596 GTPase_YlqF ribosome biogenesis GTP-binding protein YlqF

Probab=98.09  E-value=2.8e-05  Score=45.50  Aligned_cols=46  Identities=20%  Similarity=0.356  Sum_probs=30.8

Q ss_pred             eeeEEEEECCCCChHHHHHHHHhcCcCcCCCccceeeEeEEEEEEEC
Q 035301           11 YLFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQVT   57 (68)
Q Consensus        11 ~~~ki~~iG~~~vGKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~   57 (68)
                      ..++++++|.++||||||++++.+...... .+..|.......+.++
T Consensus       117 ~~~~~~~vG~~nvGKSslin~l~~~~~~~~-~~~~g~T~~~~~~~~~  162 (276)
T TIGR03596       117 RPIRAMIVGIPNVGKSTLINRLAGKKVAKV-GNRPGVTKGQQWIKLS  162 (276)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHhCCCcccc-CCCCCeecceEEEEeC
Confidence            358899999999999999999997654322 2233333333444443

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.

>cd00881 GTP_translation_factor GTP translation factor family

Probab=98.09  E-value=4.4e-06  Score=45.32  Aligned_cols=28  Identities=25%  Similarity=0.249  Sum_probs=23.7

Q ss_pred             EEEEECCCCChHHHHHHHHhcCcCcCCC
Q 035301           14 KVVLIGDSGVGKSNLLSRFTRNEFCLES   41 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~~~~~~~~   41 (68)
                      +|+++|+.++|||||++.+.+.......
T Consensus         1 ~v~v~G~~~~GKStlln~l~~~~~~~~~   28 (189)
T cd00881           1 NVGIAGHVDHGKTTLTERLLYVTGDIER   28 (189)
T ss_pred             CEEEEeCCCCCHHHHHHHHHHhcCCCCc
Confidence            4789999999999999999987765433

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.

>COG0486 ThdF Predicted GTPase [General function prediction only]

Probab=98.08  E-value=2.4e-05  Score=48.69  Aligned_cols=51  Identities=22%  Similarity=0.323  Sum_probs=36.7

Q ss_pred             eeEEEEECCCCChHHHHHHHHhcCcCcC-CCccceeeEeEEEEEEECCeEEE
Q 035301           12 LFKVVLIGDSGVGKSNLLSRFTRNEFCL-ESKSTIGVEFATRTLQVTNFSSF   62 (68)
Q Consensus        12 ~~ki~~iG~~~vGKtsl~~~~~~~~~~~-~~~~t~~~~~~~~~~~~~~~~~~   62 (68)
                      -+|++++|.++||||||+|.+++.+-.- ...|-.--|.....+.++|.++.
T Consensus       217 G~kvvIiG~PNvGKSSLLNaL~~~d~AIVTdI~GTTRDviee~i~i~G~pv~  268 (454)
T COG0486         217 GLKVVIIGRPNVGKSSLLNALLGRDRAIVTDIAGTTRDVIEEDINLNGIPVR  268 (454)
T ss_pred             CceEEEECCCCCcHHHHHHHHhcCCceEecCCCCCccceEEEEEEECCEEEE
Confidence            4799999999999999999999866431 11222223555677788888753

>KOG1707 consensus Predicted Ras related/Rac-GTP binding protein [Defense mechanisms]

Probab=98.07  E-value=1.9e-05  Score=50.35  Aligned_cols=60  Identities=18%  Similarity=0.329  Sum_probs=46.1

Q ss_pred             CCcCCceeeEEEEECCCCChHHHHHHHHhcCcCcCCCccceeeEeEEEEEEECCeEEEEE
Q 035301            5 ADEEYDYLFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQVTNFSSFTS   64 (68)
Q Consensus         5 ~~~~~~~~~ki~~iG~~~vGKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~   64 (68)
                      +.......++|.++|+.++|||.+++.+.+..+...+..+....+....+.+.++..++.
T Consensus       418 ~~~~~R~Vf~C~V~G~k~~GKs~lL~sflgr~~~~~~~~~~~~~~avn~v~~~g~~k~Li  477 (625)
T KOG1707|consen  418 KKQTDRKVFQCFVVGPKNCGKSALLQSFLGRSMSDNNTGTTKPRYAVNSVEVKGQQKYLI  477 (625)
T ss_pred             cccccceeeeEEEEcCCcCchHHHHHHHhccccccccccCCCCceeeeeeeeccccceEE
Confidence            344556789999999999999999999999888876666666666666666666554443

>PRK09563 rbgA GTPase YlqF; Reviewed

Probab=98.07  E-value=4.3e-05  Score=45.01  Aligned_cols=47  Identities=23%  Similarity=0.383  Sum_probs=31.3

Q ss_pred             eeeEEEEECCCCChHHHHHHHHhcCcCcCCCccceeeEeEEEEEEECC
Q 035301           11 YLFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQVTN   58 (68)
Q Consensus        11 ~~~ki~~iG~~~vGKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~   58 (68)
                      ..++++++|.++||||||++++.+...... .+..|.......+.+++
T Consensus       120 ~~~~~~~~G~pnvGKSsliN~l~~~~~~~~-~~~~g~T~~~~~~~~~~  166 (287)
T PRK09563        120 RAIRAMIIGIPNVGKSTLINRLAGKKIAKT-GNRPGVTKAQQWIKLGK  166 (287)
T ss_pred             CceEEEEECCCCCCHHHHHHHHhcCCcccc-CCCCCeEEEEEEEEeCC
Confidence            457999999999999999999998664222 22333333334444443

>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=98.07  E-value=4.3e-06  Score=42.93  Aligned_cols=22  Identities=27%  Similarity=0.554  Sum_probs=19.8

Q ss_pred             EEEEECCCCChHHHHHHHHhcC
Q 035301           14 KVVLIGDSGVGKSNLLSRFTRN   35 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~~   35 (68)
                      .|++.|.+|+||||+.+.++..
T Consensus         1 vI~I~G~~gsGKST~a~~La~~   22 (121)
T PF13207_consen    1 VIIISGPPGSGKSTLAKELAER   22 (121)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHH
T ss_pred             CEEEECCCCCCHHHHHHHHHHH
Confidence            4889999999999999999864

...

>TIGR01393 lepA GTP-binding protein LepA

Probab=98.05  E-value=2.2e-05  Score=50.36  Aligned_cols=24  Identities=25%  Similarity=0.331  Sum_probs=21.5

Q ss_pred             eeEEEEECCCCChHHHHHHHHhcC
Q 035301           12 LFKVVLIGDSGVGKSNLLSRFTRN   35 (68)
Q Consensus        12 ~~ki~~iG~~~vGKtsl~~~~~~~   35 (68)
                      .-+++++|..++|||||+.+++..
T Consensus         3 iRNi~IIGh~d~GKTTL~~rLl~~   26 (595)
T TIGR01393         3 IRNFSIIAHIDHGKSTLADRLLEY   26 (595)
T ss_pred             eeEEEEECCCCCCHHHHHHHHHHH
Confidence            458999999999999999999864

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.

>cd03222 ABC_RNaseL_inhibitor The ABC ATPase RNase L inhibitor (RLI) is a key enzyme in ribosomal biogenesis, formation of translation preinitiation complexes, and assembly of HIV capsids

Probab=98.05  E-value=8.6e-06  Score=45.08  Aligned_cols=29  Identities=14%  Similarity=0.259  Sum_probs=24.3

Q ss_pred             EEEEECCCCChHHHHHHHHhcCcCcCCCc
Q 035301           14 KVVLIGDSGVGKSNLLSRFTRNEFCLESK   42 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~~~~~~~~~   42 (68)
                      .+.++|++|+|||||++.+++...+..+.
T Consensus        27 ~~~l~G~nGsGKSTLl~~l~Gl~~p~~G~   55 (177)
T cd03222          27 VIGIVGPNGTGKTTAVKILAGQLIPNGDN   55 (177)
T ss_pred             EEEEECCCCChHHHHHHHHHcCCCCCCcE
Confidence            68899999999999999999876554443

RLI's are not transport proteins, and thus cluster with a group of soluble proteins that lack the transmembrane components commonly found in other members of the family. Structurally, RLI's have an N-terminal Fe-S domain and two nucleotide-binding domains, which are arranged to form two composite active sites in their interface cleft. RLI is one of the most conserved enzymes between archaea and eukaryotes with a sequence identity more than 48%. The high degree of evolutionary conservation suggests that RLI performs a central role in archaeal and eukaryotic physiology.

>cd00880 Era_like Era (E

Probab=98.04  E-value=1.3e-05  Score=41.70  Aligned_cols=22  Identities=36%  Similarity=0.593  Sum_probs=18.9

Q ss_pred             EECCCCChHHHHHHHHhcCcCc
Q 035301           17 LIGDSGVGKSNLLSRFTRNEFC   38 (68)
Q Consensus        17 ~iG~~~vGKtsl~~~~~~~~~~   38 (68)
                      ++|..|+|||||++++.+....
T Consensus         1 i~G~~gsGKstl~~~l~~~~~~   22 (163)
T cd00880           1 LFGRTNAGKSSLLNALLGQEVA   22 (163)
T ss_pred             CcCCCCCCHHHHHHHHhCcccc
Confidence            5799999999999999976544

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

>cd03255 ABC_MJ0796_Lo1CDE_FtsE This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE)

Probab=98.04  E-value=7.7e-06  Score=46.00  Aligned_cols=28  Identities=32%  Similarity=0.375  Sum_probs=23.5

Q ss_pred             EEEEECCCCChHHHHHHHHhcCcCcCCC
Q 035301           14 KVVLIGDSGVGKSNLLSRFTRNEFCLES   41 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~~~~~~~~   41 (68)
                      .+.++|++|+|||||++.+++...+..+
T Consensus        32 ~~~l~G~nGsGKSTLl~~i~Gl~~~~~G   59 (218)
T cd03255          32 FVAIVGPSGSGKSTLLNILGGLDRPTSG   59 (218)
T ss_pred             EEEEEcCCCCCHHHHHHHHhCCcCCCce
Confidence            6899999999999999999987544443

They are clustered together phylogenetically. MacAB is an exporter that confers resistance to macrolides, while the LolCDE system is not a transporter at all. An FtsE null mutants showed filamentous growth and appeared viable on high salt medium only, indicating a role for FtsE in cell division and/or salt transport. The LolCDE complex catalyses the release of lipoproteins from the cytoplasmic membrane prior to their targeting to the outer membrane.

>TIGR00960 3a0501s02 Type II (General) Secretory Pathway (IISP) Family protein

Probab=98.03  E-value=8.1e-06  Score=45.89  Aligned_cols=28  Identities=36%  Similarity=0.407  Sum_probs=23.5

Q ss_pred             EEEEECCCCChHHHHHHHHhcCcCcCCC
Q 035301           14 KVVLIGDSGVGKSNLLSRFTRNEFCLES   41 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~~~~~~~~   41 (68)
                      .+.++|++|+|||||++.+++...+..+
T Consensus        31 ~~~i~G~nGsGKSTLl~~l~Gl~~~~~G   58 (216)
T TIGR00960        31 MVFLVGHSGAGKSTFLKLILGIEKPTRG   58 (216)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCCCCCce
Confidence            6899999999999999999986544443

>cd04178 Nucleostemin_like Nucleostemin-like

Probab=98.03  E-value=4.1e-05  Score=42.18  Aligned_cols=26  Identities=31%  Similarity=0.469  Sum_probs=23.3

Q ss_pred             eeEEEEECCCCChHHHHHHHHhcCcC
Q 035301           12 LFKVVLIGDSGVGKSNLLSRFTRNEF   37 (68)
Q Consensus        12 ~~ki~~iG~~~vGKtsl~~~~~~~~~   37 (68)
                      .++++++|.++||||||++++.+...
T Consensus       117 ~~~~~~vG~pnvGKSslin~l~~~~~  142 (172)
T cd04178         117 SITVGVVGFPNVGKSSLINSLKRSRA  142 (172)
T ss_pred             CcEEEEEcCCCCCHHHHHHHHhCccc
Confidence            47999999999999999999997553

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

>cd03226 ABC_cobalt_CbiO_domain2 Domain II of the ABC component of a cobalt transport family found in bacteria, archaea, and eukaryota

Probab=98.03  E-value=8.5e-06  Score=45.52  Aligned_cols=28  Identities=21%  Similarity=0.235  Sum_probs=23.8

Q ss_pred             EEEEECCCCChHHHHHHHHhcCcCcCCC
Q 035301           14 KVVLIGDSGVGKSNLLSRFTRNEFCLES   41 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~~~~~~~~   41 (68)
                      .+.++|++|+|||||++.+++...+.++
T Consensus        28 ~~~i~G~nGsGKSTLl~~l~Gl~~p~~G   55 (205)
T cd03226          28 IIALTGKNGAGKTTLAKILAGLIKESSG   55 (205)
T ss_pred             EEEEECCCCCCHHHHHHHHhcCCCCCce
Confidence            6899999999999999999987654444

The transition metal cobalt is an essential component of many enzymes and must be transported into cells in appropriate amounts when needed. The CbiMNQO family ABC transport system is involved in cobalt transport in association with the cobalamin (vitamin B12) biosynthetic pathways. Most cobalt (Cbi) transport systems possess a separate CbiN component, the cobalt-binding periplasmic protein, and they are encoded by the conserved gene cluster cbiMNQO. Both the CbiM and CbiQ proteins are integral cytoplasmic membrane proteins, and the CbiO protein has the linker peptide and the Walker A and B motifs commonly found in the ATPase components of the ABC-type transport systems.

>PRK08118 topology modulation protein; Reviewed

Probab=98.03  E-value=6e-06  Score=45.18  Aligned_cols=22  Identities=41%  Similarity=0.684  Sum_probs=20.0

Q ss_pred             eEEEEECCCCChHHHHHHHHhc
Q 035301           13 FKVVLIGDSGVGKSNLLSRFTR   34 (68)
Q Consensus        13 ~ki~~iG~~~vGKtsl~~~~~~   34 (68)
                      .||+|+|++|+||||+...+..
T Consensus         2 ~rI~I~G~~GsGKSTlak~L~~   23 (167)
T PRK08118          2 KKIILIGSGGSGKSTLARQLGE   23 (167)
T ss_pred             cEEEEECCCCCCHHHHHHHHHH
Confidence            4899999999999999998875

>COG3596 Predicted GTPase [General function prediction only]

Probab=98.03  E-value=3.2e-06  Score=49.77  Aligned_cols=30  Identities=30%  Similarity=0.473  Sum_probs=24.8

Q ss_pred             CceeeEEEEECCCCChHHHHHHHHhcCcCc
Q 035301            9 YDYLFKVVLIGDSGVGKSNLLSRFTRNEFC   38 (68)
Q Consensus         9 ~~~~~ki~~iG~~~vGKtsl~~~~~~~~~~   38 (68)
                      .....+++++|..|+||||++|.+.+....
T Consensus        36 ~~~pvnvLi~G~TG~GKSSliNALF~~~~~   65 (296)
T COG3596          36 EKEPVNVLLMGATGAGKSSLINALFQGEVK   65 (296)
T ss_pred             ccCceeEEEecCCCCcHHHHHHHHHhccCc
Confidence            345689999999999999999999865443

>PRK13540 cytochrome c biogenesis protein CcmA; Provisional

Probab=98.02  E-value=9.1e-06  Score=45.32  Aligned_cols=29  Identities=24%  Similarity=0.239  Sum_probs=24.6

Q ss_pred             EEEEECCCCChHHHHHHHHhcCcCcCCCc
Q 035301           14 KVVLIGDSGVGKSNLLSRFTRNEFCLESK   42 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~~~~~~~~~   42 (68)
                      .+.++|++|+|||||++.+++...+.++.
T Consensus        29 ~~~l~G~nGsGKSTLl~~i~G~~~~~~G~   57 (200)
T PRK13540         29 LLHLKGSNGAGKTTLLKLIAGLLNPEKGE   57 (200)
T ss_pred             EEEEECCCCCCHHHHHHHHhcCCCCCCee
Confidence            78999999999999999999876555543

>cd03262 ABC_HisP_GlnQ_permeases HisP and GlnQ are the ATP-binding components of the bacterial periplasmic histidine and glutamine permeases, repectively

Probab=98.02  E-value=9.4e-06  Score=45.46  Aligned_cols=29  Identities=41%  Similarity=0.384  Sum_probs=24.1

Q ss_pred             EEEEECCCCChHHHHHHHHhcCcCcCCCc
Q 035301           14 KVVLIGDSGVGKSNLLSRFTRNEFCLESK   42 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~~~~~~~~~   42 (68)
                      .+.++|++|+|||||++.+++...+..+.
T Consensus        28 ~~~l~G~nGsGKSTLl~~l~G~~~~~~G~   56 (213)
T cd03262          28 VVVIIGPSGSGKSTLLRCINLLEEPDSGT   56 (213)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCCCCCCce
Confidence            68999999999999999999876544443

Histidine permease is a multisubunit complex containing the HisQ and HisM integral membrane subunits and two copies of HisP. HisP has properties intermediate between those of integral and peripheral membrane proteins and is accessible from both sides of the membrane, presumably by its interaction with HisQ and HisM. The two HisP subunits form a homodimer within the complex. The domain structure of the amino acid uptake systems is typical for prokaryote extracellular solute binding protein-dependent uptake systems. All of the amino acid uptake systems also have at least one, and in a few cases, two extracellular solute binding proteins located in the periplasm of Gram-negative bacteria, or attached to the cell membrane of Gram-positive bacteria. The best-studied member of the PAAT (polar amino acid transport) family is the HisJQM

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

Probab=98.02  E-value=3.7e-05  Score=49.67  Aligned_cols=50  Identities=22%  Similarity=0.306  Sum_probs=37.5

Q ss_pred             eeEEEEECCCCChHHHHHHHHhcCcCcCCCccceeeEeEEEEEEECCeEE
Q 035301           12 LFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQVTNFSS   61 (68)
Q Consensus        12 ~~ki~~iG~~~vGKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~   61 (68)
                      ..++.++|+++||||+|+|++.+....-.+.|-+-++-..-.+...++++
T Consensus         3 ~~~valvGNPNvGKTtlFN~LTG~~q~VgNwpGvTVEkkeg~~~~~~~~i   52 (653)
T COG0370           3 KLTVALVGNPNVGKTTLFNALTGANQKVGNWPGVTVEKKEGKLKYKGHEI   52 (653)
T ss_pred             cceEEEecCCCccHHHHHHHHhccCceecCCCCeeEEEEEEEEEecCceE
Confidence            35699999999999999999998776555556665566555666666553

>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=98.02  E-value=4.1e-06  Score=43.86  Aligned_cols=25  Identities=32%  Similarity=0.383  Sum_probs=21.9

Q ss_pred             EEEEECCCCChHHHHHHHHhcCcCc
Q 035301           14 KVVLIGDSGVGKSNLLSRFTRNEFC   38 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~~~~~   38 (68)
                      .++++|++|+|||+|++.+++...+
T Consensus        13 ~~~i~G~nGsGKStLl~~l~g~~~~   37 (137)
T PF00005_consen   13 IVAIVGPNGSGKSTLLKALAGLLPP   37 (137)
T ss_dssp             EEEEEESTTSSHHHHHHHHTTSSHE
T ss_pred             EEEEEccCCCccccceeeecccccc
Confidence            6899999999999999999986543

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 ....

>TIGR02673 FtsE cell division ATP-binding protein FtsE

Probab=98.02  E-value=9.6e-06  Score=45.49  Aligned_cols=28  Identities=29%  Similarity=0.286  Sum_probs=23.4

Q ss_pred             EEEEECCCCChHHHHHHHHhcCcCcCCC
Q 035301           14 KVVLIGDSGVGKSNLLSRFTRNEFCLES   41 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~~~~~~~~   41 (68)
                      .+.++|++|+|||||++.+++...+.++
T Consensus        30 ~~~l~G~nGsGKSTLl~~i~Gl~~~~~G   57 (214)
T TIGR02673        30 FLFLTGPSGAGKTTLLKLLYGALTPSRG   57 (214)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCCCCCCc
Confidence            6889999999999999999987544444

This model describes FtsE, a member of the ABC transporter ATP-binding protein family. This protein, and its permease partner FtsX, localize to the division site. In a number of species, the ftsEX gene pair is located next to FtsY, the signal recognition particle-docking protein.

>TIGR02729 Obg_CgtA Obg family GTPase CgtA

Probab=98.01  E-value=2.9e-05  Score=46.62  Aligned_cols=25  Identities=36%  Similarity=0.477  Sum_probs=22.3

Q ss_pred             eeEEEEECCCCChHHHHHHHHhcCc
Q 035301           12 LFKVVLIGDSGVGKSNLLSRFTRNE   36 (68)
Q Consensus        12 ~~ki~~iG~~~vGKtsl~~~~~~~~   36 (68)
                      ...|.++|.+++|||||++++....
T Consensus       157 ~adV~lvG~pnaGKSTLl~~lt~~~  181 (329)
T TIGR02729       157 LADVGLVGLPNAGKSTLISAVSAAK  181 (329)
T ss_pred             cccEEEEcCCCCCHHHHHHHHhcCC
Confidence            3589999999999999999999754

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.

>cd03225 ABC_cobalt_CbiO_domain1 Domain I of the ABC component of a cobalt transport family found in bacteria, archaea, and eukaryota

Probab=98.01  E-value=1e-05  Score=45.26  Aligned_cols=28  Identities=29%  Similarity=0.299  Sum_probs=23.4

Q ss_pred             EEEEECCCCChHHHHHHHHhcCcCcCCC
Q 035301           14 KVVLIGDSGVGKSNLLSRFTRNEFCLES   41 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~~~~~~~~   41 (68)
                      .+.++|++|+|||||++.+++...+.++
T Consensus        29 ~~~l~G~nGsGKSTLl~~l~G~~~~~~G   56 (211)
T cd03225          29 FVLIVGPNGSGKSTLLRLLNGLLGPTSG   56 (211)
T ss_pred             EEEEECCCCCCHHHHHHHHhcCCCCCCc
Confidence            5889999999999999999986544444

The transition metal cobalt is an essential component of many enzymes and must be transported into cells in appropriate amounts when needed. This ABC transport system of the CbiMNQO family is involved in cobalt transport in association with the cobalamin (vitamin B12) biosynthetic pathways. Most of cobalt (Cbi) transport systems possess a separate CbiN component, the cobalt-binding periplasmic protein, and they are encoded by the conserved gene cluster cbiMNQO. Both the CbiM and CbiQ proteins are integral cytoplasmic membrane proteins, and the CbiO protein has the linker peptide and the Walker A and B motifs commonly found in the ATPase components of the ABC-type transport systems.

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

Probab=98.01  E-value=6.1e-06  Score=50.34  Aligned_cols=37  Identities=22%  Similarity=0.368  Sum_probs=24.9

Q ss_pred             ceeeEEEEECCCCChHHHHHHHHhcCcCcCCCcccee
Q 035301           10 DYLFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIG   46 (68)
Q Consensus        10 ~~~~ki~~iG~~~vGKtsl~~~~~~~~~~~~~~~t~~   46 (68)
                      ...++|.|.|++|+|||||+|.+.+-.-.++.....|
T Consensus        33 ~~~l~IaV~G~sGsGKSSfINalrGl~~~d~~aA~tG   69 (376)
T PF05049_consen   33 NAPLNIAVTGESGSGKSSFINALRGLGHEDEGAAPTG   69 (376)
T ss_dssp             H--EEEEEEESTTSSHHHHHHHHTT--TTSTTS--SS
T ss_pred             cCceEEEEECCCCCCHHHHHHHHhCCCCCCcCcCCCC
Confidence            3468999999999999999999987544444433333

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.

>cd03269 ABC_putative_ATPase This subfamily is involved in drug resistance, nodulation, lipid transport, and bacteriocin and lantibiotic immunity

Probab=98.01  E-value=9.8e-06  Score=45.38  Aligned_cols=28  Identities=18%  Similarity=0.182  Sum_probs=23.3

Q ss_pred             EEEEECCCCChHHHHHHHHhcCcCcCCC
Q 035301           14 KVVLIGDSGVGKSNLLSRFTRNEFCLES   41 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~~~~~~~~   41 (68)
                      .+.++|++|+|||||++.+++...+.++
T Consensus        28 ~~~i~G~nGsGKSTLl~~l~G~~~~~~G   55 (210)
T cd03269          28 IFGLLGPNGAGKTTTIRMILGIILPDSG   55 (210)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCCCCCce
Confidence            5789999999999999999987544443

In eubacteria and archaea, the typical organization consists of one ABC and one or two IMs. Eukaryote systems of the ABCA subfamily display ABC domains strongly similar to this family. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides and more complex organic molecules. The nucleotide binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region in addition to the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>PRK05306 infB translation initiation factor IF-2; Validated

Probab=98.01  E-value=3.3e-05  Score=50.93  Aligned_cols=50  Identities=14%  Similarity=0.179  Sum_probs=34.2

Q ss_pred             ceeeEEEEECCCCChHHHHHHHHhcCcCcCCCccceeeEeEEEEEEECCe
Q 035301           10 DYLFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQVTNF   59 (68)
Q Consensus        10 ~~~~ki~~iG~~~vGKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~   59 (68)
                      .....|+++|..++|||||++++....+.......+..+.....+.+++.
T Consensus       288 ~R~pvV~ImGhvd~GKTSLl~~Lr~~~v~~~e~~GIT~~iga~~v~~~~~  337 (787)
T PRK05306        288 PRPPVVTIMGHVDHGKTSLLDAIRKTNVAAGEAGGITQHIGAYQVETNGG  337 (787)
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHHhCCccccccCceeeeccEEEEEECCE
Confidence            45689999999999999999999987765444333322333334555543

>PRK07261 topology modulation protein; Provisional

Probab=98.00  E-value=7.1e-06  Score=45.01  Aligned_cols=22  Identities=41%  Similarity=0.739  Sum_probs=19.8

Q ss_pred             EEEEECCCCChHHHHHHHHhcC
Q 035301           14 KVVLIGDSGVGKSNLLSRFTRN   35 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~~   35 (68)
                      +|+++|.+|+|||||...+...
T Consensus         2 ri~i~G~~GsGKSTla~~l~~~   23 (171)
T PRK07261          2 KIAIIGYSGSGKSTLARKLSQH   23 (171)
T ss_pred             EEEEEcCCCCCHHHHHHHHHHH
Confidence            7999999999999999988743

>cd03224 ABC_TM1139_LivF_branched LivF (TM1139) is part of the LIV-I bacterial ABC-type two-component transport system that imports neutral, branched-chain amino acids

Probab=98.00  E-value=1e-05  Score=45.52  Aligned_cols=28  Identities=29%  Similarity=0.322  Sum_probs=23.5

Q ss_pred             EEEEECCCCChHHHHHHHHhcCcCcCCC
Q 035301           14 KVVLIGDSGVGKSNLLSRFTRNEFCLES   41 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~~~~~~~~   41 (68)
                      .+.++|++|+|||||++.+++...+..+
T Consensus        28 ~~~i~G~nGsGKSTLl~~l~Gl~~~~~G   55 (222)
T cd03224          28 IVALLGRNGAGKTTLLKTIMGLLPPRSG   55 (222)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCCCCCCc
Confidence            6889999999999999999987654444

The E. coli branched-chain amino acid transporter comprises a heterodimer of ABC transporters (LivF and LivG), a heterodimer of six-helix TM domains (LivM and LivH), and one of two alternative soluble periplasmic substrate binding proteins (LivK or LivJ). ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic molecules.

>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=98.00  E-value=2.6e-05  Score=42.82  Aligned_cols=22  Identities=32%  Similarity=0.693  Sum_probs=18.7

Q ss_pred             EEEEECCCCChHHHHHHHHhcC
Q 035301           14 KVVLIGDSGVGKSNLLSRFTRN   35 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~~   35 (68)
                      ++++-|+.|+||||++.+++..
T Consensus         1 ~i~iTG~pG~GKTTll~k~i~~   22 (168)
T PF03266_consen    1 HIFITGPPGVGKTTLLKKVIEE   22 (168)
T ss_dssp             EEEEES-TTSSHHHHHHHHHHH
T ss_pred             CEEEECcCCCCHHHHHHHHHHH
Confidence            6899999999999999998853

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.

>TIGR02211 LolD_lipo_ex lipoprotein releasing system, ATP-binding protein

Probab=98.00  E-value=1.1e-05  Score=45.43  Aligned_cols=29  Identities=31%  Similarity=0.394  Sum_probs=24.1

Q ss_pred             EEEEECCCCChHHHHHHHHhcCcCcCCCc
Q 035301           14 KVVLIGDSGVGKSNLLSRFTRNEFCLESK   42 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~~~~~~~~~   42 (68)
                      .+.++|++|+|||||++.+++...+.++.
T Consensus        33 ~~~i~G~nGsGKSTLl~~i~G~~~~~~G~   61 (221)
T TIGR02211        33 IVAIVGSSGSGKSTLLHLLGGLDNPTSGE   61 (221)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCCCCCCcE
Confidence            68899999999999999999876544443

This model represents LolD, a member of the ABC transporter family (pfam00005). LolD is involved in localization of lipoproteins in some bacteria. It works with a transmembrane protein LolC, which in some species is a paralogous pair LolC and LolE. Depending on whether the residue immediately following the new, modified N-terminal Cys residue, the nascent lipoprotein may be carried further by LolA and LolB to the outer membrane, or remain at the inner membrane. The top scoring proteins excluded by this model include homologs from the archaeal genus Methanosarcina.

>cd03261 ABC_Org_Solvent_Resistant ABC (ATP-binding cassette) transport system involved in resistant to organic solvents; ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic molecules

Probab=97.99  E-value=1e-05  Score=46.02  Aligned_cols=28  Identities=32%  Similarity=0.274  Sum_probs=23.5

Q ss_pred             EEEEECCCCChHHHHHHHHhcCcCcCCC
Q 035301           14 KVVLIGDSGVGKSNLLSRFTRNEFCLES   41 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~~~~~~~~   41 (68)
                      .+.++|++|+|||||++.+++...+..+
T Consensus        28 ~~~l~G~nGsGKSTLl~~l~G~~~p~~G   55 (235)
T cd03261          28 ILAIIGPSGSGKSTLLRLIVGLLRPDSG   55 (235)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCCCCCce
Confidence            6899999999999999999986554443

The nucleotide binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>TIGR03608 L_ocin_972_ABC putative bacteriocin export ABC transporter, lactococcin 972 group

Probab=97.99  E-value=1.1e-05  Score=44.95  Aligned_cols=28  Identities=36%  Similarity=0.374  Sum_probs=23.6

Q ss_pred             EEEEECCCCChHHHHHHHHhcCcCcCCC
Q 035301           14 KVVLIGDSGVGKSNLLSRFTRNEFCLES   41 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~~~~~~~~   41 (68)
                      .+.++|++|+|||||++.+++...+.++
T Consensus        26 ~~~i~G~nGsGKSTLl~~l~G~~~~~~G   53 (206)
T TIGR03608        26 MYAIIGESGSGKSTLLNIIGLLEKFDSG   53 (206)
T ss_pred             EEEEECCCCCCHHHHHHHHhcCCCCCCe
Confidence            6899999999999999999987554444

A gene pair with a fairly wide distribution consists of a polypeptide related to the lactococcin 972 (see TIGR01653) and multiple-membrane-spanning putative immunity protein (see TIGR01654). This model represents a small clade within the ABC transporters that regularly are found adjacent to these bacteriocin system gene pairs and are likely serve as export proteins.

>TIGR02315 ABC_phnC phosphonate ABC transporter, ATP-binding protein

Probab=97.99  E-value=1.1e-05  Score=46.12  Aligned_cols=28  Identities=39%  Similarity=0.390  Sum_probs=23.2

Q ss_pred             EEEEECCCCChHHHHHHHHhcCcCcCCC
Q 035301           14 KVVLIGDSGVGKSNLLSRFTRNEFCLES   41 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~~~~~~~~   41 (68)
                      .+.++|++|+|||||++.+++...+..+
T Consensus        30 ~~~l~G~nGsGKSTLl~~l~Gl~~~~~G   57 (243)
T TIGR02315        30 FVAIIGPSGAGKSTLLRCINRLVEPSSG   57 (243)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCcCCCcc
Confidence            6889999999999999999986544333

Phosphonates are a class of phosphorus-containing organic compound with a stable direct C-P bond rather than a C-O-P linkage. A number of bacterial species have operons, typically about 14 genes in size, with genes for ATP-dependent transport of phosphonates, degradation, and regulation of the expression of the system. Members of this protein family are the ATP-binding cassette component of tripartite ABC transporters of phosphonates.

>cd03257 ABC_NikE_OppD_transporters The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE)

Probab=97.99  E-value=1.2e-05  Score=45.46  Aligned_cols=29  Identities=28%  Similarity=0.268  Sum_probs=24.3

Q ss_pred             EEEEECCCCChHHHHHHHHhcCcCcCCCc
Q 035301           14 KVVLIGDSGVGKSNLLSRFTRNEFCLESK   42 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~~~~~~~~~   42 (68)
                      .+.++|++|+|||||++.+++...+..+.
T Consensus        33 ~~~i~G~nGsGKSTLl~~l~G~~~~~~G~   61 (228)
T cd03257          33 TLGLVGESGSGKSTLARAILGLLKPTSGS   61 (228)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCCCCCCce
Confidence            68999999999999999999876554443

The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane components (NikB and NikC), and two ATPase (NikD and NikE). The NikABCDE transporter is synthesized under anaerobic conditions to meet the increased demand for nickel resulting from hydrogenase synthesis. The molecular mechanism of nickel uptake in many bacteria and most archaea is not known. Many other members of this ABC family are also involved in the uptake of dipeptides and oligopeptides. The oligopeptide transport system (Opp) is a five-component ABC transport composed of a membrane-anchored substrate binding proteins (SRP), OppA, two transmembrane proteins, OppB and OppC, and two ATP-binding domains, OppD and OppF.

>PF05783 DLIC: Dynein light intermediate chain (DLIC); InterPro: IPR022780 This entry consists of several eukaryotic dynein light intermediate chain proteins

Probab=97.99  E-value=1.5e-05  Score=49.98  Aligned_cols=54  Identities=22%  Similarity=0.462  Sum_probs=36.8

Q ss_pred             eeEEEEECCCCChHHHHHHHHhcCcCcCCCccceeeEeEEEEEEECCeEEEEEEEeC
Q 035301           12 LFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQVTNFSSFTSLHFY   68 (68)
Q Consensus        12 ~~ki~~iG~~~vGKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~~w   68 (68)
                      .-.|+|+|+.++|||+|+.++.+.+   ...++.|.+|.--.+.-++..-..++++|
T Consensus        25 ~k~vlvlG~~~~GKttli~~L~~~e---~~~~~~aLeYty~~v~d~~~dd~~rl~vw   78 (472)
T PF05783_consen   25 EKSVLVLGDKGSGKTTLIARLQGIE---DPKKGLALEYTYLDVKDEDRDDLARLNVW   78 (472)
T ss_pred             CceEEEEeCCCCchHHHHHHhhccC---CCCCCcccceEEEeeccCcCCcCceeeEE
Confidence            4589999999999999999987643   45567777774333332322223456777

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 [].

>cd03235 ABC_Metallic_Cations ABC component of the metal-type transporters

Probab=97.99  E-value=1.1e-05  Score=45.23  Aligned_cols=29  Identities=24%  Similarity=0.276  Sum_probs=24.0

Q ss_pred             EEEEECCCCChHHHHHHHHhcCcCcCCCc
Q 035301           14 KVVLIGDSGVGKSNLLSRFTRNEFCLESK   42 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~~~~~~~~~   42 (68)
                      .+.++|++|+|||||++.+++...+.++.
T Consensus        27 ~~~l~G~nGsGKSTLl~~l~G~~~p~~G~   55 (213)
T cd03235          27 FLAIVGPNGAGKSTLLKAILGLLKPTSGS   55 (213)
T ss_pred             EEEEECCCCCCHHHHHHHHcCCCCCCCCE
Confidence            68999999999999999999875554443

This family includes transporters involved in the uptake of various metallic cations such as iron, manganese, and zinc. The ATPases of this group of transporters are very similar to members of iron-siderophore uptake family suggesting that they share a common ancestor. The best characterized metal-type ABC transporters are the YfeABCD system of Y. pestis, the SitABCD system of Salmonella enterica serovar Typhimurium, and the SitABCD transporter of Shigella flexneri. Moreover other uncharacterized homologs of these metal-type transporters are mainly found in pathogens like Haemophilus or enteroinvasive E. coli isolates.

>cd03266 ABC_NatA_sodium_exporter NatA is the ATPase component of a bacterial ABC-type Na+ transport system called NatAB, which catalyzes ATP-dependent electrogenic Na+ extrusion without mechanically coupled proton or K+ uptake

Probab=97.99  E-value=1.2e-05  Score=45.23  Aligned_cols=29  Identities=21%  Similarity=0.115  Sum_probs=24.1

Q ss_pred             EEEEECCCCChHHHHHHHHhcCcCcCCCc
Q 035301           14 KVVLIGDSGVGKSNLLSRFTRNEFCLESK   42 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~~~~~~~~~   42 (68)
                      .+.++|++|+|||||++.+++...+.++.
T Consensus        33 ~~~i~G~nGsGKSTLl~~l~Gl~~~~~G~   61 (218)
T cd03266          33 VTGLLGPNGAGKTTTLRMLAGLLEPDAGF   61 (218)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCcCCCCce
Confidence            68899999999999999999876554443

NatB possess six putative membrane spanning regions at its C-terminus. In B. subtilus, NatAB is inducible by agents such as ethanol and protonophores, which lower the protonmotive force across the membrane. The closest sequence similarity to NatA is exhibited by DrrA of the two-component daunomycin- and doxorubicin-efflux system. Hence, the functional NatAB is presumably assembled with two copies of a single ATP-binding protein and a single intergral membrane protein.

>cd03292 ABC_FtsE_transporter FtsE is a hydrophilic nucleotide-binding protein that binds FtsX to form a heterodimeric ATP-binding cassette (ABC)-type transporter that associates with the bacterial inner membrane

Probab=97.98  E-value=1.1e-05  Score=45.16  Aligned_cols=28  Identities=39%  Similarity=0.536  Sum_probs=23.2

Q ss_pred             EEEEECCCCChHHHHHHHHhcCcCcCCC
Q 035301           14 KVVLIGDSGVGKSNLLSRFTRNEFCLES   41 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~~~~~~~~   41 (68)
                      .+.++|++|+|||||++.+++...+..+
T Consensus        29 ~~~i~G~nGsGKSTLl~~l~G~~~~~~G   56 (214)
T cd03292          29 FVFLVGPSGAGKSTLLKLIYKEELPTSG   56 (214)
T ss_pred             EEEEECCCCCCHHHHHHHHhcCCCCCce
Confidence            5789999999999999999986544433

The FtsE/X transporter is thought to be involved in cell division and is important for assembly or stability of the septal ring.

>PRK12288 GTPase RsgA; Reviewed

Probab=97.98  E-value=6.7e-06  Score=49.69  Aligned_cols=23  Identities=35%  Similarity=0.634  Sum_probs=20.5

Q ss_pred             EEEECCCCChHHHHHHHHhcCcC
Q 035301           15 VVLIGDSGVGKSNLLSRFTRNEF   37 (68)
Q Consensus        15 i~~iG~~~vGKtsl~~~~~~~~~   37 (68)
                      ++++|.+|||||||+|++.+..-
T Consensus       208 ~~~vG~sgVGKSTLiN~Ll~~~~  230 (347)
T PRK12288        208 SIFVGQSGVGKSSLINALLPEAE  230 (347)
T ss_pred             EEEECCCCCCHHHHHHHhccccc
Confidence            68999999999999999997543

>PRK11629 lolD lipoprotein transporter ATP-binding subunit; Provisional

Probab=97.98  E-value=1.1e-05  Score=45.91  Aligned_cols=28  Identities=29%  Similarity=0.392  Sum_probs=23.5

Q ss_pred             EEEEECCCCChHHHHHHHHhcCcCcCCC
Q 035301           14 KVVLIGDSGVGKSNLLSRFTRNEFCLES   41 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~~~~~~~~   41 (68)
                      .+.++|++|+|||||++.+++...+.++
T Consensus        37 ~~~l~G~nGsGKSTLl~~l~Gl~~~~~G   64 (233)
T PRK11629         37 MMAIVGSSGSGKSTLLHLLGGLDTPTSG   64 (233)
T ss_pred             EEEEECCCCCCHHHHHHHHhcCCCCCce
Confidence            6889999999999999999987544443

>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=97.98  E-value=1.2e-05  Score=43.32  Aligned_cols=23  Identities=26%  Similarity=0.473  Sum_probs=20.7

Q ss_pred             EEEECCCCChHHHHHHHHhcCcC
Q 035301           15 VVLIGDSGVGKSNLLSRFTRNEF   37 (68)
Q Consensus        15 i~~iG~~~vGKtsl~~~~~~~~~   37 (68)
                      |+++|..++|||||++.+++...
T Consensus         1 V~v~G~~ssGKSTliNaLlG~~i   23 (168)
T PF00350_consen    1 VAVVGQFSSGKSTLINALLGRPI   23 (168)
T ss_dssp             EEEEEBTTSSHHHHHHHHHTSS-
T ss_pred             CEEEcCCCCCHHHHHHHHHhccc
Confidence            68999999999999999998773

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 ....

>cd03293 ABC_NrtD_SsuB_transporters NrtD and SsuB are the ATP-binding subunits of the bacterial ABC-type nitrate and sulfonate transport systems, respectively

Probab=97.97  E-value=1.2e-05  Score=45.33  Aligned_cols=28  Identities=39%  Similarity=0.407  Sum_probs=23.5

Q ss_pred             EEEEECCCCChHHHHHHHHhcCcCcCCC
Q 035301           14 KVVLIGDSGVGKSNLLSRFTRNEFCLES   41 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~~~~~~~~   41 (68)
                      .+.++|++|+|||||++.+++...+.++
T Consensus        32 ~~~i~G~nGsGKSTLl~~l~Gl~~~~~G   59 (220)
T cd03293          32 FVALVGPSGCGKSTLLRIIAGLERPTSG   59 (220)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCCCCCce
Confidence            5889999999999999999987554444

ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic molecules. The nucleotide binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>cd03218 ABC_YhbG The ABC transporters belonging to the YhbG family are similar to members of the Mj1267_LivG family, which is involved in the transport of branched-chain amino acids

Probab=97.97  E-value=1.2e-05  Score=45.53  Aligned_cols=28  Identities=21%  Similarity=0.151  Sum_probs=23.7

Q ss_pred             EEEEECCCCChHHHHHHHHhcCcCcCCC
Q 035301           14 KVVLIGDSGVGKSNLLSRFTRNEFCLES   41 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~~~~~~~~   41 (68)
                      .+.++|++|+|||||++.+++...+.++
T Consensus        28 ~~~l~G~nGsGKSTLl~~l~Gl~~p~~G   55 (232)
T cd03218          28 IVGLLGPNGAGKTTTFYMIVGLVKPDSG   55 (232)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCCCCCCc
Confidence            6889999999999999999987654444

The genes yhbG and yhbN are located in a single operon and may function together in cell envelope during biogenesis. YhbG is the putative ATP-binding cassette component and YhbN is the putative periplasmic-binding protein. Depletion of each gene product leads to growth arrest, irreversible cell damage and loss of viability in E. coli. The YhbG homolog (NtrA) is essential in Rhizobium meliloti, a symbiotic nitrogen-fixing bacterium.

>COG1120 FepC ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]

Probab=97.97  E-value=1.1e-05  Score=47.08  Aligned_cols=28  Identities=25%  Similarity=0.227  Sum_probs=22.7

Q ss_pred             EEEEECCCCChHHHHHHHHhcCcCcCCC
Q 035301           14 KVVLIGDSGVGKSNLLSRFTRNEFCLES   41 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~~~~~~~~   41 (68)
                      -+.++|++|+|||||++.+.+---+..+
T Consensus        30 i~~iiGpNG~GKSTLLk~l~g~l~p~~G   57 (258)
T COG1120          30 ITGILGPNGSGKSTLLKCLAGLLKPKSG   57 (258)
T ss_pred             EEEEECCCCCCHHHHHHHHhccCCCCCC
Confidence            4678999999999999999985544444

>COG1118 CysA ABC-type sulfate/molybdate transport systems, ATPase component [Inorganic ion transport and metabolism]

Probab=97.97  E-value=1.5e-05  Score=47.68  Aligned_cols=34  Identities=32%  Similarity=0.333  Sum_probs=28.6

Q ss_pred             EEEEECCCCChHHHHHHHHhcCcCcCCCccceee
Q 035301           14 KVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGV   47 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~~~~~~~~~~t~~~   47 (68)
                      -+.++|++|+|||+|++.+++...+..+....+.
T Consensus        30 ~vaLlGpSGaGKsTlLRiIAGLe~p~~G~I~~~~   63 (345)
T COG1118          30 LVALLGPSGAGKSTLLRIIAGLETPDAGRIRLNG   63 (345)
T ss_pred             EEEEECCCCCcHHHHHHHHhCcCCCCCceEEECC
Confidence            4789999999999999999999888777655543

>cd03259 ABC_Carb_Solutes_like ABC Carbohydrate and Solute Transporters-like subgroup

Probab=97.97  E-value=1.2e-05  Score=45.05  Aligned_cols=28  Identities=32%  Similarity=0.347  Sum_probs=23.3

Q ss_pred             EEEEECCCCChHHHHHHHHhcCcCcCCC
Q 035301           14 KVVLIGDSGVGKSNLLSRFTRNEFCLES   41 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~~~~~~~~   41 (68)
                      .+.++|++|+|||||++.+++...+.++
T Consensus        28 ~~~i~G~nGsGKSTLl~~l~G~~~p~~G   55 (213)
T cd03259          28 FLALLGPSGCGKTTLLRLIAGLERPDSG   55 (213)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCCCCCCe
Confidence            5889999999999999999986544444

This family is comprised of proteins involved in the transport of apparently unrelated solutes and proteins specific for di- and oligosaccharides and polyols. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides and more complex organic molecules. The nucleotide-binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>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=97.97  E-value=8.6e-06  Score=45.35  Aligned_cols=28  Identities=32%  Similarity=0.504  Sum_probs=21.0

Q ss_pred             eEEEEECCCCChHHHHHHHHhcCcCcCC
Q 035301           13 FKVVLIGDSGVGKSNLLSRFTRNEFCLE   40 (68)
Q Consensus        13 ~ki~~iG~~~vGKtsl~~~~~~~~~~~~   40 (68)
                      --++++|++|+|||+|+.++..+.....
T Consensus         4 ~~vlL~Gps~SGKTaLf~~L~~~~~~~T   31 (181)
T PF09439_consen    4 PTVLLVGPSGSGKTALFSQLVNGKTVPT   31 (181)
T ss_dssp             -EEEEE-STTSSHHHHHHHHHHSS---B
T ss_pred             ceEEEEcCCCCCHHHHHHHHhcCCcCCe
Confidence            4689999999999999999998866543

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.

>cd03265 ABC_DrrA DrrA is the ATP-binding protein component of a bacterial exporter complex that confers resistance to the antibiotics daunorubicin and doxorubicin

Probab=97.97  E-value=1.3e-05  Score=45.25  Aligned_cols=28  Identities=21%  Similarity=0.217  Sum_probs=23.2

Q ss_pred             EEEEECCCCChHHHHHHHHhcCcCcCCC
Q 035301           14 KVVLIGDSGVGKSNLLSRFTRNEFCLES   41 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~~~~~~~~   41 (68)
                      .+.++|++|+|||||++.+++...+.++
T Consensus        28 ~~~i~G~nGsGKSTLl~~i~G~~~~~~G   55 (220)
T cd03265          28 IFGLLGPNGAGKTTTIKMLTTLLKPTSG   55 (220)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCCCCCce
Confidence            5789999999999999999986544433

In addition to DrrA, the complex includes an integral membrane protein called DrrB. DrrA belongs to the ABC family of transporters and shares sequence and functional similarities with a protein found in cancer cells called P-glycoprotein. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic molecules. The nucleotide binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region in addition to the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>TIGR01166 cbiO cobalt transport protein ATP-binding subunit

Probab=97.97  E-value=1.3e-05  Score=44.25  Aligned_cols=28  Identities=29%  Similarity=0.338  Sum_probs=23.4

Q ss_pred             EEEEECCCCChHHHHHHHHhcCcCcCCC
Q 035301           14 KVVLIGDSGVGKSNLLSRFTRNEFCLES   41 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~~~~~~~~   41 (68)
                      .+.++|++|+|||||++.+++...+.++
T Consensus        20 ~~~i~G~nGsGKSTLl~~i~G~~~~~~G   47 (190)
T TIGR01166        20 VLALLGANGAGKSTLLLHLNGLLRPQSG   47 (190)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCCCCCce
Confidence            6889999999999999999986554444

This model describes the ATP binding subunit of the multisubunit cobalt transporter in bacteria and its equivalents in archaea. The model is restricted to ATP subunit that is a part of the cobalt transporter, which belongs to the ABC transporter superfamily (ATP Binding Cassette). The model excludes ATP binding subunit that are associated with other transporters belonging to ABC transporter superfamily. This superfamily includes two groups, one which catalyze the uptake of small molecules, including ions from the external milieu and the other group which is engaged in the efflux of small molecular weight compounds and ions from within the cell. Energy derived from the hydrolysis of ATP drive the both the process of uptake and efflux.

>cd03216 ABC_Carb_Monos_I This family represents the domain I of the carbohydrate uptake proteins that transport only monosaccharides (Monos)

Probab=97.97  E-value=1.4e-05  Score=43.43  Aligned_cols=28  Identities=25%  Similarity=0.288  Sum_probs=23.7

Q ss_pred             EEEEECCCCChHHHHHHHHhcCcCcCCC
Q 035301           14 KVVLIGDSGVGKSNLLSRFTRNEFCLES   41 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~~~~~~~~   41 (68)
                      .+.++|++|+|||+|++.+++...+..+
T Consensus        28 ~~~l~G~nGsGKSTLl~~i~G~~~~~~G   55 (163)
T cd03216          28 VHALLGENGAGKSTLMKILSGLYKPDSG   55 (163)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCCCCCCe
Confidence            6789999999999999999987655444

The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses (such as xylose, arabinose, and ribose), that cannot be broken down to simple sugars by hydrolysis. Pentoses include xylose, arabinose, and ribose. Important hexoses include glucose, galactose, and fructose. In members of the Carb_monos family, the single hydrophobic gene product forms a homodimer while the ABC protein represents a fusion of two nucleotide-binding domains. However, it is assumed that two copies of the ABC domains are present in the assembled transporter.

>cd04167 Snu114p Snu114p subfamily

Probab=97.96  E-value=2e-05  Score=44.34  Aligned_cols=24  Identities=25%  Similarity=0.405  Sum_probs=21.0

Q ss_pred             EEEEECCCCChHHHHHHHHhcCcC
Q 035301           14 KVVLIGDSGVGKSNLLSRFTRNEF   37 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~~~~   37 (68)
                      +++++|..++|||||+.+++....
T Consensus         2 nv~iiG~~~~GKTtL~~~l~~~~~   25 (213)
T cd04167           2 NVAIAGHLHHGKTSLLDMLIEQTH   25 (213)
T ss_pred             cEEEEcCCCCCHHHHHHHHHHhcC
Confidence            589999999999999999986543

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.

>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=97.96  E-value=2.5e-05  Score=44.98  Aligned_cols=27  Identities=22%  Similarity=0.290  Sum_probs=20.7

Q ss_pred             EEEEECCCCChHHHHHHHHhcCcCcCC
Q 035301           14 KVVLIGDSGVGKSNLLSRFTRNEFCLE   40 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~~~~~~~   40 (68)
                      |++++|.+++||||+...+..+..+.+
T Consensus         1 KiLLmG~~~SGKTSi~~vIF~~~~p~d   27 (232)
T PF04670_consen    1 KILLMGPRRSGKTSIRSVIFHKYSPRD   27 (232)
T ss_dssp             EEEEEESTTSSHHHHHHHHHS---GGG
T ss_pred             CEEEEcCCCCChhhHHHHHHcCCCchh
Confidence            799999999999999888887655433

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.

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

Probab=97.96  E-value=5.9e-05  Score=45.93  Aligned_cols=28  Identities=21%  Similarity=0.605  Sum_probs=24.4

Q ss_pred             ceeeEEEEECCCCChHHHHHHHHhcCcC
Q 035301           10 DYLFKVVLIGDSGVGKSNLLSRFTRNEF   37 (68)
Q Consensus        10 ~~~~ki~~iG~~~vGKtsl~~~~~~~~~   37 (68)
                      -..+.++++|++|.|||++++.+++...
T Consensus        21 Gi~f~im~~G~sG~GKttfiNtL~~~~l   48 (373)
T COG5019          21 GIDFTIMVVGESGLGKTTFINTLFGTSL   48 (373)
T ss_pred             CCceEEEEecCCCCchhHHHHhhhHhhc
Confidence            3578999999999999999999987643

>COG0563 Adk Adenylate kinase and related kinases [Nucleotide transport and metabolism]

Probab=97.96  E-value=8.7e-06  Score=45.12  Aligned_cols=23  Identities=26%  Similarity=0.754  Sum_probs=21.0

Q ss_pred             eEEEEECCCCChHHHHHHHHhcC
Q 035301           13 FKVVLIGDSGVGKSNLLSRFTRN   35 (68)
Q Consensus        13 ~ki~~iG~~~vGKtsl~~~~~~~   35 (68)
                      .+++++|++|+||||+..+++..
T Consensus         1 ~riiilG~pGaGK~T~A~~La~~   23 (178)
T COG0563           1 MRILILGPPGAGKSTLAKKLAKK   23 (178)
T ss_pred             CeEEEECCCCCCHHHHHHHHHHH
Confidence            37999999999999999999875

>PRK11247 ssuB aliphatic sulfonates transport ATP-binding subunit; Provisional

Probab=97.96  E-value=1.3e-05  Score=46.57  Aligned_cols=28  Identities=36%  Similarity=0.400  Sum_probs=23.6

Q ss_pred             EEEEECCCCChHHHHHHHHhcCcCcCCC
Q 035301           14 KVVLIGDSGVGKSNLLSRFTRNEFCLES   41 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~~~~~~~~   41 (68)
                      .+.++|++|+|||||++.+++...+..+
T Consensus        40 ~~~I~G~NGsGKSTLlk~l~Gl~~p~~G   67 (257)
T PRK11247         40 FVAVVGRSGCGKSTLLRLLAGLETPSAG   67 (257)
T ss_pred             EEEEECCCCCCHHHHHHHHhcCCCCCCe
Confidence            6889999999999999999987554444

>PRK11248 tauB taurine transporter ATP-binding subunit; Provisional

Probab=97.96  E-value=1.4e-05  Score=46.20  Aligned_cols=28  Identities=29%  Similarity=0.375  Sum_probs=23.7

Q ss_pred             EEEEECCCCChHHHHHHHHhcCcCcCCC
Q 035301           14 KVVLIGDSGVGKSNLLSRFTRNEFCLES   41 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~~~~~~~~   41 (68)
                      .+.++|++|+|||||++.+++...+.++
T Consensus        29 ~~~i~G~nGsGKSTLl~~l~Gl~~p~~G   56 (255)
T PRK11248         29 LLVVLGPSGCGKTTLLNLIAGFVPYQHG   56 (255)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCCCCCCc
Confidence            6889999999999999999987654444

>cd03264 ABC_drug_resistance_like ABC-type multidrug transport system, ATPase component

Probab=97.96  E-value=1.2e-05  Score=45.01  Aligned_cols=28  Identities=21%  Similarity=0.256  Sum_probs=23.4

Q ss_pred             EEEEECCCCChHHHHHHHHhcCcCcCCC
Q 035301           14 KVVLIGDSGVGKSNLLSRFTRNEFCLES   41 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~~~~~~~~   41 (68)
                      .+.++|++|+|||||++.+++..-+.++
T Consensus        27 ~~~i~G~nGsGKSTLl~~l~Gl~~~~~G   54 (211)
T cd03264          27 MYGLLGPNGAGKTTLMRILATLTPPSSG   54 (211)
T ss_pred             cEEEECCCCCCHHHHHHHHhCCCCCCcc
Confidence            7899999999999999999986544443

The biological function of this family is not well characterized, but display ABC domains similar to members of ABCA subfamily. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic molecules. The nucleotide binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>cd03301 ABC_MalK_N The N-terminal ATPase domain of the maltose transporter, MalK

Probab=97.95  E-value=1.4e-05  Score=44.75  Aligned_cols=28  Identities=36%  Similarity=0.371  Sum_probs=23.5

Q ss_pred             EEEEECCCCChHHHHHHHHhcCcCcCCC
Q 035301           14 KVVLIGDSGVGKSNLLSRFTRNEFCLES   41 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~~~~~~~~   41 (68)
                      .+.++|++|+|||||++.+++...+.++
T Consensus        28 ~~~l~G~nGsGKSTLl~~l~G~~~~~~G   55 (213)
T cd03301          28 FVVLLGPSGCGKTTTLRMIAGLEEPTSG   55 (213)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCCCCCce
Confidence            5789999999999999999987654444

ATP binding cassette (ABC) proteins function from bacteria to human, mediating the translocation of substances into and out of cells or organelles. ABC transporters contain two transmembrane-spanning domains (TMDs) or subunits and two nucleotide binding domains (NBDs) or subunits that couple transport to the hydrolysis of ATP. In the maltose transport system, the periplasmic maltose binding protein (MBP) stimulates the ATPase activity of the membrane-associated transporter, which consists of two transmembrane subunits, MalF and MalG, and two copies of the ATP binding subunit, MalK, and becomes tightly bound to the transporter in the catalytic transition state, ensuring that maltose is passed to the transporter as ATP is hydrolyzed.

>PRK15177 Vi polysaccharide export ATP-binding protein VexC; Provisional

Probab=97.95  E-value=1.6e-05  Score=44.93  Aligned_cols=30  Identities=17%  Similarity=0.189  Sum_probs=24.9

Q ss_pred             EEEEECCCCChHHHHHHHHhcCcCcCCCcc
Q 035301           14 KVVLIGDSGVGKSNLLSRFTRNEFCLESKS   43 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~~~~~~~~~~   43 (68)
                      .+.++|++|+|||||++.+++...+.++..
T Consensus        15 ~~~l~G~NGsGKSTLlk~i~Gl~~~~sG~i   44 (213)
T PRK15177         15 HIGILAAPGSGKTTLTRLLCGLDAPDEGDF   44 (213)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCccCCCCCE
Confidence            678999999999999999998765555543

>TIGR02868 CydC thiol reductant ABC exporter, CydC subunit

Probab=97.95  E-value=1.3e-05  Score=50.35  Aligned_cols=31  Identities=39%  Similarity=0.445  Sum_probs=25.7

Q ss_pred             EEEEECCCCChHHHHHHHHhcCcCcCCCccc
Q 035301           14 KVVLIGDSGVGKSNLLSRFTRNEFCLESKST   44 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~~~~~~~~~~t   44 (68)
                      ++.++|++|+|||||++.+++...+.++...
T Consensus       363 ~vaIvG~SGsGKSTLl~lL~g~~~p~~G~I~  393 (529)
T TIGR02868       363 RVAILGPSGSGKSTLLMLLTGLLDPLQGEVT  393 (529)
T ss_pred             EEEEECCCCCCHHHHHHHHhcCCCCCCcEEE
Confidence            7899999999999999999987665555443

The gene pair cydCD encodes an ABC-family transporter in which each gene contains an N-terminal membrane-spanning domain (pfam00664) and a C-terminal ATP-binding domain (pfam00005). In E. coli these genes were discovered as mutants which caused the terminal heme-copper oxidase complex cytochrome bd to fail to assemble. Recent work has shown that the transporter is involved in export of redox-active thiol compounds such as cysteine and glutathione. The linkage to assembly of the cytochrome bd complex is further supported by the conserved operon structure found outside the gammaproteobacteria (cydABCD) containing both the transporter and oxidase genes components. The genes used as the seed members for this model are all either found in the gammproteobacterial context or the CydABCD context. All members of this family scoring above trusted at the time of its creation were from genomes which encode a cytochrome bd complex.

>PRK13541 cytochrome c biogenesis protein CcmA; Provisional

Probab=97.95  E-value=1.5e-05  Score=44.25  Aligned_cols=28  Identities=25%  Similarity=0.227  Sum_probs=23.9

Q ss_pred             EEEEECCCCChHHHHHHHHhcCcCcCCC
Q 035301           14 KVVLIGDSGVGKSNLLSRFTRNEFCLES   41 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~~~~~~~~   41 (68)
                      .+.++|++|+|||||++.+++...+.++
T Consensus        28 ~~~l~G~nGsGKSTLl~~l~G~~~~~~G   55 (195)
T PRK13541         28 ITYIKGANGCGKSSLLRMIAGIMQPSSG   55 (195)
T ss_pred             EEEEECCCCCCHHHHHHHHhcCCCCCCc
Confidence            6789999999999999999987655444

>cd03256 ABC_PhnC_transporter ABC-type phosphate/phosphonate transport system

Probab=97.95  E-value=1.5e-05  Score=45.40  Aligned_cols=28  Identities=39%  Similarity=0.358  Sum_probs=23.3

Q ss_pred             EEEEECCCCChHHHHHHHHhcCcCcCCC
Q 035301           14 KVVLIGDSGVGKSNLLSRFTRNEFCLES   41 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~~~~~~~~   41 (68)
                      .+.++|++|+|||||++.+++...+.++
T Consensus        29 ~~~i~G~nGsGKSTLl~~l~Gl~~~~~G   56 (241)
T cd03256          29 FVALIGPSGAGKSTLLRCLNGLVEPTSG   56 (241)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCcCCCCc
Confidence            6899999999999999999986544433

Phosphonates are a class of organophosphorus compounds characterized by a chemically stable carbon-to-phosphorus (C-P) bond. Phosphonates are widespread among naturally occurring compounds in all kingdoms of wildlife, but only procaryotic microorganisms are able to cleave this bond. Certain bacteria such as E. coli can use alkylphosphonates as a phosphorus source. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>cd03263 ABC_subfamily_A The ABCA subfamily mediates the transport of a variety of lipid compounds

Probab=97.94  E-value=1.6e-05  Score=44.79  Aligned_cols=28  Identities=25%  Similarity=0.283  Sum_probs=23.7

Q ss_pred             EEEEECCCCChHHHHHHHHhcCcCcCCC
Q 035301           14 KVVLIGDSGVGKSNLLSRFTRNEFCLES   41 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~~~~~~~~   41 (68)
                      .+.++|++|+|||||++.+++...+.++
T Consensus        30 ~~~i~G~nGsGKSTLl~~l~Gl~~~~~G   57 (220)
T cd03263          30 IFGLLGHNGAGKTTTLKMLTGELRPTSG   57 (220)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCCCCCCc
Confidence            5889999999999999999987654444

Mutations of members of ABCA subfamily are associated with human genetic diseases, such as, familial high-density lipoprotein (HDL) deficiency, neonatal surfactant deficiency, degenerative retinopathies, and congenital keratinization disorders. The ABCA1 protein is involved in disorders of cholesterol transport and high-density lipoprotein (HDL) biosynthesis. The ABCA4 (ABCR) protein transports vitamin A derivatives in the outer segments of photoreceptor cells, and therefore, performs a crucial step in the visual cycle. The ABCA genes are not present in yeast. However, evolutionary studies of ABCA genes indicate that they arose as transporters that subsequently duplicated and that certain sets of ABCA genes were lost in different eukaryotic lineages.

>TIGR03410 urea_trans_UrtE urea ABC transporter, ATP-binding protein UrtE

Probab=97.94  E-value=1.5e-05  Score=45.16  Aligned_cols=29  Identities=24%  Similarity=0.337  Sum_probs=24.3

Q ss_pred             EEEEECCCCChHHHHHHHHhcCcCcCCCc
Q 035301           14 KVVLIGDSGVGKSNLLSRFTRNEFCLESK   42 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~~~~~~~~~   42 (68)
                      .+.++|++|+|||||++.+++...+.++.
T Consensus        28 ~~~l~G~nGsGKSTLl~~l~G~~~~~~G~   56 (230)
T TIGR03410        28 VTCVLGRNGVGKTTLLKTLMGLLPVKSGS   56 (230)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCCCCCCCE
Confidence            78999999999999999999876554443

Members of this protein family are ABC transporter ATP-binding subunits associated with urea transport and metabolism. This protein is found in a conserved five-gene transport operon typically found adjacent to urease genes. It was shown in Cyanobacteria that disruption leads to the loss of high-affinity urea transport activity.

>cd03268 ABC_BcrA_bacitracin_resist The BcrA subfamily represents ABC transporters involved in peptide antibiotic resistance

Probab=97.94  E-value=1.5e-05  Score=44.58  Aligned_cols=28  Identities=14%  Similarity=0.074  Sum_probs=23.5

Q ss_pred             EEEEECCCCChHHHHHHHHhcCcCcCCC
Q 035301           14 KVVLIGDSGVGKSNLLSRFTRNEFCLES   41 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~~~~~~~~   41 (68)
                      .+.++|++|+|||||++.+++...+.++
T Consensus        28 ~~~i~G~nGsGKSTLl~~l~Gl~~~~~G   55 (208)
T cd03268          28 IYGFLGPNGAGKTTTMKIILGLIKPDSG   55 (208)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCcCCCce
Confidence            6789999999999999999987554444

Bacitracin is a dodecapeptide antibiotic produced by B. licheniformis and B. subtilis. The synthesis of bacitracin is non-ribosomally catalyzed by a multienzyme complex BcrABC. Bacitracin has potent antibiotic activity against gram-positive bacteria. The inhibition of peptidoglycan biosynthesis is the best characterized bacterial effect of bacitracin. The bacitracin resistance of B. licheniformis is mediated by the ABC transporter Bcr which is composed of two identical BcrA ATP-binding subunits and one each of the integral membrane proteins, BcrB and BcrC. B. subtilis cells carrying bcr genes on high-copy number plasmids develop collateral detergent sensitivity, a similar phenomenon in human cells with overexpressed multi-drug resistance P-glycoprotein.

>cd03215 ABC_Carb_Monos_II This family represents domain II of the carbohydrate uptake proteins that transport only monosaccharides (Monos)

Probab=97.94  E-value=1.6e-05  Score=43.74  Aligned_cols=29  Identities=17%  Similarity=0.103  Sum_probs=24.2

Q ss_pred             EEEEECCCCChHHHHHHHHhcCcCcCCCc
Q 035301           14 KVVLIGDSGVGKSNLLSRFTRNEFCLESK   42 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~~~~~~~~~   42 (68)
                      .+.++|++|+|||||++.+++...+.++.
T Consensus        28 ~~~i~G~nGsGKSTLl~~l~G~~~~~~G~   56 (182)
T cd03215          28 IVGIAGLVGNGQTELAEALFGLRPPASGE   56 (182)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCCCCCCce
Confidence            57899999999999999999876554443

The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses (such as xylose, arabinose, and ribose), that cannot be broken down to simple sugars by hydrolysis. In members of Carb_Monos family the single hydrophobic gene product forms a homodimer, while the ABC protein represents a fusion of two nucleotide-binding domains. However, it is assumed that two copies of the ABC domains are present in the assembled transporter.

>PRK10908 cell division protein FtsE; Provisional

Probab=97.94  E-value=1.5e-05  Score=45.04  Aligned_cols=28  Identities=36%  Similarity=0.344  Sum_probs=23.6

Q ss_pred             EEEEECCCCChHHHHHHHHhcCcCcCCC
Q 035301           14 KVVLIGDSGVGKSNLLSRFTRNEFCLES   41 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~~~~~~~~   41 (68)
                      .+.++|++|+|||||++.+++...+.++
T Consensus        30 ~~~i~G~nGsGKSTLl~~l~G~~~~~~G   57 (222)
T PRK10908         30 MAFLTGHSGAGKSTLLKLICGIERPSAG   57 (222)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCCCCCce
Confidence            6789999999999999999987654444

>TIGR03864 PQQ_ABC_ATP ABC transporter, ATP-binding subunit, PQQ-dependent alcohol dehydrogenase system

Probab=97.94  E-value=1.5e-05  Score=45.47  Aligned_cols=29  Identities=41%  Similarity=0.541  Sum_probs=24.0

Q ss_pred             EEEEECCCCChHHHHHHHHhcCcCcCCCc
Q 035301           14 KVVLIGDSGVGKSNLLSRFTRNEFCLESK   42 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~~~~~~~~~   42 (68)
                      .+.++|++|+|||||++.+++...+.++.
T Consensus        29 ~~~i~G~nGsGKSTLl~~l~G~~~p~~G~   57 (236)
T TIGR03864        29 FVALLGPNGAGKSTLFSLLTRLYVAQEGQ   57 (236)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCcCCCceE
Confidence            67899999999999999999876544443

Members of this protein family are the ATP-binding subunit of an ABC transporter system that is associated with PQQ biosynthesis and PQQ-dependent alcohol dehydrogenases. While this family shows homology to several efflux ABC transporter subunits, the presence of a periplasmic substrate-binding protein and association with systems for catabolism of alcohols suggests a role in import rather than detoxification.

>COG1124 DppF ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]

Probab=97.94  E-value=1.4e-05  Score=46.36  Aligned_cols=32  Identities=25%  Similarity=0.299  Sum_probs=26.6

Q ss_pred             EEEEECCCCChHHHHHHHHhcCcCcCCCccce
Q 035301           14 KVVLIGDSGVGKSNLLSRFTRNEFCLESKSTI   45 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~~~~~~~~~~t~   45 (68)
                      .+.++|++|+|||||.+.+++-.-+..+..++
T Consensus        35 ~lgivGeSGsGKSTL~r~l~Gl~~p~~G~I~~   66 (252)
T COG1124          35 TLGIVGESGSGKSTLARLLAGLEKPSSGSILL   66 (252)
T ss_pred             EEEEEcCCCCCHHHHHHHHhcccCCCCceEEE
Confidence            57899999999999999999977766655444

>cd03237 ABC_RNaseL_inhibitor_domain2 The ATPase domain 2 of RNase L inhibitor

Probab=97.94  E-value=1.6e-05  Score=45.83  Aligned_cols=29  Identities=17%  Similarity=0.299  Sum_probs=24.2

Q ss_pred             EEEEECCCCChHHHHHHHHhcCcCcCCCc
Q 035301           14 KVVLIGDSGVGKSNLLSRFTRNEFCLESK   42 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~~~~~~~~~   42 (68)
                      .+.++|++|+|||||++.+++...+.++.
T Consensus        27 ~~~i~G~NGsGKSTLlk~L~G~~~p~~G~   55 (246)
T cd03237          27 VIGILGPNGIGKTTFIKMLAGVLKPDEGD   55 (246)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCCcCCCCe
Confidence            57899999999999999999876555443

The ABC ATPase, RNase L inhibitor (RLI), is a key enzyme in ribosomal biogenesis, formation of translation preinitiation complexes, and assembly of HIV capsids. RLI's are not transport proteins and thus cluster with a group of soluble proteins that lack the transmembrane components commonly found in other members of the family. Structurally, RLI's have an N-terminal Fe-S domain and two nucleotide-binding domains which are arranged to form two composite active sites in their interface cleft. RLI is one of the most conserved enzymes between archaea and eukaryotes with a sequence identity of more than 48%. The high degree of evolutionary conservation suggests that RLI performs a central role in archaeal and eukaryotic physiology.

>PRK10895 lipopolysaccharide ABC transporter ATP-binding protein; Provisional

Probab=97.94  E-value=1.6e-05  Score=45.37  Aligned_cols=28  Identities=21%  Similarity=0.145  Sum_probs=23.6

Q ss_pred             EEEEECCCCChHHHHHHHHhcCcCcCCC
Q 035301           14 KVVLIGDSGVGKSNLLSRFTRNEFCLES   41 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~~~~~~~~   41 (68)
                      .+.++|++|+|||||++.+++...+..+
T Consensus        31 ~~~l~G~nGsGKSTLl~~l~G~~~~~~G   58 (241)
T PRK10895         31 IVGLLGPNGAGKTTTFYMVVGIVPRDAG   58 (241)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCCCCCCc
Confidence            6789999999999999999987544444

>cd03258 ABC_MetN_methionine_transporter MetN (also known as YusC) is an ABC-type transporter encoded by metN of the metNPQ operon in Bacillus subtilis that is involved in methionine transport

Probab=97.94  E-value=1.7e-05  Score=45.05  Aligned_cols=28  Identities=32%  Similarity=0.331  Sum_probs=23.7

Q ss_pred             EEEEECCCCChHHHHHHHHhcCcCcCCC
Q 035301           14 KVVLIGDSGVGKSNLLSRFTRNEFCLES   41 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~~~~~~~~   41 (68)
                      .+.++|++|+|||||++.+++...+..+
T Consensus        33 ~~~l~G~nGsGKSTLl~~l~G~~~~~~G   60 (233)
T cd03258          33 IFGIIGRSGAGKSTLIRCINGLERPTSG   60 (233)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCCCCCCc
Confidence            6889999999999999999987654444

Other members of this system include the MetP permease and the MetQ substrate binding protein. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>PRK11124 artP arginine transporter ATP-binding subunit; Provisional

Probab=97.94  E-value=1.5e-05  Score=45.49  Aligned_cols=28  Identities=39%  Similarity=0.517  Sum_probs=23.7

Q ss_pred             EEEEECCCCChHHHHHHHHhcCcCcCCC
Q 035301           14 KVVLIGDSGVGKSNLLSRFTRNEFCLES   41 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~~~~~~~~   41 (68)
                      .+.++|++|+|||||++.+++...+.++
T Consensus        30 ~~~i~G~nGsGKSTLl~~l~G~~~~~~G   57 (242)
T PRK11124         30 TLVLLGPSGAGKSSLLRVLNLLEMPRSG   57 (242)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCCCCCce
Confidence            6899999999999999999987654444

>PRK13539 cytochrome c biogenesis protein CcmA; Provisional

Probab=97.93  E-value=1.7e-05  Score=44.44  Aligned_cols=29  Identities=28%  Similarity=0.291  Sum_probs=24.2

Q ss_pred             EEEEECCCCChHHHHHHHHhcCcCcCCCc
Q 035301           14 KVVLIGDSGVGKSNLLSRFTRNEFCLESK   42 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~~~~~~~~~   42 (68)
                      .+.++|++|+|||||++.+++...+.++.
T Consensus        30 ~~~i~G~nGsGKSTLl~~l~G~~~~~~G~   58 (207)
T PRK13539         30 ALVLTGPNGSGKTTLLRLIAGLLPPAAGT   58 (207)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCCCCCCce
Confidence            67899999999999999999876554443

>PRK10247 putative ABC transporter ATP-binding protein YbbL; Provisional

Probab=97.93  E-value=1.7e-05  Score=44.96  Aligned_cols=28  Identities=29%  Similarity=0.241  Sum_probs=23.6

Q ss_pred             EEEEECCCCChHHHHHHHHhcCcCcCCC
Q 035301           14 KVVLIGDSGVGKSNLLSRFTRNEFCLES   41 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~~~~~~~~   41 (68)
                      .+.++|++|+|||||++.+++...+.++
T Consensus        35 ~~~i~G~nGsGKSTLl~~l~G~~~~~~G   62 (225)
T PRK10247         35 FKLITGPSGCGKSTLLKIVASLISPTSG   62 (225)
T ss_pred             EEEEECCCCCCHHHHHHHHhcccCCCCC
Confidence            6799999999999999999987554444

>TIGR02323 CP_lyasePhnK phosphonate C-P lyase system protein PhnK

Probab=97.93  E-value=1.8e-05  Score=45.47  Aligned_cols=28  Identities=29%  Similarity=0.347  Sum_probs=23.7

Q ss_pred             EEEEECCCCChHHHHHHHHhcCcCcCCC
Q 035301           14 KVVLIGDSGVGKSNLLSRFTRNEFCLES   41 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~~~~~~~~   41 (68)
                      .++++|++|+|||||++.+++..-+.++
T Consensus        31 ~~~i~G~nGsGKSTLl~~l~G~~~~~~G   58 (253)
T TIGR02323        31 VLGIVGESGSGKSTLLGCLAGRLAPDHG   58 (253)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCCCCCCc
Confidence            6899999999999999999987654444

Members of this family are the PhnK protein of C-P lyase systems for utilization of phosphonates. These systems resemble phosphonatase-based systems in having a three component ABC transporter, where TIGR01097 is the permease, TIGR01098 is the phosphonates binding protein, and TIGR02315 is the ATP-binding cassette (ABC) protein. They differ, however, in having, typically, ten or more additional genes, many of which are believed to form a membrane-associated complex. This protein (PhnK) and the adjacent-encoded PhnL resemble transporter ATP-binding proteins but are suggested, based on mutatgenesis studies, to be part of this complex rather than part of a transporter per se.

>cd03260 ABC_PstB_phosphate_transporter Phosphate uptake is of fundamental importance in the cell physiology of bacteria because phosphate is required as a nutrient

Probab=97.93  E-value=1.4e-05  Score=45.23  Aligned_cols=23  Identities=48%  Similarity=0.637  Sum_probs=21.2

Q ss_pred             EEEEECCCCChHHHHHHHHhcCc
Q 035301           14 KVVLIGDSGVGKSNLLSRFTRNE   36 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~~~   36 (68)
                      .+.++|++|+|||||++.+++..
T Consensus        28 ~~~i~G~nGsGKSTLl~~i~G~~   50 (227)
T cd03260          28 ITALIGPSGCGKSTLLRLLNRLN   50 (227)
T ss_pred             EEEEECCCCCCHHHHHHHHHhhc
Confidence            68899999999999999999875

The Pst system of E. coli comprises four distinct subunits encoded by the pstS, pstA, pstB, and pstC genes. The PstS protein is a phosphate-binding protein located in the periplasmic space. P stA and PstC are hydrophobic and they form the transmembrane portion of the Pst system. PstB is the catalytic subunit, which couples the energy of ATP hydrolysis to the import of phosphate across cellular membranes through the Pst system, often referred as ABC-protein. PstB belongs to one of the largest superfamilies of proteins characterized by a highly conserved adenosine triphosphate (ATP) binding cassette (ABC), which is also a nucleotide binding domain (NBD).

>TIGR01189 ccmA heme ABC exporter, ATP-binding protein CcmA

Probab=97.93  E-value=1.8e-05  Score=44.07  Aligned_cols=28  Identities=21%  Similarity=0.250  Sum_probs=23.6

Q ss_pred             EEEEECCCCChHHHHHHHHhcCcCcCCC
Q 035301           14 KVVLIGDSGVGKSNLLSRFTRNEFCLES   41 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~~~~~~~~   41 (68)
                      .+.++|++|+|||+|++.+++...+.++
T Consensus        28 ~~~i~G~nGsGKSTLl~~l~G~~~~~~G   55 (198)
T TIGR01189        28 ALQVTGPNGIGKTTLLRILAGLLRPDSG   55 (198)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCCCCCcc
Confidence            6889999999999999999987654444

This model describes the cyt c biogenesis protein encoded by ccmA in bacteria. An exception is, an arabidopsis protein. Quite likely this is encoded by an organelle. Bacterial c-type cytocromes are located on the periplasmic side of the cytoplasmic membrane. Several gene products encoded in a locus designated as 'ccm' are implicated in the transport and assembly of the functional cytochrome C. This cluster includes genes: ccmA;B;C;D;E;F;G and H. The posttranslational pathway includes the transport of heme moiety, the secretion of the apoprotein and the covalent attachment of the heme with the apoprotein. The proteins ccmA and B represent an ABC transporter; ccmC and D participate in heme transfer to ccmE, which function as a periplasmic heme chaperone. The presence of ccmF, G and H is suggested to be obligatory for the final functional assembly of cytochrome c.

>cd03296 ABC_CysA_sulfate_importer Part of the ABC transporter complex cysAWTP involved in sulfate import

Probab=97.92  E-value=1.6e-05  Score=45.36  Aligned_cols=28  Identities=36%  Similarity=0.368  Sum_probs=23.4

Q ss_pred             EEEEECCCCChHHHHHHHHhcCcCcCCC
Q 035301           14 KVVLIGDSGVGKSNLLSRFTRNEFCLES   41 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~~~~~~~~   41 (68)
                      .+.++|++|+|||||++.+++...+.++
T Consensus        30 ~~~i~G~nGsGKSTLl~~l~Gl~~~~~G   57 (239)
T cd03296          30 LVALLGPSGSGKTTLLRLIAGLERPDSG   57 (239)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCCCCCce
Confidence            5889999999999999999987544443

Responsible for energy coupling to the transport system. The complex is composed of two ATP-binding proteins (cysA), two transmembrane proteins (cysT and cysW), and a solute-binding protein (cysP). ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic molecules. The nucleotide binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>cd03214 ABC_Iron-Siderophores_B12_Hemin ABC transporters, involved in the uptake of siderophores, heme, and vitamin B12, are widely conserved in bacteria and archaea

Probab=97.92  E-value=2e-05  Score=43.37  Aligned_cols=28  Identities=29%  Similarity=0.304  Sum_probs=23.5

Q ss_pred             EEEEECCCCChHHHHHHHHhcCcCcCCC
Q 035301           14 KVVLIGDSGVGKSNLLSRFTRNEFCLES   41 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~~~~~~~~   41 (68)
                      .+.++|++|+|||||++.+++...+.++
T Consensus        27 ~~~l~G~nGsGKStLl~~i~G~~~~~~G   54 (180)
T cd03214          27 IVGILGPNGAGKSTLLKTLAGLLKPSSG   54 (180)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCCCCCCc
Confidence            6889999999999999999986544443

Only very few species lack representatives of the siderophore family transporters. The E. coli BtuCD protein is an ABC transporter mediating vitamin B12 uptake. The two ATP-binding cassettes (BtuD) are in close contact with each other, as are the two membrane-spanning subunits (BtuC); this arrangement is distinct from that observed for the E. coli lipid flippase MsbA. The BtuC subunits provide 20 transmembrane helices grouped around a translocation pathway that is closed to the cytoplasm by a gate region, whereas the dimer arrangement of the BtuD subunits resembles the ATP-bound form of the Rad50 DNA repair enzyme. A prominent cytoplasmic loop of BtuC forms the contact region with the ATP-binding cassette and represent a conserved motif among the ABC transporters.

>PRK13538 cytochrome c biogenesis protein CcmA; Provisional

Probab=97.92  E-value=1.9e-05  Score=44.15  Aligned_cols=29  Identities=24%  Similarity=0.242  Sum_probs=24.3

Q ss_pred             EEEEECCCCChHHHHHHHHhcCcCcCCCc
Q 035301           14 KVVLIGDSGVGKSNLLSRFTRNEFCLESK   42 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~~~~~~~~~   42 (68)
                      .+.++|++|+|||||++.+++...+..+.
T Consensus        29 ~~~l~G~nGsGKSTLl~~l~G~~~p~~G~   57 (204)
T PRK13538         29 LVQIEGPNGAGKTSLLRILAGLARPDAGE   57 (204)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCCCCCCcE
Confidence            68899999999999999999876555443

>PRK10078 ribose 1,5-bisphosphokinase; Provisional

Probab=97.92  E-value=1.3e-05  Score=44.30  Aligned_cols=23  Identities=39%  Similarity=0.660  Sum_probs=20.5

Q ss_pred             EEEEECCCCChHHHHHHHHhcCc
Q 035301           14 KVVLIGDSGVGKSNLLSRFTRNE   36 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~~~   36 (68)
                      .++++|++|+||||+++.+.+..
T Consensus         4 ~i~l~G~sGsGKsTl~~~l~~~~   26 (186)
T PRK10078          4 LIWLMGPSGSGKDSLLAALRQRE   26 (186)
T ss_pred             EEEEECCCCCCHHHHHHHHhccC
Confidence            58899999999999999998653

>cd03219 ABC_Mj1267_LivG_branched The Mj1267/LivG ABC transporter subfamily is involved in the transport of the hydrophobic amino acids leucine, isoleucine and valine

Probab=97.92  E-value=1.7e-05  Score=45.10  Aligned_cols=28  Identities=25%  Similarity=0.230  Sum_probs=23.2

Q ss_pred             EEEEECCCCChHHHHHHHHhcCcCcCCC
Q 035301           14 KVVLIGDSGVGKSNLLSRFTRNEFCLES   41 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~~~~~~~~   41 (68)
                      .+.++|++|+|||||++.+++...+.++
T Consensus        28 ~~~l~G~nGsGKSTLl~~l~Gl~~~~~G   55 (236)
T cd03219          28 IHGLIGPNGAGKTTLFNLISGFLRPTSG   55 (236)
T ss_pred             EEEEECCCCCCHHHHHHHHcCCCCCCCc
Confidence            6889999999999999999986544333

MJ1267 is a branched-chain amino acid transporter with 29% similarity to both the LivF and LivG components of the E. coli branched-chain amino acid transporter. MJ1267 contains an insertion from residues 114 to 123 characteristic of LivG (Leucine-Isoleucine-Valine) homologs. The branched-chain amino acid transporter from E. coli comprises a heterodimer of ABCs (LivF and LivG), a heterodimer of six-helix TM domains (LivM and LivH), and one of two alternative soluble periplasmic substrate binding proteins (LivK or LivJ).

>PRK10218 GTP-binding protein; Provisional

Probab=97.92  E-value=6.1e-05  Score=48.52  Aligned_cols=55  Identities=13%  Similarity=0.277  Sum_probs=36.0

Q ss_pred             eeEEEEECCCCChHHHHHHHHhc--CcCcCCC------------ccceeeEeEEEEEEECCeEEEEEEEeC
Q 035301           12 LFKVVLIGDSGVGKSNLLSRFTR--NEFCLES------------KSTIGVEFATRTLQVTNFSSFTSLHFY   68 (68)
Q Consensus        12 ~~ki~~iG~~~vGKtsl~~~~~~--~~~~~~~------------~~t~~~~~~~~~~~~~~~~~~~~l~~w   68 (68)
                      ..+|+++|..++|||||+.+++.  +.+...+            ..+.|..+..+...++....  ++++|
T Consensus         5 iRnIaIiGh~d~GKTTLv~~Ll~~~g~~~~~~~~~~~v~D~~~~E~erGiTi~~~~~~i~~~~~--~inli   73 (607)
T PRK10218          5 LRNIAIIAHVDHGKTTLVDKLLQQSGTFDSRAETQERVMDSNDLEKERGITILAKNTAIKWNDY--RINIV   73 (607)
T ss_pred             ceEEEEECCCCCcHHHHHHHHHHhcCCcccccccceeeeccccccccCceEEEEEEEEEecCCE--EEEEE
Confidence            56899999999999999999986  4443322            13455666555555544443  34444

>cd03229 ABC_Class3 This class is comprised of all BPD (Binding Protein Dependent) systems that are largely represented in archaea and eubacteria and are primarily involved in scavenging solutes from the environment

Probab=97.91  E-value=2e-05  Score=43.30  Aligned_cols=28  Identities=39%  Similarity=0.368  Sum_probs=22.9

Q ss_pred             EEEEECCCCChHHHHHHHHhcCcCcCCC
Q 035301           14 KVVLIGDSGVGKSNLLSRFTRNEFCLES   41 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~~~~~~~~   41 (68)
                      .+.++|++|+|||||++.+++...+.++
T Consensus        28 ~~~i~G~nGsGKSTLl~~l~G~~~~~~G   55 (178)
T cd03229          28 IVALLGPSGSGKSTLLRCIAGLEEPDSG   55 (178)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCCCCCce
Confidence            6789999999999999999986544333

ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic molecules. The nucleotide binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>PRK12299 obgE GTPase CgtA; Reviewed

Probab=97.91  E-value=6.2e-05  Score=45.38  Aligned_cols=25  Identities=36%  Similarity=0.477  Sum_probs=21.9

Q ss_pred             eeEEEEECCCCChHHHHHHHHhcCc
Q 035301           12 LFKVVLIGDSGVGKSNLLSRFTRNE   36 (68)
Q Consensus        12 ~~ki~~iG~~~vGKtsl~~~~~~~~   36 (68)
                      ...|.++|.+++|||||++++....
T Consensus       158 ~adVglVG~PNaGKSTLln~ls~a~  182 (335)
T PRK12299        158 LADVGLVGLPNAGKSTLISAVSAAK  182 (335)
T ss_pred             cCCEEEEcCCCCCHHHHHHHHHcCC
Confidence            3589999999999999999998644

>PF13555 AAA_29: P-loop containing region of AAA domain

Probab=97.91  E-value=1.7e-05  Score=37.09  Aligned_cols=21  Identities=33%  Similarity=0.570  Sum_probs=18.3

Q ss_pred             EEEEECCCCChHHHHHHHHhc
Q 035301           14 KVVLIGDSGVGKSNLLSRFTR   34 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~   34 (68)
                      -.++.|++|+||||++..+.-
T Consensus        25 ~tli~G~nGsGKSTllDAi~~   45 (62)
T PF13555_consen   25 VTLITGPNGSGKSTLLDAIQT   45 (62)
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            388999999999999987764

>PRK14250 phosphate ABC transporter ATP-binding protein; Provisional

Probab=97.91  E-value=1.9e-05  Score=45.17  Aligned_cols=29  Identities=31%  Similarity=0.351  Sum_probs=24.0

Q ss_pred             EEEEECCCCChHHHHHHHHhcCcCcCCCc
Q 035301           14 KVVLIGDSGVGKSNLLSRFTRNEFCLESK   42 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~~~~~~~~~   42 (68)
                      .+.++|++|+|||||++.+++...+..+.
T Consensus        31 ~~~i~G~nGsGKSTLl~~l~Gl~~p~~G~   59 (241)
T PRK14250         31 IYTIVGPSGAGKSTLIKLINRLIDPTEGS   59 (241)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCCCCCCcE
Confidence            58899999999999999999875544443

>PRK13543 cytochrome c biogenesis protein CcmA; Provisional

Probab=97.91  E-value=1.9e-05  Score=44.53  Aligned_cols=29  Identities=24%  Similarity=0.399  Sum_probs=24.0

Q ss_pred             EEEEECCCCChHHHHHHHHhcCcCcCCCc
Q 035301           14 KVVLIGDSGVGKSNLLSRFTRNEFCLESK   42 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~~~~~~~~~   42 (68)
                      .+.++|++|+|||+|++.+++..-+.++.
T Consensus        39 ~~~i~G~nGsGKSTLl~~i~G~~~~~~G~   67 (214)
T PRK13543         39 ALLVQGDNGAGKTTLLRVLAGLLHVESGQ   67 (214)
T ss_pred             EEEEEcCCCCCHHHHHHHHhCCCCCCCee
Confidence            68899999999999999999876544443

>cd03297 ABC_ModC_molybdenum_transporter ModC is an ABC-type transporter and the ATPase component of a molybdate transport system that also includes the periplasmic binding protein ModA and the membrane protein ModB

Probab=97.90  E-value=2.1e-05  Score=44.23  Aligned_cols=30  Identities=30%  Similarity=0.210  Sum_probs=24.3

Q ss_pred             eEEEEECCCCChHHHHHHHHhcCcCcCCCc
Q 035301           13 FKVVLIGDSGVGKSNLLSRFTRNEFCLESK   42 (68)
Q Consensus        13 ~ki~~iG~~~vGKtsl~~~~~~~~~~~~~~   42 (68)
                      =.+.++|++|+|||||++.+++...+.++.
T Consensus        24 e~~~i~G~nGsGKSTLl~~l~G~~~~~~G~   53 (214)
T cd03297          24 EVTGIFGASGAGKSTLLRCIAGLEKPDGGT   53 (214)
T ss_pred             eeEEEECCCCCCHHHHHHHHhCCCCCCCce
Confidence            367999999999999999999875544443

ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides and more complex organic molecules. The nucleotide binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>PRK10584 putative ABC transporter ATP-binding protein YbbA; Provisional

Probab=97.90  E-value=2.1e-05  Score=44.56  Aligned_cols=28  Identities=36%  Similarity=0.488  Sum_probs=23.8

Q ss_pred             EEEEECCCCChHHHHHHHHhcCcCcCCC
Q 035301           14 KVVLIGDSGVGKSNLLSRFTRNEFCLES   41 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~~~~~~~~   41 (68)
                      .+.++|++|+|||||++.+++...+.++
T Consensus        38 ~~~i~G~nGsGKSTLl~~i~Gl~~p~~G   65 (228)
T PRK10584         38 TIALIGESGSGKSTLLAILAGLDDGSSG   65 (228)
T ss_pred             EEEEECCCCCCHHHHHHHHHcCCCCCCe
Confidence            7899999999999999999987554444

>PRK12296 obgE GTPase CgtA; Reviewed

Probab=97.89  E-value=5.4e-05  Score=47.82  Aligned_cols=26  Identities=31%  Similarity=0.405  Sum_probs=22.6

Q ss_pred             eeEEEEECCCCChHHHHHHHHhcCcC
Q 035301           12 LFKVVLIGDSGVGKSNLLSRFTRNEF   37 (68)
Q Consensus        12 ~~ki~~iG~~~vGKtsl~~~~~~~~~   37 (68)
                      ..+|+++|.+++|||||++++.+...
T Consensus       159 ~adV~LVG~PNAGKSTLln~Ls~akp  184 (500)
T PRK12296        159 VADVGLVGFPSAGKSSLISALSAAKP  184 (500)
T ss_pred             cceEEEEEcCCCCHHHHHHHHhcCCc
Confidence            45899999999999999999987543

>cd03221 ABCF_EF-3 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth

Probab=97.89  E-value=1.9e-05  Score=42.20  Aligned_cols=28  Identities=32%  Similarity=0.401  Sum_probs=23.2

Q ss_pred             EEEEECCCCChHHHHHHHHhcCcCcCCC
Q 035301           14 KVVLIGDSGVGKSNLLSRFTRNEFCLES   41 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~~~~~~~~   41 (68)
                      .+.++|++|+|||+|++.+++...+.++
T Consensus        28 ~~~i~G~nGsGKStLl~~l~G~~~~~~G   55 (144)
T cd03221          28 RIGLVGRNGAGKSTLLKLIAGELEPDEG   55 (144)
T ss_pred             EEEEECCCCCCHHHHHHHHcCCCCCCce
Confidence            5789999999999999999987654433

EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated release of the deacylated tRNA from the E site. The reaction requires ATP hydrolysis. EF-3 contains two ATP nucleotide binding sequence (NBS) motifs. NBSI is sufficient for the intrinsic ATPase activity. NBSII is essential for the ribosome-stimulated functions.

>cd03298 ABC_ThiQ_thiamine_transporter ABC-type thiamine tranport system; part of the binding-protein-dependent transport system tbpA-thiPQ for thiamine and TPP

Probab=97.89  E-value=2.2e-05  Score=43.99  Aligned_cols=28  Identities=32%  Similarity=0.377  Sum_probs=23.5

Q ss_pred             EEEEECCCCChHHHHHHHHhcCcCcCCC
Q 035301           14 KVVLIGDSGVGKSNLLSRFTRNEFCLES   41 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~~~~~~~~   41 (68)
                      .+.++|++|+|||||++.+++...+.++
T Consensus        26 ~~~l~G~nGsGKSTLl~~l~gl~~~~~G   53 (211)
T cd03298          26 ITAIVGPSGSGKSTLLNLIAGFETPQSG   53 (211)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCCCCCCc
Confidence            6899999999999999999987654444

Probably responsible for the translocation of thiamine across the membrane. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic molecules. The nucleotide binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>TIGR03411 urea_trans_UrtD urea ABC transporter, ATP-binding protein UrtD

Probab=97.89  E-value=2.2e-05  Score=44.80  Aligned_cols=28  Identities=29%  Similarity=0.387  Sum_probs=23.6

Q ss_pred             EEEEECCCCChHHHHHHHHhcCcCcCCC
Q 035301           14 KVVLIGDSGVGKSNLLSRFTRNEFCLES   41 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~~~~~~~~   41 (68)
                      .+.++|++|+|||||++.+++...+.++
T Consensus        30 ~~~l~G~nGsGKSTLl~~l~G~~~p~~G   57 (242)
T TIGR03411        30 LRVIIGPNGAGKTTMMDVITGKTRPDEG   57 (242)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCCCCCCC
Confidence            6789999999999999999987555444

Members of this protein family are ABC transporter ATP-binding subunits associated with urea transport and metabolism. This protein is found in a conserved five-gene transport operon typically found adjacent to urease genes. It was shown in Cyanobacteria that disruption leads to the loss of high-affinity urea transport activity.

>PRK11300 livG leucine/isoleucine/valine transporter ATP-binding subunit; Provisional

Probab=97.89  E-value=2e-05  Score=45.30  Aligned_cols=28  Identities=29%  Similarity=0.307  Sum_probs=23.7

Q ss_pred             EEEEECCCCChHHHHHHHHhcCcCcCCC
Q 035301           14 KVVLIGDSGVGKSNLLSRFTRNEFCLES   41 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~~~~~~~~   41 (68)
                      .+.++|++|+|||||++.+++...+.++
T Consensus        33 ~~~l~G~nGsGKSTLl~~l~Gl~~~~~G   60 (255)
T PRK11300         33 IVSLIGPNGAGKTTVFNCLTGFYKPTGG   60 (255)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCcCCCcc
Confidence            6889999999999999999987554444

>PRK15112 antimicrobial peptide ABC system ATP-binding protein SapF; Provisional

Probab=97.89  E-value=2.2e-05  Score=45.64  Aligned_cols=29  Identities=24%  Similarity=0.329  Sum_probs=24.4

Q ss_pred             EEEEECCCCChHHHHHHHHhcCcCcCCCc
Q 035301           14 KVVLIGDSGVGKSNLLSRFTRNEFCLESK   42 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~~~~~~~~~   42 (68)
                      .+.++|++|+|||||++.+++...+.++.
T Consensus        41 ~~~i~G~NGsGKSTLl~~l~Gl~~p~~G~   69 (267)
T PRK15112         41 TLAIIGENGSGKSTLAKMLAGMIEPTSGE   69 (267)
T ss_pred             EEEEEcCCCCCHHHHHHHHhCCCCCCCCE
Confidence            68899999999999999999876554443

>TIGR02769 nickel_nikE nickel import ATP-binding protein NikE

Probab=97.89  E-value=2.1e-05  Score=45.66  Aligned_cols=29  Identities=34%  Similarity=0.345  Sum_probs=24.1

Q ss_pred             EEEEECCCCChHHHHHHHHhcCcCcCCCc
Q 035301           14 KVVLIGDSGVGKSNLLSRFTRNEFCLESK   42 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~~~~~~~~~   42 (68)
                      .+.++|++|+|||||++.+++...+.++.
T Consensus        39 ~~~i~G~nGsGKSTLl~~l~Gl~~p~~G~   67 (265)
T TIGR02769        39 TVGLLGRSGCGKSTLARLLLGLEKPAQGT   67 (265)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCCCCCCcE
Confidence            68899999999999999999876554443

This family represents the NikE subunit of a multisubunit nickel import ABC transporter complex. Nickel, once imported, may be used in urease and in certain classes of hydrogenase and superoxide dismutase.

>PRK11701 phnK phosphonate C-P lyase system protein PhnK; Provisional

Probab=97.89  E-value=2.2e-05  Score=45.30  Aligned_cols=28  Identities=25%  Similarity=0.374  Sum_probs=23.8

Q ss_pred             EEEEECCCCChHHHHHHHHhcCcCcCCC
Q 035301           14 KVVLIGDSGVGKSNLLSRFTRNEFCLES   41 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~~~~~~~~   41 (68)
                      .+.++|++|+|||||++.+++...+..+
T Consensus        34 ~~~i~G~nGsGKSTLl~~l~Gl~~p~~G   61 (258)
T PRK11701         34 VLGIVGESGSGKTTLLNALSARLAPDAG   61 (258)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCCCCCCC
Confidence            7899999999999999999987654444

>PRK11264 putative amino-acid ABC transporter ATP-binding protein YecC; Provisional

Probab=97.89  E-value=2.1e-05  Score=45.12  Aligned_cols=28  Identities=36%  Similarity=0.376  Sum_probs=23.1

Q ss_pred             EEEEECCCCChHHHHHHHHhcCcCcCCC
Q 035301           14 KVVLIGDSGVGKSNLLSRFTRNEFCLES   41 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~~~~~~~~   41 (68)
                      .+.++|++|+|||||++.+++...+..+
T Consensus        31 ~~~i~G~nGsGKSTLl~~l~G~~~~~~G   58 (250)
T PRK11264         31 VVAIIGPSGSGKTTLLRCINLLEQPEAG   58 (250)
T ss_pred             EEEEECCCCCCHHHHHHHHhcCCCCCCe
Confidence            5889999999999999999986544333

>TIGR00157 ribosome small subunit-dependent GTPase A

Probab=97.89  E-value=1.2e-05  Score=46.38  Aligned_cols=23  Identities=39%  Similarity=0.599  Sum_probs=20.8

Q ss_pred             EEEEECCCCChHHHHHHHHhcCc
Q 035301           14 KVVLIGDSGVGKSNLLSRFTRNE   36 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~~~   36 (68)
                      .++++|.+|||||||++++.+..
T Consensus       122 ~~~~~G~sgvGKStLiN~L~~~~  144 (245)
T TIGR00157       122 ISVFAGQSGVGKSSLINALDPSV  144 (245)
T ss_pred             EEEEECCCCCCHHHHHHHHhhhh
Confidence            67899999999999999999754

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

>TIGR01184 ntrCD nitrate transport ATP-binding subunits C and D

Probab=97.89  E-value=2.4e-05  Score=44.58  Aligned_cols=28  Identities=36%  Similarity=0.405  Sum_probs=23.7

Q ss_pred             EEEEECCCCChHHHHHHHHhcCcCcCCC
Q 035301           14 KVVLIGDSGVGKSNLLSRFTRNEFCLES   41 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~~~~~~~~   41 (68)
                      .+.++|++|+|||||++.+++...+.++
T Consensus        13 ~~~i~G~nGsGKSTLl~~l~Gl~~p~~G   40 (230)
T TIGR01184        13 FISLIGHSGCGKSTLLNLISGLAQPTSG   40 (230)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCCCCCCc
Confidence            6899999999999999999987654444

This model describes the ATP binding subunits of nitrate transport in bacteria and archaea. This protein belongs to the ATP-binding cassette (ABC) superfamily. It is thought that the two subunits encoded by ntrC and ntrD form the binding surface for interaction with ATP. This model is restricted in identifying ATP binding subunit associated with the nitrate transport. Nitrate assimilation is aided by other proteins derived from the operon which among others include products of ntrA - a regulatory protein; ntrB - a hydropbobic transmembrane permease and narB - a reductase.

>cd03231 ABC_CcmA_heme_exporter CcmA, the ATP-binding component of the bacterial CcmAB transporter

Probab=97.89  E-value=2.4e-05  Score=43.73  Aligned_cols=28  Identities=25%  Similarity=0.323  Sum_probs=23.8

Q ss_pred             EEEEECCCCChHHHHHHHHhcCcCcCCC
Q 035301           14 KVVLIGDSGVGKSNLLSRFTRNEFCLES   41 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~~~~~~~~   41 (68)
                      .+.++|++|+|||||++.+++...+.++
T Consensus        28 ~~~i~G~nGsGKSTLl~~l~G~~~~~~G   55 (201)
T cd03231          28 ALQVTGPNGSGKTTLLRILAGLSPPLAG   55 (201)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCCCCCCc
Confidence            7899999999999999999987654444

The CCM family is involved in bacterial cytochrome c biogenesis. Cytochrome c maturation in E. coli requires the ccm operon, which encodes eight membrane proteins (CcmABCDEFGH). CcmE is a periplasmic heme chaperone that binds heme covalently and transfers it onto apocytochrome c in the presence of CcmF, CcmG, and CcmH. The CcmAB proteins represent an ABC transporter and the CcmCD proteins participate in heme transfer to CcmE.

>cd03230 ABC_DR_subfamily_A This family of ATP-binding proteins belongs to a multisubunit transporter involved in drug resistance (BcrA and DrrA), nodulation, lipid transport, and lantibiotic immunity

Probab=97.88  E-value=2.4e-05  Score=42.76  Aligned_cols=28  Identities=21%  Similarity=0.159  Sum_probs=23.3

Q ss_pred             EEEEECCCCChHHHHHHHHhcCcCcCCC
Q 035301           14 KVVLIGDSGVGKSNLLSRFTRNEFCLES   41 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~~~~~~~~   41 (68)
                      .+.++|++|+|||+|++.+++...+.++
T Consensus        28 ~~~i~G~nGsGKStLl~~l~G~~~~~~G   55 (173)
T cd03230          28 IYGLLGPNGAGKTTLIKIILGLLKPDSG   55 (173)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCCCCCCe
Confidence            6889999999999999999986544433

In bacteria and archaea, these transporters usually include an ATP-binding protein and one or two integral membrane proteins. Eukaryote systems of the ABCA subfamily display ABC domains that are quite similar to this family. The ATP-binding domain shows the highest similarity between all members of the ABC transporter family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>cd03267 ABC_NatA_like Similar in sequence to NatA, this is the ATPase component of a bacterial ABC-type Na+ transport system called NatAB, which catalyzes ATP-dependent electrogenic Na+ extrusion without mechanically coupled to proton or K+ uptake

Probab=97.88  E-value=2.1e-05  Score=44.91  Aligned_cols=28  Identities=25%  Similarity=0.240  Sum_probs=23.8

Q ss_pred             EEEEECCCCChHHHHHHHHhcCcCcCCC
Q 035301           14 KVVLIGDSGVGKSNLLSRFTRNEFCLES   41 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~~~~~~~~   41 (68)
                      .+.++|++|+|||||++.+++...+.++
T Consensus        49 ~~~i~G~NGsGKSTLl~~i~Gl~~p~~G   76 (236)
T cd03267          49 IVGFIGPNGAGKTTTLKILSGLLQPTSG   76 (236)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCcCCCce
Confidence            7889999999999999999987655444

NatB possess six putative membrane spanning regions at its C-terminus. In B. subtilis, NatAB is inducible by agents such as ethanol and protonophores, which lower the protonmotive force across the membrane. The closest sequence similarity to NatA is exhibited by DrrA of the two-component daunomycin- and doxorubicin-efflux system. Hence, the functional NatAB is presumably assembled with two copies of the single ATP-binding protein and the single intergral membrane protein.

>cd03254 ABCC_Glucan_exporter_like Glucan exporter ATP-binding protein

Probab=97.88  E-value=2.3e-05  Score=44.34  Aligned_cols=28  Identities=25%  Similarity=0.401  Sum_probs=23.6

Q ss_pred             EEEEECCCCChHHHHHHHHhcCcCcCCC
Q 035301           14 KVVLIGDSGVGKSNLLSRFTRNEFCLES   41 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~~~~~~~~   41 (68)
                      .+.++|++|+|||||++.+++...+..+
T Consensus        31 ~~~i~G~nGsGKSTLl~~l~G~~~~~~G   58 (229)
T cd03254          31 TVAIVGPTGAGKTTLINLLMRFYDPQKG   58 (229)
T ss_pred             EEEEECCCCCCHHHHHHHHhcCcCCCCC
Confidence            5889999999999999999987654444

In A. tumefaciens cyclic beta-1, 2-glucan must be transported into the periplasmic space to exert its action as a virluence factor. This subfamily belongs to the MRP-like family and is involved in drug, peptide, and lipid export. The MRP-like family, similar to all ABC proteins, have a common four-domain core structure constituted by two membrane-spanning domains each composed of six transmembrane (TM) helices and two nucleotide-binding domains (NBD). ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>PRK13649 cbiO cobalt transporter ATP-binding subunit; Provisional

Probab=97.88  E-value=2e-05  Score=45.98  Aligned_cols=28  Identities=21%  Similarity=0.369  Sum_probs=23.4

Q ss_pred             EEEEECCCCChHHHHHHHHhcCcCcCCC
Q 035301           14 KVVLIGDSGVGKSNLLSRFTRNEFCLES   41 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~~~~~~~~   41 (68)
                      .+.++|++|+|||||++.+++...+.++
T Consensus        35 ~~~l~G~nGsGKSTLl~~i~Gl~~p~~G   62 (280)
T PRK13649         35 YTAFIGHTGSGKSTIMQLLNGLHVPTQG   62 (280)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCCCCCce
Confidence            5789999999999999999987554443

>PRK13645 cbiO cobalt transporter ATP-binding subunit; Provisional

Probab=97.88  E-value=2.3e-05  Score=46.03  Aligned_cols=29  Identities=21%  Similarity=0.296  Sum_probs=24.1

Q ss_pred             EEEEECCCCChHHHHHHHHhcCcCcCCCc
Q 035301           14 KVVLIGDSGVGKSNLLSRFTRNEFCLESK   42 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~~~~~~~~~   42 (68)
                      .+.++|++|+|||||++.+++...+.++.
T Consensus        39 ~~~l~G~nGsGKSTLl~~l~Gl~~p~~G~   67 (289)
T PRK13645         39 VTCVIGTTGSGKSTMIQLTNGLIISETGQ   67 (289)
T ss_pred             EEEEECCCCCCHHHHHHHHhcCCCCCCce
Confidence            68899999999999999999876554443

>PRK13638 cbiO cobalt transporter ATP-binding subunit; Provisional

Probab=97.88  E-value=2.1e-05  Score=45.78  Aligned_cols=28  Identities=25%  Similarity=0.284  Sum_probs=23.5

Q ss_pred             EEEEECCCCChHHHHHHHHhcCcCcCCC
Q 035301           14 KVVLIGDSGVGKSNLLSRFTRNEFCLES   41 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~~~~~~~~   41 (68)
                      .+.++|++|+|||||++.+++...+.++
T Consensus        29 ~~~i~G~nGsGKSTLl~~l~Gl~~p~~G   56 (271)
T PRK13638         29 VTGLVGANGCGKSTLFMNLSGLLRPQKG   56 (271)
T ss_pred             EEEEECCCCCCHHHHHHHHcCCCCCCcc
Confidence            6889999999999999999986554444

>CHL00189 infB translation initiation factor 2; Provisional

Probab=97.88  E-value=3.8e-05  Score=50.39  Aligned_cols=32  Identities=19%  Similarity=0.369  Sum_probs=26.8

Q ss_pred             ceeeEEEEECCCCChHHHHHHHHhcCcCcCCC
Q 035301           10 DYLFKVVLIGDSGVGKSNLLSRFTRNEFCLES   41 (68)
Q Consensus        10 ~~~~ki~~iG~~~vGKtsl~~~~~~~~~~~~~   41 (68)
                      .....|+++|..++|||||+.++....+....
T Consensus       242 ~r~p~V~IvGhvdvGKTSLld~L~~~~~~~~e  273 (742)
T CHL00189        242 NRPPIVTILGHVDHGKTTLLDKIRKTQIAQKE  273 (742)
T ss_pred             ccCCEEEEECCCCCCHHHHHHHHHhccCcccc
Confidence            34679999999999999999999987775443

>PRK12289 GTPase RsgA; Reviewed

Probab=97.88  E-value=1.3e-05  Score=48.63  Aligned_cols=22  Identities=45%  Similarity=0.736  Sum_probs=20.2

Q ss_pred             EEEECCCCChHHHHHHHHhcCc
Q 035301           15 VVLIGDSGVGKSNLLSRFTRNE   36 (68)
Q Consensus        15 i~~iG~~~vGKtsl~~~~~~~~   36 (68)
                      ++++|.+|||||||++.+.+..
T Consensus       175 ~v~iG~SgVGKSSLIN~L~~~~  196 (352)
T PRK12289        175 TVVAGPSGVGKSSLINRLIPDV  196 (352)
T ss_pred             EEEEeCCCCCHHHHHHHHcCcc
Confidence            7999999999999999999654

>cd03247 ABCC_cytochrome_bd The CYD subfamily implicated in cytochrome bd biogenesis

Probab=97.87  E-value=2.6e-05  Score=42.78  Aligned_cols=28  Identities=39%  Similarity=0.510  Sum_probs=23.6

Q ss_pred             EEEEECCCCChHHHHHHHHhcCcCcCCC
Q 035301           14 KVVLIGDSGVGKSNLLSRFTRNEFCLES   41 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~~~~~~~~   41 (68)
                      .+.++|++|+|||+|++.+++...+..+
T Consensus        30 ~~~i~G~nGsGKStLl~~l~G~~~~~~G   57 (178)
T cd03247          30 KIALLGRSGSGKSTLLQLLTGDLKPQQG   57 (178)
T ss_pred             EEEEECCCCCCHHHHHHHHhccCCCCCC
Confidence            6889999999999999999987654443

The CydC and CydD proteins are important for the formation of cytochrome bd terminal oxidase of E. coli and it has been proposed that they were necessary for biosynthesis of the cytochrome bd quinol oxidase and for periplasmic c-type cytochromes. CydCD were proposed to determine a heterooligomeric complex important for heme export into the periplasm or to be involved in the maintenance of the proper redox state of the periplasmic space. In Bacillus subtilius, the absence of CydCD does not affect the presence of halo-cytochrome c in the membrane and this observation suggests that CydCD proteins are not involved in the export of heme in this organism.

>cd03252 ABCC_Hemolysin The ABC-transporter hemolysin B is a central component of the secretion machinery that translocates the toxin, hemolysin A, in a Sec-independent fashion across both membranes of E

Probab=97.87  E-value=2.4e-05  Score=44.50  Aligned_cols=28  Identities=32%  Similarity=0.322  Sum_probs=23.7

Q ss_pred             EEEEECCCCChHHHHHHHHhcCcCcCCC
Q 035301           14 KVVLIGDSGVGKSNLLSRFTRNEFCLES   41 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~~~~~~~~   41 (68)
                      .+.++|++|+|||||++.+++...+.++
T Consensus        30 ~~~i~G~nGsGKSTLl~~l~Gl~~~~~G   57 (237)
T cd03252          30 VVGIVGRSGSGKSTLTKLIQRFYVPENG   57 (237)
T ss_pred             EEEEECCCCCCHHHHHHHHhcCcCCCCC
Confidence            6899999999999999999987654444

coli. The hemolysin A (HlyA) transport machinery is composed of the ATP-binding cassette (ABC) transporter HlyB located in the inner membrane, hemolysin D (HlyD), also anchored in the inner membrane, and TolC, which resides in the outer membrane. HlyD apparently forms a continuous channel that bridges the entire periplasm, interacting with TolC and HlyB. This arrangement prevents the appearance of periplasmic intermediates of HlyA during substrate transport. Little is known about the molecular details of HlyA transport, but it is evident that ATP-hydrolysis by the ABC-transporter HlyB is a necessary source of energy.

>PRK11650 ugpC glycerol-3-phosphate transporter ATP-binding subunit; Provisional

Probab=97.87  E-value=1.8e-05  Score=47.88  Aligned_cols=28  Identities=39%  Similarity=0.464  Sum_probs=23.8

Q ss_pred             EEEEECCCCChHHHHHHHHhcCcCcCCC
Q 035301           14 KVVLIGDSGVGKSNLLSRFTRNEFCLES   41 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~~~~~~~~   41 (68)
                      .+.++|++|+|||||++.+++...+.++
T Consensus        32 ~~~llG~sGsGKSTLLr~iaGl~~p~~G   59 (356)
T PRK11650         32 FIVLVGPSGCGKSTLLRMVAGLERITSG   59 (356)
T ss_pred             EEEEECCCCCcHHHHHHHHHCCCCCCce
Confidence            4789999999999999999997655444

>cd03245 ABCC_bacteriocin_exporters ABC-type bacteriocin exporters

Probab=97.87  E-value=2.7e-05  Score=43.85  Aligned_cols=28  Identities=36%  Similarity=0.377  Sum_probs=23.5

Q ss_pred             EEEEECCCCChHHHHHHHHhcCcCcCCC
Q 035301           14 KVVLIGDSGVGKSNLLSRFTRNEFCLES   41 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~~~~~~~~   41 (68)
                      .+.++|++|+|||||++.+++...+..+
T Consensus        32 ~~~i~G~nGsGKSTLl~~i~G~~~~~~G   59 (220)
T cd03245          32 KVAIIGRVGSGKSTLLKLLAGLYKPTSG   59 (220)
T ss_pred             EEEEECCCCCCHHHHHHHHhcCcCCCCC
Confidence            6889999999999999999987544444

Many non-lantibiotic bacteriocins of lactic acid bacteria are produced as precursors which have N-terminal leader peptides that share similarities in amino acid sequence and contain a conserved processing site of two glycine residues in positions -1 and -2. A dedicated ATP-binding cassette (ABC) transporter is responsible for the proteolytic cleavage of the leader peptides and subsequent translocation of the bacteriocins across the cytoplasmic membrane.

>COG3638 ABC-type phosphate/phosphonate transport system, ATPase component [Inorganic ion transport and metabolism]

Probab=97.87  E-value=2.2e-05  Score=45.54  Aligned_cols=22  Identities=45%  Similarity=0.641  Sum_probs=20.0

Q ss_pred             EEEEECCCCChHHHHHHHHhcC
Q 035301           14 KVVLIGDSGVGKSNLLSRFTRN   35 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~~   35 (68)
                      -+.+||++|+|||||++.+.+.
T Consensus        32 ~VaiIG~SGaGKSTLLR~lngl   53 (258)
T COG3638          32 MVAIIGPSGAGKSTLLRSLNGL   53 (258)
T ss_pred             EEEEECCCCCcHHHHHHHHhcc
Confidence            5789999999999999999973

>PRK11432 fbpC ferric transporter ATP-binding subunit; Provisional

Probab=97.86  E-value=2e-05  Score=47.69  Aligned_cols=29  Identities=34%  Similarity=0.424  Sum_probs=24.5

Q ss_pred             EEEEECCCCChHHHHHHHHhcCcCcCCCc
Q 035301           14 KVVLIGDSGVGKSNLLSRFTRNEFCLESK   42 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~~~~~~~~~   42 (68)
                      .+.++|++|+|||||++.+++..-+.++.
T Consensus        34 ~~~llGpsGsGKSTLLr~IaGl~~p~~G~   62 (351)
T PRK11432         34 MVTLLGPSGCGKTTVLRLVAGLEKPTEGQ   62 (351)
T ss_pred             EEEEECCCCCcHHHHHHHHHCCCCCCceE
Confidence            57999999999999999999877655543

>PRK15056 manganese/iron transporter ATP-binding protein; Provisional

Probab=97.86  E-value=2.4e-05  Score=45.61  Aligned_cols=28  Identities=25%  Similarity=0.281  Sum_probs=23.4

Q ss_pred             EEEEECCCCChHHHHHHHHhcCcCcCCC
Q 035301           14 KVVLIGDSGVGKSNLLSRFTRNEFCLES   41 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~~~~~~~~   41 (68)
                      .+.++|++|+|||||++.+++...+..+
T Consensus        35 ~~~l~G~nGsGKSTLl~~l~Gl~~p~~G   62 (272)
T PRK15056         35 IAALVGVNGSGKSTLFKALMGFVRLASG   62 (272)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCCCCCce
Confidence            6889999999999999999987544444

>COG1162 Predicted GTPases [General function prediction only]

Probab=97.86  E-value=1.2e-05  Score=47.78  Aligned_cols=21  Identities=48%  Similarity=0.749  Sum_probs=19.2

Q ss_pred             EEEEECCCCChHHHHHHHHhc
Q 035301           14 KVVLIGDSGVGKSNLLSRFTR   34 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~   34 (68)
                      -.+++|.||||||||+|++..
T Consensus       166 ~svl~GqSGVGKSSLiN~L~p  186 (301)
T COG1162         166 ITVLLGQSGVGKSTLINALLP  186 (301)
T ss_pred             eEEEECCCCCcHHHHHHhhCc
Confidence            567899999999999999986

>cd03246 ABCC_Protease_Secretion This family represents the ABC component of the protease secretion system PrtD, a 60-kDa integral membrane protein sharing 37% identity with HlyB, the ABC component of the alpha-hemolysin secretion pathway, in the C-terminal domain

Probab=97.86  E-value=2.8e-05  Score=42.50  Aligned_cols=28  Identities=29%  Similarity=0.255  Sum_probs=23.5

Q ss_pred             EEEEECCCCChHHHHHHHHhcCcCcCCC
Q 035301           14 KVVLIGDSGVGKSNLLSRFTRNEFCLES   41 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~~~~~~~~   41 (68)
                      .+.++|++|+|||+|++.+++...+.++
T Consensus        30 ~~~i~G~nGsGKStLl~~l~G~~~~~~G   57 (173)
T cd03246          30 SLAIIGPSGSGKSTLARLILGLLRPTSG   57 (173)
T ss_pred             EEEEECCCCCCHHHHHHHHHhccCCCCC
Confidence            5789999999999999999987654444

They export degradative enzymes by using a type I protein secretion system and lack an N-terminal signal peptide, but contain a C-terminal secretion signal. The Type I secretion apparatus is made up of three components, an ABC transporter, a membrane fusion protein (MFP), and an outer membrane protein (OMP). For the HlyA transporter complex, HlyB (ABC transporter) and HlyD (MFP) reside in the inner membrane of E. coli. The OMP component is TolC, which is thought to interact with the MFP to form a continuous channel across the periplasm from the cytoplasm to the exterior. HlyB belongs to the family of ABC transporters, which are ubiquitous, ATP-dependent transmembrane pumps or channels. The spectrum of transport substra

>cd03295 ABC_OpuCA_Osmoprotection OpuCA is a the ATP binding component of a bacterial solute transporter that serves a protective role to cells growing in a hyperosmolar environment

Probab=97.86  E-value=2.7e-05  Score=44.56  Aligned_cols=28  Identities=32%  Similarity=0.336  Sum_probs=23.2

Q ss_pred             EEEEECCCCChHHHHHHHHhcCcCcCCC
Q 035301           14 KVVLIGDSGVGKSNLLSRFTRNEFCLES   41 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~~~~~~~~   41 (68)
                      .+.++|++|+|||||++.+++...+..+
T Consensus        29 ~~~i~G~nGsGKSTLl~~l~G~~~~~~G   56 (242)
T cd03295          29 FLVLIGPSGSGKTTTMKMINRLIEPTSG   56 (242)
T ss_pred             EEEEECCCCCCHHHHHHHHhcCCCCCCc
Confidence            5789999999999999999986544443

ABC (ATP-binding cassette) transporter nucleotide-binding domain; ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic molecules. The nucleotide binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition, to the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>cd03251 ABCC_MsbA MsbA is an essential ABC transporter, closely related to eukaryotic MDR proteins

Probab=97.86  E-value=2.6e-05  Score=44.28  Aligned_cols=29  Identities=34%  Similarity=0.417  Sum_probs=24.2

Q ss_pred             EEEEECCCCChHHHHHHHHhcCcCcCCCc
Q 035301           14 KVVLIGDSGVGKSNLLSRFTRNEFCLESK   42 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~~~~~~~~~   42 (68)
                      .+.++|++|+|||||++.+++...+..+.
T Consensus        30 ~~~i~G~nGsGKSTLl~~l~Gl~~p~~G~   58 (234)
T cd03251          30 TVALVGPSGSGKSTLVNLIPRFYDVDSGR   58 (234)
T ss_pred             EEEEECCCCCCHHHHHHHHhccccCCCCE
Confidence            58899999999999999999876554443

ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic molecules. The nucleotide binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>PRK10771 thiQ thiamine transporter ATP-binding subunit; Provisional

Probab=97.86  E-value=2.6e-05  Score=44.32  Aligned_cols=28  Identities=32%  Similarity=0.413  Sum_probs=23.6

Q ss_pred             EEEEECCCCChHHHHHHHHhcCcCcCCC
Q 035301           14 KVVLIGDSGVGKSNLLSRFTRNEFCLES   41 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~~~~~~~~   41 (68)
                      .+.++|++|+|||||++.+++...+..+
T Consensus        27 ~~~l~G~nGsGKSTLl~~l~Gl~~~~~G   54 (232)
T PRK10771         27 RVAILGPSGAGKSTLLNLIAGFLTPASG   54 (232)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCCCCCCc
Confidence            6889999999999999999987654444

>cd04165 GTPBP1_like GTPBP1-like

Probab=97.86  E-value=1.9e-05  Score=45.06  Aligned_cols=26  Identities=35%  Similarity=0.562  Sum_probs=22.7

Q ss_pred             EEEEECCCCChHHHHHHHHhcCcCcC
Q 035301           14 KVVLIGDSGVGKSNLLSRFTRNEFCL   39 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~~~~~~   39 (68)
                      |++++|+.++|||||+.++..+.|..
T Consensus         1 ~v~~~G~~~~GKttl~~~~~~~~~~~   26 (224)
T cd04165           1 RVAVVGNVDAGKSTLLGVLTQGELDN   26 (224)
T ss_pred             CEEEECCCCCCHHHHHHHHHhCCcCC
Confidence            68999999999999999999766643

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

>PRK14738 gmk guanylate kinase; Provisional

Probab=97.86  E-value=3.8e-05  Score=43.25  Aligned_cols=27  Identities=37%  Similarity=0.516  Sum_probs=22.3

Q ss_pred             CceeeEEEEECCCCChHHHHHHHHhcC
Q 035301            9 YDYLFKVVLIGDSGVGKSNLLSRFTRN   35 (68)
Q Consensus         9 ~~~~~ki~~iG~~~vGKtsl~~~~~~~   35 (68)
                      +....-++++|++|+|||||++.+...
T Consensus        10 ~~~~~~ivi~GpsG~GK~tl~~~L~~~   36 (206)
T PRK14738         10 PAKPLLVVISGPSGVGKDAVLARMRER   36 (206)
T ss_pred             CCCCeEEEEECcCCCCHHHHHHHHHhc
Confidence            445567888999999999999999754

>cd03294 ABC_Pro_Gly_Bertaine This family comprises the glycine betaine/L-proline ATP binding subunit in bacteria and its equivalents in archaea

Probab=97.86  E-value=2.6e-05  Score=45.43  Aligned_cols=28  Identities=36%  Similarity=0.335  Sum_probs=23.6

Q ss_pred             EEEEECCCCChHHHHHHHHhcCcCcCCC
Q 035301           14 KVVLIGDSGVGKSNLLSRFTRNEFCLES   41 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~~~~~~~~   41 (68)
                      .+.++|++|+|||||++.+++...+..+
T Consensus        52 ~~~l~G~nGsGKSTLl~~L~Gl~~p~~G   79 (269)
T cd03294          52 IFVIMGLSGSGKSTLLRCINRLIEPTSG   79 (269)
T ss_pred             EEEEECCCCCCHHHHHHHHhcCCCCCCe
Confidence            6889999999999999999987654443

This transport system belong to the larger ATP-Binding Cassette (ABC) transporter superfamily. The characteristic feature of these transporters is the obligatory coupling of ATP hydrolysis to substrate translocation. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>TIGR02324 CP_lyasePhnL phosphonate C-P lyase system protein PhnL

Probab=97.86  E-value=2.9e-05  Score=43.88  Aligned_cols=29  Identities=38%  Similarity=0.425  Sum_probs=24.0

Q ss_pred             EEEEECCCCChHHHHHHHHhcCcCcCCCc
Q 035301           14 KVVLIGDSGVGKSNLLSRFTRNEFCLESK   42 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~~~~~~~~~   42 (68)
                      .+.++|++|+|||||++.+++...+..+.
T Consensus        36 ~~~l~G~nGsGKSTLl~~i~G~~~~~~G~   64 (224)
T TIGR02324        36 CVALSGPSGAGKSTLLKSLYANYLPDSGR   64 (224)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCCCCCCCe
Confidence            68899999999999999999875544443

Members of this family are the PhnL protein of C-P lyase systems for utilization of phosphonates. These systems resemble phosphonatase-based systems in having a three component ABC transporter, where TIGR01097 is the permease, TIGR01098 is the phosphonates binding protein, and TIGR02315 is the ATP-binding cassette (ABC) protein. They differ, however, in having, typically, ten or more additional genes, many of which are believed to form a membrane-associated C-P lysase complex. This protein (PhnL) and the adjacent-encoded PhnK (TIGR02323) resemble transporter ATP-binding proteins but are suggested, based on mutatgenesis studies, to be part of this C-P lyase complex rather than part of a transporter per se.

>cd03223 ABCD_peroxisomal_ALDP Peroxisomal ATP-binding cassette transporter (Pat) is involved in the import of very long-chain fatty acids (VLCFA) into the peroxisome

Probab=97.85  E-value=3.1e-05  Score=42.18  Aligned_cols=28  Identities=25%  Similarity=0.323  Sum_probs=23.7

Q ss_pred             EEEEECCCCChHHHHHHHHhcCcCcCCC
Q 035301           14 KVVLIGDSGVGKSNLLSRFTRNEFCLES   41 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~~~~~~~~   41 (68)
                      .+.++|++|+|||||++.+++...+.++
T Consensus        29 ~~~i~G~nGsGKSTLl~~l~G~~~~~~G   56 (166)
T cd03223          29 RLLITGPSGTGKSSLFRALAGLWPWGSG   56 (166)
T ss_pred             EEEEECCCCCCHHHHHHHHhcCCCCCCc
Confidence            6899999999999999999987554444

The peroxisomal membrane forms a permeability barrier for a wide variety of metabolites required for and formed during fatty acid beta-oxidation. To communicate with the cytoplasm and mitochondria, peroxisomes need dedicated proteins to transport such hydrophilic molecules across their membranes. X-linked adrenoleukodystrophy (X-ALD) is caused by mutations in the ALD gene, which encodes ALDP (adrenoleukodystrophy protein ), a peroxisomal integral membrane protein that is a member of the ATP-binding cassette (ABC) transporter protein family. The disease is characterized by a striking and unpredictable variation in phenotypic expression. Phenotypes include the rapidly progressive childhood cerebral form (CCALD), the milder adult form, adrenomyeloneuropathy (AMN), and variants without neurologic involvement (i.e. asympt

>TIGR03005 ectoine_ehuA ectoine/hydroxyectoine ABC transporter, ATP-binding protein

Probab=97.85  E-value=2.6e-05  Score=44.84  Aligned_cols=28  Identities=46%  Similarity=0.501  Sum_probs=23.4

Q ss_pred             EEEEECCCCChHHHHHHHHhcCcCcCCC
Q 035301           14 KVVLIGDSGVGKSNLLSRFTRNEFCLES   41 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~~~~~~~~   41 (68)
                      .+.++|++|+|||||++.+++...+.++
T Consensus        28 ~~~i~G~nGsGKSTLl~~l~G~~~~~~G   55 (252)
T TIGR03005        28 KVALIGPSGSGKSTILRILMTLEPIDEG   55 (252)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCCCCCce
Confidence            6889999999999999999986544443

Members of this family are the ATP-binding protein of a conserved four gene ABC transporter operon found next to ectoine unilization operons and ectoine biosynthesis operons. Ectoine is a compatible solute that protects enzymes from high osmolarity. It is released by some species in response to hypoosmotic shock, and it is taken up by a number of bacteria as a compatible solute or for consumption. This family shows strong sequence similiarity to a number of amino acid ABC transporter ATP-binding proteins.

>PF13521 AAA_28: AAA domain; PDB: 1LW7_A

Probab=97.85  E-value=1.8e-05  Score=42.77  Aligned_cols=22  Identities=23%  Similarity=0.597  Sum_probs=17.5

Q ss_pred             EEEEECCCCChHHHHHHHHhcC
Q 035301           14 KVVLIGDSGVGKSNLLSRFTRN   35 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~~   35 (68)
                      ||++.|..++|||||++.+...
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            7999999999999999998854

>PRK13548 hmuV hemin importer ATP-binding subunit; Provisional

Probab=97.85  E-value=2.8e-05  Score=45.01  Aligned_cols=29  Identities=28%  Similarity=0.382  Sum_probs=24.0

Q ss_pred             EEEEECCCCChHHHHHHHHhcCcCcCCCc
Q 035301           14 KVVLIGDSGVGKSNLLSRFTRNEFCLESK   42 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~~~~~~~~~   42 (68)
                      .+.++|++|+|||||++.+++...+.++.
T Consensus        30 ~~~i~G~nGsGKSTLl~~i~G~~~p~~G~   58 (258)
T PRK13548         30 VVAILGPNGAGKSTLLRALSGELSPDSGE   58 (258)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCCCCCCCE
Confidence            57899999999999999999875544443

>PRK11831 putative ABC transporter ATP-binding protein YrbF; Provisional

Probab=97.85  E-value=2.7e-05  Score=45.28  Aligned_cols=28  Identities=25%  Similarity=0.320  Sum_probs=23.5

Q ss_pred             EEEEECCCCChHHHHHHHHhcCcCcCCC
Q 035301           14 KVVLIGDSGVGKSNLLSRFTRNEFCLES   41 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~~~~~~~~   41 (68)
                      .+.++|++|+|||||++.+++...+..+
T Consensus        35 ~~~i~G~nGsGKSTLl~~l~Gl~~p~~G   62 (269)
T PRK11831         35 ITAIMGPSGIGKTTLLRLIGGQIAPDHG   62 (269)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCCCCCCc
Confidence            5899999999999999999987554443

>PRK11000 maltose/maltodextrin transporter ATP-binding protein; Provisional

Probab=97.85  E-value=2.5e-05  Score=47.49  Aligned_cols=29  Identities=38%  Similarity=0.430  Sum_probs=24.2

Q ss_pred             EEEEECCCCChHHHHHHHHhcCcCcCCCc
Q 035301           14 KVVLIGDSGVGKSNLLSRFTRNEFCLESK   42 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~~~~~~~~~   42 (68)
                      .+.++|++|+|||||++.+++...+.++.
T Consensus        31 ~~~l~G~nGsGKSTLL~~iaGl~~p~~G~   59 (369)
T PRK11000         31 FVVFVGPSGCGKSTLLRMIAGLEDITSGD   59 (369)
T ss_pred             EEEEECCCCCcHHHHHHHHhCCCCCCceE
Confidence            58999999999999999999876554443

>TIGR01188 drrA daunorubicin resistance ABC transporter ATP-binding subunit

Probab=97.84  E-value=2.6e-05  Score=46.08  Aligned_cols=29  Identities=17%  Similarity=0.190  Sum_probs=24.0

Q ss_pred             EEEEECCCCChHHHHHHHHhcCcCcCCCc
Q 035301           14 KVVLIGDSGVGKSNLLSRFTRNEFCLESK   42 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~~~~~~~~~   42 (68)
                      .+.++|++|+|||||++.+++...+.++.
T Consensus        21 ~~~l~G~NGaGKSTLl~~l~Gl~~p~~G~   49 (302)
T TIGR01188        21 VFGFLGPNGAGKTTTIRMLTTLLRPTSGT   49 (302)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCCCCCceE
Confidence            57899999999999999999876554443

This model describes daunorubicin resistance ABC transporter, ATP binding subunit in bacteria and archaea. This model is restricted in its scope to preferentially recognize the ATP binding subunit associated with effux of the drug, daunorubicin. This transport system belong to the larger ATP-Binding Cassette (ABC) transporter superfamily. The characteristic feature of these transporter is the obligatory coupling of ATP hydrolysis to substrate translocation. The minimal configuration of bacterial ABC transport system: an ATPase or ATP binding subunit; An integral membrane protein; a hydrophilic polypetpide, which likely functions as substrate binding protein. In eukaryotes proteins of similar function include p-gyco proteins, multidrug resistance protein etc.

>cd03290 ABCC_SUR1_N The SUR domain 1

Probab=97.84  E-value=3e-05  Score=43.68  Aligned_cols=29  Identities=34%  Similarity=0.488  Sum_probs=24.4

Q ss_pred             EEEEECCCCChHHHHHHHHhcCcCcCCCc
Q 035301           14 KVVLIGDSGVGKSNLLSRFTRNEFCLESK   42 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~~~~~~~~~   42 (68)
                      .+.++|++|+|||||++.+++...+..+.
T Consensus        29 ~~~i~G~nGsGKSTLl~~i~G~~~~~~G~   57 (218)
T cd03290          29 LTMIVGQVGCGKSSLLLAILGEMQTLEGK   57 (218)
T ss_pred             EEEEECCCCCCHHHHHHHHhccCCCCCCe
Confidence            68999999999999999999876554443

The sulfonylurea receptor SUR is an ATP transporter of the ABCC/MRP family with tandem ATPase binding domains. Unlike other ABC proteins, it has no intrinsic transport function, neither active nor passive, but associates with the potassium channel proteins Kir6.1 or Kir6.2 to form the ATP-sensitive potassium (K(ATP)) channel. Within the channel complex, SUR serves as a regulatory subunit that fine-tunes the gating of Kir6.x in response to alterations in cellular metabolism. It constitutes a major pharmaceutical target as it binds numerous drugs, K(ATP) channel openers and blockers, capable of up- or down-regulating channel activity.

>PRK10619 histidine/lysine/arginine/ornithine transporter subunit; Provisional

Probab=97.84  E-value=2.7e-05  Score=44.95  Aligned_cols=29  Identities=34%  Similarity=0.377  Sum_probs=24.1

Q ss_pred             EEEEECCCCChHHHHHHHHhcCcCcCCCc
Q 035301           14 KVVLIGDSGVGKSNLLSRFTRNEFCLESK   42 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~~~~~~~~~   42 (68)
                      .+.++|++|+|||||++.+++...+..+.
T Consensus        33 ~~~l~G~nGsGKSTLl~~i~G~~~~~~G~   61 (257)
T PRK10619         33 VISIIGSSGSGKSTFLRCINFLEKPSEGS   61 (257)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCCCCCCeE
Confidence            67899999999999999999876544443

>PRK10575 iron-hydroxamate transporter ATP-binding subunit; Provisional

Probab=97.84  E-value=2.7e-05  Score=45.17  Aligned_cols=28  Identities=39%  Similarity=0.464  Sum_probs=23.3

Q ss_pred             EEEEECCCCChHHHHHHHHhcCcCcCCC
Q 035301           14 KVVLIGDSGVGKSNLLSRFTRNEFCLES   41 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~~~~~~~~   41 (68)
                      .+.++|++|+|||||++.+++...+..+
T Consensus        39 ~~~i~G~nGsGKSTLl~~l~Gl~~~~~G   66 (265)
T PRK10575         39 VTGLIGHNGSGKSTLLKMLGRHQPPSEG   66 (265)
T ss_pred             EEEEECCCCCCHHHHHHHHcCCCCCCCC
Confidence            6789999999999999999986544443

>TIGR01288 nodI ATP-binding ABC transporter family nodulation protein NodI

Probab=97.84  E-value=2.7e-05  Score=46.07  Aligned_cols=29  Identities=24%  Similarity=0.179  Sum_probs=24.1

Q ss_pred             EEEEECCCCChHHHHHHHHhcCcCcCCCc
Q 035301           14 KVVLIGDSGVGKSNLLSRFTRNEFCLESK   42 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~~~~~~~~~   42 (68)
                      .+.++|++|+|||||++.+++...+.++.
T Consensus        32 ~~~l~G~NGaGKSTLl~~l~Gl~~p~~G~   60 (303)
T TIGR01288        32 CFGLLGPNGAGKSTIARMLLGMISPDRGK   60 (303)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCCCCCceE
Confidence            68999999999999999999876544443

This model does not recognize the highly divergent NodI from Azorhizobium caulinodans.

>PRK13641 cbiO cobalt transporter ATP-binding subunit; Provisional

Probab=97.84  E-value=2.8e-05  Score=45.64  Aligned_cols=29  Identities=31%  Similarity=0.401  Sum_probs=24.3

Q ss_pred             EEEEECCCCChHHHHHHHHhcCcCcCCCc
Q 035301           14 KVVLIGDSGVGKSNLLSRFTRNEFCLESK   42 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~~~~~~~~~   42 (68)
                      .+.++|++|+|||||++.+++...+.++.
T Consensus        35 ~~~iiG~NGaGKSTLl~~l~Gl~~p~~G~   63 (287)
T PRK13641         35 FVALVGHTGSGKSTLMQHFNALLKPSSGT   63 (287)
T ss_pred             EEEEECCCCCCHHHHHHHHhcCCCCCCcE
Confidence            68899999999999999999876554443

>PF13671 AAA_33: AAA domain; PDB: 1LTQ_A 2IA5_K 1RC8_A 1LY1_A 1RRC_A 1RPZ_A 3ZVM_A 1YJ5_A 3ZVL_A 3U7E_B

Probab=97.84  E-value=1.7e-05  Score=41.63  Aligned_cols=20  Identities=40%  Similarity=0.773  Sum_probs=18.2

Q ss_pred             EEEECCCCChHHHHHHHHhc
Q 035301           15 VVLIGDSGVGKSNLLSRFTR   34 (68)
Q Consensus        15 i~~iG~~~vGKtsl~~~~~~   34 (68)
                      ++++|.+|+|||+++..+..
T Consensus         2 ii~~G~pgsGKSt~a~~l~~   21 (143)
T PF13671_consen    2 IILCGPPGSGKSTLAKRLAK   21 (143)
T ss_dssp             EEEEESTTSSHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHH
Confidence            68999999999999999873

...

>cd03220 ABC_KpsT_Wzt ABC_KpsT_Wzt The KpsT/Wzt ABC transporter subfamily is involved in extracellular polysaccharide export

Probab=97.84  E-value=2.7e-05  Score=44.23  Aligned_cols=28  Identities=32%  Similarity=0.338  Sum_probs=23.3

Q ss_pred             EEEEECCCCChHHHHHHHHhcCcCcCCC
Q 035301           14 KVVLIGDSGVGKSNLLSRFTRNEFCLES   41 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~~~~~~~~   41 (68)
                      .+.++|++|+|||||++.+++...+..+
T Consensus        50 ~~~i~G~nGsGKSTLl~~l~G~~~p~~G   77 (224)
T cd03220          50 RIGLIGRNGAGKSTLLRLLAGIYPPDSG   77 (224)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCCCCCce
Confidence            6899999999999999999986544333

Among the variety of membrane-linked or extracellular polysaccharides excreted by bacteria, only capsular polysaccharides, lipopolysaccharides, and teichoic acids have been shown to be exported by ABC transporters. A typical system is made of a conserved integral membrane and an ABC. In addition to these proteins, capsular polysaccharide exporter systems require two 'accessory' proteins to perform their function: a periplasmic (E.coli) or a lipid-anchored outer membrane protein called OMA (Neisseria meningitidis and Haemophilus influenzae) and a cytoplasmic membrane protein MPA2.

>PRK12297 obgE GTPase CgtA; Reviewed

Probab=97.84  E-value=9.7e-05  Score=45.84  Aligned_cols=24  Identities=42%  Similarity=0.490  Sum_probs=21.9

Q ss_pred             eEEEEECCCCChHHHHHHHHhcCc
Q 035301           13 FKVVLIGDSGVGKSNLLSRFTRNE   36 (68)
Q Consensus        13 ~ki~~iG~~~vGKtsl~~~~~~~~   36 (68)
                      ..|.++|.++||||||++++.+..
T Consensus       159 adVglVG~pNaGKSTLLn~Lt~ak  182 (424)
T PRK12297        159 ADVGLVGFPNVGKSTLLSVVSNAK  182 (424)
T ss_pred             CcEEEEcCCCCCHHHHHHHHHcCC
Confidence            489999999999999999999755

>TIGR03265 PhnT2 putative 2-aminoethylphosphonate ABC transporter, ATP-binding protein

Probab=97.84  E-value=2.5e-05  Score=47.25  Aligned_cols=30  Identities=33%  Similarity=0.355  Sum_probs=24.9

Q ss_pred             EEEEECCCCChHHHHHHHHhcCcCcCCCcc
Q 035301           14 KVVLIGDSGVGKSNLLSRFTRNEFCLESKS   43 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~~~~~~~~~~   43 (68)
                      .+.++|++|+|||||++.+++...+..+..
T Consensus        32 ~~~l~GpsGsGKSTLLr~iaGl~~p~~G~I   61 (353)
T TIGR03265        32 FVCLLGPSGCGKTTLLRIIAGLERQTAGTI   61 (353)
T ss_pred             EEEEECCCCCCHHHHHHHHHCCCCCCceEE
Confidence            579999999999999999999765554433

This ABC transporter ATP-binding protein is found in a number of genomes in operon-like contexts strongly suggesting a substrate specificity for 2-aminoethylphosphonate (2-AEP). The characterized PhnSTUV system is absent in the genomes in which this system is found. These genomes encode systems for the catabolism of 2-AEP, making the need for a 2-AEP-specific transporter likely.

>PRK09452 potA putrescine/spermidine ABC transporter ATPase protein; Reviewed

Probab=97.84  E-value=2.3e-05  Score=47.83  Aligned_cols=29  Identities=28%  Similarity=0.350  Sum_probs=24.3

Q ss_pred             EEEEECCCCChHHHHHHHHhcCcCcCCCc
Q 035301           14 KVVLIGDSGVGKSNLLSRFTRNEFCLESK   42 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~~~~~~~~~   42 (68)
                      .+.++|++|+|||||++.+++...+.++.
T Consensus        42 ~~~LlGpsGsGKSTLLr~IaGl~~p~~G~   70 (375)
T PRK09452         42 FLTLLGPSGCGKTTVLRLIAGFETPDSGR   70 (375)
T ss_pred             EEEEECCCCCcHHHHHHHHhCCCCCCceE
Confidence            57999999999999999999876554443

>TIGR02322 phosphon_PhnN phosphonate metabolism protein/1,5-bisphosphokinase (PRPP-forming) PhnN

Probab=97.84  E-value=1.9e-05  Score=43.20  Aligned_cols=22  Identities=32%  Similarity=0.520  Sum_probs=19.5

Q ss_pred             EEEEECCCCChHHHHHHHHhcC
Q 035301           14 KVVLIGDSGVGKSNLLSRFTRN   35 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~~   35 (68)
                      .++++|++|+|||++++.++..
T Consensus         3 ~~~i~G~sGsGKttl~~~l~~~   24 (179)
T TIGR02322         3 LIYVVGPSGAGKDTLLDYARAR   24 (179)
T ss_pred             EEEEECCCCCCHHHHHHHHHHH
Confidence            4789999999999999998764

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.

>PRK06217 hypothetical protein; Validated

Probab=97.84  E-value=2.3e-05  Score=43.24  Aligned_cols=23  Identities=22%  Similarity=0.491  Sum_probs=20.7

Q ss_pred             eEEEEECCCCChHHHHHHHHhcC
Q 035301           13 FKVVLIGDSGVGKSNLLSRFTRN   35 (68)
Q Consensus        13 ~ki~~iG~~~vGKtsl~~~~~~~   35 (68)
                      .+|+++|.+|+||||+..++...
T Consensus         2 ~~I~i~G~~GsGKSTla~~L~~~   24 (183)
T PRK06217          2 MRIHITGASGSGTTTLGAALAER   24 (183)
T ss_pred             eEEEEECCCCCCHHHHHHHHHHH
Confidence            47999999999999999998853

>cd03253 ABCC_ATM1_transporter ATM1 is an ABC transporter that is expressed in the mitochondria

Probab=97.84  E-value=3.1e-05  Score=44.03  Aligned_cols=28  Identities=36%  Similarity=0.428  Sum_probs=23.6

Q ss_pred             EEEEECCCCChHHHHHHHHhcCcCcCCC
Q 035301           14 KVVLIGDSGVGKSNLLSRFTRNEFCLES   41 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~~~~~~~~   41 (68)
                      .+.++|++|+|||||++.+++...+.++
T Consensus        29 ~~~l~G~nGsGKSTLl~~i~Gl~~~~~G   56 (236)
T cd03253          29 KVAIVGPSGSGKSTILRLLFRFYDVSSG   56 (236)
T ss_pred             EEEEECCCCCCHHHHHHHHhcccCCCCC
Confidence            6789999999999999999987654444

Although the specific function of ATM1 is unknown, its disruption results in the accumulation of excess mitochondrial iron, loss of mitochondrial cytochromes, oxidative damage to mitochondrial DNA, and decreased levels of cytosolic heme proteins. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic molecules. The nucleotide binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>smart00382 AAA ATPases associated with a variety of cellular activities

Probab=97.83  E-value=2.5e-05  Score=39.88  Aligned_cols=26  Identities=23%  Similarity=0.360  Sum_probs=22.2

Q ss_pred             eEEEEECCCCChHHHHHHHHhcCcCc
Q 035301           13 FKVVLIGDSGVGKSNLLSRFTRNEFC   38 (68)
Q Consensus        13 ~ki~~iG~~~vGKtsl~~~~~~~~~~   38 (68)
                      -.+++.|++|+|||+++..++..-..
T Consensus         3 ~~~~l~G~~G~GKTtl~~~l~~~~~~   28 (148)
T smart00382        3 EVILIVGPPGSGKTTLARALARELGP   28 (148)
T ss_pred             CEEEEECCCCCcHHHHHHHHHhccCC
Confidence            36899999999999999999876544

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.

>PRK13646 cbiO cobalt transporter ATP-binding subunit; Provisional

Probab=97.83  E-value=3e-05  Score=45.52  Aligned_cols=28  Identities=21%  Similarity=0.298  Sum_probs=23.9

Q ss_pred             EEEEECCCCChHHHHHHHHhcCcCcCCC
Q 035301           14 KVVLIGDSGVGKSNLLSRFTRNEFCLES   41 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~~~~~~~~   41 (68)
                      .+.++|++|+|||||++.+++...+..+
T Consensus        35 ~~~i~G~nGsGKSTLl~~L~Gl~~p~~G   62 (286)
T PRK13646         35 YYAIVGQTGSGKSTLIQNINALLKPTTG   62 (286)
T ss_pred             EEEEECCCCCCHHHHHHHHhcCCCCCCc
Confidence            6899999999999999999987655444

>cd01855 YqeH YqeH

Probab=97.83  E-value=9.8e-05  Score=40.80  Aligned_cols=24  Identities=29%  Similarity=0.564  Sum_probs=21.7

Q ss_pred             eEEEEECCCCChHHHHHHHHhcCc
Q 035301           13 FKVVLIGDSGVGKSNLLSRFTRNE   36 (68)
Q Consensus        13 ~ki~~iG~~~vGKtsl~~~~~~~~   36 (68)
                      ..++++|.++||||||++.+.+..
T Consensus       128 ~~~~~~G~~nvGKStliN~l~~~~  151 (190)
T cd01855         128 GDVYVVGATNVGKSTLINALLKKD  151 (190)
T ss_pred             CcEEEEcCCCCCHHHHHHHHHHhc
Confidence            579999999999999999999754

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.

>PRK11153 metN DL-methionine transporter ATP-binding subunit; Provisional

Probab=97.83  E-value=2.7e-05  Score=46.91  Aligned_cols=29  Identities=31%  Similarity=0.326  Sum_probs=24.1

Q ss_pred             EEEEECCCCChHHHHHHHHhcCcCcCCCc
Q 035301           14 KVVLIGDSGVGKSNLLSRFTRNEFCLESK   42 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~~~~~~~~~   42 (68)
                      .+.++|++|+|||||++.+++...+.++.
T Consensus        33 i~~iiG~nGsGKSTLlk~L~Gl~~p~~G~   61 (343)
T PRK11153         33 IFGVIGASGAGKSTLIRCINLLERPTSGR   61 (343)
T ss_pred             EEEEECCCCCcHHHHHHHHhCCCCCCceE
Confidence            67899999999999999999876554443

>TIGR03740 galliderm_ABC gallidermin-class lantibiotic protection ABC transporter, ATP-binding subunit

Probab=97.83  E-value=2.9e-05  Score=43.85  Aligned_cols=28  Identities=32%  Similarity=0.275  Sum_probs=23.4

Q ss_pred             EEEEECCCCChHHHHHHHHhcCcCcCCC
Q 035301           14 KVVLIGDSGVGKSNLLSRFTRNEFCLES   41 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~~~~~~~~   41 (68)
                      .+.++|++|+|||||++.+++...+.++
T Consensus        28 ~~~i~G~nGsGKSTLl~~l~G~~~~~~G   55 (223)
T TIGR03740        28 VYGLLGPNGAGKSTLLKMITGILRPTSG   55 (223)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCCCCCce
Confidence            6789999999999999999986544444

Model TIGR03731 represents the family of all lantibiotics related to gallidermin, including epidermin, mutatin, and nisin. This protein family describes the ATP-binding subunit of a gallidermin/epidermin class lantibiotic protection transporter. It is largely restricted to gallidermin-family lantibiotic biosynthesis and export cassettes, but also occurs in orphan transporter cassettes in species that lack candidate lantibiotic precursor and synthetase genes.

>COG0194 Gmk Guanylate kinase [Nucleotide transport and metabolism]

Probab=97.83  E-value=1.5e-05  Score=44.56  Aligned_cols=24  Identities=42%  Similarity=0.702  Sum_probs=20.6

Q ss_pred             eEEEEECCCCChHHHHHHHHhcCc
Q 035301           13 FKVVLIGDSGVGKSNLLSRFTRNE   36 (68)
Q Consensus        13 ~ki~~iG~~~vGKtsl~~~~~~~~   36 (68)
                      .-+++.|+|||||||+++.+....
T Consensus         5 ~l~vlsgPSG~GKsTl~k~L~~~~   28 (191)
T COG0194           5 LLIVLSGPSGVGKSTLVKALLEDD   28 (191)
T ss_pred             eEEEEECCCCCCHHHHHHHHHhhc
Confidence            347889999999999999998654

>cd03250 ABCC_MRP_domain1 Domain 1 of the ABC subfamily C

Probab=97.83  E-value=3.3e-05  Score=43.10  Aligned_cols=30  Identities=33%  Similarity=0.391  Sum_probs=25.0

Q ss_pred             EEEEECCCCChHHHHHHHHhcCcCcCCCcc
Q 035301           14 KVVLIGDSGVGKSNLLSRFTRNEFCLESKS   43 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~~~~~~~~~~   43 (68)
                      .+.++|++|+|||||++.+++...+.++..
T Consensus        33 ~~~i~G~nG~GKSTLl~~i~G~~~~~~G~i   62 (204)
T cd03250          33 LVAIVGPVGSGKSSLLSALLGELEKLSGSV   62 (204)
T ss_pred             EEEEECCCCCCHHHHHHHHhCcCCCCCCeE
Confidence            789999999999999999998765555543

This family is also known as MRP (mulrtidrug resisitance-associated protein). Some of the MRP members have five additional transmembrane segments in their N-terminas, but the function of these additional membrane-spanning domains is not clear. The MRP was found in the multidrug-resisting lung cancer cell in which p-glycoprotein was not overexpressed. MRP exports glutathione by drug stimulation, as well as, certain substrates in conjugated forms with anions, such as glutathione, glucuronate, and sulfate.

>PRK11176 lipid transporter ATP-binding/permease protein; Provisional

Probab=97.83  E-value=2.6e-05  Score=49.44  Aligned_cols=32  Identities=34%  Similarity=0.379  Sum_probs=26.4

Q ss_pred             EEEEECCCCChHHHHHHHHhcCcCcCCCccce
Q 035301           14 KVVLIGDSGVGKSNLLSRFTRNEFCLESKSTI   45 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~~~~~~~~~~t~   45 (68)
                      ++.++|++|+|||||++.+++..-+..+...+
T Consensus       371 ~~aIvG~sGsGKSTLl~ll~gl~~p~~G~I~i  402 (582)
T PRK11176        371 TVALVGRSGSGKSTIANLLTRFYDIDEGEILL  402 (582)
T ss_pred             EEEEECCCCCCHHHHHHHHHhccCCCCceEEE
Confidence            78999999999999999999876665554443

>PRK13651 cobalt transporter ATP-binding subunit; Provisional

Probab=97.83  E-value=3.1e-05  Score=46.00  Aligned_cols=29  Identities=17%  Similarity=0.347  Sum_probs=24.2

Q ss_pred             EEEEECCCCChHHHHHHHHhcCcCcCCCc
Q 035301           14 KVVLIGDSGVGKSNLLSRFTRNEFCLESK   42 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~~~~~~~~~   42 (68)
                      .+.++|++|+|||||++.+++...+..+.
T Consensus        35 ~v~iiG~nGsGKSTLl~~L~Gl~~p~~G~   63 (305)
T PRK13651         35 FIAIIGQTGSGKTTFIEHLNALLLPDTGT   63 (305)
T ss_pred             EEEEECCCCCcHHHHHHHHhCCCCCCCcE
Confidence            68999999999999999999876544443

>COG1131 CcmA ABC-type multidrug transport system, ATPase component [Defense mechanisms]

Probab=97.83  E-value=2.6e-05  Score=46.14  Aligned_cols=31  Identities=23%  Similarity=0.209  Sum_probs=25.5

Q ss_pred             EEEEECCCCChHHHHHHHHhcCcCcCCCccc
Q 035301           14 KVVLIGDSGVGKSNLLSRFTRNEFCLESKST   44 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~~~~~~~~~~t   44 (68)
                      -+.++|++|+||||+++.+++...+.++...
T Consensus        33 i~gllG~NGAGKTTllk~l~gl~~p~~G~i~   63 (293)
T COG1131          33 IFGLLGPNGAGKTTLLKILAGLLKPTSGEIL   63 (293)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCcCCCceEEE
Confidence            4789999999999999999998776555433

>TIGR03771 anch_rpt_ABC anchored repeat-type ABC transporter, ATP-binding subunit

Probab=97.83  E-value=3.2e-05  Score=43.85  Aligned_cols=28  Identities=25%  Similarity=0.266  Sum_probs=23.5

Q ss_pred             EEEEECCCCChHHHHHHHHhcCcCcCCC
Q 035301           14 KVVLIGDSGVGKSNLLSRFTRNEFCLES   41 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~~~~~~~~   41 (68)
                      .+.++|++|+|||+|++.+++..-+.++
T Consensus         8 ~~~l~G~nGsGKSTLl~~l~G~~~~~~G   35 (223)
T TIGR03771         8 LLGLLGPNGAGKTTLLRAILGLIPPAKG   35 (223)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCCCCCCc
Confidence            6889999999999999999986544444

This protein family is the ATP-binding cassette subunit of binding protein-dependent ABC transporter complex that strictly co-occurs with TIGR03769. TIGRFAMs model TIGR03769 describes a protein domain that occurs singly or as one of up to three repeats in proteins of a number of Actinobacteria, including Propionibacterium acnes KPA171202. The TIGR03769 domain occurs both in an adjacent gene for the substrate-binding protein and in additional (often nearby) proteins, often with LPXTG-like sortase recognition signals. Homologous ATP-binding subunits outside the scope of this family include manganese transporter MntA in Synechocystis sp. PCC 6803 and chelated iron transporter subunits. The function of this transporter complex is unknown.

>PRK13643 cbiO cobalt transporter ATP-binding subunit; Provisional

Probab=97.82  E-value=3.2e-05  Score=45.47  Aligned_cols=30  Identities=37%  Similarity=0.405  Sum_probs=25.1

Q ss_pred             EEEEECCCCChHHHHHHHHhcCcCcCCCcc
Q 035301           14 KVVLIGDSGVGKSNLLSRFTRNEFCLESKS   43 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~~~~~~~~~~   43 (68)
                      .+.++|++|+|||||++.+++...+..+..
T Consensus        34 ~v~i~G~nGsGKSTLl~~l~Gl~~p~~G~i   63 (288)
T PRK13643         34 YTALIGHTGSGKSTLLQHLNGLLQPTEGKV   63 (288)
T ss_pred             EEEEECCCCChHHHHHHHHhcCCCCCCcEE
Confidence            689999999999999999998766555533

>cd03238 ABC_UvrA The excision repair protein UvrA; Nucleotide excision repair in eubacteria is a process that repairs DNA damage by the removal of a 12-13-mer oligonucleotide containing the lesion

Probab=97.82  E-value=2.3e-05  Score=43.35  Aligned_cols=20  Identities=45%  Similarity=0.509  Sum_probs=18.6

Q ss_pred             EEEEECCCCChHHHHHHHHh
Q 035301           14 KVVLIGDSGVGKSNLLSRFT   33 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~   33 (68)
                      .+.++|++|+|||||++.+.
T Consensus        23 ~~~l~G~nG~GKSTLl~~il   42 (176)
T cd03238          23 LVVVTGVSGSGKSTLVNEGL   42 (176)
T ss_pred             EEEEECCCCCCHHHHHHHHh
Confidence            78999999999999999886

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.

>cd03228 ABCC_MRP_Like The MRP (Mutidrug Resistance Protein)-like transporters are involved in drug, peptide, and lipid export

Probab=97.82  E-value=3.3e-05  Score=42.15  Aligned_cols=28  Identities=39%  Similarity=0.431  Sum_probs=23.7

Q ss_pred             EEEEECCCCChHHHHHHHHhcCcCcCCC
Q 035301           14 KVVLIGDSGVGKSNLLSRFTRNEFCLES   41 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~~~~~~~~   41 (68)
                      .+.++|++|+|||+|++.+++...+..+
T Consensus        30 ~~~l~G~nGsGKstLl~~i~G~~~~~~G   57 (171)
T cd03228          30 KVAIVGPSGSGKSTLLKLLLRLYDPTSG   57 (171)
T ss_pred             EEEEECCCCCCHHHHHHHHHcCCCCCCC
Confidence            6799999999999999999987654444

They belong to the subfamily C of the ATP-binding cassette (ABC) superfamily of transport proteins. The ABCC subfamily contains transporters with a diverse functional spectrum that includes ion transport, cell surface receptor, and toxin secretion activities. The MRP-like family, simlar to all ABC proteins, have a common four-domain core structure constituted by two membrane-spanning domains, each composed of six transmembrane (TM) helices, and two nucleotide-binding domains (NBD). ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>PRK11144 modC molybdate transporter ATP-binding protein; Provisional

Probab=97.82  E-value=2.9e-05  Score=46.91  Aligned_cols=29  Identities=21%  Similarity=0.359  Sum_probs=24.2

Q ss_pred             EEEEECCCCChHHHHHHHHhcCcCcCCCc
Q 035301           14 KVVLIGDSGVGKSNLLSRFTRNEFCLESK   42 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~~~~~~~~~   42 (68)
                      .+.++|++|+|||||++.+++...+.++.
T Consensus        26 ~~~l~G~nGsGKSTLl~~iaGl~~p~~G~   54 (352)
T PRK11144         26 ITAIFGRSGAGKTSLINAISGLTRPQKGR   54 (352)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCCCCCceE
Confidence            68999999999999999999876554443

>PRK13632 cbiO cobalt transporter ATP-binding subunit; Provisional

Probab=97.82  E-value=3.2e-05  Score=45.04  Aligned_cols=28  Identities=25%  Similarity=0.260  Sum_probs=23.5

Q ss_pred             EEEEECCCCChHHHHHHHHhcCcCcCCC
Q 035301           14 KVVLIGDSGVGKSNLLSRFTRNEFCLES   41 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~~~~~~~~   41 (68)
                      .+.++|++|+|||||++.+++...+..+
T Consensus        37 ~~~l~G~nGsGKSTLl~~l~Gl~~p~~G   64 (271)
T PRK13632         37 YVAILGHNGSGKSTISKILTGLLKPQSG   64 (271)
T ss_pred             EEEEECCCCCCHHHHHHHHhcCCCCCCc
Confidence            6789999999999999999987654444

>cd03244 ABCC_MRP_domain2 Domain 2 of the ABC subfamily C

Probab=97.82  E-value=3.2e-05  Score=43.59  Aligned_cols=28  Identities=36%  Similarity=0.400  Sum_probs=23.2

Q ss_pred             EEEEECCCCChHHHHHHHHhcCcCcCCC
Q 035301           14 KVVLIGDSGVGKSNLLSRFTRNEFCLES   41 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~~~~~~~~   41 (68)
                      .+.++|++|+|||||++.+++...+..+
T Consensus        32 ~~~i~G~nGsGKSTLl~~l~G~~~~~~G   59 (221)
T cd03244          32 KVGIVGRTGSGKSSLLLALFRLVELSSG   59 (221)
T ss_pred             EEEEECCCCCCHHHHHHHHHcCCCCCCC
Confidence            6889999999999999999986544433

This family is also known as MRP (mulrtidrug resisitance-associated protein). Some of the MRP members have five additional transmembrane segments in their N-terminus, but the function of these additional membrane-spanning domains is not clear. The MRP was found in the multidrug-resistance lung cancer cell in which p-glycoprotein was not overexpressed. MRP exports glutathione by drug stimulation, as well as, certain substrates in conjugated forms with anions, such as glutathione, glucuronate, and sulfate.

>PRK10851 sulfate/thiosulfate transporter subunit; Provisional

Probab=97.81  E-value=2.9e-05  Score=46.99  Aligned_cols=29  Identities=34%  Similarity=0.442  Sum_probs=24.3

Q ss_pred             EEEEECCCCChHHHHHHHHhcCcCcCCCc
Q 035301           14 KVVLIGDSGVGKSNLLSRFTRNEFCLESK   42 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~~~~~~~~~   42 (68)
                      .+.++|++|+|||||++.+++...+.++.
T Consensus        30 ~~~llGpsGsGKSTLLr~IaGl~~p~~G~   58 (353)
T PRK10851         30 MVALLGPSGSGKTTLLRIIAGLEHQTSGH   58 (353)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCCCCCCcE
Confidence            67899999999999999999876554443

>cd03369 ABCC_NFT1 Domain 2 of NFT1 (New full-length MRP-type transporter 1)

Probab=97.81  E-value=3.7e-05  Score=43.02  Aligned_cols=29  Identities=34%  Similarity=0.456  Sum_probs=24.0

Q ss_pred             EEEEECCCCChHHHHHHHHhcCcCcCCCc
Q 035301           14 KVVLIGDSGVGKSNLLSRFTRNEFCLESK   42 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~~~~~~~~~   42 (68)
                      .+.++|++|+|||+|++.+++...+.++.
T Consensus        36 ~~~i~G~nGsGKSTLl~~l~Gl~~~~~G~   64 (207)
T cd03369          36 KIGIVGRTGAGKSTLILALFRFLEAEEGK   64 (207)
T ss_pred             EEEEECCCCCCHHHHHHHHhcccCCCCCe
Confidence            68899999999999999999875544443

NFT1 belongs to the MRP (mulrtidrug resisitance-associated protein) family of ABC transporters. Some of the MRP members have five additional transmembrane segments in their N-terminas, but the function of these additional membrane-spanning domains is not clear. The MRP was found in the multidrug-resisting lung cancer cell in which p-glycoprotein was not overexpressed. MRP exports glutathione by drug stimulation, as well as, certain substrates in conjugated forms with anions such as glutathione, glucuronate, and sulfate.

>PRK13631 cbiO cobalt transporter ATP-binding subunit; Provisional

Probab=97.81  E-value=3.5e-05  Score=46.06  Aligned_cols=32  Identities=28%  Similarity=0.369  Sum_probs=26.0

Q ss_pred             EEEEECCCCChHHHHHHHHhcCcCcCCCccce
Q 035301           14 KVVLIGDSGVGKSNLLSRFTRNEFCLESKSTI   45 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~~~~~~~~~~t~   45 (68)
                      .+.++|++|+|||||++.+++...+.++...+
T Consensus        54 ~~~I~G~nGsGKSTLl~~L~Gl~~p~~G~I~i   85 (320)
T PRK13631         54 IYFIIGNSGSGKSTLVTHFNGLIKSKYGTIQV   85 (320)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCCCCCCCeEEE
Confidence            68999999999999999999876655554433

>COG1121 ZnuC ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]

Probab=97.81  E-value=3.1e-05  Score=45.15  Aligned_cols=30  Identities=30%  Similarity=0.267  Sum_probs=24.3

Q ss_pred             EEEEECCCCChHHHHHHHHhcCcCcCCCcc
Q 035301           14 KVVLIGDSGVGKSNLLSRFTRNEFCLESKS   43 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~~~~~~~~~~   43 (68)
                      -+.++|++|+|||||++.+++.-.+..+..
T Consensus        32 ~~~iiGPNGaGKSTLlK~iLGll~p~~G~i   61 (254)
T COG1121          32 ITALIGPNGAGKSTLLKAILGLLKPSSGEI   61 (254)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCCcCCcceE
Confidence            578999999999999999998555544443

>PRK10636 putative ABC transporter ATP-binding protein; Provisional

Probab=97.80  E-value=2.9e-05  Score=50.02  Aligned_cols=29  Identities=34%  Similarity=0.442  Sum_probs=24.6

Q ss_pred             EEEEECCCCChHHHHHHHHhcCcCcCCCc
Q 035301           14 KVVLIGDSGVGKSNLLSRFTRNEFCLESK   42 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~~~~~~~~~   42 (68)
                      ++.++|++|+|||||++.+++...+.++.
T Consensus        29 ~v~LvG~NGsGKSTLLkiL~G~~~pd~G~   57 (638)
T PRK10636         29 KVGLVGKNGCGKSTLLALLKNEISADGGS   57 (638)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCCCCCCce
Confidence            79999999999999999999865554443

>TIGR01277 thiQ thiamine ABC transporter, ATP-binding protein

Probab=97.80  E-value=3.8e-05  Score=43.19  Aligned_cols=28  Identities=32%  Similarity=0.334  Sum_probs=23.7

Q ss_pred             EEEEECCCCChHHHHHHHHhcCcCcCCC
Q 035301           14 KVVLIGDSGVGKSNLLSRFTRNEFCLES   41 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~~~~~~~~   41 (68)
                      .+.++|++|+|||||++.+++...+..+
T Consensus        26 ~~~i~G~nGsGKSTLl~~l~G~~~~~~G   53 (213)
T TIGR01277        26 IVAIMGPSGAGKSTLLNLIAGFIEPASG   53 (213)
T ss_pred             EEEEECCCCCCHHHHHHHHhcCCCCCCc
Confidence            6899999999999999999987654444

This model describes the energy-transducing ATPase subunit ThiQ of the ThiBPQ thiamine (and thiamine pyrophosphate) ABC transporter in several Proteobacteria. This protein is found so far only in Proteobacteria, and is found in complete genomes only if the ThiB and ThiP subunits are also found.

>TIGR03873 F420-0_ABC_ATP proposed F420-0 ABC transporter, ATP-binding protein

Probab=97.80  E-value=3.6e-05  Score=44.39  Aligned_cols=28  Identities=29%  Similarity=0.246  Sum_probs=23.5

Q ss_pred             EEEEECCCCChHHHHHHHHhcCcCcCCC
Q 035301           14 KVVLIGDSGVGKSNLLSRFTRNEFCLES   41 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~~~~~~~~   41 (68)
                      .+.++|++|+|||||++.+++...+..+
T Consensus        29 ~~~i~G~nGsGKSTLl~~i~G~~~~~~G   56 (256)
T TIGR03873        29 LTGLLGPNGSGKSTLLRLLAGALRPDAG   56 (256)
T ss_pred             EEEEECCCCCCHHHHHHHHcCCCCCCCC
Confidence            6789999999999999999987554444

This small clade of ABC-type transporter ATP-binding protein components is found as a three gene cassette along with a periplasmic substrate-binding protein (TIGR03868) and a permease (TIGR03869). The organisms containing this cassette are all Actinobacteria and all contain numerous genes requiring the coenzyme F420. This model was defined based on five such organisms, four of which are lacking all F420 biosynthetic capability save the final side-chain polyglutamate attachment step (via the gene cofE: TIGR01916). In Jonesia denitrificans DSM 20603 and marine actinobacterium PHSC20C1 this cassette is in an apparent operon with the cofE gene and, in PHSC20C1, also with a F420-dependent glucose-6-phosphate dehydrogenase (TIGR03554). Based on these observations we propose that this ATP-binding protein is a component of an F420-0 (that is, F420 lacking only the polyglutamate tail) transporter.

>PRK00098 GTPase RsgA; Reviewed

Probab=97.80  E-value=3.1e-05  Score=45.85  Aligned_cols=24  Identities=46%  Similarity=0.592  Sum_probs=21.2

Q ss_pred             EEEEECCCCChHHHHHHHHhcCcC
Q 035301           14 KVVLIGDSGVGKSNLLSRFTRNEF   37 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~~~~   37 (68)
                      .++++|.+|||||||++.+.+..-
T Consensus       166 ~~~~~G~sgvGKStlin~l~~~~~  189 (298)
T PRK00098        166 VTVLAGQSGVGKSTLLNALAPDLE  189 (298)
T ss_pred             eEEEECCCCCCHHHHHHHHhCCcC
Confidence            588999999999999999997553

>PRK13648 cbiO cobalt transporter ATP-binding subunit; Provisional

Probab=97.80  E-value=3.5e-05  Score=44.80  Aligned_cols=28  Identities=21%  Similarity=0.274  Sum_probs=23.4

Q ss_pred             EEEEECCCCChHHHHHHHHhcCcCcCCC
Q 035301           14 KVVLIGDSGVGKSNLLSRFTRNEFCLES   41 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~~~~~~~~   41 (68)
                      .+.++|++|+|||||++.+++...+.++
T Consensus        37 ~~~I~G~nGsGKSTLl~~i~Gl~~~~~G   64 (269)
T PRK13648         37 WTSIVGHNGSGKSTIAKLMIGIEKVKSG   64 (269)
T ss_pred             EEEEECCCCCCHHHHHHHHhcCCCCCce
Confidence            6789999999999999999987544443

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

Probab=97.80  E-value=0.00023  Score=46.68  Aligned_cols=27  Identities=30%  Similarity=0.618  Sum_probs=24.5

Q ss_pred             ceeeEEEEECCCCChHHHHHHHHhcCc
Q 035301           10 DYLFKVVLIGDSGVGKSNLLSRFTRNE   36 (68)
Q Consensus        10 ~~~~ki~~iG~~~vGKtsl~~~~~~~~   36 (68)
                      +..++|+++|.+|+||||+++.+++..
T Consensus       116 dfslrIvLVGKTGVGKSSLINSILGek  142 (763)
T TIGR00993       116 DFSLNILVLGKSGVGKSATINSIFGEV  142 (763)
T ss_pred             CcceEEEEECCCCCCHHHHHHHHhccc
Confidence            567899999999999999999999865

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.

>cd03249 ABC_MTABC3_MDL1_MDL2 MTABC3 (also known as ABCB6) is a mitochondrial ATP-binding cassette protein involved in iron homeostasis and one of four ABC transporters expressed in the mitochondrial inner membrane, the other three being MDL1(ABC7), MDL2, and ATM1

Probab=97.80  E-value=3.2e-05  Score=44.05  Aligned_cols=28  Identities=36%  Similarity=0.420  Sum_probs=23.6

Q ss_pred             EEEEECCCCChHHHHHHHHhcCcCcCCC
Q 035301           14 KVVLIGDSGVGKSNLLSRFTRNEFCLES   41 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~~~~~~~~   41 (68)
                      .+.++|++|+|||||++.+++...+.++
T Consensus        31 ~~~l~G~nGsGKSTLl~~i~G~~~~~~G   58 (238)
T cd03249          31 TVALVGSSGCGKSTVVSLLERFYDPTSG   58 (238)
T ss_pred             EEEEEeCCCCCHHHHHHHHhccCCCCCC
Confidence            6899999999999999999987544444

In fact, the yeast MDL1 (multidrug resistance-like protein 1) and MDL2 (multidrug resistance-like protein 2) transporters are also included in this CD. MDL1 is an ATP-dependent permease that acts as a high-copy suppressor of ATM1 and is thought to have a role in resistance to oxidative stress. Interestingly, subfamily B is more closely related to the carboxyl-terminal component of subfamily C than the two halves of ABCC molecules are with one another.

>PRK09544 znuC high-affinity zinc transporter ATPase; Reviewed

Probab=97.80  E-value=3.5e-05  Score=44.57  Aligned_cols=28  Identities=29%  Similarity=0.282  Sum_probs=23.4

Q ss_pred             EEEEECCCCChHHHHHHHHhcCcCcCCC
Q 035301           14 KVVLIGDSGVGKSNLLSRFTRNEFCLES   41 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~~~~~~~~   41 (68)
                      .+.++|++|+|||||++.+++...+.++
T Consensus        32 ~~~I~G~NGsGKSTLl~~i~Gl~~p~~G   59 (251)
T PRK09544         32 ILTLLGPNGAGKSTLVRVVLGLVAPDEG   59 (251)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCCCCCce
Confidence            6899999999999999999986544433

>KOG2655 consensus Septin family protein (P-loop GTPase) [Cell cycle control, cell division, chromosome partitioning; Cytoskeleton; Intracellular trafficking, secretion, and vesicular transport]

Probab=97.80  E-value=0.00014  Score=44.40  Aligned_cols=28  Identities=25%  Similarity=0.682  Sum_probs=24.0

Q ss_pred             eeeEEEEECCCCChHHHHHHHHhcCcCc
Q 035301           11 YLFKVVLIGDSGVGKSNLLSRFTRNEFC   38 (68)
Q Consensus        11 ~~~ki~~iG~~~vGKtsl~~~~~~~~~~   38 (68)
                      ..|.++++|++|.|||||++.++...+.
T Consensus        20 ~~ftlmvvG~sGlGKsTfiNsLf~~~l~   47 (366)
T KOG2655|consen   20 FDFTLMVVGESGLGKSTFINSLFLTDLS   47 (366)
T ss_pred             CceEEEEecCCCccHHHHHHHHHhhhcc
Confidence            4589999999999999999998876543

>cd00071 GMPK Guanosine monophosphate kinase (GMPK, EC 2

Probab=97.80  E-value=2.6e-05  Score=41.39  Aligned_cols=21  Identities=57%  Similarity=0.858  Sum_probs=19.0

Q ss_pred             EEEECCCCChHHHHHHHHhcC
Q 035301           15 VVLIGDSGVGKSNLLSRFTRN   35 (68)
Q Consensus        15 i~~iG~~~vGKtsl~~~~~~~   35 (68)
                      ++++|++|+|||+|++.++..
T Consensus         2 i~i~GpsGsGKstl~~~L~~~   22 (137)
T cd00071           2 IVLSGPSGVGKSTLLKRLLEE   22 (137)
T ss_pred             EEEECCCCCCHHHHHHHHHhc
Confidence            678999999999999999864

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.

>PTZ00258 GTP-binding protein; Provisional

Probab=97.79  E-value=7.4e-05  Score=45.95  Aligned_cols=28  Identities=21%  Similarity=0.383  Sum_probs=23.9

Q ss_pred             ceeeEEEEECCCCChHHHHHHHHhcCcC
Q 035301           10 DYLFKVVLIGDSGVGKSNLLSRFTRNEF   37 (68)
Q Consensus        10 ~~~~ki~~iG~~~vGKtsl~~~~~~~~~   37 (68)
                      ..-+++.++|.++||||||++.+.+..-
T Consensus        19 ~~~~kvgIVG~PNvGKSTLfnaLt~~~~   46 (390)
T PTZ00258         19 GNNLKMGIVGLPNVGKSTTFNALCKQQV   46 (390)
T ss_pred             CCCcEEEEECCCCCChHHHHHHHhcCcc
Confidence            3457999999999999999999987553

>PRK11147 ABC transporter ATPase component; Reviewed

Probab=97.79  E-value=3e-05  Score=49.88  Aligned_cols=29  Identities=28%  Similarity=0.540  Sum_probs=24.5

Q ss_pred             EEEEECCCCChHHHHHHHHhcCcCcCCCc
Q 035301           14 KVVLIGDSGVGKSNLLSRFTRNEFCLESK   42 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~~~~~~~~~   42 (68)
                      ++.++|++|+|||||++.+++...+..+.
T Consensus        31 ~v~LvG~NGsGKSTLLriiaG~~~p~~G~   59 (635)
T PRK11147         31 RVCLVGRNGAGKSTLMKILNGEVLLDDGR   59 (635)
T ss_pred             EEEEECCCCCCHHHHHHHHcCCCCCCCeE
Confidence            78999999999999999999876554443

>PRK09493 glnQ glutamine ABC transporter ATP-binding protein; Reviewed

Probab=97.79  E-value=3.7e-05  Score=43.87  Aligned_cols=28  Identities=43%  Similarity=0.510  Sum_probs=23.2

Q ss_pred             EEEEECCCCChHHHHHHHHhcCcCcCCC
Q 035301           14 KVVLIGDSGVGKSNLLSRFTRNEFCLES   41 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~~~~~~~~   41 (68)
                      .+.++|++|+|||||++.+++...+.++
T Consensus        29 ~~~l~G~nGsGKSTLl~~l~G~~~~~~G   56 (240)
T PRK09493         29 VVVIIGPSGSGKSTLLRCINKLEEITSG   56 (240)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCCCCCce
Confidence            6789999999999999999986544433

>cd03248 ABCC_TAP TAP, the Transporter Associated with Antigen Processing; TAP is essential for peptide delivery from the cytosol into the lumen of the endoplasmic reticulum (ER), where these peptides are loaded on major histocompatibility complex (MHC) I molecules

Probab=97.79  E-value=4e-05  Score=43.38  Aligned_cols=28  Identities=25%  Similarity=0.274  Sum_probs=23.4

Q ss_pred             EEEEECCCCChHHHHHHHHhcCcCcCCC
Q 035301           14 KVVLIGDSGVGKSNLLSRFTRNEFCLES   41 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~~~~~~~~   41 (68)
                      .+.++|++|+|||||++.+++...+..+
T Consensus        42 ~~~i~G~nGsGKSTLl~~l~Gl~~~~~G   69 (226)
T cd03248          42 VTALVGPSGSGKSTVVALLENFYQPQGG   69 (226)
T ss_pred             EEEEECCCCCCHHHHHHHHhcCcCCCCc
Confidence            6899999999999999999987544433

Loaded MHC I leave the ER and display their antigenic cargo on the cell surface to cytotoxic T cells. Subsequently, virus-infected or malignantly transformed cells can be eliminated. TAP belongs to the large family of ATP-binding cassette (ABC) transporters, which translocate a vast variety of solutes across membranes.

>TIGR02770 nickel_nikD nickel import ATP-binding protein NikD

Probab=97.79  E-value=3.7e-05  Score=43.71  Aligned_cols=25  Identities=28%  Similarity=0.187  Sum_probs=22.2

Q ss_pred             EEEEECCCCChHHHHHHHHhcCcCc
Q 035301           14 KVVLIGDSGVGKSNLLSRFTRNEFC   38 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~~~~~   38 (68)
                      .+.++|++|+|||||++.+++..-+
T Consensus        14 ~~~i~G~nGsGKSTLl~~l~Gl~~p   38 (230)
T TIGR02770        14 VLALVGESGSGKSLTCLAILGLLPP   38 (230)
T ss_pred             EEEEECCCCCCHHHHHHHHhcCCCC
Confidence            5889999999999999999987544

This family represents the NikD subunit of a multisubunit nickel import ABC transporter complex. Nickel, once imported, may be used in urease and in certain classes of hydrogenase and superoxide dismutase. NikD and NikE are homologous.

>cd03236 ABC_RNaseL_inhibitor_domain1 The ATPase domain 1 of RNase L inhibitor

Probab=97.79  E-value=4e-05  Score=44.50  Aligned_cols=29  Identities=28%  Similarity=0.282  Sum_probs=24.5

Q ss_pred             EEEEECCCCChHHHHHHHHhcCcCcCCCc
Q 035301           14 KVVLIGDSGVGKSNLLSRFTRNEFCLESK   42 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~~~~~~~~~   42 (68)
                      .+.++|++|+|||||++.+++..-+..+.
T Consensus        28 ~~~IvG~nGsGKSTLlk~l~Gl~~p~~G~   56 (255)
T cd03236          28 VLGLVGPNGIGKSTALKILAGKLKPNLGK   56 (255)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCcCCCCce
Confidence            68999999999999999999876555443

The ABC ATPase, RNase L inhibitor (RLI), is a key enzyme in ribosomal biogenesis, formation of translation preinitiation complexes, and assembly of HIV capsids. RLI s are not transport proteins and thus cluster with a group of soluble proteins that lack the transmembrane components commonly found in other members of the family. Structurally, RLIs have an N-terminal Fe-S domain and two nucleotide binding domains which are arranged to form two composite active sites in their interface cleft. RLI is one of the most conserved enzymes between archaea and eukaryotes with a sequence identity more than 48%. The high degree of evolutionary conservation suggests that RLI performs a central role in archaeal and eukaryotic physiology.

>PRK11174 cysteine/glutathione ABC transporter membrane/ATP-binding component; Reviewed

Probab=97.79  E-value=3.2e-05  Score=49.10  Aligned_cols=31  Identities=29%  Similarity=0.465  Sum_probs=25.4

Q ss_pred             EEEEECCCCChHHHHHHHHhcCcCcCCCccce
Q 035301           14 KVVLIGDSGVGKSNLLSRFTRNEFCLESKSTI   45 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~~~~~~~~~~t~   45 (68)
                      ++.++|++|+|||||++.+++.. +.++...+
T Consensus       378 ~vaIvG~SGsGKSTL~~lL~g~~-p~~G~I~i  408 (588)
T PRK11174        378 RIALVGPSGAGKTSLLNALLGFL-PYQGSLKI  408 (588)
T ss_pred             EEEEECCCCCCHHHHHHHHhcCC-CCCcEEEE
Confidence            78999999999999999999876 65554333

>cd03233 ABC_PDR_domain1 The pleiotropic drug resistance (PDR) family of ATP-binding cassette (ABC) transporters

Probab=97.79  E-value=3.5e-05  Score=43.16  Aligned_cols=24  Identities=29%  Similarity=0.472  Sum_probs=21.7

Q ss_pred             EEEEECCCCChHHHHHHHHhcCcC
Q 035301           14 KVVLIGDSGVGKSNLLSRFTRNEF   37 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~~~~   37 (68)
                      .+.++|++|+|||||++.+++...
T Consensus        35 ~~~i~G~nGsGKSTLl~~l~G~~~   58 (202)
T cd03233          35 MVLVLGRPGSGCSTLLKALANRTE   58 (202)
T ss_pred             EEEEECCCCCCHHHHHHHhcccCC
Confidence            788999999999999999998754

PDR is a well-described phenomenon occurring in fungi and shares several similarities with processes in bacteria and higher eukaryotes. This PDR subfamily represents domain I of its (ABC-IM)2 organization. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds including sugars, ions, peptides, and more complex organic molecules. The nucleotide-binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>TIGR02203 MsbA_lipidA lipid A export permease/ATP-binding protein MsbA

Probab=97.78  E-value=3.5e-05  Score=48.68  Aligned_cols=32  Identities=31%  Similarity=0.341  Sum_probs=26.6

Q ss_pred             EEEEECCCCChHHHHHHHHhcCcCcCCCccce
Q 035301           14 KVVLIGDSGVGKSNLLSRFTRNEFCLESKSTI   45 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~~~~~~~~~~t~   45 (68)
                      ++.++|++|+|||||++.+.+...+.++...+
T Consensus       360 ~v~IvG~sGsGKSTLl~lL~gl~~~~~G~I~i  391 (571)
T TIGR02203       360 TVALVGRSGSGKSTLVNLIPRFYEPDSGQILL  391 (571)
T ss_pred             EEEEECCCCCCHHHHHHHHHhccCCCCCeEEE
Confidence            78999999999999999999877666555444

This family consists of a single polypeptide chain transporter in the ATP-binding cassette (ABC) transporter family, MsbA, which exports lipid A. It may also act in multidrug resistance. Lipid A, a part of lipopolysaccharide, is found in the outer leaflet of the outer membrane of most Gram-negative bacteria. Members of this family are restricted to the Proteobacteria (although lipid A is more broadly distributed) and often are clustered with lipid A biosynthesis genes.

>PRK10253 iron-enterobactin transporter ATP-binding protein; Provisional

Probab=97.78  E-value=3.9e-05  Score=44.54  Aligned_cols=28  Identities=32%  Similarity=0.413  Sum_probs=23.3

Q ss_pred             EEEEECCCCChHHHHHHHHhcCcCcCCC
Q 035301           14 KVVLIGDSGVGKSNLLSRFTRNEFCLES   41 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~~~~~~~~   41 (68)
                      .+.++|++|+|||||++.+++...+..+
T Consensus        35 ~~~i~G~nGsGKSTLl~~i~G~~~~~~G   62 (265)
T PRK10253         35 FTAIIGPNGCGKSTLLRTLSRLMTPAHG   62 (265)
T ss_pred             EEEEECCCCCCHHHHHHHHcCCCCCCCc
Confidence            6899999999999999999987544333

>PRK13637 cbiO cobalt transporter ATP-binding subunit; Provisional

Probab=97.78  E-value=4e-05  Score=45.03  Aligned_cols=28  Identities=32%  Similarity=0.330  Sum_probs=23.9

Q ss_pred             EEEEECCCCChHHHHHHHHhcCcCcCCC
Q 035301           14 KVVLIGDSGVGKSNLLSRFTRNEFCLES   41 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~~~~~~~~   41 (68)
                      .+.++|++|+|||||++.+++...+..+
T Consensus        35 ~~~i~G~nGaGKSTLl~~l~Gl~~p~~G   62 (287)
T PRK13637         35 FVGLIGHTGSGKSTLIQHLNGLLKPTSG   62 (287)
T ss_pred             EEEEECCCCCcHHHHHHHHhcCCCCCcc
Confidence            6899999999999999999987655444

>TIGR03263 guanyl_kin guanylate kinase

Probab=97.78  E-value=2.8e-05  Score=42.46  Aligned_cols=22  Identities=41%  Similarity=0.656  Sum_probs=19.9

Q ss_pred             EEEEECCCCChHHHHHHHHhcC
Q 035301           14 KVVLIGDSGVGKSNLLSRFTRN   35 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~~   35 (68)
                      .++++|++|+||||++..++..
T Consensus         3 ii~l~G~~GsGKsTl~~~L~~~   24 (180)
T TIGR03263         3 LIVISGPSGVGKSTLVKALLEE   24 (180)
T ss_pred             EEEEECCCCCCHHHHHHHHHcc
Confidence            4789999999999999999874

Members of this family are the enzyme guanylate kinase, also called GMP kinase. This enzyme transfers a phosphate from ATP to GMP, yielding ADP and GDP.

>PF00004 AAA: ATPase family associated with various cellular activities (AAA); InterPro: IPR003959 AAA ATPases (ATPases Associated with diverse cellular Activities) form a large protein family and play a number of roles in the cell including cell-cycle regulation, protein proteolysis and disaggregation, organelle biogenesis and intracellular transport

Probab=97.78  E-value=2.9e-05  Score=40.01  Aligned_cols=21  Identities=29%  Similarity=0.574  Sum_probs=18.9

Q ss_pred             EEEECCCCChHHHHHHHHhcC
Q 035301           15 VVLIGDSGVGKSNLLSRFTRN   35 (68)
Q Consensus        15 i~~iG~~~vGKtsl~~~~~~~   35 (68)
                      +++.|++|+|||++++.++..
T Consensus         1 ill~G~~G~GKT~l~~~la~~   21 (132)
T PF00004_consen    1 ILLHGPPGTGKTTLARALAQY   21 (132)
T ss_dssp             EEEESSTTSSHHHHHHHHHHH
T ss_pred             CEEECcCCCCeeHHHHHHHhh
Confidence            689999999999999998864

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 ....

>COG2274 SunT ABC-type bacteriocin/lantibiotic exporters, contain an N-terminal double-glycine peptidase domain [Defense mechanisms]

Probab=97.78  E-value=3.5e-05  Score=50.35  Aligned_cols=32  Identities=31%  Similarity=0.372  Sum_probs=27.0

Q ss_pred             EEEEECCCCChHHHHHHHHhcCcCcCCCccce
Q 035301           14 KVVLIGDSGVGKSNLLSRFTRNEFCLESKSTI   45 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~~~~~~~~~~t~   45 (68)
                      ++.++|.+|+|||||++-+.+...+..+...+
T Consensus       501 ~vaIvG~SGsGKSTL~KLL~gly~p~~G~I~~  532 (709)
T COG2274         501 KVAIVGRSGSGKSTLLKLLLGLYKPQQGRILL  532 (709)
T ss_pred             EEEEECCCCCCHHHHHHHHhcCCCCCCceEEE
Confidence            69999999999999999999987766655443

>KOG1191 consensus Mitochondrial GTPase [Translation, ribosomal structure and biogenesis]

Probab=97.78  E-value=8.4e-05  Score=46.81  Aligned_cols=52  Identities=19%  Similarity=0.328  Sum_probs=35.3

Q ss_pred             eeeEEEEECCCCChHHHHHHHHhcCcCcCCCcccee--eEeEEEEEEECCeEEEE
Q 035301           11 YLFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIG--VEFATRTLQVTNFSSFT   63 (68)
Q Consensus        11 ~~~ki~~iG~~~vGKtsl~~~~~~~~~~~~~~~t~~--~~~~~~~~~~~~~~~~~   63 (68)
                      .-++++++|.++||||||+|.+...+-.- ..|..|  -|...-.++++|.++++
T Consensus       267 ~gl~iaIvGrPNvGKSSLlNaL~~~drsI-VSpv~GTTRDaiea~v~~~G~~v~L  320 (531)
T KOG1191|consen  267 SGLQIAIVGRPNVGKSSLLNALSREDRSI-VSPVPGTTRDAIEAQVTVNGVPVRL  320 (531)
T ss_pred             cCCeEEEEcCCCCCHHHHHHHHhcCCceE-eCCCCCcchhhheeEeecCCeEEEE
Confidence            35899999999999999999999866431 112222  22334456678887643

>PRK11231 fecE iron-dicitrate transporter ATP-binding subunit; Provisional

Probab=97.78  E-value=4.2e-05  Score=44.08  Aligned_cols=28  Identities=39%  Similarity=0.453  Sum_probs=23.0

Q ss_pred             EEEEECCCCChHHHHHHHHhcCcCcCCC
Q 035301           14 KVVLIGDSGVGKSNLLSRFTRNEFCLES   41 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~~~~~~~~   41 (68)
                      .+.++|++|+|||||++.+++...+.++
T Consensus        30 ~~~l~G~nGsGKSTLl~~l~Gl~~~~~G   57 (255)
T PRK11231         30 ITALIGPNGCGKSTLLKCFARLLTPQSG   57 (255)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCcCCCCc
Confidence            5889999999999999999986544333

>TIGR00972 3a0107s01c2 phosphate ABC transporter, ATP-binding protein

Probab=97.77  E-value=3.6e-05  Score=44.16  Aligned_cols=25  Identities=44%  Similarity=0.549  Sum_probs=22.0

Q ss_pred             EEEEECCCCChHHHHHHHHhcCcCc
Q 035301           14 KVVLIGDSGVGKSNLLSRFTRNEFC   38 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~~~~~   38 (68)
                      .+.++|++|+|||||++.+++...+
T Consensus        29 ~~~i~G~nGsGKSTLl~~l~G~~~p   53 (247)
T TIGR00972        29 VTALIGPSGCGKSTLLRSLNRMNDL   53 (247)
T ss_pred             EEEEECCCCCCHHHHHHHHhccCCC
Confidence            5789999999999999999987544

This model represents the ATP-binding protein of a family of ABC transporters for inorganic phosphate. In the model species Escherichia coli, a constitutive transporter for inorganic phosphate, with low affinity, is also present. The high affinity transporter that includes this polypeptide is induced when extracellular phosphate concentrations are low. The proteins most similar to the members of this family but not included appear to be amino acid transporters.

>PRK13546 teichoic acids export protein ATP-binding subunit; Provisional

Probab=97.77  E-value=4e-05  Score=44.68  Aligned_cols=28  Identities=25%  Similarity=0.189  Sum_probs=23.8

Q ss_pred             EEEEECCCCChHHHHHHHHhcCcCcCCC
Q 035301           14 KVVLIGDSGVGKSNLLSRFTRNEFCLES   41 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~~~~~~~~   41 (68)
                      .+.++|++|+|||||++.+++...+..+
T Consensus        52 ~~~liG~NGsGKSTLlk~L~Gl~~p~~G   79 (264)
T PRK13546         52 VIGLVGINGSGKSTLSNIIGGSLSPTVG   79 (264)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCcCCCce
Confidence            6889999999999999999987654444

>TIGR01978 sufC FeS assembly ATPase SufC

Probab=97.77  E-value=3e-05  Score=44.18  Aligned_cols=22  Identities=27%  Similarity=0.453  Sum_probs=20.7

Q ss_pred             EEEEECCCCChHHHHHHHHhcC
Q 035301           14 KVVLIGDSGVGKSNLLSRFTRN   35 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~~   35 (68)
                      .+.++|++|+|||||++.+++.
T Consensus        28 ~~~i~G~nGsGKSTLl~~l~Gl   49 (243)
T TIGR01978        28 IHAIMGPNGSGKSTLSKTIAGH   49 (243)
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            6899999999999999999986

SufC is part of the SUF system, shown in E. coli to consist of six proteins and believed to act in Fe-S cluster formation during oxidative stress. SufC forms a complex with SufB and SufD. SufC belongs to the ATP-binding cassette transporter family (pfam00005) but is no longer thought to be part of a transporter. The complex is reported as cytosolic (PubMed:12554644) or associated with the membrane (PubMed:11943156). The SUF system also includes a cysteine desulfurase (SufS, enhanced by SufE) and a probable iron-sulfur cluster assembly scaffold protein, SufA.

>PRK13652 cbiO cobalt transporter ATP-binding subunit; Provisional

Probab=97.77  E-value=4.2e-05  Score=44.71  Aligned_cols=29  Identities=28%  Similarity=0.438  Sum_probs=24.1

Q ss_pred             EEEEECCCCChHHHHHHHHhcCcCcCCCc
Q 035301           14 KVVLIGDSGVGKSNLLSRFTRNEFCLESK   42 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~~~~~~~~~   42 (68)
                      .+.++|++|+|||||++.+++...+.++.
T Consensus        32 ~~~i~G~NGsGKSTLl~~l~Gl~~p~~G~   60 (277)
T PRK13652         32 RIAVIGPNGAGKSTLFRHFNGILKPTSGS   60 (277)
T ss_pred             EEEEECCCCCCHHHHHHHHhcCCCCCceE
Confidence            67899999999999999999876554443

>PRK13635 cbiO cobalt transporter ATP-binding subunit; Provisional

Probab=97.77  E-value=3.9e-05  Score=44.91  Aligned_cols=28  Identities=25%  Similarity=0.297  Sum_probs=23.4

Q ss_pred             EEEEECCCCChHHHHHHHHhcCcCcCCC
Q 035301           14 KVVLIGDSGVGKSNLLSRFTRNEFCLES   41 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~~~~~~~~   41 (68)
                      .+.++|++|+|||||++.+++...+..+
T Consensus        35 ~~~i~G~nGaGKSTLl~~i~G~~~p~~G   62 (279)
T PRK13635         35 WVAIVGHNGSGKSTLAKLLNGLLLPEAG   62 (279)
T ss_pred             EEEEECCCCCcHHHHHHHHhcCCCCCCc
Confidence            5789999999999999999987654444

>PRK10636 putative ABC transporter ATP-binding protein; Provisional

Probab=97.77  E-value=3.9e-05  Score=49.47  Aligned_cols=32  Identities=22%  Similarity=0.399  Sum_probs=26.2

Q ss_pred             EEEEECCCCChHHHHHHHHhcCcCcCCCccce
Q 035301           14 KVVLIGDSGVGKSNLLSRFTRNEFCLESKSTI   45 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~~~~~~~~~~t~   45 (68)
                      ++.++|++|+|||||++.+++...+.++...+
T Consensus       340 ~~~l~G~NGsGKSTLlk~l~G~~~p~~G~i~~  371 (638)
T PRK10636        340 RIGLLGRNGAGKSTLIKLLAGELAPVSGEIGL  371 (638)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCCCCCCCeEEE
Confidence            78999999999999999999876555554443

>COG1160 Predicted GTPases [General function prediction only]

Probab=97.77  E-value=0.0001  Score=45.93  Aligned_cols=51  Identities=18%  Similarity=0.198  Sum_probs=35.0

Q ss_pred             eeeEEEEECCCCChHHHHHHHHhcCcCc-CCCccceeeEeEEEEEEECCeEE
Q 035301           11 YLFKVVLIGDSGVGKSNLLSRFTRNEFC-LESKSTIGVEFATRTLQVTNFSS   61 (68)
Q Consensus        11 ~~~ki~~iG~~~vGKtsl~~~~~~~~~~-~~~~~t~~~~~~~~~~~~~~~~~   61 (68)
                      ..+|+.++|-++||||||++++++.+-. -+..+..-.|.....++.+++.+
T Consensus       177 ~~ikiaiiGrPNvGKSsLiN~ilgeeR~Iv~~~aGTTRD~I~~~~e~~~~~~  228 (444)
T COG1160         177 DPIKIAIIGRPNVGKSSLINAILGEERVIVSDIAGTTRDSIDIEFERDGRKY  228 (444)
T ss_pred             CceEEEEEeCCCCCchHHHHHhccCceEEecCCCCccccceeeeEEECCeEE
Confidence            4699999999999999999999987643 11222222333345666667665

>PRK11607 potG putrescine transporter ATP-binding subunit; Provisional

Probab=97.77  E-value=3.4e-05  Score=47.10  Aligned_cols=29  Identities=34%  Similarity=0.410  Sum_probs=24.2

Q ss_pred             EEEEECCCCChHHHHHHHHhcCcCcCCCc
Q 035301           14 KVVLIGDSGVGKSNLLSRFTRNEFCLESK   42 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~~~~~~~~~   42 (68)
                      .+.++|++|+|||||++.+++..-+..+.
T Consensus        47 ~~~llGpsGsGKSTLLr~IaGl~~p~~G~   75 (377)
T PRK11607         47 IFALLGASGCGKSTLLRMLAGFEQPTAGQ   75 (377)
T ss_pred             EEEEECCCCCcHHHHHHHHhCCCCCCceE
Confidence            57899999999999999999876555443

>PRK11614 livF leucine/isoleucine/valine transporter ATP-binding subunit; Provisional

Probab=97.77  E-value=4.3e-05  Score=43.57  Aligned_cols=28  Identities=32%  Similarity=0.501  Sum_probs=23.1

Q ss_pred             EEEEECCCCChHHHHHHHHhcCcCcCCC
Q 035301           14 KVVLIGDSGVGKSNLLSRFTRNEFCLES   41 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~~~~~~~~   41 (68)
                      .+.++|++|+|||+|++.+++...+..+
T Consensus        33 ~~~i~G~nGsGKSTLl~~l~G~~~p~~G   60 (237)
T PRK11614         33 IVTLIGANGAGKTTLLGTLCGDPRATSG   60 (237)
T ss_pred             EEEEECCCCCCHHHHHHHHcCCCCCCCc
Confidence            6789999999999999999986544333

>cd03291 ABCC_CFTR1 The CFTR subfamily domain 1

Probab=97.77  E-value=4.6e-05  Score=44.87  Aligned_cols=29  Identities=28%  Similarity=0.328  Sum_probs=24.1

Q ss_pred             EEEEECCCCChHHHHHHHHhcCcCcCCCc
Q 035301           14 KVVLIGDSGVGKSNLLSRFTRNEFCLESK   42 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~~~~~~~~~   42 (68)
                      .+.++|++|+|||+|++.+++...+..+.
T Consensus        65 ~~~liG~NGsGKSTLl~~I~Gl~~p~~G~   93 (282)
T cd03291          65 MLAITGSTGSGKTSLLMLILGELEPSEGK   93 (282)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCCCCCCcE
Confidence            68899999999999999999876544443

The cystic fibrosis transmembrane regulator (CFTR), the product of the gene mutated in patients with cystic fibrosis, has adapted the ABC transporter structural motif to form a tightly regulated anion channel at the apical surface of many epithelia. Use of the term assembly of a functional ion channel implies the coming together of subunits, or at least smaller not-yet functional components of the active whole. In fact, on the basis of current knowledge only the CFTR polypeptide itself is required to form an ATP- and protein kinase A-dependent low-conductance chloride channel of the type present in the apical membrane of many epithelial cells. CFTR displays the typical organization (IM-ABC)2 and carries a characteristic hydrophilic R-domain that separates IM1-ABC1 from IM2-ABC2.

>PRK13647 cbiO cobalt transporter ATP-binding subunit; Provisional

Probab=97.76  E-value=4.4e-05  Score=44.57  Aligned_cols=28  Identities=32%  Similarity=0.438  Sum_probs=23.5

Q ss_pred             EEEEECCCCChHHHHHHHHhcCcCcCCC
Q 035301           14 KVVLIGDSGVGKSNLLSRFTRNEFCLES   41 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~~~~~~~~   41 (68)
                      .+.++|++|+|||||++.+++...+.++
T Consensus        33 ~~~i~G~nGsGKSTLl~~l~Gl~~p~~G   60 (274)
T PRK13647         33 KTALLGPNGAGKSTLLLHLNGIYLPQRG   60 (274)
T ss_pred             EEEEECCCCCcHHHHHHHHhcCCCCCce
Confidence            7899999999999999999986544433

>TIGR02314 ABC_MetN D-methionine ABC transporter, ATP-binding protein

Probab=97.76  E-value=3.8e-05  Score=46.38  Aligned_cols=29  Identities=31%  Similarity=0.272  Sum_probs=24.0

Q ss_pred             EEEEECCCCChHHHHHHHHhcCcCcCCCc
Q 035301           14 KVVLIGDSGVGKSNLLSRFTRNEFCLESK   42 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~~~~~~~~~   42 (68)
                      .+.++|++|+|||||++.+++..-+.++.
T Consensus        33 i~gIiG~sGaGKSTLlr~I~gl~~p~~G~   61 (343)
T TIGR02314        33 IYGVIGASGAGKSTLIRCVNLLERPTSGS   61 (343)
T ss_pred             EEEEECCCCCCHHHHHHHHhcCCCCCceE
Confidence            47899999999999999999876554443

Members of this family are the ATP-binding protein of the D-methionine ABC transporter complex. Known members belong to the Proteobacteria.

>COG0488 Uup ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]

Probab=97.76  E-value=6.9e-05  Score=47.62  Aligned_cols=31  Identities=26%  Similarity=0.419  Sum_probs=25.0

Q ss_pred             EEEEECCCCChHHHHHHHHhcCcCcCCCccc
Q 035301           14 KVVLIGDSGVGKSNLLSRFTRNEFCLESKST   44 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~~~~~~~~~~t   44 (68)
                      ||.++|++|+|||||++.+.+..-+.++...
T Consensus       350 riaiiG~NG~GKSTLlk~l~g~~~~~~G~v~  380 (530)
T COG0488         350 RIAIVGPNGAGKSTLLKLLAGELGPLSGTVK  380 (530)
T ss_pred             EEEEECCCCCCHHHHHHHHhhhcccCCceEE
Confidence            8999999999999999999876555544333

>PRK13644 cbiO cobalt transporter ATP-binding subunit; Provisional

Probab=97.76  E-value=4.8e-05  Score=44.45  Aligned_cols=28  Identities=25%  Similarity=0.255  Sum_probs=23.5

Q ss_pred             EEEEECCCCChHHHHHHHHhcCcCcCCC
Q 035301           14 KVVLIGDSGVGKSNLLSRFTRNEFCLES   41 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~~~~~~~~   41 (68)
                      .+.++|++|+|||||++.+++...+..+
T Consensus        30 ~~~i~G~nGsGKSTLl~~l~Gl~~p~~G   57 (274)
T PRK13644         30 YIGIIGKNGSGKSTLALHLNGLLRPQKG   57 (274)
T ss_pred             EEEEECCCCCCHHHHHHHHhcCCCCCCc
Confidence            6899999999999999999986544443

>TIGR02142 modC_ABC molybdenum ABC transporter, ATP-binding protein

Probab=97.76  E-value=4.3e-05  Score=46.19  Aligned_cols=28  Identities=25%  Similarity=0.284  Sum_probs=23.6

Q ss_pred             EEEEECCCCChHHHHHHHHhcCcCcCCC
Q 035301           14 KVVLIGDSGVGKSNLLSRFTRNEFCLES   41 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~~~~~~~~   41 (68)
                      .+.++|++|+|||||++.+++...+.++
T Consensus        25 i~~l~G~nGsGKSTLl~~iaGl~~p~~G   52 (354)
T TIGR02142        25 VTAIFGRSGSGKTTLIRLIAGLTRPDEG   52 (354)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCCCCCce
Confidence            5789999999999999999987655444

This model represents the ATP-binding cassette (ABC) protein of the three subunit molybdate ABC transporter. The three proteins of this complex are homologous to proteins of the sulfate ABC transporter. Molybdenum may be used in nitrogenases of nitrogen-fixing bacteria and in molybdopterin cofactors. In some cases, molybdate may be transported by a sulfate transporter rather than by a specific molybdate transporter.

>PRK13650 cbiO cobalt transporter ATP-binding subunit; Provisional

Probab=97.76  E-value=4.8e-05  Score=44.54  Aligned_cols=28  Identities=21%  Similarity=0.202  Sum_probs=23.7

Q ss_pred             EEEEECCCCChHHHHHHHHhcCcCcCCC
Q 035301           14 KVVLIGDSGVGKSNLLSRFTRNEFCLES   41 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~~~~~~~~   41 (68)
                      .+.++|++|+|||||++.+++...+..+
T Consensus        35 ~~~i~G~nGsGKSTLl~~l~Gl~~p~~G   62 (279)
T PRK13650         35 WLSIIGHNGSGKSTTVRLIDGLLEAESG   62 (279)
T ss_pred             EEEEECCCCCCHHHHHHHHhcCCCCCCc
Confidence            5799999999999999999987655444

>cd03234 ABCG_White The White subfamily represents ABC transporters homologous to the Drosophila white gene, which acts as a dimeric importer for eye pigment precursors

Probab=97.76  E-value=4.4e-05  Score=43.28  Aligned_cols=24  Identities=29%  Similarity=0.504  Sum_probs=21.5

Q ss_pred             EEEEECCCCChHHHHHHHHhcCcC
Q 035301           14 KVVLIGDSGVGKSNLLSRFTRNEF   37 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~~~~   37 (68)
                      .+.++|++|+|||||++.+++...
T Consensus        35 ~~~l~G~nGsGKSTLlk~l~G~~~   58 (226)
T cd03234          35 VMAILGSSGSGKTTLLDAISGRVE   58 (226)
T ss_pred             EEEEECCCCCCHHHHHHHHhCccC
Confidence            678999999999999999998654

The eye pigmentation of Drosophila is developed from the synthesis and deposition in the cells of red pigments, which are synthesized from guanine, and brown pigments, which are synthesized from tryptophan. The pigment precursors are encoded by the white, brown, and scarlet genes, respectively. Evidence from genetic and biochemical studies suggest that the White and Brown proteins function as heterodimers to import guanine, while the White and Scarlet proteins function to import tryptophan. However, a recent study also suggests that White may be involved in the transport of a metabolite, such as 3-hydroxykynurenine, across intracellular membranes. Mammalian ABC transporters belonging to the White subfamily (ABCG1, ABCG5, and ABCG8) have been shown to be involved in the regulation of lipid-trafficking mechanisms in

>PRK15064 ABC transporter ATP-binding protein; Provisional

Probab=97.76  E-value=4.2e-05  Score=48.20  Aligned_cols=28  Identities=25%  Similarity=0.307  Sum_probs=23.5

Q ss_pred             EEEEECCCCChHHHHHHHHhcCcCcCCC
Q 035301           14 KVVLIGDSGVGKSNLLSRFTRNEFCLES   41 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~~~~~~~~   41 (68)
                      .+.++|++|+|||||++.+++...+..+
T Consensus        29 ~~~liG~NGsGKSTLl~~l~Gl~~p~~G   56 (530)
T PRK15064         29 RYGLIGANGCGKSTFMKILGGDLEPSAG   56 (530)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCCCCCCc
Confidence            6899999999999999999986544433

>TIGR03797 NHPM_micro_ABC2 NHPM bacteriocin system ABC transporter, ATP-binding protein

Probab=97.76  E-value=4.1e-05  Score=49.50  Aligned_cols=31  Identities=32%  Similarity=0.297  Sum_probs=26.0

Q ss_pred             EEEEECCCCChHHHHHHHHhcCcCcCCCccc
Q 035301           14 KVVLIGDSGVGKSNLLSRFTRNEFCLESKST   44 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~~~~~~~~~~t   44 (68)
                      ++.++|++|+|||||++.+++...+.++...
T Consensus       481 ~vaIvG~sGsGKSTLlklL~gl~~p~~G~I~  511 (686)
T TIGR03797       481 FVAIVGPSGSGKSTLLRLLLGFETPESGSVF  511 (686)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCCCCCCCEEE
Confidence            7899999999999999999987766555443

Members of this protein family are ABC transporter ATP-binding subunits, part of a three-gene putative bacteriocin transport operon. The other subunits include another ATP-binding subunit (TIGR03796), which has an N-terminal propeptide cleavage domain, and an HlyD homolog (TIGR03794). In a number of genomes, a conserved propeptide sequence with a classic Gly-Gly motif

>PRK10419 nikE nickel transporter ATP-binding protein NikE; Provisional

Probab=97.76  E-value=4.6e-05  Score=44.36  Aligned_cols=28  Identities=36%  Similarity=0.407  Sum_probs=23.5

Q ss_pred             EEEEECCCCChHHHHHHHHhcCcCcCCC
Q 035301           14 KVVLIGDSGVGKSNLLSRFTRNEFCLES   41 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~~~~~~~~   41 (68)
                      .+.++|++|+|||+|++.+++...+.++
T Consensus        40 ~~~i~G~nGsGKSTLl~~l~Gl~~p~sG   67 (268)
T PRK10419         40 TVALLGRSGCGKSTLARLLVGLESPSQG   67 (268)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCCCCCCc
Confidence            7899999999999999999986544443

>cd03300 ABC_PotA_N PotA is an ABC-type transporter and the ATPase component of the spermidine/putrescine-preferential uptake system consisting of PotA, -B, -C, and -D

Probab=97.76  E-value=4.7e-05  Score=43.35  Aligned_cols=29  Identities=31%  Similarity=0.369  Sum_probs=24.6

Q ss_pred             EEEEECCCCChHHHHHHHHhcCcCcCCCc
Q 035301           14 KVVLIGDSGVGKSNLLSRFTRNEFCLESK   42 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~~~~~~~~~   42 (68)
                      .+.++|++|+|||||++.+++...+..+.
T Consensus        28 ~~~i~G~nGsGKSTLl~~l~g~~~~~~G~   56 (232)
T cd03300          28 FFTLLGPSGCGKTTLLRLIAGFETPTSGE   56 (232)
T ss_pred             EEEEECCCCCCHHHHHHHHhcCCCCCceE
Confidence            78999999999999999999876554443

PotA has two domains with the N-terminal domain containing the ATPase activity and the residues required for homodimerization with PotA and heterdimerization with PotB. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic molecules. The nucleotide binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>TIGR00101 ureG urease accessory protein UreG

Probab=97.75  E-value=3.6e-05  Score=43.25  Aligned_cols=23  Identities=35%  Similarity=0.621  Sum_probs=21.0

Q ss_pred             eEEEEECCCCChHHHHHHHHhcC
Q 035301           13 FKVVLIGDSGVGKSNLLSRFTRN   35 (68)
Q Consensus        13 ~ki~~iG~~~vGKtsl~~~~~~~   35 (68)
                      +++.++|+.|+||||+++++.+.
T Consensus         2 ~~i~i~G~~GsGKTTll~~l~~~   24 (199)
T TIGR00101         2 LKIGVAGPVGSGKTALIEALTRA   24 (199)
T ss_pred             eEEEEECCCCCCHHHHHHHHHHh
Confidence            68999999999999999998864

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.

>COG0410 LivF ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]

Probab=97.75  E-value=4.4e-05  Score=44.01  Aligned_cols=28  Identities=29%  Similarity=0.339  Sum_probs=23.3

Q ss_pred             EEEEECCCCChHHHHHHHHhcCcCcCCC
Q 035301           14 KVVLIGDSGVGKSNLLSRFTRNEFCLES   41 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~~~~~~~~   41 (68)
                      -+.++|++|+||||+++.+++.--+..+
T Consensus        31 iv~llG~NGaGKTTlLkti~Gl~~~~~G   58 (237)
T COG0410          31 IVALLGRNGAGKTTLLKTIMGLVRPRSG   58 (237)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCCCCCCe
Confidence            4789999999999999999987654443

>KOG3905 consensus Dynein light intermediate chain [Cell motility]

Probab=97.75  E-value=3.5e-05  Score=46.83  Aligned_cols=39  Identities=31%  Similarity=0.574  Sum_probs=29.3

Q ss_pred             eEEEEECCCCChHHHHHHHHhcCcCcCCCccceeeEeEEEEE
Q 035301           13 FKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTL   54 (68)
Q Consensus        13 ~ki~~iG~~~vGKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~   54 (68)
                      -.++++|+.++|||+|+.++.+-+   .+.+..|.+|..-.+
T Consensus        53 k~VlvlGdn~sGKtsLi~klqg~e---~~KkgsgLeY~yl~V   91 (473)
T KOG3905|consen   53 KNVLVLGDNGSGKTSLISKLQGSE---TVKKGSGLEYLYLHV   91 (473)
T ss_pred             CeEEEEccCCCchhHHHHHhhccc---ccCCCCCcceEEEec
Confidence            479999999999999999999865   344555666643333

>PRK14273 phosphate ABC transporter ATP-binding protein; Provisional

Probab=97.75  E-value=5.9e-05  Score=43.41  Aligned_cols=25  Identities=40%  Similarity=0.517  Sum_probs=21.9

Q ss_pred             EEEEECCCCChHHHHHHHHhcCcCc
Q 035301           14 KVVLIGDSGVGKSNLLSRFTRNEFC   38 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~~~~~   38 (68)
                      .+.++|++|+|||||++.+++...+
T Consensus        35 ~~~i~G~nGsGKSTLl~~l~Gl~~~   59 (254)
T PRK14273         35 ITALIGPSGCGKSTFLRTLNRMNDL   59 (254)
T ss_pred             EEEEECCCCCCHHHHHHHHhccccC
Confidence            6789999999999999999986543

>PRK13633 cobalt transporter ATP-binding subunit; Provisional

Probab=97.74  E-value=4.4e-05  Score=44.67  Aligned_cols=29  Identities=28%  Similarity=0.390  Sum_probs=24.3

Q ss_pred             EEEEECCCCChHHHHHHHHhcCcCcCCCc
Q 035301           14 KVVLIGDSGVGKSNLLSRFTRNEFCLESK   42 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~~~~~~~~~   42 (68)
                      .+.++|++|+|||||++.+++...+..+.
T Consensus        38 ~~~l~G~nGsGKSTLl~~l~Gl~~~~~G~   66 (280)
T PRK13633         38 FLVILGRNGSGKSTIAKHMNALLIPSEGK   66 (280)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCCCCCCce
Confidence            58899999999999999999876655443

>TIGR03796 NHPM_micro_ABC1 NHPM bacteriocin system ABC transporter, peptidase/ATP-binding protein

Probab=97.74  E-value=4.3e-05  Score=49.54  Aligned_cols=32  Identities=25%  Similarity=0.284  Sum_probs=26.3

Q ss_pred             EEEEECCCCChHHHHHHHHhcCcCcCCCccce
Q 035301           14 KVVLIGDSGVGKSNLLSRFTRNEFCLESKSTI   45 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~~~~~~~~~~t~   45 (68)
                      ++.++|++|+|||||++.+++...+.++...+
T Consensus       507 ~vaIvG~sGsGKSTLlklL~gl~~p~~G~I~i  538 (710)
T TIGR03796       507 RVALVGGSGSGKSTIAKLVAGLYQPWSGEILF  538 (710)
T ss_pred             EEEEECCCCCCHHHHHHHHhcCCCCCCcEEEE
Confidence            88999999999999999999876665554333

This protein describes an multidomain ABC transporter subunit that is one of three protein families associated with some regularity with a distinctive family of putative bacteriocins. It includes a bacteriocin-processing peptidase domain at the N-terminus. Model TIGR03793 describes a conserved propeptide region for this bacteriocin family, unusual because it shows obvious homology a region of the enzyme nitrile hydratase up to the classic Gly-Gly cleavage motif. This family is therefore predicted to be a subunit of a bacteriocin processing and export system characteristic to this system that we designate NHPM, Nitrile Hydratase Propeptide Microcin.

>cd01854 YjeQ_engC YjeQ/EngC

Probab=97.74  E-value=3.9e-05  Score=45.21  Aligned_cols=26  Identities=38%  Similarity=0.498  Sum_probs=22.5

Q ss_pred             eEEEEECCCCChHHHHHHHHhcCcCc
Q 035301           13 FKVVLIGDSGVGKSNLLSRFTRNEFC   38 (68)
Q Consensus        13 ~ki~~iG~~~vGKtsl~~~~~~~~~~   38 (68)
                      ..++++|.+|+|||||++.+.+....
T Consensus       162 k~~~~~G~sg~GKSTlin~l~~~~~~  187 (287)
T cd01854         162 KTSVLVGQSGVGKSTLINALLPDLDL  187 (287)
T ss_pred             ceEEEECCCCCCHHHHHHHHhchhhc
Confidence            46899999999999999999976543

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.

>cd00267 ABC_ATPase ABC (ATP-binding cassette) transporter nucleotide-binding domain; ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic molecules

Probab=97.74  E-value=5.6e-05  Score=40.60  Aligned_cols=28  Identities=32%  Similarity=0.338  Sum_probs=23.1

Q ss_pred             EEEEECCCCChHHHHHHHHhcCcCcCCC
Q 035301           14 KVVLIGDSGVGKSNLLSRFTRNEFCLES   41 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~~~~~~~~   41 (68)
                      .+.++|++|+|||+|++.+.+...+...
T Consensus        27 ~~~i~G~nGsGKStll~~l~g~~~~~~G   54 (157)
T cd00267          27 IVALVGPNGSGKSTLLRAIAGLLKPTSG   54 (157)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCCCCCcc
Confidence            6789999999999999999986544333

The nucleotide-binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>PRK10418 nikD nickel transporter ATP-binding protein NikD; Provisional

Probab=97.74  E-value=5.3e-05  Score=43.69  Aligned_cols=25  Identities=28%  Similarity=0.202  Sum_probs=22.2

Q ss_pred             EEEEECCCCChHHHHHHHHhcCcCc
Q 035301           14 KVVLIGDSGVGKSNLLSRFTRNEFC   38 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~~~~~   38 (68)
                      .+.++|++|+|||||++.+++...+
T Consensus        31 ~~~l~G~nGsGKSTLl~~l~Gl~~~   55 (254)
T PRK10418         31 VLALVGGSGSGKSLTCAAALGILPA   55 (254)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCCCC
Confidence            6889999999999999999987544

>TIGR01193 bacteriocin_ABC ABC-type bacteriocin transporter

Probab=97.74  E-value=4.3e-05  Score=49.56  Aligned_cols=32  Identities=25%  Similarity=0.261  Sum_probs=26.3

Q ss_pred             EEEEECCCCChHHHHHHHHhcCcCcCCCccce
Q 035301           14 KVVLIGDSGVGKSNLLSRFTRNEFCLESKSTI   45 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~~~~~~~~~~t~   45 (68)
                      ++.++|++|+|||||++.+++...+.++..++
T Consensus       502 ~vaIvG~SGsGKSTLlklL~gl~~p~~G~I~i  533 (708)
T TIGR01193       502 KTTIVGMSGSGKSTLAKLLVGFFQARSGEILL  533 (708)
T ss_pred             EEEEECCCCCCHHHHHHHHhccCCCCCcEEEE
Confidence            78999999999999999999876665554443

This model describes ABC-type bacteriocin transporter. The amino terminal domain (pfam03412) processes the N-terminal leader peptide from the bacteriocin while C-terminal domains resemble ABC transporter membrane protein and ATP-binding cassette domain. In general, bacteriocins are agents which are responsible for killing or inhibiting the closely related species or even different strains of the same species. Bacteriocins are usually encoded by bacterial plasmids. Bacteriocins are named after the species and hence in literature one encounters various names e.g., leucocin from Leuconostic geldium; pedicocin from Pedicoccus acidilactici; sakacin from Lactobacillus sake etc.

>TIGR01186 proV glycine betaine/L-proline transport ATP binding subunit

Probab=97.74  E-value=4.1e-05  Score=46.57  Aligned_cols=28  Identities=29%  Similarity=0.261  Sum_probs=23.9

Q ss_pred             EEEEECCCCChHHHHHHHHhcCcCcCCC
Q 035301           14 KVVLIGDSGVGKSNLLSRFTRNEFCLES   41 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~~~~~~~~   41 (68)
                      .++++|++|+|||||++.+++...+..+
T Consensus        21 i~~l~G~sGsGKSTLLr~L~Gl~~p~~G   48 (363)
T TIGR01186        21 IFVIMGLSGSGKSTTVRMLNRLIEPTAG   48 (363)
T ss_pred             EEEEECCCCChHHHHHHHHhCCCCCCce
Confidence            6889999999999999999987655444

This model describes the glycine betaine/L-proline ATP binding subunit in bacteria and its equivalents in archaea. This transport system belong to the larger ATP-Binding Cassette (ABC) transporter superfamily. The characteristic feature of these transporter is the obligatory coupling of ATP hydrolysis to substrate translocation. The minimal configuration of bacterial ABC transport system: an ATPase or ATP binding subunit; An integral membrane protein; a hydrophilic polypetpide, which likely functions as substrate binding protein. Functionally, this transport system is involved in osmoregulation. Under conditions of stress, the organism recruits these transport system to accumulate glycine betaine and other solutes which offer osmo-protection. It has been demonstrated that glycine betaine uptake is accompanied by symport with sodium ions. The locus has been named variously as proU or opuA. A gene library from L.lact

>TIGR03522 GldA_ABC_ATP gliding motility-associated ABC transporter ATP-binding subunit GldA

Probab=97.74  E-value=4.4e-05  Score=45.16  Aligned_cols=29  Identities=24%  Similarity=0.187  Sum_probs=24.2

Q ss_pred             EEEEECCCCChHHHHHHHHhcCcCcCCCc
Q 035301           14 KVVLIGDSGVGKSNLLSRFTRNEFCLESK   42 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~~~~~~~~~   42 (68)
                      .+.++|++|+|||||++.+++...+.++.
T Consensus        30 i~~l~G~NGaGKTTLl~~l~Gl~~~~~G~   58 (301)
T TIGR03522        30 IVGFLGPNGAGKSTTMKIITGYLPPDSGS   58 (301)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCCCCCceE
Confidence            58899999999999999999876555443

Members of this protein family are exclusive to the Bacteroidetes phylum (previously Cytophaga-Flavobacteria-Bacteroides). GldA is an ABC transporter ATP-binding protein (pfam00005) linked to a type of rapid surface gliding motility found in certain Bacteroidetes, such as Flavobacterium johnsoniae and Cytophaga hutchinsonii. Knockouts of GldA abolish the gliding phenotype. Gliding motility appears closely linked to chitin utilization in the model species Flavobacterium johnsoniae. Bacteroidetes with members of this protein family appear to have all of the genes associated with gliding motility.

>TIGR00968 3a0106s01 sulfate ABC transporter, ATP-binding protein

Probab=97.74  E-value=5.2e-05  Score=43.31  Aligned_cols=28  Identities=39%  Similarity=0.381  Sum_probs=23.2

Q ss_pred             EEEEECCCCChHHHHHHHHhcCcCcCCC
Q 035301           14 KVVLIGDSGVGKSNLLSRFTRNEFCLES   41 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~~~~~~~~   41 (68)
                      .+.++|++|+|||+|++.+++...+..+
T Consensus        28 ~~~l~G~nGsGKSTLl~~i~G~~~~~~G   55 (237)
T TIGR00968        28 LVALLGPSGSGKSTLLRIIAGLEQPDSG   55 (237)
T ss_pred             EEEEECCCCCCHHHHHHHHhcCCCCCce
Confidence            6789999999999999999986544333

>cd00820 PEPCK_HprK Phosphoenolpyruvate carboxykinase (PEPCK), a critical gluconeogenic enzyme, catalyzes the first committed step in the diversion of tricarboxylic acid cycle intermediates toward gluconeogenesis

Probab=97.74  E-value=3.5e-05  Score=39.65  Aligned_cols=20  Identities=40%  Similarity=0.737  Sum_probs=18.3

Q ss_pred             EEEEECCCCChHHHHHHHHh
Q 035301           14 KVVLIGDSGVGKSNLLSRFT   33 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~   33 (68)
                      .++++|++|+|||+|+..+.
T Consensus        17 ~v~I~GpSGsGKSTLl~~l~   36 (107)
T cd00820          17 GVLITGDSGIGKTELALELI   36 (107)
T ss_pred             EEEEEcCCCCCHHHHHHHhh
Confidence            57999999999999999976

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

>PRK11147 ABC transporter ATPase component; Reviewed

Probab=97.74  E-value=4.4e-05  Score=49.14  Aligned_cols=32  Identities=28%  Similarity=0.384  Sum_probs=25.7

Q ss_pred             EEEEECCCCChHHHHHHHHhcCcCcCCCccce
Q 035301           14 KVVLIGDSGVGKSNLLSRFTRNEFCLESKSTI   45 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~~~~~~~~~~t~   45 (68)
                      ++.++|++|+|||||++.+++...+..+...+
T Consensus       347 ~~~l~G~NGsGKSTLlk~l~G~~~p~~G~i~~  378 (635)
T PRK11147        347 KIALIGPNGCGKTTLLKLMLGQLQADSGRIHC  378 (635)
T ss_pred             EEEEECCCCCcHHHHHHHHhCCCCCCCcEEEE
Confidence            68999999999999999999876555554433

>COG1117 PstB ABC-type phosphate transport system, ATPase component [Inorganic ion transport and metabolism]

Probab=97.74  E-value=2.7e-05  Score=44.78  Aligned_cols=20  Identities=55%  Similarity=0.801  Sum_probs=17.5

Q ss_pred             EEEECCCCChHHHHHHHHhc
Q 035301           15 VVLIGDSGVGKSNLLSRFTR   34 (68)
Q Consensus        15 i~~iG~~~vGKtsl~~~~~~   34 (68)
                      ..+||++|||||||++.+-.
T Consensus        36 TAlIGPSGcGKST~LR~lNR   55 (253)
T COG1117          36 TALIGPSGCGKSTLLRCLNR   55 (253)
T ss_pred             EEEECCCCcCHHHHHHHHHh
Confidence            46899999999999998864

>COG4559 ABC-type hemin transport system, ATPase component [Inorganic ion transport and metabolism]

Probab=97.74  E-value=4.6e-05  Score=43.86  Aligned_cols=30  Identities=27%  Similarity=0.390  Sum_probs=24.2

Q ss_pred             EEEECCCCChHHHHHHHHhcCcCcCCCccc
Q 035301           15 VVLIGDSGVGKSNLLSRFTRNEFCLESKST   44 (68)
Q Consensus        15 i~~iG~~~vGKtsl~~~~~~~~~~~~~~~t   44 (68)
                      +.++|++|+|||||++.+++.--+..+..+
T Consensus        30 ~ailGPNGAGKSTlLk~LsGel~p~~G~v~   59 (259)
T COG4559          30 LAILGPNGAGKSTLLKALSGELSPDSGEVT   59 (259)
T ss_pred             EEEECCCCccHHHHHHHhhCccCCCCCeEe
Confidence            578999999999999999987665554433

>TIGR02857 CydD thiol reductant ABC exporter, CydD subunit

Probab=97.74  E-value=4.6e-05  Score=47.85  Aligned_cols=30  Identities=37%  Similarity=0.395  Sum_probs=25.2

Q ss_pred             EEEEECCCCChHHHHHHHHhcCcCcCCCcc
Q 035301           14 KVVLIGDSGVGKSNLLSRFTRNEFCLESKS   43 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~~~~~~~~~~   43 (68)
                      ++.++|++|+|||||++.+++...+.++..
T Consensus       350 ~~~ivG~sGsGKSTL~~ll~g~~~~~~G~I  379 (529)
T TIGR02857       350 RVALVGPSGAGKSTLLNLLLGFVDPTEGSI  379 (529)
T ss_pred             EEEEECCCCCCHHHHHHHHhcCCCCCCcEE
Confidence            889999999999999999998766555443

Unfortunately, the gene symbol nomenclature adopted based on this operon in B. subtilis assigns cydC to the third gene in the operon where this gene is actually homologous to the E. coli cydD gene. We have chosen to name all homologs in this family in accordance with the precedence of publication of the E. coli name, CydD

>PRK11819 putative ABC transporter ATP-binding protein; Reviewed

Probab=97.74  E-value=4.8e-05  Score=48.28  Aligned_cols=28  Identities=32%  Similarity=0.443  Sum_probs=23.7

Q ss_pred             EEEEECCCCChHHHHHHHHhcCcCcCCC
Q 035301           14 KVVLIGDSGVGKSNLLSRFTRNEFCLES   41 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~~~~~~~~   41 (68)
                      .+.++|++|+|||||++.+++...+..+
T Consensus        35 ~~~iiG~NGsGKSTLlk~i~G~~~p~~G   62 (556)
T PRK11819         35 KIGVLGLNGAGKSTLLRIMAGVDKEFEG   62 (556)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCCCCCCc
Confidence            6899999999999999999987554444

>cd03299 ABC_ModC_like Archeal protein closely related to ModC

Probab=97.73  E-value=5.3e-05  Score=43.24  Aligned_cols=28  Identities=29%  Similarity=0.273  Sum_probs=23.4

Q ss_pred             EEEEECCCCChHHHHHHHHhcCcCcCCC
Q 035301           14 KVVLIGDSGVGKSNLLSRFTRNEFCLES   41 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~~~~~~~~   41 (68)
                      .+.++|++|+|||+|++.+++...+..+
T Consensus        27 ~~~i~G~nG~GKStLl~~l~G~~~p~~G   54 (235)
T cd03299          27 YFVILGPTGSGKSVLLETIAGFIKPDSG   54 (235)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCcCCCce
Confidence            6789999999999999999987554443

ModC is an ABC-type transporter and the ATPase component of a molybdate transport system that also includes the periplasmic binding protein ModA and the membrane protein ModB. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic molecules. The nucleotide binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>TIGR03258 PhnT 2-aminoethylphosphonate ABC transport system, ATP-binding component PhnT

Probab=97.73  E-value=4.1e-05  Score=46.51  Aligned_cols=27  Identities=33%  Similarity=0.415  Sum_probs=23.6

Q ss_pred             EEEEECCCCChHHHHHHHHhcCcCcCC
Q 035301           14 KVVLIGDSGVGKSNLLSRFTRNEFCLE   40 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~~~~~~~   40 (68)
                      .+.++|++|+|||||++.+++...+.+
T Consensus        33 ~~~llGpsGsGKSTLLr~iaGl~~p~~   59 (362)
T TIGR03258        33 LLALIGKSGCGKTTLLRAIAGFVKAAG   59 (362)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCCCCCC
Confidence            588999999999999999998766554

This ATP-binding component of an ABC transport system is found in Salmonella and Burkholderia lineages in the vicinity of enzymes for the breakdown of 2-aminoethylphosphonate.

>PRK13639 cbiO cobalt transporter ATP-binding subunit; Provisional

Probab=97.73  E-value=4.7e-05  Score=44.45  Aligned_cols=28  Identities=32%  Similarity=0.396  Sum_probs=23.2

Q ss_pred             EEEEECCCCChHHHHHHHHhcCcCcCCC
Q 035301           14 KVVLIGDSGVGKSNLLSRFTRNEFCLES   41 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~~~~~~~~   41 (68)
                      .+.++|++|+|||||++.+++...+..+
T Consensus        30 ~~~l~G~nGsGKSTLl~~i~Gl~~~~~G   57 (275)
T PRK13639         30 MVALLGPNGAGKSTLFLHFNGILKPTSG   57 (275)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCCCCCcc
Confidence            6889999999999999999986544433

>PF07728 AAA_5: AAA domain (dynein-related subfamily); InterPro: IPR011704 The ATPases Associated to a variety of cellular Activities (AAA) are a family distinguished by a highly conserved module of 230 amino acids []

Probab=97.73  E-value=3.2e-05  Score=40.65  Aligned_cols=20  Identities=35%  Similarity=0.700  Sum_probs=18.3

Q ss_pred             EEEECCCCChHHHHHHHHhc
Q 035301           15 VVLIGDSGVGKSNLLSRFTR   34 (68)
Q Consensus        15 i~~iG~~~vGKtsl~~~~~~   34 (68)
                      ++++|++|+|||+++..++.
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            78999999999999998874

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.

>PF13191 AAA_16: AAA ATPase domain; PDB: 2V1U_A

Probab=97.73  E-value=3e-05  Score=42.11  Aligned_cols=23  Identities=35%  Similarity=0.569  Sum_probs=16.3

Q ss_pred             eeEEEEECCCCChHHHHHHHHhc
Q 035301           12 LFKVVLIGDSGVGKSNLLSRFTR   34 (68)
Q Consensus        12 ~~ki~~iG~~~vGKtsl~~~~~~   34 (68)
                      .--+++.|++|+|||++++++..
T Consensus        24 ~~~~ll~G~~G~GKT~ll~~~~~   46 (185)
T PF13191_consen   24 PRNLLLTGESGSGKTSLLRALLD   46 (185)
T ss_dssp             ---EEE-B-TTSSHHHHHHHHHH
T ss_pred             CcEEEEECCCCCCHHHHHHHHHH
Confidence            45789999999999999998764

>PRK13657 cyclic beta-1,2-glucan ABC transporter; Provisional

Probab=97.73  E-value=4.7e-05  Score=48.45  Aligned_cols=30  Identities=27%  Similarity=0.384  Sum_probs=25.2

Q ss_pred             EEEEECCCCChHHHHHHHHhcCcCcCCCcc
Q 035301           14 KVVLIGDSGVGKSNLLSRFTRNEFCLESKS   43 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~~~~~~~~~~   43 (68)
                      +++++|++|+|||||++.+++...+.++..
T Consensus       363 ~v~IvG~sGsGKSTLl~lL~gl~~p~~G~I  392 (588)
T PRK13657        363 TVAIVGPTGAGKSTLINLLQRVFDPQSGRI  392 (588)
T ss_pred             EEEEECCCCCCHHHHHHHHhcCcCCCCCEE
Confidence            789999999999999999998766555443

>COG0488 Uup ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]

Probab=97.73  E-value=4.7e-05  Score=48.35  Aligned_cols=31  Identities=29%  Similarity=0.364  Sum_probs=26.5

Q ss_pred             EEEEECCCCChHHHHHHHHhcCcCcCCCccc
Q 035301           14 KVVLIGDSGVGKSNLLSRFTRNEFCLESKST   44 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~~~~~~~~~~t   44 (68)
                      |+.+||.+|+|||||++.+++...+..+..+
T Consensus        31 riGLvG~NGaGKSTLLkilaG~~~~~~G~i~   61 (530)
T COG0488          31 RIGLVGRNGAGKSTLLKILAGELEPDSGEVT   61 (530)
T ss_pred             EEEEECCCCCCHHHHHHHHcCCCcCCCCeEe
Confidence            8999999999999999999998766655433

>PRK13536 nodulation factor exporter subunit NodI; Provisional

Probab=97.73  E-value=4.5e-05  Score=45.99  Aligned_cols=29  Identities=24%  Similarity=0.193  Sum_probs=24.3

Q ss_pred             EEEEECCCCChHHHHHHHHhcCcCcCCCc
Q 035301           14 KVVLIGDSGVGKSNLLSRFTRNEFCLESK   42 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~~~~~~~~~   42 (68)
                      .+.++|++|+|||||++.+++...+.++.
T Consensus        69 i~gLlGpNGaGKSTLl~~L~Gl~~p~~G~   97 (340)
T PRK13536         69 CFGLLGPNGAGKSTIARMILGMTSPDAGK   97 (340)
T ss_pred             EEEEECCCCCCHHHHHHHHHcCCCCCceE
Confidence            67899999999999999999876555443

>PRK13537 nodulation ABC transporter NodI; Provisional

Probab=97.73  E-value=5.1e-05  Score=45.04  Aligned_cols=30  Identities=20%  Similarity=0.169  Sum_probs=24.8

Q ss_pred             EEEEECCCCChHHHHHHHHhcCcCcCCCcc
Q 035301           14 KVVLIGDSGVGKSNLLSRFTRNEFCLESKS   43 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~~~~~~~~~~   43 (68)
                      .+.++|++|+|||||++.+++...+.++..
T Consensus        35 i~gllGpNGaGKSTLl~~l~Gl~~p~~G~v   64 (306)
T PRK13537         35 CFGLLGPNGAGKTTTLRMLLGLTHPDAGSI   64 (306)
T ss_pred             EEEEECCCCCCHHHHHHHHhcCCCCCceEE
Confidence            589999999999999999998765555433

>PRK00300 gmk guanylate kinase; Provisional

Probab=97.73  E-value=3.6e-05  Score=42.89  Aligned_cols=22  Identities=41%  Similarity=0.616  Sum_probs=20.0

Q ss_pred             EEEEECCCCChHHHHHHHHhcC
Q 035301           14 KVVLIGDSGVGKSNLLSRFTRN   35 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~~   35 (68)
                      -++++|++|+|||+|+..+++.
T Consensus         7 ~i~i~G~sGsGKstl~~~l~~~   28 (205)
T PRK00300          7 LIVLSGPSGAGKSTLVKALLER   28 (205)
T ss_pred             EEEEECCCCCCHHHHHHHHHhh
Confidence            5899999999999999999864

>TIGR02204 MsbA_rel ABC transporter, permease/ATP-binding protein

Probab=97.72  E-value=4.9e-05  Score=48.11  Aligned_cols=30  Identities=33%  Similarity=0.378  Sum_probs=25.1

Q ss_pred             EEEEECCCCChHHHHHHHHhcCcCcCCCcc
Q 035301           14 KVVLIGDSGVGKSNLLSRFTRNEFCLESKS   43 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~~~~~~~~~~   43 (68)
                      +++++|++|+|||||++.+++...+.++..
T Consensus       368 ~i~IvG~sGsGKSTLlklL~gl~~p~~G~I  397 (576)
T TIGR02204       368 TVALVGPSGAGKSTLFQLLLRFYDPQSGRI  397 (576)
T ss_pred             EEEEECCCCCCHHHHHHHHHhccCCCCCEE
Confidence            789999999999999999998766555443

This protein is related to a Proteobacterial ATP transporter that exports lipid A and to eukaryotic P-glycoproteins.

>PRK10070 glycine betaine transporter ATP-binding subunit; Provisional

Probab=97.72  E-value=5.4e-05  Score=46.60  Aligned_cols=29  Identities=28%  Similarity=0.315  Sum_probs=24.2

Q ss_pred             EEEEECCCCChHHHHHHHHhcCcCcCCCc
Q 035301           14 KVVLIGDSGVGKSNLLSRFTRNEFCLESK   42 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~~~~~~~~~   42 (68)
                      .++++|++|+|||||++.+.+...+..+.
T Consensus        56 i~~LvG~NGsGKSTLLr~I~Gl~~p~sG~   84 (400)
T PRK10070         56 IFVIMGLSGSGKSTMVRLLNRLIEPTRGQ   84 (400)
T ss_pred             EEEEECCCCchHHHHHHHHHcCCCCCCCE
Confidence            58899999999999999999876554443

>PRK14249 phosphate ABC transporter ATP-binding protein; Provisional

Probab=97.72  E-value=6.6e-05  Score=43.16  Aligned_cols=26  Identities=38%  Similarity=0.530  Sum_probs=22.5

Q ss_pred             EEEEECCCCChHHHHHHHHhcCcCcC
Q 035301           14 KVVLIGDSGVGKSNLLSRFTRNEFCL   39 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~~~~~~   39 (68)
                      .+.++|++|+|||||++.+++...+.
T Consensus        32 ~~~i~G~nGsGKSTLl~~l~Gl~~~~   57 (251)
T PRK14249         32 ITAIIGPSGCGKSTLLRALNRMNDIV   57 (251)
T ss_pred             EEEEECCCCCCHHHHHHHHhcccCcc
Confidence            68899999999999999999865443

>PRK10938 putative molybdenum transport ATP-binding protein ModF; Provisional

Probab=97.72  E-value=5.5e-05  Score=47.20  Aligned_cols=28  Identities=25%  Similarity=0.337  Sum_probs=23.3

Q ss_pred             EEEEECCCCChHHHHHHHHhcCcCcCCC
Q 035301           14 KVVLIGDSGVGKSNLLSRFTRNEFCLES   41 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~~~~~~~~   41 (68)
                      .+.++|++|+|||||++.+++...+.++
T Consensus        31 ~~~liG~nGsGKSTLl~~l~G~~~p~~G   58 (490)
T PRK10938         31 SWAFVGANGSGKSALARALAGELPLLSG   58 (490)
T ss_pred             EEEEECCCCCCHHHHHHHHhccCCCCCc
Confidence            6889999999999999999986544443

>PRK14242 phosphate transporter ATP-binding protein; Provisional

Probab=97.71  E-value=4.3e-05  Score=43.92  Aligned_cols=22  Identities=45%  Similarity=0.640  Sum_probs=20.4

Q ss_pred             EEEEECCCCChHHHHHHHHhcC
Q 035301           14 KVVLIGDSGVGKSNLLSRFTRN   35 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~~   35 (68)
                      .+.++|++|+|||||++.+++.
T Consensus        34 ~~~i~G~nGsGKSTLl~~l~Gl   55 (253)
T PRK14242         34 VTALIGPSGCGKSTFLRCLNRM   55 (253)
T ss_pred             EEEEECCCCCCHHHHHHHHHhh
Confidence            5889999999999999999975

>PRK13634 cbiO cobalt transporter ATP-binding subunit; Provisional

Probab=97.71  E-value=6.1e-05  Score=44.33  Aligned_cols=28  Identities=32%  Similarity=0.393  Sum_probs=23.7

Q ss_pred             EEEEECCCCChHHHHHHHHhcCcCcCCC
Q 035301           14 KVVLIGDSGVGKSNLLSRFTRNEFCLES   41 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~~~~~~~~   41 (68)
                      .+.++|++|+|||||++.+++...+..+
T Consensus        35 ~~~i~G~nGsGKSTLl~~l~Gl~~p~~G   62 (290)
T PRK13634         35 YVAIIGHTGSGKSTLLQHLNGLLQPTSG   62 (290)
T ss_pred             EEEEECCCCCcHHHHHHHHhcCCCCCCc
Confidence            6899999999999999999987654443

>COG1161 Predicted GTPases [General function prediction only]

Probab=97.71  E-value=0.0002  Score=42.95  Aligned_cols=48  Identities=19%  Similarity=0.315  Sum_probs=32.7

Q ss_pred             eeeEEEEECCCCChHHHHHHHHhcCcCcCCCccceeeEeEEEEEEECCe
Q 035301           11 YLFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQVTNF   59 (68)
Q Consensus        11 ~~~ki~~iG~~~vGKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~   59 (68)
                      ...+++++|-++|||||+++++++..-. ...+.-|..-..+.+.++..
T Consensus       131 ~~~~v~vvG~PNVGKSslIN~L~~k~~~-~~s~~PG~Tk~~q~i~~~~~  178 (322)
T COG1161         131 RKIRVGVVGYPNVGKSTLINRLLGKKVA-KTSNRPGTTKGIQWIKLDDG  178 (322)
T ss_pred             cceEEEEEcCCCCcHHHHHHHHhcccce-eeCCCCceecceEEEEcCCC
Confidence            3578999999999999999999987652 12222254444455555544

>TIGR03719 ABC_ABC_ChvD ATP-binding cassette protein, ChvD family

Probab=97.71  E-value=5.6e-05  Score=47.89  Aligned_cols=28  Identities=29%  Similarity=0.411  Sum_probs=23.8

Q ss_pred             EEEEECCCCChHHHHHHHHhcCcCcCCC
Q 035301           14 KVVLIGDSGVGKSNLLSRFTRNEFCLES   41 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~~~~~~~~   41 (68)
                      .+.++|++|+|||||++.+++...+.++
T Consensus        33 ~~~liG~NGsGKSTLl~~i~G~~~p~~G   60 (552)
T TIGR03719        33 KIGVLGLNGAGKSTLLRIMAGVDKEFNG   60 (552)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCCCCCCc
Confidence            6899999999999999999987554444

Members of this protein family have two copies of the ABC transporter ATP-binding cassette, but are found outside the common ABC transporter operon structure that features integral membrane permease proteins and substrate-binding proteins encoded next to the ATP-binding cassette (ABC domain) protein. The member protein ChvD from Agrobacterium tumefaciens was identified as both a candidate to interact with VirB8, based on yeast two-hybrid analysis, and as an apparent regulator of VirG. The general function of this protein family is unknown.

>PRK13636 cbiO cobalt transporter ATP-binding subunit; Provisional

Probab=97.71  E-value=6.2e-05  Score=44.15  Aligned_cols=28  Identities=21%  Similarity=0.303  Sum_probs=23.7

Q ss_pred             EEEEECCCCChHHHHHHHHhcCcCcCCC
Q 035301           14 KVVLIGDSGVGKSNLLSRFTRNEFCLES   41 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~~~~~~~~   41 (68)
                      .+.++|++|+|||||++.+++...+.++
T Consensus        34 ~~~i~G~nGaGKSTLl~~i~Gl~~p~~G   61 (283)
T PRK13636         34 VTAILGGNGAGKSTLFQNLNGILKPSSG   61 (283)
T ss_pred             EEEEECCCCCCHHHHHHHHhcCCCCCcc
Confidence            6899999999999999999987654444

>PRK10762 D-ribose transporter ATP binding protein; Provisional

Probab=97.70  E-value=5.3e-05  Score=47.45  Aligned_cols=28  Identities=25%  Similarity=0.361  Sum_probs=23.6

Q ss_pred             EEEEECCCCChHHHHHHHHhcCcCcCCC
Q 035301           14 KVVLIGDSGVGKSNLLSRFTRNEFCLES   41 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~~~~~~~~   41 (68)
                      .+.++|++|+|||||++.+++...+.++
T Consensus        32 ~~~l~G~NGsGKSTLl~~l~G~~~p~~G   59 (501)
T PRK10762         32 VMALVGENGAGKSTMMKVLTGIYTRDAG   59 (501)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCCCCCCc
Confidence            6889999999999999999987655444

>COG4987 CydC ABC-type transport system involved in cytochrome bd biosynthesis, fused ATPase and permease components [Energy production and conversion / Posttranslational modification, protein turnover, chaperones]

Probab=97.70  E-value=5.7e-05  Score=48.01  Aligned_cols=32  Identities=34%  Similarity=0.401  Sum_probs=26.4

Q ss_pred             EEEEECCCCChHHHHHHHHhcCcCcCCCccce
Q 035301           14 KVVLIGDSGVGKSNLLSRFTRNEFCLESKSTI   45 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~~~~~~~~~~t~   45 (68)
                      |+.++|.+|+||||+++.+++.-.++++..+.
T Consensus       366 kvAIlG~SGsGKSTllqLl~~~~~~~~G~i~~  397 (573)
T COG4987         366 KVAILGRSGSGKSTLLQLLAGAWDPQQGSITL  397 (573)
T ss_pred             eEEEECCCCCCHHHHHHHHHhccCCCCCeeeE
Confidence            99999999999999999999866555554443

>PRK14247 phosphate ABC transporter ATP-binding protein; Provisional

Probab=97.70  E-value=4.6e-05  Score=43.74  Aligned_cols=23  Identities=48%  Similarity=0.624  Sum_probs=21.0

Q ss_pred             EEEEECCCCChHHHHHHHHhcCc
Q 035301           14 KVVLIGDSGVGKSNLLSRFTRNE   36 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~~~   36 (68)
                      .+.++|++|+|||||++.+++..
T Consensus        31 ~~~i~G~nGsGKSTLl~~i~G~~   53 (250)
T PRK14247         31 ITALMGPSGSGKSTLLRVFNRLI   53 (250)
T ss_pred             EEEEECCCCCCHHHHHHHHhccC
Confidence            68899999999999999999864

>cd02023 UMPK Uridine monophosphate kinase (UMPK, EC 2

Probab=97.70  E-value=4.1e-05  Score=42.57  Aligned_cols=21  Identities=24%  Similarity=0.490  Sum_probs=18.8

Q ss_pred             EEEECCCCChHHHHHHHHhcC
Q 035301           15 VVLIGDSGVGKSNLLSRFTRN   35 (68)
Q Consensus        15 i~~iG~~~vGKtsl~~~~~~~   35 (68)
                      +.+.|++|+|||||.+.+.+.
T Consensus         2 igi~G~~GsGKSTl~~~l~~~   22 (198)
T cd02023           2 IGIAGGSGSGKTTVAEEIIEQ   22 (198)
T ss_pred             EEEECCCCCCHHHHHHHHHHH
Confidence            679999999999999998764

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.

>PRK10790 putative multidrug transporter membrane\ATP-binding components; Provisional

Probab=97.70  E-value=5.6e-05  Score=48.11  Aligned_cols=30  Identities=33%  Similarity=0.333  Sum_probs=25.1

Q ss_pred             EEEEECCCCChHHHHHHHHhcCcCcCCCcc
Q 035301           14 KVVLIGDSGVGKSNLLSRFTRNEFCLESKS   43 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~~~~~~~~~~   43 (68)
                      ++.++|++|+|||||++.+++..-+..+..
T Consensus       369 ~iaIvG~SGsGKSTLl~lL~gl~~p~~G~I  398 (592)
T PRK10790        369 FVALVGHTGSGKSTLASLLMGYYPLTEGEI  398 (592)
T ss_pred             EEEEECCCCCCHHHHHHHHhcccCCCCceE
Confidence            789999999999999999998766555443

>PRK10522 multidrug transporter membrane component/ATP-binding component; Provisional

Probab=97.70  E-value=5.7e-05  Score=47.77  Aligned_cols=30  Identities=30%  Similarity=0.259  Sum_probs=24.9

Q ss_pred             EEEEECCCCChHHHHHHHHhcCcCcCCCcc
Q 035301           14 KVVLIGDSGVGKSNLLSRFTRNEFCLESKS   43 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~~~~~~~~~~   43 (68)
                      ++.++|++|+|||||++.+++...+.++..
T Consensus       351 ~~aivG~sGsGKSTL~~ll~g~~~~~~G~i  380 (547)
T PRK10522        351 LLFLIGGNGSGKSTLAMLLTGLYQPQSGEI  380 (547)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCCCCCCeEE
Confidence            899999999999999999998665544433

>PRK14737 gmk guanylate kinase; Provisional

Probab=97.70  E-value=4.5e-05  Score=42.47  Aligned_cols=23  Identities=17%  Similarity=0.297  Sum_probs=20.2

Q ss_pred             eEEEEECCCCChHHHHHHHHhcC
Q 035301           13 FKVVLIGDSGVGKSNLLSRFTRN   35 (68)
Q Consensus        13 ~ki~~iG~~~vGKtsl~~~~~~~   35 (68)
                      .-++++|++|+|||+|+++++..
T Consensus         5 ~~ivl~GpsG~GK~tl~~~l~~~   27 (186)
T PRK14737          5 KLFIISSVAGGGKSTIIQALLEE   27 (186)
T ss_pred             eEEEEECCCCCCHHHHHHHHHhc
Confidence            34889999999999999999864

>PRK11308 dppF dipeptide transporter ATP-binding subunit; Provisional

Probab=97.70  E-value=6.4e-05  Score=45.07  Aligned_cols=27  Identities=33%  Similarity=0.422  Sum_probs=23.1

Q ss_pred             EEEEECCCCChHHHHHHHHhcCcCcCC
Q 035301           14 KVVLIGDSGVGKSNLLSRFTRNEFCLE   40 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~~~~~~~   40 (68)
                      .+.++|++|+|||+|++.+++...+.+
T Consensus        43 ~~~IvG~sGsGKSTLl~~l~gl~~p~~   69 (327)
T PRK11308         43 TLAVVGESGCGKSTLARLLTMIETPTG   69 (327)
T ss_pred             EEEEECCCCCcHHHHHHHHHcCCCCCC
Confidence            689999999999999999998754433

>COG2884 FtsE Predicted ATPase involved in cell division [Cell division and chromosome partitioning]

Probab=97.69  E-value=5.4e-05  Score=42.87  Aligned_cols=31  Identities=39%  Similarity=0.353  Sum_probs=24.5

Q ss_pred             EEEEECCCCChHHHHHHHHhcCcCcCCCccc
Q 035301           14 KVVLIGDSGVGKSNLLSRFTRNEFCLESKST   44 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~~~~~~~~~~t   44 (68)
                      -+.++|+||+|||||++.+.....+..+...
T Consensus        30 f~fl~GpSGAGKSTllkLi~~~e~pt~G~i~   60 (223)
T COG2884          30 FVFLTGPSGAGKSTLLKLIYGEERPTRGKIL   60 (223)
T ss_pred             EEEEECCCCCCHHHHHHHHHhhhcCCCceEE
Confidence            3678899999999999999987666555433

>TIGR02982 heterocyst_DevA ABC exporter ATP-binding subunit, DevA family

Probab=97.69  E-value=6.7e-05  Score=42.35  Aligned_cols=26  Identities=35%  Similarity=0.418  Sum_probs=22.4

Q ss_pred             EEEEECCCCChHHHHHHHHhcCcCcC
Q 035301           14 KVVLIGDSGVGKSNLLSRFTRNEFCL   39 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~~~~~~   39 (68)
                      .+.++|++|+|||+|++.+++...+.
T Consensus        33 ~~~I~G~nGsGKStLl~~l~G~~~~~   58 (220)
T TIGR02982        33 IVILTGPSGSGKTTLLTLIGGLRSVQ   58 (220)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCCCCC
Confidence            78999999999999999999865433

Members of this protein family are found mostly in the Cyanobacteria, but also in the Planctomycetes. Cyanobacterial examples are involved in heterocyst formation, by which some fraction of members of the colony undergo a developmental change and become capable of nitrogen fixation. The DevBCA proteins are thought export of either heterocyst-specific glycolipids or an enzyme essential for formation of the laminated layer found in heterocysts.

>TIGR00235 udk uridine kinase

Probab=97.69  E-value=6.6e-05  Score=42.15  Aligned_cols=24  Identities=21%  Similarity=0.310  Sum_probs=20.9

Q ss_pred             eeEEEEECCCCChHHHHHHHHhcC
Q 035301           12 LFKVVLIGDSGVGKSNLLSRFTRN   35 (68)
Q Consensus        12 ~~ki~~iG~~~vGKtsl~~~~~~~   35 (68)
                      -.-+.++|++|+|||||++.+.+.
T Consensus         6 g~vi~I~G~sGsGKSTl~~~l~~~   29 (207)
T TIGR00235         6 GIIIGIGGGSGSGKTTVARKIYEQ   29 (207)
T ss_pred             eEEEEEECCCCCCHHHHHHHHHHH
Confidence            357899999999999999998853

Model contains a number of longer eukaryotic proteins and starts bringing in phosphoribulokinase hits at scores of 160 and below

>COG1618 Predicted nucleotide kinase [Nucleotide transport and metabolism]

Probab=97.69  E-value=0.00018  Score=39.70  Aligned_cols=48  Identities=21%  Similarity=0.344  Sum_probs=31.9

Q ss_pred             eeeEEEEECCCCChHHHHHHHHhcCcCcCCCccceeeEeEEEEEEECCeEE
Q 035301           11 YLFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQVTNFSS   61 (68)
Q Consensus        11 ~~~ki~~iG~~~vGKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~   61 (68)
                      ..+|+.+-|.+|||||+++.++++.--. .+ .++| -|.+..+.-+++++
T Consensus         4 ~~mki~ITG~PGvGKtTl~~ki~e~L~~-~g-~kvg-Gf~t~EVR~gGkR~   51 (179)
T COG1618           4 MAMKIFITGRPGVGKTTLVLKIAEKLRE-KG-YKVG-GFITPEVREGGKRI   51 (179)
T ss_pred             cceEEEEeCCCCccHHHHHHHHHHHHHh-cC-ceee-eEEeeeeecCCeEe
Confidence            4589999999999999999998853221 11 2333 24456666555554

>PRK09601 GTP-binding protein YchF; Reviewed

Probab=97.69  E-value=0.00014  Score=44.42  Aligned_cols=24  Identities=33%  Similarity=0.549  Sum_probs=22.4

Q ss_pred             eEEEEECCCCChHHHHHHHHhcCc
Q 035301           13 FKVVLIGDSGVGKSNLLSRFTRNE   36 (68)
Q Consensus        13 ~ki~~iG~~~vGKtsl~~~~~~~~   36 (68)
                      +++.++|.++||||||++++.+..
T Consensus         3 ~~vgIVG~PNvGKSTLfnaLt~~~   26 (364)
T PRK09601          3 LKCGIVGLPNVGKSTLFNALTKAG   26 (364)
T ss_pred             cEEEEECCCCCCHHHHHHHHhCCC
Confidence            689999999999999999999765

>PRK14267 phosphate ABC transporter ATP-binding protein; Provisional

Probab=97.69  E-value=5e-05  Score=43.66  Aligned_cols=24  Identities=46%  Similarity=0.588  Sum_probs=21.3

Q ss_pred             EEEEECCCCChHHHHHHHHhcCcC
Q 035301           14 KVVLIGDSGVGKSNLLSRFTRNEF   37 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~~~~   37 (68)
                      .+.++|++|+|||||++.+++...
T Consensus        32 ~~~l~G~nGsGKSTLl~~l~G~~~   55 (253)
T PRK14267         32 VFALMGPSGCGKSTLLRTFNRLLE   55 (253)
T ss_pred             EEEEECCCCCCHHHHHHHHhccCC
Confidence            578999999999999999998653

>cd02019 NK Nucleoside/nucleotide kinase (NK) is a protein superfamily consisting of multiple families of enzymes that share structural similarity and are functionally related to the catalysis of the reversible phosphate group transfer from nucleoside triphosphates to nucleosides/nucleotides, nucleoside monophosphates, or sugars

Probab=97.69  E-value=5.6e-05  Score=35.71  Aligned_cols=21  Identities=29%  Similarity=0.627  Sum_probs=18.7

Q ss_pred             EEEECCCCChHHHHHHHHhcC
Q 035301           15 VVLIGDSGVGKSNLLSRFTRN   35 (68)
Q Consensus        15 i~~iG~~~vGKtsl~~~~~~~   35 (68)
                      +++.|.+|+|||++.+.+...
T Consensus         2 i~i~G~~gsGKst~~~~l~~~   22 (69)
T cd02019           2 IAITGGSGSGKSTVAKKLAEQ   22 (69)
T ss_pred             EEEECCCCCCHHHHHHHHHHH
Confidence            678999999999999988864

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.

>PRK14241 phosphate transporter ATP-binding protein; Provisional

Probab=97.68  E-value=5.2e-05  Score=43.79  Aligned_cols=24  Identities=38%  Similarity=0.535  Sum_probs=21.6

Q ss_pred             EEEEECCCCChHHHHHHHHhcCcC
Q 035301           14 KVVLIGDSGVGKSNLLSRFTRNEF   37 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~~~~   37 (68)
                      .+.++|++|+|||||++.+++...
T Consensus        32 ~~~i~G~nGsGKSTLl~~laGl~~   55 (258)
T PRK14241         32 VTAFIGPSGCGKSTVLRTLNRMHE   55 (258)
T ss_pred             EEEEECCCCCCHHHHHHHHhccCC
Confidence            688999999999999999998654

>cd01130 VirB11-like_ATPase Type IV secretory pathway component VirB11, and related ATPases

Probab=97.68  E-value=7.4e-05  Score=41.38  Aligned_cols=25  Identities=24%  Similarity=0.372  Sum_probs=21.4

Q ss_pred             eEEEEECCCCChHHHHHHHHhcCcC
Q 035301           13 FKVVLIGDSGVGKSNLLSRFTRNEF   37 (68)
Q Consensus        13 ~ki~~iG~~~vGKtsl~~~~~~~~~   37 (68)
                      -.++++|++|+||||+++.+++.-.
T Consensus        26 ~~i~I~G~tGSGKTTll~aL~~~i~   50 (186)
T cd01130          26 KNILISGGTGSGKTTLLNALLAFIP   50 (186)
T ss_pred             CEEEEECCCCCCHHHHHHHHHhhcC
Confidence            4689999999999999999886543

The homohexamer, VirB11 is one of eleven Vir proteins, which are required for T-pilus biogenesis and virulence in the transfer of T-DNA from the Ti (tumor-inducing) plasmid of bacterial to plant cells. The pilus is a fibrous cell surface organelle, which mediates adhesion between bacteria during conjugative transfer or between bacteria and host eukaryotic cells during infection. VirB11- related ATPases include the archaeal flagella biosynthesis protein and the pilus assembly proteins CpaF/TadA and TrbB. This alignment contains the C-terminal domain, which is the ATPase.

>PRK14239 phosphate transporter ATP-binding protein; Provisional

Probab=97.68  E-value=5.2e-05  Score=43.51  Aligned_cols=22  Identities=50%  Similarity=0.664  Sum_probs=20.4

Q ss_pred             EEEEECCCCChHHHHHHHHhcC
Q 035301           14 KVVLIGDSGVGKSNLLSRFTRN   35 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~~   35 (68)
                      .+.++|++|+|||||++.+++.
T Consensus        33 ~~~i~G~nGsGKSTLl~~l~Gl   54 (252)
T PRK14239         33 ITALIGPSGSGKSTLLRSINRM   54 (252)
T ss_pred             EEEEECCCCCCHHHHHHHHhcc
Confidence            5899999999999999999875

>cd03217 ABC_FeS_Assembly ABC-type transport system involved in Fe-S cluster assembly, ATPase component

Probab=97.68  E-value=7.6e-05  Score=41.70  Aligned_cols=22  Identities=32%  Similarity=0.472  Sum_probs=20.7

Q ss_pred             EEEEECCCCChHHHHHHHHhcC
Q 035301           14 KVVLIGDSGVGKSNLLSRFTRN   35 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~~   35 (68)
                      .+.++|++|+|||+|++.+++.
T Consensus        28 ~~~i~G~nGsGKStLl~~l~G~   49 (200)
T cd03217          28 VHALMGPNGSGKSTLAKTIMGH   49 (200)
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            6889999999999999999986

Biosynthesis of iron-sulfur clusters (Fe-S) depends on multiprotein systems. The SUF system of E. coli and Erwinia chrysanthemi is important for Fe-S biogenesis under stressful conditions. The SUF system is made of six proteins: SufC is an atypical cytoplasmic ABC-ATPase, which forms a complex with SufB and SufD; SufA plays the role of a scaffold protein for assembly of iron-sulfur clusters and delivery to target proteins; SufS is a cysteine desulfurase which mobilizes the sulfur atom from cysteine and provides it to the cluster; SufE has no associated function yet.

>COG1134 TagH ABC-type polysaccharide/polyol phosphate transport system, ATPase component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]

Probab=97.67  E-value=7.5e-05  Score=43.34  Aligned_cols=31  Identities=32%  Similarity=0.355  Sum_probs=25.9

Q ss_pred             EEEEECCCCChHHHHHHHHhcCcCcCCCccc
Q 035301           14 KVVLIGDSGVGKSNLLSRFTRNEFCLESKST   44 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~~~~~~~~~~t   44 (68)
                      ++.++|.+|+|||||++.+++-..|..+...
T Consensus        55 ~vGiiG~NGaGKSTLlkliaGi~~Pt~G~v~   85 (249)
T COG1134          55 RVGIIGHNGAGKSTLLKLIAGIYKPTSGKVK   85 (249)
T ss_pred             EEEEECCCCCcHHHHHHHHhCccCCCCceEE
Confidence            7899999999999999999987666555443

>TIGR03375 type_I_sec_LssB type I secretion system ATPase, LssB family

Probab=97.67  E-value=6.6e-05  Score=48.62  Aligned_cols=32  Identities=34%  Similarity=0.351  Sum_probs=26.1

Q ss_pred             EEEEECCCCChHHHHHHHHhcCcCcCCCccce
Q 035301           14 KVVLIGDSGVGKSNLLSRFTRNEFCLESKSTI   45 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~~~~~~~~~~t~   45 (68)
                      ++.++|++|+|||||++.+++...+.++...+
T Consensus       493 ~iaIvG~sGsGKSTLlklL~gl~~p~~G~I~i  524 (694)
T TIGR03375       493 KVAIIGRIGSGKSTLLKLLLGLYQPTEGSVLL  524 (694)
T ss_pred             EEEEECCCCCCHHHHHHHHhcCCCCCCceEEE
Confidence            78999999999999999999876665554333

Type I protein secretion is a system in some Gram-negative bacteria to export proteins (often proteases) across both inner and outer membranes to the extracellular medium. This is one of three proteins of the type I secretion apparatus. Targeted proteins are not cleaved at the N-terminus, but rather carry signals located toward the extreme C-terminus to direct type I secretion. This model is related to models TIGR01842 and TIGR01846, and to bacteriocin ABC transporters that cleave their substrates during export.

>PRK14274 phosphate ABC transporter ATP-binding protein; Provisional

Probab=97.67  E-value=5.3e-05  Score=43.75  Aligned_cols=23  Identities=30%  Similarity=0.472  Sum_probs=20.9

Q ss_pred             EEEEECCCCChHHHHHHHHhcCc
Q 035301           14 KVVLIGDSGVGKSNLLSRFTRNE   36 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~~~   36 (68)
                      .+.++|++|+|||||++.+++..
T Consensus        40 ~~~l~G~nGsGKSTLl~~l~G~~   62 (259)
T PRK14274         40 VTAIIGPSGCGKSTFIKTLNLMI   62 (259)
T ss_pred             EEEEECCCCCCHHHHHHHHHhhc
Confidence            58899999999999999999754

>cd03213 ABCG_EPDR ABCG transporters are involved in eye pigment (EP) precursor transport, regulation of lipid-trafficking mechanisms, and pleiotropic drug resistance (DR)

Probab=97.67  E-value=7.6e-05  Score=41.54  Aligned_cols=23  Identities=35%  Similarity=0.598  Sum_probs=21.2

Q ss_pred             EEEEECCCCChHHHHHHHHhcCc
Q 035301           14 KVVLIGDSGVGKSNLLSRFTRNE   36 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~~~   36 (68)
                      .+.++|++|+|||+|++.+++..
T Consensus        37 ~~~l~G~nGsGKStLl~~i~Gl~   59 (194)
T cd03213          37 LTAIMGPSGAGKSTLLNALAGRR   59 (194)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCC
Confidence            68899999999999999999865

DR is a well-described phenomenon occurring in fungi and shares several similarities with processes in bacteria and higher eukaryotes. Compared to other members of the ABC transporter subfamilies, the ABCG transporter family is composed of proteins that have an ATP-binding cassette domain at the N-terminus and a TM (transmembrane) domain at the C-terminus.

>PRK11160 cysteine/glutathione ABC transporter membrane/ATP-binding component; Reviewed

Probab=97.67  E-value=6.7e-05  Score=47.74  Aligned_cols=32  Identities=38%  Similarity=0.468  Sum_probs=26.5

Q ss_pred             EEEEECCCCChHHHHHHHHhcCcCcCCCccce
Q 035301           14 KVVLIGDSGVGKSNLLSRFTRNEFCLESKSTI   45 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~~~~~~~~~~t~   45 (68)
                      ++.++|++|+|||||++.+++...+.++...+
T Consensus       368 ~~aivG~sGsGKSTL~~ll~g~~~p~~G~I~i  399 (574)
T PRK11160        368 KVALLGRTGCGKSTLLQLLTRAWDPQQGEILL  399 (574)
T ss_pred             EEEEECCCCCCHHHHHHHHhcCCCCCCceEEE
Confidence            88999999999999999999876665554443

>PF13401 AAA_22: AAA domain; PDB: 2QBY_B 1FNN_B 1W5T_A 1W5S_B

Probab=97.67  E-value=4.6e-05  Score=39.41  Aligned_cols=23  Identities=35%  Similarity=0.647  Sum_probs=18.6

Q ss_pred             EEEEECCCCChHHHHHHHHhcCc
Q 035301           14 KVVLIGDSGVGKSNLLSRFTRNE   36 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~~~   36 (68)
                      -+++.|++|+|||+++.+++...
T Consensus         6 ~~~i~G~~G~GKT~~~~~~~~~~   28 (131)
T PF13401_consen    6 ILVISGPPGSGKTTLIKRLARQL   28 (131)
T ss_dssp             -EEEEE-TTSSHHHHHHHHHHHH
T ss_pred             ccEEEcCCCCCHHHHHHHHHHHh
Confidence            57899999999999999998643

>PF04665 Pox_A32: Poxvirus A32 protein; InterPro: IPR006758 This entry contains uncharacterised proteins belonging to the B354L family which include the pox virus A32 protein

Probab=97.67  E-value=5.3e-05  Score=43.90  Aligned_cols=25  Identities=36%  Similarity=0.656  Sum_probs=21.7

Q ss_pred             ceeeEEEEECCCCChHHHHHHHHhc
Q 035301           10 DYLFKVVLIGDSGVGKSNLLSRFTR   34 (68)
Q Consensus        10 ~~~~ki~~iG~~~vGKtsl~~~~~~   34 (68)
                      +..++++++|.+|+|||+++..+..
T Consensus        11 ~~~fr~viIG~sGSGKT~li~~lL~   35 (241)
T PF04665_consen   11 KDPFRMVIIGKSGSGKTTLIKSLLY   35 (241)
T ss_pred             CCCceEEEECCCCCCHHHHHHHHHH
Confidence            4468999999999999999888774

This is thought to be an ATPase involved in viral DNA packaging [].

>cd03232 ABC_PDR_domain2 The pleiotropic drug resistance-like (PDR) family of ATP-binding cassette (ABC) transporters

Probab=97.67  E-value=5.9e-05  Score=41.90  Aligned_cols=23  Identities=35%  Similarity=0.640  Sum_probs=20.8

Q ss_pred             EEEEECCCCChHHHHHHHHhcCc
Q 035301           14 KVVLIGDSGVGKSNLLSRFTRNE   36 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~~~   36 (68)
                      .+.++|++|+|||||++.+++..
T Consensus        35 ~~~l~G~nGsGKSTLl~~l~G~~   57 (192)
T cd03232          35 LTALMGESGAGKTTLLDVLAGRK   57 (192)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCC
Confidence            67899999999999999999853

PDR is a well-described phenomenon occurring in fungi and shares several similarities with processes in bacteria and higher eukaryotes. This PDR subfamily represents domain I of its (ABC-IM)2 organization. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds including sugars, ions, peptides, and more complex organic molecules. The nucleotide binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>PRK13640 cbiO cobalt transporter ATP-binding subunit; Provisional

Probab=97.66  E-value=7.9e-05  Score=43.69  Aligned_cols=26  Identities=27%  Similarity=0.243  Sum_probs=22.6

Q ss_pred             EEEEECCCCChHHHHHHHHhcCcCcC
Q 035301           14 KVVLIGDSGVGKSNLLSRFTRNEFCL   39 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~~~~~~   39 (68)
                      .+.++|++|+|||||++.+++...+.
T Consensus        35 ~~~I~G~nGaGKSTLl~~l~G~~~p~   60 (282)
T PRK13640         35 WTALIGHNGSGKSTISKLINGLLLPD   60 (282)
T ss_pred             EEEEECCCCCcHHHHHHHHhcccCCC
Confidence            68999999999999999999875443

>COG4917 EutP Ethanolamine utilization protein [Amino acid transport and metabolism]

Probab=97.66  E-value=4e-05  Score=40.71  Aligned_cols=36  Identities=31%  Similarity=0.514  Sum_probs=28.3

Q ss_pred             eEEEEECCCCChHHHHHHHHhcCcCcCCCccceeeEeE
Q 035301           13 FKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFA   50 (68)
Q Consensus        13 ~ki~~iG~~~vGKtsl~~~~~~~~~~~~~~~t~~~~~~   50 (68)
                      -|++++|..|+|||+|++.+.+...  .|.-|..++|.
T Consensus         2 Kri~~vG~~gcGKTtL~q~L~G~~~--lykKTQAve~~   37 (148)
T COG4917           2 KRIAFVGQVGCGKTTLFQSLYGNDT--LYKKTQAVEFN   37 (148)
T ss_pred             ceeEEecccccCchhHHHHhhcchh--hhcccceeecc
Confidence            4799999999999999999998764  34455566664

>COG4619 ABC-type uncharacterized transport system, ATPase component [General function prediction only]

Probab=97.66  E-value=8.5e-05  Score=41.60  Aligned_cols=28  Identities=29%  Similarity=0.278  Sum_probs=22.7

Q ss_pred             EEEEECCCCChHHHHHHHHhcCcCcCCC
Q 035301           14 KVVLIGDSGVGKSNLLSRFTRNEFCLES   41 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~~~~~~~~   41 (68)
                      .+.+.|++|+|||+|++.++....+..+
T Consensus        31 ~iaitGPSG~GKStllk~va~Lisp~~G   58 (223)
T COG4619          31 FIAITGPSGCGKSTLLKIVASLISPTSG   58 (223)
T ss_pred             eEEEeCCCCccHHHHHHHHHhccCCCCc
Confidence            5789999999999999999876544433

>PRK09700 D-allose transporter ATP-binding protein; Provisional

Probab=97.66  E-value=6.6e-05  Score=47.08  Aligned_cols=28  Identities=25%  Similarity=0.364  Sum_probs=23.3

Q ss_pred             EEEEECCCCChHHHHHHHHhcCcCcCCC
Q 035301           14 KVVLIGDSGVGKSNLLSRFTRNEFCLES   41 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~~~~~~~~   41 (68)
                      .+.++|++|+|||||++.+++...+..+
T Consensus        33 ~~~liG~nGsGKSTLl~~i~Gl~~p~~G   60 (510)
T PRK09700         33 IHALLGENGAGKSTLMKVLSGIHEPTKG   60 (510)
T ss_pred             EEEEECCCCCCHHHHHHHHcCCcCCCcc
Confidence            6889999999999999999986544433

>PF05729 NACHT: NACHT domain

Probab=97.65  E-value=5.3e-05  Score=40.32  Aligned_cols=20  Identities=35%  Similarity=0.710  Sum_probs=18.2

Q ss_pred             EEEECCCCChHHHHHHHHhc
Q 035301           15 VVLIGDSGVGKSNLLSRFTR   34 (68)
Q Consensus        15 i~~iG~~~vGKtsl~~~~~~   34 (68)
                      +++.|+.|+|||+++..++.
T Consensus         3 l~I~G~~G~GKStll~~~~~   22 (166)
T PF05729_consen    3 LWISGEPGSGKSTLLRKLAQ   22 (166)
T ss_pred             EEEECCCCCChHHHHHHHHH
Confidence            68999999999999998885

>PRK10261 glutathione transporter ATP-binding protein; Provisional

Probab=97.65  E-value=7.3e-05  Score=48.08  Aligned_cols=28  Identities=25%  Similarity=0.264  Sum_probs=23.7

Q ss_pred             EEEEECCCCChHHHHHHHHhcCcCcCCC
Q 035301           14 KVVLIGDSGVGKSNLLSRFTRNEFCLES   41 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~~~~~~~~   41 (68)
                      .+.++|++|+|||||++.+++...+..+
T Consensus        44 ~~~lvG~nGsGKSTLl~~l~Gll~p~~G   71 (623)
T PRK10261         44 TLAIVGESGSGKSVTALALMRLLEQAGG   71 (623)
T ss_pred             EEEEECCCCChHHHHHHHHHcCCCCCCe
Confidence            6899999999999999999987554444

>cd03288 ABCC_SUR2 The SUR domain 2

Probab=97.65  E-value=8.9e-05  Score=42.86  Aligned_cols=28  Identities=36%  Similarity=0.423  Sum_probs=23.3

Q ss_pred             EEEEECCCCChHHHHHHHHhcCcCcCCC
Q 035301           14 KVVLIGDSGVGKSNLLSRFTRNEFCLES   41 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~~~~~~~~   41 (68)
                      .+.++|++|+|||+|++.+++...+.++
T Consensus        49 ~~~i~G~nGsGKSTLl~~l~Gl~~~~~G   76 (257)
T cd03288          49 KVGICGRTGSGKSSLSLAFFRMVDIFDG   76 (257)
T ss_pred             EEEEECCCCCCHHHHHHHHHcccCCCCC
Confidence            6889999999999999999986544444

The sulfonylurea receptor SUR is an ATP binding cassette (ABC) protein of the ABCC/MRP family. Unlike other ABC proteins, it has no intrinsic transport function, neither active nor passive, but associates with the potassium channel proteins Kir6.1 or Kir6.2 to form the ATP-sensitive potassium (K(ATP)) channel. Within the channel complex, SUR serves as a regulatory subunit that fine-tunes the gating of Kir6.x in response to alterations in cellular metabolism. It constitutes a major pharmaceutical target as it binds numerous drugs, K(ATP) channel openers and blockers, capable of up- or down-regulating channel activity.

>PRK15079 oligopeptide ABC transporter ATP-binding protein OppF; Provisional

Probab=97.65  E-value=7.3e-05  Score=44.92  Aligned_cols=28  Identities=21%  Similarity=0.330  Sum_probs=23.2

Q ss_pred             EEEEECCCCChHHHHHHHHhcCcCcCCC
Q 035301           14 KVVLIGDSGVGKSNLLSRFTRNEFCLES   41 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~~~~~~~~   41 (68)
                      .+.++|++|+|||+|++.+++...+.++
T Consensus        49 ~~~lvG~sGsGKSTLlk~i~Gl~~p~~G   76 (331)
T PRK15079         49 TLGVVGESGCGKSTFARAIIGLVKATDG   76 (331)
T ss_pred             EEEEECCCCCCHHHHHHHHHCCCCCCCc
Confidence            4889999999999999999986644433

>PRK13547 hmuV hemin importer ATP-binding subunit; Provisional

Probab=97.65  E-value=8e-05  Score=43.59  Aligned_cols=25  Identities=32%  Similarity=0.480  Sum_probs=21.8

Q ss_pred             EEEEECCCCChHHHHHHHHhcCcCc
Q 035301           14 KVVLIGDSGVGKSNLLSRFTRNEFC   38 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~~~~~   38 (68)
                      .+.++|++|+|||||++.+++..-+
T Consensus        29 ~~~l~G~nGsGKSTLl~~laG~~~p   53 (272)
T PRK13547         29 VTALLGRNGAGKSTLLKALAGDLTG   53 (272)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCCCC
Confidence            5889999999999999999986533

>CHL00131 ycf16 sulfate ABC transporter protein; Validated

Probab=97.65  E-value=5.7e-05  Score=43.37  Aligned_cols=22  Identities=27%  Similarity=0.425  Sum_probs=20.5

Q ss_pred             EEEEECCCCChHHHHHHHHhcC
Q 035301           14 KVVLIGDSGVGKSNLLSRFTRN   35 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~~   35 (68)
                      .+.++|++|+|||||++.+++.
T Consensus        35 ~~~i~G~nGsGKSTLl~~i~Gl   56 (252)
T CHL00131         35 IHAIMGPNGSGKSTLSKVIAGH   56 (252)
T ss_pred             EEEEECCCCCCHHHHHHHHcCC
Confidence            6889999999999999999985

>PRK10744 pstB phosphate transporter ATP-binding protein; Provisional

Probab=97.64  E-value=6.3e-05  Score=43.52  Aligned_cols=23  Identities=48%  Similarity=0.674  Sum_probs=20.9

Q ss_pred             EEEEECCCCChHHHHHHHHhcCc
Q 035301           14 KVVLIGDSGVGKSNLLSRFTRNE   36 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~~~   36 (68)
                      .+.++|++|+|||||++.+++..
T Consensus        41 ~~~i~G~nGsGKSTLl~~l~Gl~   63 (260)
T PRK10744         41 VTAFIGPSGCGKSTLLRTFNRMY   63 (260)
T ss_pred             EEEEECCCCCCHHHHHHHHhccc
Confidence            57899999999999999999864

>COG1119 ModF ABC-type molybdenum transport system, ATPase component/photorepair protein PhrA [Inorganic ion transport and metabolism]

Probab=97.64  E-value=8.6e-05  Score=43.23  Aligned_cols=29  Identities=28%  Similarity=0.394  Sum_probs=24.8

Q ss_pred             EEEEECCCCChHHHHHHHHhcCcCcCCCc
Q 035301           14 KVVLIGDSGVGKSNLLSRFTRNEFCLESK   42 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~~~~~~~~~   42 (68)
                      +-+++|++|+|||||++.+++..++.+..
T Consensus        59 ~W~I~G~NGsGKTTLL~ll~~~~~pssg~   87 (257)
T COG1119          59 HWAIVGPNGAGKTTLLSLLTGEHPPSSGD   87 (257)
T ss_pred             cEEEECCCCCCHHHHHHHHhcccCCCCCc
Confidence            67899999999999999999888775443

>smart00053 DYNc Dynamin, GTPase

Probab=97.64  E-value=8.9e-05  Score=42.93  Aligned_cols=27  Identities=30%  Similarity=0.613  Sum_probs=23.8

Q ss_pred             eeeEEEEECCCCChHHHHHHHHhcCcC
Q 035301           11 YLFKVVLIGDSGVGKSNLLSRFTRNEF   37 (68)
Q Consensus        11 ~~~ki~~iG~~~vGKtsl~~~~~~~~~   37 (68)
                      ....++++|+.|+||||+++.+++..+
T Consensus        25 ~~p~i~vvG~~~~GKSt~l~~i~g~~~   51 (240)
T smart00053       25 DLPQIAVVGGQSAGKSSVLENFVGRDF   51 (240)
T ss_pred             CCCeEEEEcCCCccHHHHHHHHhCCCc
Confidence            356899999999999999999998763

Large GTPases that mediate vesicle trafficking. Dynamin participates in the endocytic uptake of receptors, associated ligands, and plasma membrane following an exocytic event.

>PRK10789 putative multidrug transporter membrane\ATP-binding components; Provisional

Probab=97.64  E-value=7.7e-05  Score=47.41  Aligned_cols=29  Identities=34%  Similarity=0.383  Sum_probs=24.5

Q ss_pred             EEEEECCCCChHHHHHHHHhcCcCcCCCc
Q 035301           14 KVVLIGDSGVGKSNLLSRFTRNEFCLESK   42 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~~~~~~~~~   42 (68)
                      ++.++|++|+|||||++.+++...+.++.
T Consensus       343 ~~~ivG~sGsGKSTLl~ll~g~~~p~~G~  371 (569)
T PRK10789        343 MLGICGPTGSGKSTLLSLIQRHFDVSEGD  371 (569)
T ss_pred             EEEEECCCCCCHHHHHHHHhcccCCCCCE
Confidence            78999999999999999999876555544

>PRK15439 autoinducer 2 ABC transporter ATP-binding protein LsrA; Provisional

Probab=97.64  E-value=7.8e-05  Score=46.87  Aligned_cols=28  Identities=25%  Similarity=0.241  Sum_probs=23.4

Q ss_pred             EEEEECCCCChHHHHHHHHhcCcCcCCC
Q 035301           14 KVVLIGDSGVGKSNLLSRFTRNEFCLES   41 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~~~~~~~~   41 (68)
                      .+.++|++|+|||||++.+++...+.++
T Consensus        39 ~~~liG~NGsGKSTLl~~l~Gl~~p~~G   66 (510)
T PRK15439         39 VHALLGGNGAGKSTLMKIIAGIVPPDSG   66 (510)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCCCCCce
Confidence            5889999999999999999987554443

>PRK14240 phosphate transporter ATP-binding protein; Provisional

Probab=97.64  E-value=6.5e-05  Score=43.12  Aligned_cols=23  Identities=43%  Similarity=0.654  Sum_probs=20.8

Q ss_pred             EEEEECCCCChHHHHHHHHhcCc
Q 035301           14 KVVLIGDSGVGKSNLLSRFTRNE   36 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~~~   36 (68)
                      .+.++|++|+|||||++.+++..
T Consensus        31 ~~~i~G~nGsGKSTLl~~i~G~~   53 (250)
T PRK14240         31 VTALIGPSGCGKSTFLRTLNRMN   53 (250)
T ss_pred             EEEEECCCCCCHHHHHHHHhccc
Confidence            58899999999999999999853

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	68
1oiv_A	191	X-Ray Structure Of The Small G Protein Rab11a In Co		6e-22
1oiw_A	191	X-ray Structure Of The Small G Protein Rab11a In Co		6e-22
2gzd_A	173	Crystal Structure Of Rab11 In Complex With Rab11-Fi		6e-22
2hv8_A	172	Crystal Structure Of Gtp-Bound Rab11 In Complex Wit		3e-21
2d7c_A	167	Crystal Structure Of Human Rab11 In Complex With Fi		5e-21
2f9l_A	199	3d Structure Of Inactive Human Rab11b Gtpase Length		1e-20
1yzk_A	184	Gppnhp Bound Rab11 Gtpase Length = 184		2e-20
3bfk_A	181	Crystal Structure Of Plasmodium Falciparum Rab11a I		9e-20
3rwm_B	185	Crystal Structure Of Ypt32 In Complex With Gppnhp L		2e-19
3cpj_B	223	Crystal Structure Of Ypt31 In Complex With Yeast Ra		1e-18
2oil_A	193	Crystal Structure Of Human Rab25 In Complex With Gd		2e-16
3tso_A	178	Structure Of The Cancer Associated Rab25 Protein In		7e-16
2fol_A	191	Crystal Structure Of Human Rab1a In Complex With Gd		8e-11
2rhd_A	175	Crystal Structure Of Cryptosporidium Parvum Small G		3e-10
2wwx_A	175	Crystal Structure Of The SidmDRRA(GEFGDF DOMAIN)-Ra		3e-10
3jza_A	175	Crystal Structure Of Human Rab1b In Complex With Th		4e-10
4i1o_A	181	Crystal Structure Of The Legionella Pneumophila Gap		4e-10
3tkl_A	196	Crystal Structure Of The Gtp-Bound Rab1a In Complex		4e-10
4fmc_B	171	Espg-Rab1 Complex Length = 171		4e-10
3l0i_B	199	Complex Structure Of Sidm/drra With The Wild Type R		5e-10
1z0f_A	179	Gdp-Bound Rab14 Gtpase Length = 179		6e-10
4drz_A	196	Crystal Structure Of Human Rab14 Length = 196		7e-10
3tw8_B	181	Gef Domain Of Dennd 1b In Complex With Rab Gtpase R		7e-10
3sfv_A	181	Crystal Structure Of The Gdp-Bound Rab1a S25n Mutan		8e-10
2ew1_A	201	Crystal Structure Of Rab30 In Complex With A Gtp An		1e-09
2hup_A	201	Crystal Structure Of Human Rab43 In Complex With Gd		1e-09
1yzn_A	185	Gppnhp-Bound Ypt1p Gtpase Length = 185		3e-09
2bcg_Y	206	Structure Of Doubly Prenylated Ypt1:gdi Complex Len		3e-09
1ukv_Y	206	Structure Of Rabgdp-Dissociation Inhibitor In Compl		3e-09
4fmb_B	171	Vira-Rab1 Complex Structure Length = 171		4e-09
2fu5_C	183	Structure Of Rab8 In Complex With Mss4 Length = 183		8e-09
2il1_A	192	Crystal Structure Of A Predicted Human Gtpase In Co		3e-08
2ocb_A	180	Crystal Structure Of Human Rab9b In Complex With A		5e-08
3qbt_A	174	Crystal Structure Of Ocrl1 540-678 In Complex With		6e-08
1wms_A	177	High Resolution Crystal Structure Of Human Rab9 Gtp		8e-08
1s8f_A	177	Crystal Structure Of Rab9 Complexed To Gdp Reveals		9e-08
1yu9_A	175	Gppnhp-Bound Rab4a Length = 175		9e-08
1z0k_A	172	Structure Of Gtp-Bound Rab4q67l Gtpase In Complex W		1e-07
2bmd_A	186	High Resolution Structure Of Gdp-Bound Human Rab4a		1e-07
2o52_A	200	Crystal Structure Of Human Rab4b In Complex With Gd		1e-07
3cph_A	213	Crystal Structure Of Sec4 In Complex With Rab-Gdi L		2e-07
1yzl_A	179	Gppnhp-Bound Rab9 Gtpase Length = 179		2e-07
1z0a_A	174	Gdp-Bound Rab2a Gtpase Length = 174		2e-07
1x3s_A	195	Crystal Structure Of Human Rab18 In Complex With Gp		3e-07
2if0_A	200	Crystal Structure Of Mouse Rab27b Bound To Gdp In M		4e-07
2iey_A	195	Crystal Structure Of Mouse Rab27b Bound To Gdp In H		5e-07
2zet_A	203	Crystal Structure Of The Small Gtpase Rab27b Comple		5e-07
2f7s_A	217	The Crystal Structure Of Human Rab27b Bound To Gdp		5e-07
2iez_A	220	Crystal Structure Of Mouse Rab27b Bound To Gdp In M		6e-07
2a5j_A	191	Crystal Structure Of Human Rab2b Length = 191		7e-07
1g17_A	170	Crystal Structure Of Sec4-Guanosine-5'-(Beta,Gamma)		8e-07
1g16_A	170	Crystal Structure Of Sec4-Gdp Length = 170		2e-06
2ocy_C	170	Complex Of The Guanine Exchange Factor Sec2p And Th		2e-06
1ky2_A	182	Gppnhp-Bound Ypt7p At 1.6 A Resolution Length = 182		2e-06
1vg1_A	185	Gdp-bound Rab7 Length = 185		2e-06
2g6b_A	180	Crystal Structure Of Human Rab26 In Complex With A		3e-06
1z0j_A	170	Structure Of Gtp-Bound Rab22q64l Gtpase In Complex		3e-06
2eqb_A	174	Crystal Structure Of The Rab Gtpase Sec4p, The Sec2		3e-06
1t91_A	207	Crystal Structure Of Human Small Gtpase Rab7(Gtp) L		4e-06
1vg0_B	207	The Crystal Structures Of The Rep-1 Protein In Comp		4e-06
1yvd_A	169	Gppnhp-Bound Rab22 Gtpase Length = 169		4e-06
3law_A	207	Structure Of Gtp-Bound L129f Mutant Rab7 Length = 2		5e-06
4fmd_F	164	Espg-Rab1 Complex Structure At 3.05 A Length = 164		6e-06
3rab_A	169	Gppnhp-bound Rab3a At 2.0 A Resolution Length = 169		6e-06
2fg5_A	192	Crystal Structure Of Human Rab31 In Complex With A		9e-06
1huq_A	164	1.8a Crystal Structure Of The Monomeric Gtpase Rab5		1e-05
1z0d_A	167	Gdp-bound Rab5c Gtpase Length = 167		1e-05
3bc1_A	195	Crystal Structure Of The Complex Rab27a-slp2a Lengt		1e-05
2efc_B	181	Ara7-GdpATVPS9A Length = 181		1e-05
2p5s_A	199	Rab Domain Of Human Rasef In Complex With Gdp Lengt		1e-05
2gf9_A	189	Crystal Structure Of Human Rab3d In Complex With Gd		1e-05
1zbd_A	203	Structural Basis Of Rab Effector Specificity: Cryst		1e-05
3dz8_A	191	Crystal Structure Of Human Rab3b Gtpase Bound With		2e-05
3mjh_A	168	Crystal Structure Of Human Rab5a In Complex With Th		2e-05
1tu3_A	171	Crystal Structure Of Rab5 Complex With Rabaptin5 C-		2e-05
4fmc_F	117	Espg-Rab1 Complex Length = 117		2e-05
1n6h_A	170	Crystal Structure Of Human Rab5a Length = 170		2e-05
2g77_B	198	Crystal Structure Of Gyp1 Tbc Domain In Complex Wit		2e-05
1tu4_A	171	Crystal Structure Of Rab5-Gdp Complex Length = 171		2e-05
1z06_A	189	Gppnhp-Bound Rab33 Gtpase Length = 189		2e-05
1z22_A	168	Gdp-Bound Rab23 Gtpase Crystallized In C222(1) Spac		2e-05
2hei_A	179	Crystal Structure Of Human Rab5b In Complex With Gd		3e-05
1n6i_A	170	Crystal Structure Of Human Rab5a A30p Mutant Comple		3e-05
1n6o_A	170	Crystal Structure Of Human Rab5a A30k Mutant Comple		4e-05
1n6p_A	170	Crystal Structure Of Human Rab5a A30e Mutant Comple		5e-05
1n6n_A	170	Crystal Structure Of Human Rab5a A30r Mutant Comple		5e-05
1n6r_A	170	Crystal Structure Of Human Rab5a A30l Mutant Comple		7e-05
1z07_A	166	Gppnhp-Bound Rab5c G55q Mutant Gtpase Length = 166		8e-05
1z08_A	170	Gppnhp-Bound Rab21 Q53g Mutant Gtpase Length = 170		2e-04
1ek0_A	170	Gppnhp-Bound Ypt51 At 1.48 A Resolution Length = 17		3e-04
1d5c_A	162	Crystal Structure Of Plasmodium Falciparum Rab6 Com		4e-04
2gil_A	162	Structure Of The Extremely Slow Gtpase Rab6a In The		5e-04
1yzq_A	170	Gppnhp-Bound Rab6 Gtpase Length = 170		6e-04
2fe4_A	171	The Crystal Structure Of Human Neuronal Rab6b In It		6e-04
2y8e_A	179	Crystal Structure Of D. Melanogaster Rab6 Gtpase Bo		6e-04
3gj0_A	221	Crystal Structure Of Human Rangdp Length = 221		7e-04
3cwz_A	188	Strucure Of Rab6(Gtp)-R6ip1 Complex Length = 188		7e-04
4dkx_A	216	Crystal Structure Of The Rab 6a'(Q72l) Length = 216		8e-04
3bbp_A	211	Rab6-Gtp:gcc185 Rab Binding Domain Complex Length =		9e-04

>pdb|1OIV|A Chain A, X-Ray Structure Of The Small G Protein Rab11a In Complex With Gdp Length = 191

Iteration: 1
 Score = 99.0 bits (245), Expect = 6e-22,   Method: Compositional matrix adjust.
 Identities = 47/51 (92%), Positives = 50/51 (98%)
Query: 6  DEEYDYLFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQV 56
          D+EYDYLFKVVLIGDSGVGKSNLLSRFTRNEF LESKSTIGVEFATR++QV
Sbjct: 23 DDEYDYLFKVVLIGDSGVGKSNLLSRFTRNEFNLESKSTIGVEFATRSIQV 73

>pdb|1OIW|A Chain A, X-ray Structure Of The Small G Protein Rab11a In Complex With Gtpgammas Length = 191

Iteration: 1
 Score = 99.0 bits (245), Expect = 6e-22,   Method: Compositional matrix adjust.
 Identities = 47/51 (92%), Positives = 50/51 (98%)
Query: 6  DEEYDYLFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQV 56
          D+EYDYLFKVVLIGDSGVGKSNLLSRFTRNEF LESKSTIGVEFATR++QV
Sbjct: 23 DDEYDYLFKVVLIGDSGVGKSNLLSRFTRNEFNLESKSTIGVEFATRSIQV 73

>pdb|2GZD|A Chain A, Crystal Structure Of Rab11 In Complex With Rab11-Fip2 Length = 173

Iteration: 1
 Score = 99.0 bits (245), Expect = 6e-22,   Method: Compositional matrix adjust.
 Identities = 47/51 (92%), Positives = 50/51 (98%)
Query: 6  DEEYDYLFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQV 56
          D+EYDYLFKVVLIGDSGVGKSNLLSRFTRNEF LESKSTIGVEFATR++QV
Sbjct: 5  DDEYDYLFKVVLIGDSGVGKSNLLSRFTRNEFNLESKSTIGVEFATRSIQV 55

>pdb|2HV8|A Chain A, Crystal Structure Of Gtp-Bound Rab11 In Complex With Fip3 Length = 172

Iteration: 1
 Score = 96.7 bits (239), Expect = 3e-21,   Method: Compositional matrix adjust.
 Identities = 46/50 (92%), Positives = 49/50 (98%)
Query: 7  EEYDYLFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQV 56
          +EYDYLFKVVLIGDSGVGKSNLLSRFTRNEF LESKSTIGVEFATR++QV
Sbjct: 3  DEYDYLFKVVLIGDSGVGKSNLLSRFTRNEFNLESKSTIGVEFATRSIQV 52

>pdb|2D7C|A Chain A, Crystal Structure Of Human Rab11 In Complex With Fip3 Rab- Binding Domain Length = 167

Iteration: 1
 Score = 95.9 bits (237), Expect = 5e-21,   Method: Compositional matrix adjust.
 Identities = 46/49 (93%), Positives = 48/49 (97%)
Query: 8  EYDYLFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQV 56
          EYDYLFKVVLIGDSGVGKSNLLSRFTRNEF LESKSTIGVEFATR++QV
Sbjct: 1  EYDYLFKVVLIGDSGVGKSNLLSRFTRNEFNLESKSTIGVEFATRSIQV 49

>pdb|2F9L|A Chain A, 3d Structure Of Inactive Human Rab11b Gtpase Length = 199

Iteration: 1
 Score = 94.7 bits (234), Expect = 1e-20,   Method: Compositional matrix adjust.
 Identities = 45/48 (93%), Positives = 47/48 (97%)
Query: 9  YDYLFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQV 56
          YDYLFKVVLIGDSGVGKSNLLSRFTRNEF LESKSTIGVEFATR++QV
Sbjct: 2  YDYLFKVVLIGDSGVGKSNLLSRFTRNEFNLESKSTIGVEFATRSIQV 49

>pdb|1YZK|A Chain A, Gppnhp Bound Rab11 Gtpase Length = 184

Iteration: 1
 Score = 94.0 bits (232), Expect = 2e-20,   Method: Compositional matrix adjust.
 Identities = 45/48 (93%), Positives = 47/48 (97%)
Query: 9  YDYLFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQV 56
          YDYLFKVVLIGDSGVGKSNLLSRFTRNEF LESKSTIGVEFATR++QV
Sbjct: 17 YDYLFKVVLIGDSGVGKSNLLSRFTRNEFNLESKSTIGVEFATRSIQV 64

>pdb|3BFK|A Chain A, Crystal Structure Of Plasmodium Falciparum Rab11a In Complex With Gdp Length = 181

Iteration: 1
 Score = 91.7 bits (226), Expect = 9e-20,   Method: Compositional matrix adjust.
 Identities = 42/50 (84%), Positives = 48/50 (96%)
Query: 9  YDYLFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQVTN 58
          YDYLFK+VLIGDSGVGKSNLLSRFTR+EF LESKSTIGVEFAT+++Q+ N
Sbjct: 4  YDYLFKIVLIGDSGVGKSNLLSRFTRDEFNLESKSTIGVEFATKSIQLKN 53

>pdb|3RWM|B Chain B, Crystal Structure Of Ypt32 In Complex With Gppnhp Length = 185

Iteration: 1
 Score = 90.5 bits (223), Expect = 2e-19,   Method: Compositional matrix adjust.
 Identities = 42/51 (82%), Positives = 48/51 (94%)
Query: 8  EYDYLFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQVTN 58
          +YDYLFK+VLIGDSGVGKSNLLSRFT +EF +ESKSTIGVEFATRT++V N
Sbjct: 6  DYDYLFKIVLIGDSGVGKSNLLSRFTTDEFNIESKSTIGVEFATRTIEVEN 56

>pdb|3CPJ|B Chain B, Crystal Structure Of Ypt31 In Complex With Yeast Rab-Gdi Length = 223

Iteration: 1
 Score = 88.2 bits (217), Expect = 1e-18,   Method: Compositional matrix adjust.
 Identities = 40/49 (81%), Positives = 47/49 (95%)
Query: 8  EYDYLFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQV 56
          +YD LFK+VLIGDSGVGKSNLLSRFT+NEF ++SKSTIGVEFATRTL++
Sbjct: 9  DYDLLFKIVLIGDSGVGKSNLLSRFTKNEFNMDSKSTIGVEFATRTLEI 57

>pdb|2OIL|A Chain A, Crystal Structure Of Human Rab25 In Complex With Gdp Length = 193

Iteration: 1
 Score = 80.9 bits (198), Expect = 2e-16,   Method: Compositional matrix adjust.
 Identities = 36/56 (64%), Positives = 49/56 (87%)
Query: 1  MARRADEEYDYLFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQV 56
          +  R  E+Y+++FKVVLIG+SGVGK+NLLSRFTRNEF  +S++TIGVEF+TRT+ +
Sbjct: 14 LVPRGSEDYNFVFKVVLIGESGVGKTNLLSRFTRNEFSHDSRTTIGVEFSTRTVML 69

>pdb|3TSO|A Chain A, Structure Of The Cancer Associated Rab25 Protein In Complex With Fip2 Length = 178

Iteration: 1
 Score = 79.0 bits (193), Expect = 7e-16,   Method: Compositional matrix adjust.
 Identities = 35/50 (70%), Positives = 47/50 (94%)
Query: 7  EEYDYLFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQV 56
          E+Y+++FKVVLIG+SGVGK+NLLSRFTRNEF  +S++TIGVEF+TRT+ +
Sbjct: 5  EDYNFVFKVVLIGESGVGKTNLLSRFTRNEFSHDSRTTIGVEFSTRTVML 54

>pdb|2FOL|A Chain A, Crystal Structure Of Human Rab1a In Complex With Gdp Length = 191

Iteration: 1
 Score = 62.0 bits (149), Expect = 8e-11,   Method: Compositional matrix adjust.
 Identities = 30/56 (53%), Positives = 39/56 (69%)
Query: 1  MARRADEEYDYLFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQV 56
          +  R   EYDYLFK++LIGDSGVGKS LL RF  + +     STIGV+F  RT+++
Sbjct: 14 LVPRGSPEYDYLFKLLLIGDSGVGKSCLLLRFADDTYTESYISTIGVDFKIRTIEL 69

>pdb|2RHD|A Chain A, Crystal Structure Of Cryptosporidium Parvum Small Gtpase Rab1a Length = 175

Iteration: 1
 Score = 60.5 bits (145), Expect = 3e-10,   Method: Compositional matrix adjust.
 Identities = 30/53 (56%), Positives = 38/53 (71%)
Query: 6  DEEYDYLFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQVTN 58
          + EYDYLFK++LIGDSGVGKS LL RF  + +     STIGV+F  RT+ + N
Sbjct: 3  NPEYDYLFKLLLIGDSGVGKSCLLLRFADDTYTDSYISTIGVDFKIRTISLEN 55

>pdb|2WWX|A Chain A, Crystal Structure Of The SidmDRRA(GEFGDF DOMAIN)-Rab1 (Gtpase Domain) Complex Length = 175

Iteration: 1
 Score = 60.1 bits (144), Expect = 3e-10,   Method: Compositional matrix adjust.
 Identities = 29/51 (56%), Positives = 38/51 (74%)
Query: 6  DEEYDYLFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQV 56
          + EYDYLFK++LIGDSGVGKS LL RF  + +     STIGV+F  RT+++
Sbjct: 2  NPEYDYLFKLLLIGDSGVGKSCLLLRFADDTYTESYISTIGVDFKIRTIEL 52

>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 = 59.7 bits (143), Expect = 4e-10,   Method: Compositional matrix adjust.
 Identities = 29/49 (59%), Positives = 37/49 (75%)
Query: 8  EYDYLFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQV 56
          EYDYLFK++LIGDSGVGKS LL RF  + +     STIGV+F  RT+++
Sbjct: 5  EYDYLFKLLLIGDSGVGKSCLLLRFADDTYTESYISTIGVDFKIRTIEL 53

>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 = 59.7 bits (143), Expect = 4e-10,   Method: Compositional matrix adjust.
 Identities = 29/49 (59%), Positives = 37/49 (75%)
Query: 8  EYDYLFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQV 56
          EYDYLFK++LIGDSGVGKS LL RF  + +     STIGV+F  RT+++
Sbjct: 5  EYDYLFKLLLIGDSGVGKSCLLLRFADDTYTESYISTIGVDFKIRTIEL 53

>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 = 59.7 bits (143), Expect = 4e-10,   Method: Compositional matrix adjust.
 Identities = 29/51 (56%), Positives = 38/51 (74%)
Query: 6  DEEYDYLFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQV 56
          + EYDYLFK++LIGDSGVGKS LL RF  + +     STIGV+F  RT+++
Sbjct: 10 NPEYDYLFKLLLIGDSGVGKSCLLLRFADDTYTESYISTIGVDFKIRTIEL 60

>pdb|4FMC|B Chain B, Espg-Rab1 Complex Length = 171

Iteration: 1
 Score = 59.7 bits (143), Expect = 4e-10,   Method: Compositional matrix adjust.
 Identities = 29/49 (59%), Positives = 37/49 (75%)
Query: 8  EYDYLFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQV 56
          EYDYLFK++LIGDSGVGKS LL RF  + +     STIGV+F  RT+++
Sbjct: 2  EYDYLFKLLLIGDSGVGKSCLLLRFADDTYTESYISTIGVDFKIRTIEL 50

>pdb|3L0I|B Chain B, Complex Structure Of Sidm/drra With The Wild Type Rab1 Length = 199

Iteration: 1
 Score = 59.7 bits (143), Expect = 5e-10,   Method: Compositional matrix adjust.
 Identities = 29/51 (56%), Positives = 38/51 (74%)
Query: 6  DEEYDYLFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQV 56
          + EYDYLFK++LIGDSGVGKS LL RF  + +     STIGV+F  RT+++
Sbjct: 27 NPEYDYLFKLLLIGDSGVGKSCLLLRFADDTYTESYISTIGVDFKIRTIEL 77

>pdb|1Z0F|A Chain A, Gdp-Bound Rab14 Gtpase Length = 179

Iteration: 1
 Score = 58.9 bits (141), Expect = 6e-10,   Method: Compositional matrix adjust.
 Identities = 27/53 (50%), Positives = 36/53 (67%)
Query: 5  ADEEYDYLFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQVT 57
          A   Y Y+FK ++IGD GVGKS LL +FT  +F  +   TIGVEF TR ++V+
Sbjct: 8  APYNYSYIFKYIIIGDMGVGKSCLLHQFTEKKFMADCPHTIGVEFGTRIIEVS 60

>pdb|4DRZ|A Chain A, Crystal Structure Of Human Rab14 Length = 196

Iteration: 1
 Score = 58.9 bits (141), Expect = 7e-10,   Method: Compositional matrix adjust.
 Identities = 27/53 (50%), Positives = 36/53 (67%)
Query: 5  ADEEYDYLFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQVT 57
          A   Y Y+FK ++IGD GVGKS LL +FT  +F  +   TIGVEF TR ++V+
Sbjct: 23 APYNYSYIFKYIIIGDMGVGKSCLLHQFTEKKFMADCPHTIGVEFGTRIIEVS 75

>pdb|3TW8|B Chain B, Gef Domain Of Dennd 1b In Complex With Rab Gtpase Rab35 Length = 181

Iteration: 1
 Score = 58.9 bits (141), Expect = 7e-10,   Method: Compositional matrix adjust.
 Identities = 30/56 (53%), Positives = 41/56 (73%), Gaps = 4/56 (7%)
Query: 1  MARRADEEYDYLFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQV 56
          MAR    +YD+LFK+++IGDSGVGKS+LL RF  N F     +TIGV+F  RT+++
Sbjct: 2  MAR----DYDHLFKLLIIGDSGVGKSSLLLRFADNTFSGSYITTIGVDFKIRTVEI 53

>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 = 58.5 bits (140), Expect = 8e-10,   Method: Compositional matrix adjust.
 Identities = 28/51 (54%), Positives = 38/51 (74%)
Query: 6  DEEYDYLFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQV 56
          + EYDYLFK++LIGDSGVGK+ LL RF  + +     STIGV+F  RT+++
Sbjct: 10 NPEYDYLFKLLLIGDSGVGKNCLLLRFADDTYTESYISTIGVDFKIRTIEL 60

>pdb|2EW1|A Chain A, Crystal Structure Of Rab30 In Complex With A Gtp Analogue Length = 201

Iteration: 1
 Score = 58.2 bits (139), Expect = 1e-09,   Method: Compositional matrix adjust.
 Identities = 26/56 (46%), Positives = 42/56 (75%)
Query: 1  MARRADEEYDYLFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQV 56
          + R + E+YD+LFK+VLIG++GVGK+ L+ RFT+  F     +TIGV+F  +T+++
Sbjct: 15 VPRGSMEDYDFLFKIVLIGNAGVGKTCLVRRFTQGLFPPGQGATIGVDFMIKTVEI 70

>pdb|2HUP|A Chain A, Crystal Structure Of Human Rab43 In Complex With Gdp Length = 201

Iteration: 1
 Score = 58.2 bits (139), Expect = 1e-09,   Method: Compositional matrix adjust.
 Identities = 25/52 (48%), Positives = 37/52 (71%)
Query: 5  ADEEYDYLFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQV 56
           DE+YD+LFK+VL+GD+ VGK+ ++ RF    F     STIGV+F  +TL++
Sbjct: 22 PDEQYDFLFKLVLVGDASVGKTCVVQRFKTGAFSERQGSTIGVDFTMKTLEI 73

>pdb|1YZN|A Chain A, Gppnhp-Bound Ypt1p Gtpase Length = 185

Iteration: 1
 Score = 57.0 bits (136), Expect = 3e-09,   Method: Compositional matrix adjust.
 Identities = 27/49 (55%), Positives = 39/49 (79%)
Query: 8  EYDYLFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQV 56
          EYDYLFK++LIG+SGVGKS LL RF+ + +  +  STIGV+F  +T+++
Sbjct: 17 EYDYLFKLLLIGNSGVGKSCLLLRFSDDTYTNDYISTIGVDFKIKTVEL 65

>pdb|2BCG|Y Chain Y, Structure Of Doubly Prenylated Ypt1:gdi Complex Length = 206

Iteration: 1
 Score = 56.6 bits (135), Expect = 3e-09,   Method: Compositional matrix adjust.
 Identities = 27/49 (55%), Positives = 39/49 (79%)
Query: 8  EYDYLFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQV 56
          EYDYLFK++LIG+SGVGKS LL RF+ + +  +  STIGV+F  +T+++
Sbjct: 4  EYDYLFKLLLIGNSGVGKSCLLLRFSDDTYTNDYISTIGVDFKIKTVEL 52

>pdb|1UKV|Y Chain Y, Structure Of Rabgdp-Dissociation Inhibitor In Complex With Prenylated Ypt1 Gtpase Length = 206

Iteration: 1
 Score = 56.6 bits (135), Expect = 3e-09,   Method: Compositional matrix adjust.
 Identities = 27/49 (55%), Positives = 39/49 (79%)
Query: 8  EYDYLFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQV 56
          EYDYLFK++LIG+SGVGKS LL RF+ + +  +  STIGV+F  +T+++
Sbjct: 4  EYDYLFKLLLIGNSGVGKSCLLLRFSDDTYTNDYISTIGVDFKIKTVEL 52

>pdb|4FMB|B Chain B, Vira-Rab1 Complex Structure Length = 171

Iteration: 1
 Score = 56.2 bits (134), Expect = 4e-09,   Method: Compositional matrix adjust.
 Identities = 28/49 (57%), Positives = 36/49 (73%)
Query: 8  EYDYLFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQV 56
          EYD LFK++LIGDSGVGKS LL RF  + +     STIGV+F  RT+++
Sbjct: 2  EYDALFKLLLIGDSGVGKSCLLLRFADDTYTESYISTIGVDFKIRTIEL 50

>pdb|2FU5|C Chain C, Structure Of Rab8 In Complex With Mss4 Length = 183

Iteration: 1
 Score = 55.5 bits (132), Expect = 8e-09,   Method: Compositional matrix adjust.
 Identities = 26/48 (54%), Positives = 37/48 (77%)
Query: 9  YDYLFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQV 56
          YDYLFK++LIGDSGVGK+ +L RF+ + F     STIG++F  RT+++
Sbjct: 5  YDYLFKLLLIGDSGVGKTCVLFRFSEDAFNSTFISTIGIDFKIRTIEL 52

>pdb|2IL1|A Chain A, Crystal Structure Of A Predicted Human Gtpase In Complex With Gdp Length = 192

Iteration: 1
 Score = 53.5 bits (127), Expect = 3e-08,   Method: Compositional matrix adjust.
 Identities = 22/56 (39%), Positives = 38/56 (67%)
Query: 1  MARRADEEYDYLFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQV 56
          + R +    D+  +V++IG  GVGK++L+ RFT + FC   KST+GV+F  +T+++
Sbjct: 15 VPRGSPRPADFKLQVIIIGSRGVGKTSLMERFTDDTFCEACKSTVGVDFKIKTVEL 70

>pdb|2OCB|A Chain A, Crystal Structure Of Human Rab9b In Complex With A Gtp Analogue Length = 180

Iteration: 1
 Score = 52.8 bits (125), Expect = 5e-08,   Method: Compositional matrix adjust.
 Identities = 26/57 (45%), Positives = 38/57 (66%), Gaps = 2/57 (3%)
Query: 12 LFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQVTNFSSFTSLHFY 68
          L KV+L+GD GVGKS+L++R+  N+F  ++  TIGVEF  R L+V     F +L  +
Sbjct: 7  LLKVILLGDGGVGKSSLMNRYVTNKFDSQAFHTIGVEFLNRDLEVD--GRFVTLQIW 61

>pdb|3QBT|A Chain A, Crystal Structure Of Ocrl1 540-678 In Complex With Rab8a:gppnhp Length = 174

Iteration: 1
 Score = 52.8 bits (125), Expect = 6e-08,   Method: Compositional matrix adjust.
 Identities = 25/47 (53%), Positives = 36/47 (76%)
Query: 10 DYLFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQV 56
          DYLFK++LIGDSGVGK+ +L RF+ + F     STIG++F  RT+++
Sbjct: 4  DYLFKLLLIGDSGVGKTCVLFRFSEDAFNSTFISTIGIDFKIRTIEL 50

>pdb|1WMS|A Chain A, High Resolution Crystal Structure Of Human Rab9 Gtpase: A Novel Antiviral Drug Target Length = 177

Iteration: 1
 Score = 52.0 bits (123), Expect = 8e-08,   Method: Compositional matrix adjust.
 Identities = 24/45 (53%), Positives = 34/45 (75%)
Query: 12 LFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQV 56
          LFKV+L+GD GVGKS+L++R+  N+F  +   TIGVEF  + L+V
Sbjct: 7  LFKVILLGDGGVGKSSLMNRYVTNKFDTQLFHTIGVEFLNKDLEV 51

>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 = 52.0 bits (123), Expect = 9e-08,   Method: Compositional matrix adjust.
 Identities = 24/45 (53%), Positives = 34/45 (75%)
Query: 12 LFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQV 56
          LFKV+L+GD GVGKS+L++R+  N+F  +   TIGVEF  + L+V
Sbjct: 9  LFKVILLGDGGVGKSSLMNRYVTNKFDTQLFHTIGVEFLNKDLEV 53

>pdb|1YU9|A Chain A, Gppnhp-Bound Rab4a Length = 175

Iteration: 1
 Score = 52.0 bits (123), Expect = 9e-08,   Method: Compositional matrix adjust.
 Identities = 24/50 (48%), Positives = 35/50 (70%)
Query: 7  EEYDYLFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQV 56
          E YD+LFK ++IG++G GKS LL +F   +F  +S  TIGVEF ++ + V
Sbjct: 6  ETYDFLFKFLVIGNAGTGKSCLLHQFIEKKFKDDSNHTIGVEFGSKIINV 55

>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 = 52.0 bits (123), Expect = 1e-07,   Method: Compositional matrix adjust.
 Identities = 24/50 (48%), Positives = 35/50 (70%)
Query: 7  EEYDYLFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQV 56
          E YD+LFK ++IG++G GKS LL +F   +F  +S  TIGVEF ++ + V
Sbjct: 3  ETYDFLFKFLVIGNAGTGKSCLLHQFIEKKFKDDSNHTIGVEFGSKIINV 52

>pdb|2BMD|A Chain A, High Resolution Structure Of Gdp-Bound Human Rab4a Length = 186

Iteration: 1
 Score = 52.0 bits (123), Expect = 1e-07,   Method: Compositional matrix adjust.
 Identities = 24/50 (48%), Positives = 35/50 (70%)
Query: 7  EEYDYLFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQV 56
          E YD+LFK ++IG++G GKS LL +F   +F  +S  TIGVEF ++ + V
Sbjct: 5  ETYDFLFKFLVIGNAGTGKSCLLHQFIEKKFKDDSNHTIGVEFGSKIINV 54

>pdb|2O52|A Chain A, Crystal Structure Of Human Rab4b In Complex With Gdp Length = 200

Iteration: 1
 Score = 51.2 bits (121), Expect = 1e-07,   Method: Compositional matrix adjust.
 Identities = 24/47 (51%), Positives = 33/47 (70%)
Query: 10 DYLFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQV 56
          D+LFK ++IG +G GKS LL +F  N+F  +S  TIGVEF +R + V
Sbjct: 23 DFLFKFLVIGSAGTGKSCLLHQFIENKFKQDSNHTIGVEFGSRVVNV 69

>pdb|3CPH|A Chain A, Crystal Structure Of Sec4 In Complex With Rab-Gdi Length = 213

Iteration: 1
 Score = 50.8 bits (120), Expect = 2e-07,   Method: Compositional matrix adjust.
 Identities = 23/48 (47%), Positives = 34/48 (70%)
Query: 9  YDYLFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQV 56
          YD + K++LIGDSGVGKS LL RF  ++F     +TIG++F  +T+ +
Sbjct: 17 YDSIMKILLIGDSGVGKSCLLVRFVEDKFNPSFITTIGIDFKIKTVDI 64

>pdb|1YZL|A Chain A, Gppnhp-Bound Rab9 Gtpase Length = 179

Iteration: 1
 Score = 50.8 bits (120), Expect = 2e-07,   Method: Compositional matrix adjust.
 Identities = 23/45 (51%), Positives = 34/45 (75%)
Query: 12 LFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQV 56
          LFK++L+GD GVGKS+L++R+  N+F  +   TIGVEF  + L+V
Sbjct: 11 LFKIILLGDGGVGKSSLMNRYVTNKFDSQLFHTIGVEFLNKDLEV 55

>pdb|1Z0A|A Chain A, Gdp-Bound Rab2a Gtpase Length = 174

Iteration: 1
 Score = 50.8 bits (120), Expect = 2e-07,   Method: Compositional matrix adjust.
 Identities = 25/48 (52%), Positives = 31/48 (64%)
Query: 9  YDYLFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQV 56
          Y YLFK ++IGD+GVGKS LL +FT   F      TIGVEF  R + +
Sbjct: 7  YAYLFKYIIIGDTGVGKSCLLLQFTDKRFQPVHDLTIGVEFGARMITI 54

>pdb|1X3S|A Chain A, Crystal Structure Of Human Rab18 In Complex With Gppnhp Length = 195

Iteration: 1
 Score = 50.4 bits (119), Expect = 3e-07,   Method: Compositional matrix adjust.
 Identities = 25/51 (49%), Positives = 36/51 (70%)
Query: 6  DEEYDYLFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQV 56
          DE+     K+++IG+SGVGKS+LL RFT + F  E  +TIGV+F  +T+ V
Sbjct: 9  DEDVLTTLKILIIGESGVGKSSLLLRFTDDTFDPELAATIGVDFKVKTISV 59

>pdb|2IF0|A Chain A, Crystal Structure Of Mouse Rab27b Bound To Gdp In Monoclinic Space Group Length = 200

Iteration: 1
 Score = 49.7 bits (117), Expect = 4e-07,   Method: Compositional matrix adjust.
 Identities = 21/44 (47%), Positives = 33/44 (75%)
Query: 6  DEEYDYLFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEF 49
          D +YDYL K++ +GDSGVGK+  L R+T N+F  +  +T+G++F
Sbjct: 5  DGDYDYLIKLLALGDSGVGKTTFLYRYTDNKFNPKFITTVGIDF 48

>pdb|2IEY|A Chain A, Crystal Structure Of Mouse Rab27b Bound To Gdp In Hexagonal Space Group Length = 195

Iteration: 1
 Score = 49.3 bits (116), Expect = 5e-07,   Method: Compositional matrix adjust.
 Identities = 21/44 (47%), Positives = 33/44 (75%)
Query: 6  DEEYDYLFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEF 49
          D +YDYL K++ +GDSGVGK+  L R+T N+F  +  +T+G++F
Sbjct: 5  DGDYDYLIKLLALGDSGVGKTTFLYRYTDNKFNPKFITTVGIDF 48

>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 = 49.3 bits (116), Expect = 5e-07,   Method: Compositional matrix adjust.
 Identities = 21/44 (47%), Positives = 33/44 (75%)
Query: 6  DEEYDYLFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEF 49
          D +YDYL K++ +GDSGVGK+  L R+T N+F  +  +T+G++F
Sbjct: 5  DGDYDYLIKLLALGDSGVGKTTFLYRYTDNKFNPKFITTVGIDF 48

>pdb|2F7S|A Chain A, The Crystal Structure Of Human Rab27b Bound To Gdp Length = 217

Iteration: 1
 Score = 49.3 bits (116), Expect = 5e-07,   Method: Composition-based stats.
 Identities = 21/46 (45%), Positives = 33/46 (71%)
Query: 4  RADEEYDYLFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEF 49
          R   +YDYL K++ +GDSGVGK+  L R+T N+F  +  +T+G++F
Sbjct: 17 RGSGDYDYLIKLLALGDSGVGKTTFLYRYTDNKFNPKFITTVGIDF 62

>pdb|2IEZ|A Chain A, Crystal Structure Of Mouse Rab27b Bound To Gdp In Monoclinic Space Group Length = 220

Iteration: 1
 Score = 49.3 bits (116), Expect = 6e-07,   Method: Composition-based stats.
 Identities = 21/44 (47%), Positives = 33/44 (75%)
Query: 6  DEEYDYLFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEF 49
          D +YDYL K++ +GDSGVGK+  L R+T N+F  +  +T+G++F
Sbjct: 5  DGDYDYLIKLLALGDSGVGKTTFLYRYTDNKFNPKFITTVGIDF 48

>pdb|2A5J|A Chain A, Crystal Structure Of Human Rab2b Length = 191

Iteration: 1
 Score = 48.9 bits (115), Expect = 7e-07,   Method: Compositional matrix adjust.
 Identities = 24/46 (52%), Positives = 30/46 (65%)
Query: 11 YLFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQV 56
          YLFK ++IGD+GVGKS LL +FT   F      TIGVEF  R + +
Sbjct: 20 YLFKYIIIGDTGVGKSCLLLQFTDKRFQPVHDLTIGVEFGARMVNI 65

>pdb|1G17|A Chain A, Crystal Structure Of Sec4-Guanosine-5'-(Beta,Gamma)- Imidotriphosphate Length = 170

Iteration: 1
 Score = 48.5 bits (114), Expect = 8e-07,   Method: Compositional matrix adjust.
 Identities = 22/47 (46%), Positives = 33/47 (70%)
Query: 10 DYLFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQV 56
          D + K++LIGDSGVGKS LL RF  ++F     +TIG++F  +T+ +
Sbjct: 1  DSIMKILLIGDSGVGKSCLLVRFVEDKFNPSFITTIGIDFKIKTVDI 47

>pdb|1G16|A Chain A, Crystal Structure Of Sec4-Gdp Length = 170

Iteration: 1
 Score = 47.8 bits (112), Expect = 2e-06,   Method: Compositional matrix adjust.
 Identities = 22/47 (46%), Positives = 33/47 (70%)
Query: 10 DYLFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQV 56
          D + K++LIGDSGVGKS LL RF  ++F     +TIG++F  +T+ +
Sbjct: 1  DSIXKILLIGDSGVGKSCLLVRFVEDKFNPSFITTIGIDFKIKTVDI 47

>pdb|2OCY|C Chain C, Complex Of The Guanine Exchange Factor Sec2p And The Rab Gtpase Sec4p Length = 170

Iteration: 1
 Score = 47.8 bits (112), Expect = 2e-06,   Method: Compositional matrix adjust.
 Identities = 22/47 (46%), Positives = 33/47 (70%)
Query: 10 DYLFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQV 56
          D + K++LIGDSGVGKS LL RF  ++F     +TIG++F  +T+ +
Sbjct: 1  DSIXKILLIGDSGVGKSCLLVRFVEDKFNPSFITTIGIDFKIKTVDI 47

>pdb|1KY2|A Chain A, Gppnhp-Bound Ypt7p At 1.6 A Resolution Length = 182

Iteration: 1
 Score = 47.4 bits (111), Expect = 2e-06,   Method: Compositional matrix adjust.
 Identities = 18/45 (40%), Positives = 34/45 (75%)
Query: 12 LFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQV 56
          + KV+++GDSGVGK++L+ R+  +++  + K+TIG +F T+ + V
Sbjct: 8  ILKVIILGDSGVGKTSLMHRYVNDKYSQQYKATIGADFLTKEVTV 52

>pdb|1VG1|A Chain A, Gdp-bound Rab7 Length = 185

Iteration: 1
 Score = 47.4 bits (111), Expect = 2e-06,   Method: Compositional matrix adjust.
 Identities = 19/47 (40%), Positives = 35/47 (74%)
Query: 12 LFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQVTN 58
          L KV+++GDSGVGK++L++++   +F  + K+TIG +F T+ + V +
Sbjct: 8  LLKVIILGDSGVGKTSLMNQYVNKKFSNQYKATIGADFLTKEVMVDD 54

>pdb|2G6B|A Chain A, Crystal Structure Of Human Rab26 In Complex With A Gtp Analogue Length = 180

Iteration: 1
 Score = 47.0 bits (110), Expect = 3e-06,   Method: Compositional matrix adjust.
 Identities = 24/49 (48%), Positives = 32/49 (65%), Gaps = 1/49 (2%)
Query: 9  YDYLFKVVLIGDSGVGKSNLLSRFTRNEFCLES-KSTIGVEFATRTLQV 56
          YD  FKV+L+GDSGVGK+ LL RF    F   +  ST+G++F  + L V
Sbjct: 7  YDVAFKVMLVGDSGVGKTCLLVRFKDGAFLAGTFISTVGIDFRNKVLDV 55

>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 = 47.0 bits (110), Expect = 3e-06,   Method: Compositional matrix adjust.
 Identities = 21/46 (45%), Positives = 29/46 (63%)
Query: 13 FKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQVTN 58
           KV L+GD+GVGKS+++ RF  + F      TIG  F T+T+Q  N
Sbjct: 7  LKVCLLGDTGVGKSSIMWRFVEDSFDPNINPTIGASFMTKTVQYQN 52

>pdb|2EQB|A Chain A, Crystal Structure Of The Rab Gtpase Sec4p, The Sec2p Gef Domain, And Phosphate Complex Length = 174

Iteration: 1
 Score = 47.0 bits (110), Expect = 3e-06,   Method: Compositional matrix adjust.
 Identities = 21/45 (46%), Positives = 32/45 (71%)
Query: 12 LFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQV 56
          + K++LIGDSGVGKS LL RF  ++F     +TIG++F  +T+ +
Sbjct: 7  IMKILLIGDSGVGKSCLLVRFVEDKFNPSFITTIGIDFKIKTVDI 51

>pdb|1T91|A Chain A, Crystal Structure Of Human Small Gtpase Rab7(Gtp) Length = 207

Iteration: 1
 Score = 46.6 bits (109), Expect = 4e-06,   Method: Composition-based stats.
 Identities = 19/47 (40%), Positives = 35/47 (74%)
Query: 12 LFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQVTN 58
          L KV+++GDSGVGK++L++++   +F  + K+TIG +F T+ + V +
Sbjct: 8  LLKVIILGDSGVGKTSLMNQYVNKKFSNQYKATIGADFLTKEVMVDD 54

>pdb|1VG0|B Chain B, The Crystal Structures Of The Rep-1 Protein In Complex With Monoprenylated Rab7 Protein Length = 207

Iteration: 1
 Score = 46.6 bits (109), Expect = 4e-06,   Method: Composition-based stats.
 Identities = 19/47 (40%), Positives = 35/47 (74%)
Query: 12 LFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQVTN 58
          L KV+++GDSGVGK++L++++   +F  + K+TIG +F T+ + V +
Sbjct: 8  LLKVIILGDSGVGKTSLMNQYVNKKFSNQYKATIGADFLTKEVMVDD 54

>pdb|1YVD|A Chain A, Gppnhp-Bound Rab22 Gtpase Length = 169

Iteration: 1
 Score = 46.2 bits (108), Expect = 4e-06,   Method: Compositional matrix adjust.
 Identities = 21/46 (45%), Positives = 29/46 (63%)
Query: 13 FKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQVTN 58
           KV L+GD+GVGKS+++ RF  + F      TIG  F T+T+Q  N
Sbjct: 6  LKVCLLGDTGVGKSSIVWRFVEDSFDPNINPTIGASFMTKTVQYQN 51

>pdb|3LAW|A Chain A, Structure Of Gtp-Bound L129f Mutant Rab7 Length = 207

Iteration: 1
 Score = 46.2 bits (108), Expect = 5e-06,   Method: Composition-based stats.
 Identities = 19/47 (40%), Positives = 35/47 (74%)
Query: 12 LFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQVTN 58
          L KV+++GDSGVGK++L++++   +F  + K+TIG +F T+ + V +
Sbjct: 8  LLKVIILGDSGVGKTSLMNQYVNKKFSNQYKATIGADFLTKEVMVDD 54

>pdb|4FMD|F Chain F, Espg-Rab1 Complex Structure At 3.05 A Length = 164

Iteration: 1
 Score = 45.8 bits (107), Expect = 6e-06,   Method: Compositional matrix adjust.
 Identities = 23/43 (53%), Positives = 31/43 (72%)
Query: 14 KVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQV 56
          K++LIGDSGVGKS LL RF  + +     STIGV+F  RT+++
Sbjct: 1  KLLLIGDSGVGKSCLLLRFADDTYTESYISTIGVDFKIRTIEL 43

>pdb|3RAB|A Chain A, Gppnhp-bound Rab3a At 2.0 A Resolution Length = 169

Iteration: 1
 Score = 45.8 bits (107), Expect = 6e-06,   Method: Compositional matrix adjust.
 Identities = 18/46 (39%), Positives = 33/46 (71%)
Query: 9  YDYLFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTL 54
          +DY+FK+++IG+S VGK++ L R+  + F     ST+G++F  +T+
Sbjct: 2  FDYMFKILIIGNSSVGKTSFLFRYADDSFTPAFVSTVGIDFKVKTI 47

>pdb|2FG5|A Chain A, Crystal Structure Of Human Rab31 In Complex With A Gtp Analogue Length = 192

Iteration: 1
 Score = 45.1 bits (105), Expect = 9e-06,   Method: Compositional matrix adjust.
 Identities = 20/46 (43%), Positives = 29/46 (63%)
Query: 13 FKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQVTN 58
           KV L+GD+GVGKS+++ RF ++ F      TIG  F T+T+   N
Sbjct: 24 LKVCLLGDTGVGKSSIVCRFVQDHFDHNISPTIGASFMTKTVPCGN 69

>pdb|1HUQ|A Chain A, 1.8a Crystal Structure Of The Monomeric Gtpase Rab5c (Mouse) Length = 164

Iteration: 1
 Score = 45.1 bits (105), Expect = 1e-05,   Method: Compositional matrix adjust.
 Identities = 21/42 (50%), Positives = 31/42 (73%)
Query: 13 FKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTL 54
          FK+VL+G+S VGKS+L+ RF + +F    +STIG  F T+T+
Sbjct: 4  FKLVLLGESAVGKSSLVLRFVKGQFHEYQESTIGAAFLTQTV 45

>pdb|1Z0D|A Chain A, Gdp-bound Rab5c Gtpase Length = 167

Iteration: 1
 Score = 45.1 bits (105), Expect = 1e-05,   Method: Compositional matrix adjust.
 Identities = 21/42 (50%), Positives = 31/42 (73%)
Query: 13 FKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTL 54
          FK+VL+G+S VGKS+L+ RF + +F    +STIG  F T+T+
Sbjct: 6  FKLVLLGESAVGKSSLVLRFVKGQFHEYQESTIGAAFLTQTV 47

>pdb|3BC1|A Chain A, Crystal Structure Of The Complex Rab27a-slp2a Length = 195

Iteration: 1
 Score = 45.1 bits (105), Expect = 1e-05,   Method: Compositional matrix adjust.
 Identities = 19/45 (42%), Positives = 34/45 (75%)
Query: 5  ADEEYDYLFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEF 49
          +D +YDYL K + +GDSGVGK+++L ++T  +F  +  +T+G++F
Sbjct: 4  SDGDYDYLIKFLALGDSGVGKTSVLYQYTDGKFNSKFITTVGIDF 48

>pdb|2EFC|B Chain B, Ara7-GdpATVPS9A Length = 181

Iteration: 1
 Score = 44.7 bits (104), Expect = 1e-05,   Method: Compositional matrix adjust.
 Identities = 21/45 (46%), Positives = 32/45 (71%)
Query: 14 KVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQVTN 58
          K+VL+GD G GKS+L+ RF +++F    +STIG  F ++TL V +
Sbjct: 14 KLVLLGDVGAGKSSLVLRFVKDQFVEFQESTIGAAFFSQTLAVND 58

>pdb|2P5S|A Chain A, Rab Domain Of Human Rasef In Complex With Gdp Length = 199

Iteration: 1
 Score = 44.7 bits (104), Expect = 1e-05,   Method: Compositional matrix adjust.
 Identities = 21/44 (47%), Positives = 30/44 (68%)
Query: 13 FKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQV 56
          +K+VL GD+ VGKS+ L R  +NEF     +T+GV+F  +TL V
Sbjct: 29 YKIVLAGDAAVGKSSFLMRLCKNEFRENISATLGVDFQMKTLIV 72

>pdb|2GF9|A Chain A, Crystal Structure Of Human Rab3d In Complex With Gdp Length = 189

Iteration: 1
 Score = 44.7 bits (104), Expect = 1e-05,   Method: Compositional matrix adjust.
 Identities = 19/45 (42%), Positives = 32/45 (71%)
Query: 10 DYLFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTL 54
          DY+FK++LIG+S VGK++ L R+  + F     ST+G++F  +T+
Sbjct: 20 DYMFKLLLIGNSSVGKTSFLFRYADDSFTPAFVSTVGIDFKVKTV 64

>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 = 44.7 bits (104), Expect = 1e-05,   Method: Compositional matrix adjust.
 Identities = 18/46 (39%), Positives = 32/46 (69%)
Query: 9  YDYLFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTL 54
          +DY FK+++IG+S VGK++ L R+  + F     ST+G++F  +T+
Sbjct: 5  FDYXFKILIIGNSSVGKTSFLFRYADDSFTPAFVSTVGIDFKVKTI 50

>pdb|3DZ8|A Chain A, Crystal Structure Of Human Rab3b Gtpase Bound With Gdp Length = 191

Iteration: 1
 Score = 44.7 bits (104), Expect = 2e-05,   Method: Compositional matrix adjust.
 Identities = 18/46 (39%), Positives = 33/46 (71%)
Query: 9  YDYLFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTL 54
          +DY+FK+++IG+S VGK++ L R+  + F     ST+G++F  +T+
Sbjct: 20 FDYMFKLLIIGNSSVGKTSFLFRYADDTFTPAFVSTVGIDFKVKTV 65

>pdb|3MJH|A Chain A, Crystal Structure Of Human Rab5a In Complex With The C2h2 Zinc Finger Of Eea1 Length = 168

Iteration: 1
 Score = 44.3 bits (103), Expect = 2e-05,   Method: Compositional matrix adjust.
 Identities = 21/42 (50%), Positives = 31/42 (73%)
Query: 13 FKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTL 54
          FK+VL+G+S VGKS+L+ RF + +F    +STIG  F T+T+
Sbjct: 6  FKLVLLGESAVGKSSLVLRFVKGQFHEFQESTIGAAFLTQTV 47

>pdb|1TU3|A Chain A, Crystal Structure Of Rab5 Complex With Rabaptin5 C-Terminal Domain Length = 171

Iteration: 1
 Score = 43.9 bits (102), Expect = 2e-05,   Method: Compositional matrix adjust.
 Identities = 21/42 (50%), Positives = 31/42 (73%)
Query: 13 FKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTL 54
          FK+VL+G+S VGKS+L+ RF + +F    +STIG  F T+T+
Sbjct: 8  FKLVLLGESAVGKSSLVLRFVKGQFHEFQESTIGAAFLTQTV 49

>pdb|4FMC|F Chain F, Espg-Rab1 Complex Length = 117

Iteration: 1
 Score = 43.9 bits (102), Expect = 2e-05,   Method: Compositional matrix adjust.
 Identities = 22/42 (52%), Positives = 30/42 (71%)
Query: 15 VVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQV 56
          ++LIGDSGVGKS LL RF  + +     STIGV+F  RT+++
Sbjct: 1  LLLIGDSGVGKSCLLLRFADDTYTESYISTIGVDFKIRTIEL 42

>pdb|1N6H|A Chain A, Crystal Structure Of Human Rab5a Length = 170

Iteration: 1
 Score = 43.9 bits (102), Expect = 2e-05,   Method: Compositional matrix adjust.
 Identities = 21/42 (50%), Positives = 31/42 (73%)
Query: 13 FKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTL 54
          FK+VL+G+S VGKS+L+ RF + +F    +STIG  F T+T+
Sbjct: 7  FKLVLLGESAVGKSSLVLRFVKGQFHEFQESTIGAAFLTQTV 48

>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 = 43.9 bits (102), Expect = 2e-05,   Method: Compositional matrix adjust.
 Identities = 19/45 (42%), Positives = 30/45 (66%)
Query: 12 LFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQV 56
          +FK+++IGDS VGK+ L  RF    F   +++TIGV+F  R + +
Sbjct: 29 IFKIIVIGDSNVGKTCLTYRFCAGRFPDRTEATIGVDFRERAVDI 73

>pdb|1TU4|A Chain A, Crystal Structure Of Rab5-Gdp Complex Length = 171

Iteration: 1
 Score = 43.9 bits (102), Expect = 2e-05,   Method: Compositional matrix adjust.
 Identities = 21/42 (50%), Positives = 31/42 (73%)
Query: 13 FKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTL 54
          FK+VL+G+S VGKS+L+ RF + +F    +STIG  F T+T+
Sbjct: 8  FKLVLLGESAVGKSSLVLRFVKGQFHEFQESTIGAAFLTQTV 49

>pdb|1Z06|A Chain A, Gppnhp-Bound Rab33 Gtpase Length = 189

Iteration: 1
 Score = 43.9 bits (102), Expect = 2e-05,   Method: Compositional matrix adjust.
 Identities = 19/45 (42%), Positives = 30/45 (66%)
Query: 12 LFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQV 56
          +FK+++IGDS VGK+ L  RF    F   +++TIGV+F  R + +
Sbjct: 20 IFKIIVIGDSNVGKTCLTYRFCAGRFPDRTEATIGVDFRERAVDI 64

>pdb|1Z22|A Chain A, Gdp-Bound Rab23 Gtpase Crystallized In C222(1) Space Group Length = 168

Iteration: 1
 Score = 43.9 bits (102), Expect = 2e-05,   Method: Compositional matrix adjust.
 Identities = 18/46 (39%), Positives = 31/46 (67%)
Query: 13 FKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQVTN 58
           K+V++G+  VGKS+++ R+ +  F  + K TIGV+F  R +QV +
Sbjct: 6  IKMVVVGNGAVGKSSMIQRYCKGIFTKDYKKTIGVDFLERQIQVND 51

>pdb|2HEI|A Chain A, Crystal Structure Of Human Rab5b In Complex With Gdp Length = 179

Iteration: 1
 Score = 43.5 bits (101), Expect = 3e-05,   Method: Compositional matrix adjust.
 Identities = 20/42 (47%), Positives = 31/42 (73%)
Query: 13 FKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTL 54
          FK+VL+G+S VGKS+L+ RF + +F    +STIG  F T+++
Sbjct: 9  FKLVLLGESAVGKSSLVLRFVKGQFHEYQESTIGAAFLTQSV 50

>pdb|1N6I|A Chain A, Crystal Structure Of Human Rab5a A30p Mutant Complex With Gdp Length = 170

Iteration: 1
 Score = 43.5 bits (101), Expect = 3e-05,   Method: Compositional matrix adjust.
 Identities = 21/42 (50%), Positives = 31/42 (73%)
Query: 13 FKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTL 54
          FK+VL+G+S VGKS+L+ RF + +F    +STIG  F T+T+
Sbjct: 7  FKLVLLGESPVGKSSLVLRFVKGQFHEFQESTIGAAFLTQTV 48

>pdb|1N6O|A Chain A, Crystal Structure Of Human Rab5a A30k Mutant Complex With Gppnhp Length = 170

Iteration: 1
 Score = 43.1 bits (100), Expect = 4e-05,   Method: Compositional matrix adjust.
 Identities = 21/42 (50%), Positives = 31/42 (73%)
Query: 13 FKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTL 54
          FK+VL+G+S VGKS+L+ RF + +F    +STIG  F T+T+
Sbjct: 7  FKLVLLGESKVGKSSLVLRFVKGQFHEFQESTIGAAFLTQTV 48

>pdb|1N6P|A Chain A, Crystal Structure Of Human Rab5a A30e Mutant Complex With Gppnhp Length = 170

Iteration: 1
 Score = 42.7 bits (99), Expect = 5e-05,   Method: Compositional matrix adjust.
 Identities = 21/42 (50%), Positives = 31/42 (73%)
Query: 13 FKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTL 54
          FK+VL+G+S VGKS+L+ RF + +F    +STIG  F T+T+
Sbjct: 7  FKLVLLGESEVGKSSLVLRFVKGQFHEFQESTIGAAFLTQTV 48

>pdb|1N6N|A Chain A, Crystal Structure Of Human Rab5a A30r Mutant Complex With Gppnhp Length = 170

Iteration: 1
 Score = 42.7 bits (99), Expect = 5e-05,   Method: Compositional matrix adjust.
 Identities = 21/42 (50%), Positives = 31/42 (73%)
Query: 13 FKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTL 54
          FK+VL+G+S VGKS+L+ RF + +F    +STIG  F T+T+
Sbjct: 7  FKLVLLGESRVGKSSLVLRFVKGQFHEFQESTIGAAFLTQTV 48

>pdb|1N6R|A Chain A, Crystal Structure Of Human Rab5a A30l Mutant Complex With Gppnhp Length = 170

Iteration: 1
 Score = 42.4 bits (98), Expect = 7e-05,   Method: Compositional matrix adjust.
 Identities = 21/42 (50%), Positives = 31/42 (73%)
Query: 13 FKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTL 54
          FK+VL+G+S VGKS+L+ RF + +F    +STIG  F T+T+
Sbjct: 7  FKLVLLGESLVGKSSLVLRFVKGQFHEFQESTIGAAFLTQTV 48

>pdb|1Z07|A Chain A, Gppnhp-Bound Rab5c G55q Mutant Gtpase Length = 166

Iteration: 1
 Score = 42.0 bits (97), Expect = 8e-05,   Method: Compositional matrix adjust.
 Identities = 20/42 (47%), Positives = 30/42 (71%)
Query: 13 FKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTL 54
          FK+VL+G+S VGKS+L+ RF + +F    +STI   F T+T+
Sbjct: 6  FKLVLLGESAVGKSSLVLRFVKGQFHEYQESTIQAAFLTQTV 47

>pdb|1Z08|A Chain A, Gppnhp-Bound Rab21 Q53g Mutant Gtpase Length = 170

Iteration: 1
 Score = 40.8 bits (94), Expect = 2e-04,   Method: Compositional matrix adjust.
 Identities = 19/46 (41%), Positives = 31/46 (67%)
Query: 11 YLFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQV 56
          Y FKVVL+G+  VGK++L+ R+  N+F  +  +T+G  F T+ L +
Sbjct: 5  YSFKVVLLGEGCVGKTSLVLRYCENKFNDKHITTLGASFLTKKLNI 50

>pdb|1EK0|A Chain A, Gppnhp-Bound Ypt51 At 1.48 A Resolution Length = 170

Iteration: 1
 Score = 40.0 bits (92), Expect = 3e-04,   Method: Compositional matrix adjust.
 Identities = 17/44 (38%), Positives = 29/44 (65%)
Query: 13 FKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQV 56
           K+VL+G++ VGKS+++ RF  N+F    + TIG  F T+ + +
Sbjct: 4  IKLVLLGEAAVGKSSIVLRFVSNDFAENKEPTIGAAFLTQRVTI 47

>pdb|1D5C|A Chain A, Crystal Structure Of Plasmodium Falciparum Rab6 Complexed With Gdp Length = 162

Iteration: 1
 Score = 39.7 bits (91), Expect = 4e-04,   Method: Compositional matrix adjust.
 Identities = 16/42 (38%), Positives = 31/42 (73%)
Query: 13 FKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTL 54
          +K+V +G+  VGK+++++RF  + F    +STIG++F ++TL
Sbjct: 2  YKLVFLGEQAVGKTSIITRFXYDTFDNNYQSTIGIDFLSKTL 43

>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 = 39.3 bits (90), Expect = 5e-04,   Method: Compositional matrix adjust.
 Identities = 16/42 (38%), Positives = 31/42 (73%)
Query: 13 FKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTL 54
          FK+V +G+  VGK++L++RF  + F    ++TIG++F ++T+
Sbjct: 2  FKLVFLGEQSVGKTSLITRFMYDSFDNTYQATIGIDFLSKTM 43

>pdb|1YZQ|A Chain A, Gppnhp-Bound Rab6 Gtpase Length = 170

Iteration: 1
 Score = 39.3 bits (90), Expect = 6e-04,   Method: Compositional matrix adjust.
 Identities = 16/42 (38%), Positives = 31/42 (73%)
Query: 13 FKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTL 54
          FK+V +G+  VGK++L++RF  + F    ++TIG++F ++T+
Sbjct: 7  FKLVFLGEQSVGKTSLITRFMYDSFDNTYQATIGIDFLSKTM 48

>pdb|2FE4|A Chain A, The Crystal Structure Of Human Neuronal Rab6b In Its Inactive Gdp-Bound Form Length = 171

Iteration: 1
 Score = 39.3 bits (90), Expect = 6e-04,   Method: Compositional matrix adjust.
 Identities = 16/42 (38%), Positives = 31/42 (73%)
Query: 13 FKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTL 54
          FK+V +G+  VGK++L++RF  + F    ++TIG++F ++T+
Sbjct: 3  FKLVFLGEQSVGKTSLITRFMYDSFDNTYQATIGIDFLSKTM 44

>pdb|2Y8E|A Chain A, Crystal Structure Of D. Melanogaster Rab6 Gtpase Bound To Gmppnp Length = 179

Iteration: 1
 Score = 39.3 bits (90), Expect = 6e-04,   Method: Compositional matrix adjust.
 Identities = 16/42 (38%), Positives = 31/42 (73%)
Query: 13 FKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTL 54
          FK+V +G+  VGK++L++RF  + F    ++TIG++F ++T+
Sbjct: 15 FKLVFLGEQSVGKTSLITRFMYDSFDNTYQATIGIDFLSKTM 56

>pdb|3GJ0|A Chain A, Crystal Structure Of Human Rangdp Length = 221

Iteration: 1
 Score = 38.9 bits (89), Expect = 7e-04,   Method: Composition-based stats.
 Identities = 20/48 (41%), Positives = 27/48 (56%)
Query: 1  MARRADEEYDYLFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVE 48
          MA  A  E    FK+VL+GD G GK+  + R    EF  +  +T+GVE
Sbjct: 4  MASAAQGEPQVQFKLVLVGDGGTGKTTFVKRHLTGEFEKKYVATLGVE 51

>pdb|3CWZ|A Chain A, Strucure Of Rab6(Gtp)-R6ip1 Complex Length = 188

Iteration: 1
 Score = 38.9 bits (89), Expect = 7e-04,   Method: Compositional matrix adjust.
 Identities = 16/42 (38%), Positives = 31/42 (73%)
Query: 13 FKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTL 54
          FK+V +G+  VGK++L++RF  + F    ++TIG++F ++T+
Sbjct: 7  FKLVFLGEQSVGKTSLITRFMYDSFDNTYQATIGIDFLSKTM 48

>pdb|4DKX|A Chain A, Crystal Structure Of The Rab 6a'(Q72l) Length = 216

Iteration: 1
 Score = 38.9 bits (89), Expect = 8e-04,   Method: Compositional matrix adjust.
 Identities = 16/42 (38%), Positives = 31/42 (73%)
Query: 13 FKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTL 54
          FK+V +G+  VGK++L++RF  + F    ++TIG++F ++T+
Sbjct: 14 FKLVFLGEQSVGKTSLITRFMYDSFDNTYQATIGIDFLSKTM 55

>pdb|3BBP|A Chain A, Rab6-Gtp:gcc185 Rab Binding Domain Complex Length = 211

Iteration: 1
 Score = 38.5 bits (88), Expect = 9e-04,   Method: Compositional matrix adjust.
 Identities = 16/42 (38%), Positives = 31/42 (73%)
Query: 13 FKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTL 54
          FK+V +G+  VGK++L++RF  + F    ++TIG++F ++T+
Sbjct: 17 FKLVFLGEQSVGKTSLITRFMYDSFDNTYQATIGIDFLSKTM 58

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	68
2oil_A	193	CATX-8, RAS-related protein RAB-25; G-protein, GDP	2e-31
2o52_A	200	RAS-related protein RAB-4B; G-protein, GDP, struct	3e-31
2f7s_A	217	C25KG, RAS-related protein RAB-27B; G-protein, str	8e-31
1z0f_A	179	RAB14, member RAS oncogene family; RAB GTPase, ves	1e-30
3cpj_B	223	GTP-binding protein YPT31/YPT8; RAB GTPase, prenyl	1e-30
2ew1_A	201	RAS-related protein RAB-30; G-protein, GTP analogu	1e-30
1oix_A	191	RAS-related protein RAB-11A; small G protein, intr	2e-30
2il1_A	192	RAB12; G-protein, GDP, GTPase, predicted, structur	3e-30
3bc1_A	195	RAS-related protein RAB-27A; RAB27, GTPase, RAB, s	3e-30
3gj0_A	221	GTP-binding nuclear protein RAN; G protein, GDP, a	4e-30
1zbd_A	203	Rabphilin-3A; G protein, effector, RABCDR, synapti	6e-30
2bme_A	186	RAB4A, RAS-related protein RAB4A; GTP-binding prot	9e-30
3cph_A	213	RAS-related protein SEC4; RAB GTPase, prenylation,	1e-29
2gf9_A	189	RAS-related protein RAB-3D; G-protein, structural	1e-29
3tkl_A	196	RAS-related protein RAB-1A; vesicle trafficking, p	1e-29
1x3s_A	195	RAS-related protein RAB-18; GTPase, GNP, structura	2e-29
2bcg_Y	206	Protein YP2, GTP-binding protein YPT1; RABGTPase,	2e-29
1z06_A	189	RAS-related protein RAB-33B; RAB GTPase, RAB33B GT	2e-29
2hup_A	201	RAS-related protein RAB-43; G-protein, GDP, struct	3e-29
3tw8_B	181	RAS-related protein RAB-35; longin domain, RAB GTP	7e-29
2f9l_A	199	RAB11B, member RAS oncogene family; RAB11B GTPase,	8e-29
3l0i_B	199	RAS-related protein RAB-1A; GEF-GDF-RAB complex, G	9e-29
3dz8_A	191	RAS-related protein RAB-3B; GDP, GTPase, structura	1e-28
2fu5_C	183	RAS-related protein RAB-8A; MSS4:RAB8 protein comp	1e-28
2a5j_A	191	RAS-related protein RAB-2B; GTPase, signal transdu	1e-28
1wms_A	177	RAB-9, RAB9, RAS-related protein RAB-9A; GTPase, p	2e-28
1vg8_A	207	RAS-related protein RAB-7; GTP-binding protein, pr	3e-28
2g6b_A	180	RAS-related protein RAB-26; G-protein, GTP analogu	5e-28
2efe_B	181	Small GTP-binding protein-like; GEF, GTPase, VPS9,	6e-28
2p5s_A	199	RAS and EF-hand domain containing; G-protein, RAB,	6e-28
2hxs_A	178	RAB-26, RAS-related protein RAB-28; GTPase, signal	7e-28
1z2a_A	168	RAS-related protein RAB-23; RAB GTPase, vesicular	1e-27
1ky3_A	182	GTP-binding protein YPT7P; vesicular traffic, GTP	3e-27
1z08_A	170	RAS-related protein RAB-21; RAB GTPase, vesicular	3e-27
2y8e_A	179	RAB-protein 6, GH09086P, RAB6; hydrolase, nucleoti	4e-27
2yc2_C	208	IFT27, small RAB-related GTPase; transport protein	7e-27
4djt_A	218	GTP-binding nuclear protein GSP1; structural genom	9e-27
3bbp_A	211	RAB-6, RAS-related protein RAB-6A; golgi complex,	3e-26
1g16_A	170	RAS-related protein SEC4; G protein RAB, signaling	3e-26
2fg5_A	192	RAB-22B, RAS-related protein RAB-31; G-protein, GT	4e-26
1z0j_A	170	RAB-22, RAS-related protein RAB-22A; RAB GTPase, R	3e-24
3clv_A	208	RAB5 protein, putative; malaria, GTPase, structura	3e-24
1r2q_A	170	RAS-related protein RAB-5A; GTPase, GNP, atomic re	5e-24
1ek0_A	170	Protein (GTP-binding protein YPT51); vesicular tra	2e-23
3cbq_A	195	GTP-binding protein REM 2; FLJ38964A, structural g	1e-21
2zej_A	184	Dardarin, leucine-rich repeat kinase 2; parkinson'	3e-18
2g3y_A	211	GTP-binding protein GEM; small GTPase, GDP, inacti	4e-18
3q85_A	169	GTP-binding protein REM 2; G-domain, CAV2 beta, si	5e-18
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
2nzj_A	175	GTP-binding protein REM 1; GDP/GTP binding, GTP hy	2e-16
2cjw_A	192	GTP-binding protein GEM; nucleotide-binding, small	2e-16
2fn4_A	181	P23, RAS-related protein R-RAS; GDP/GTP binding, G	2e-14
1u8z_A	168	RAS-related protein RAL-A; GNP, GTP, GMPPNP, GPPNH	6e-14
2gf0_A	199	GTP-binding protein DI-RAS1; GDP/GTP binding, GTP	5e-13
3oes_A	201	GTPase rhebl1; small GTPase, structural genomics,	7e-13
3dpu_A	535	RAB family protein; roccor, G-domain, COR, GTP-bin	7e-13
3kkq_A	183	RAS-related protein M-RAS; GTP-binding, GTPase, si	3e-12
3q72_A	166	GTP-binding protein RAD; G-domain, CAV2 beta, sign	1e-11
2atv_A	196	RERG, RAS-like estrogen-regulated growth inhibitor	4e-11
2iwr_A	178	Centaurin gamma 1; ANK repeat, zinc-finger, GTP-bi	6e-11
2ce2_X	166	GTPase HRAS; signaling protein, guanine nucleotide	1e-10
3c5c_A	187	RAS-like protein 12; GDP, GTPase, structural genom	1e-10
3t5g_A	181	GTP-binding protein RHEB; immunoglobulin-like beta	2e-10
2erx_A	172	GTP-binding protein DI-RAS2; GTP hydrolysis, trans	2e-10
4dsu_A	189	GTPase KRAS, isoform 2B; small G-protein, signalin	5e-10
3con_A	190	GTPase NRAS; structural genomics consortium, SGC,	6e-10
1c1y_A	167	RAS-related protein RAP-1A; GTP-binding proteins,	1e-09
3ihw_A	184	Centg3; RAS, centaurin, GTPase, structural genomic	2e-09
1gwn_A	205	RHO-related GTP-binding protein RHOE; GTPase, inac	2e-09
3reg_A	194	RHO-like small GTPase; cytoskeleton, nucleotide-bi	3e-09
1kao_A	167	RAP2A; GTP-binding protein, small G protein, GDP,	3e-09
3q3j_B	214	RHO-related GTP-binding protein RHO6; RAS-binding	2e-08
2gco_A	201	H9, RHO-related GTP-binding protein RHOC; GTPase,s	4e-08
2j1l_A	214	RHO-related GTP-binding protein RHOD; GTPase, memb	5e-08
3th5_A	204	RAS-related C3 botulinum toxin substrate 1; rossma	1e-07
3bwd_D	182	RAC-like GTP-binding protein ARAC6; G domain, cyto	1e-07
2atx_A	194	Small GTP binding protein TC10; GTPase, P-loop, al	4e-07
2fv8_A	207	H6, RHO-related GTP-binding protein RHOB; GDP/GTP	4e-07
1m7b_A	184	RND3/RHOE small GTP-binding protein; small GTPase,	5e-07
2j0v_A	212	RAC-like GTP-binding protein ARAC7; nucleotide-bin	8e-07
2q3h_A	201	RAS homolog gene family, member U; GTPase, structu	9e-07
1mh1_A	186	RAC1; GTP-binding, GTPase, small G-protein, RHO fa	3e-06
3c5h_A	255	Glucocorticoid receptor DNA-binding factor 1; RAS,	4e-04

>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 =  106 bits (267), Expect = 2e-31
 Identities = 36/56 (64%), Positives = 49/56 (87%)

Query: 1  MARRADEEYDYLFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQV 56
          +  R  E+Y+++FKVVLIG+SGVGK+NLLSRFTRNEF  +S++TIGVEF+TRT+ +
Sbjct: 14 LVPRGSEDYNFVFKVVLIGESGVGKTNLLSRFTRNEFSHDSRTTIGVEFSTRTVML 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 =  106 bits (267), Expect = 3e-31
 Identities = 25/56 (44%), Positives = 35/56 (62%)

Query: 1  MARRADEEYDYLFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQV 56
          +  R     D+LFK ++IG +G GKS LL +F  N+F  +S  TIGVEF +R + V
Sbjct: 14 LVPRGSIWSDFLFKFLVIGSAGTGKSCLLHQFIENKFKQDSNHTIGVEFGSRVVNV 69

>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 =  105 bits (265), Expect = 8e-31
 Identities = 21/56 (37%), Positives = 36/56 (64%)

Query: 1  MARRADEEYDYLFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQV 56
          +  R   +YDYL K++ +GDSGVGK+  L R+T N+F  +  +T+G++F  + +  
Sbjct: 14 LVPRGSGDYDYLIKLLALGDSGVGKTTFLYRYTDNKFNPKFITTVGIDFREKRVVY 69

>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 =  104 bits (262), Expect = 1e-30
 Identities = 27/56 (48%), Positives = 36/56 (64%)

Query: 1  MARRADEEYDYLFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQV 56
           +  A   Y Y+FK ++IGD GVGKS LL +FT  +F  +   TIGVEF TR ++V
Sbjct: 4  GSATAPYNYSYIFKYIIIGDMGVGKSCLLHQFTEKKFMADCPHTIGVEFGTRIIEV 59

>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 =  105 bits (264), Expect = 1e-30
 Identities = 40/55 (72%), Positives = 48/55 (87%)

Query: 2  ARRADEEYDYLFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQV 56
          +     +YD LFK+VLIGDSGVGKSNLLSRFT+NEF ++SKSTIGVEFATRTL++
Sbjct: 3  SEDYGYDYDLLFKIVLIGDSGVGKSNLLSRFTKNEFNMDSKSTIGVEFATRTLEI 57

>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 =  104 bits (262), Expect = 1e-30
 Identities = 26/56 (46%), Positives = 42/56 (75%)

Query: 1  MARRADEEYDYLFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQV 56
          + R + E+YD+LFK+VLIG++GVGK+ L+ RFT+  F     +TIGV+F  +T+++
Sbjct: 15 VPRGSMEDYDFLFKIVLIGNAGVGKTCLVRRFTQGLFPPGQGATIGVDFMIKTVEI 70

>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 =  104 bits (261), Expect = 2e-30
 Identities = 47/53 (88%), Positives = 50/53 (94%)

Query: 4  RADEEYDYLFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQV 56
            D+EYDYLFKVVLIGDSGVGKSNLLSRFTRNEF LESKSTIGVEFATR++QV
Sbjct: 21 TRDDEYDYLFKVVLIGDSGVGKSNLLSRFTRNEFNLESKSTIGVEFATRSIQV 73

>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 =  103 bits (260), Expect = 3e-30
 Identities = 22/56 (39%), Positives = 38/56 (67%)

Query: 1  MARRADEEYDYLFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQV 56
          + R +    D+  +V++IG  GVGK++L+ RFT + FC   KST+GV+F  +T+++
Sbjct: 15 VPRGSPRPADFKLQVIIIGSRGVGKTSLMERFTDDTFCEACKSTVGVDFKIKTVEL 70

>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 =  103 bits (259), Expect = 3e-30
 Identities = 19/55 (34%), Positives = 36/55 (65%)

Query: 2  ARRADEEYDYLFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQV 56
             +D +YDYL K + +GDSGVGK+++L ++T  +F  +  +T+G++F  + +  
Sbjct: 1  GSMSDGDYDYLIKFLALGDSGVGKTSVLYQYTDGKFNSKFITTVGIDFREKRVVY 55

>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 =  103 bits (260), Expect = 4e-30
 Identities = 20/56 (35%), Positives = 27/56 (48%)

Query: 1  MARRADEEYDYLFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQV 56
          MA  A  E    FK+VL+GD G GK+  + R    EF  +  +T+GVE        
Sbjct: 4  MASAAQGEPQVQFKLVLVGDGGTGKTTFVKRHLTGEFEKKYVATLGVEVHPLVFHT 59

>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 =  103 bits (258), Expect = 6e-30
 Identities = 18/52 (34%), Positives = 33/52 (63%)

Query: 5  ADEEYDYLFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQV 56
              +DY+FK+++IG+S VGK++ L R+  + F     ST+G++F  +T+  
Sbjct: 1  GSHMFDYMFKILIIGNSSVGKTSFLFRYADDSFTPAFVSTVGIDFKVKTIYR 52

>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 =  102 bits (256), Expect = 9e-30
 Identities = 24/51 (47%), Positives = 35/51 (68%)

Query: 6  DEEYDYLFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQV 56
           E YD+LFK ++IG++G GKS LL +F   +F  +S  TIGVEF ++ + V
Sbjct: 4  SETYDFLFKFLVIGNAGTGKSCLLHQFIEKKFKDDSNHTIGVEFGSKIINV 54

>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 =  102 bits (257), Expect = 1e-29
 Identities = 23/56 (41%), Positives = 36/56 (64%)

Query: 1  MARRADEEYDYLFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQV 56
           +    + YD + K++LIGDSGVGKS LL RF  ++F     +TIG++F  +T+ +
Sbjct: 9  ASSGNGKSYDSIMKILLIGDSGVGKSCLLVRFVEDKFNPSFITTIGIDFKIKTVDI 64

>2gf9_A RAS-related protein RAB-3D; G-protein, structural genomics, structural genomics consortium, SGC, protein transport; HET: GDP; 1.53A {Homo sapiens} PDB: 3rab_A* Length = 189

 Score =  101 bits (255), Expect = 1e-29
 Identities = 19/55 (34%), Positives = 33/55 (60%)

Query: 2  ARRADEEYDYLFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQV 56
          +       DY+FK++LIG+S VGK++ L R+  + F     ST+G++F  +T+  
Sbjct: 12 SGLVPRGSDYMFKLLLIGNSSVGKTSFLFRYADDSFTPAFVSTVGIDFKVKTVYR 66

>3tkl_A RAS-related protein RAB-1A; vesicle trafficking, protein transport-protein binding compl; HET: GTP; 2.18A {Homo sapiens} Length = 196

 Score =  101 bits (255), Expect = 1e-29
 Identities = 29/53 (54%), Positives = 38/53 (71%)

Query: 4  RADEEYDYLFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQV 56
            + EYDYLFK++LIGDSGVGKS LL RF  + +     STIGV+F  RT+++
Sbjct: 8  SMNPEYDYLFKLLLIGDSGVGKSCLLLRFADDTYTESYISTIGVDFKIRTIEL 60

>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 =  101 bits (255), Expect = 2e-29
 Identities = 25/55 (45%), Positives = 37/55 (67%)

Query: 2  ARRADEEYDYLFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQV 56
          +   DE+     K+++IG+SGVGKS+LL RFT + F  E  +TIGV+F  +T+ V
Sbjct: 5  SSGMDEDVLTTLKILIIGESGVGKSSLLLRFTDDTFDPELAATIGVDFKVKTISV 59

>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 =  101 bits (255), Expect = 2e-29
 Identities = 27/51 (52%), Positives = 40/51 (78%)

Query: 6  DEEYDYLFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQV 56
          + EYDYLFK++LIG+SGVGKS LL RF+ + +  +  STIGV+F  +T+++
Sbjct: 2  NSEYDYLFKLLLIGNSGVGKSCLLLRFSDDTYTNDYISTIGVDFKIKTVEL 52

>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 =  101 bits (254), Expect = 2e-29
 Identities = 19/55 (34%), Positives = 31/55 (56%)

Query: 2  ARRADEEYDYLFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQV 56
          +         +FK+++IGDS VGK+ L  RF    F   +++TIGV+F  R + +
Sbjct: 10 SLVPRGSRSRIFKIIVIGDSNVGKTCLTYRFCAGRFPDRTEATIGVDFRERAVDI 64

>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 =  101 bits (253), Expect = 3e-29
 Identities = 25/53 (47%), Positives = 37/53 (69%)

Query: 4  RADEEYDYLFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQV 56
            DE+YD+LFK+VL+GD+ VGK+ ++ RF    F     STIGV+F  +TL++
Sbjct: 21 DPDEQYDFLFKLVLVGDASVGKTCVVQRFKTGAFSERQGSTIGVDFTMKTLEI 73

>3tw8_B RAS-related protein RAB-35; longin domain, RAB GTPase, guanine exchange factor; 2.10A {Homo sapiens} Length = 181

 Score =   99 bits (250), Expect = 7e-29
 Identities = 27/51 (52%), Positives = 38/51 (74%)

Query: 6  DEEYDYLFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQV 56
            +YD+LFK+++IGDSGVGKS+LL RF  N F     +TIGV+F  RT+++
Sbjct: 3  ARDYDHLFKLLIIGDSGVGKSSLLLRFADNTFSGSYITTIGVDFKIRTVEI 53

>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 =  100 bits (250), Expect = 8e-29
 Identities = 45/48 (93%), Positives = 47/48 (97%)

Query: 9  YDYLFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQV 56
          YDYLFKVVLIGDSGVGKSNLLSRFTRNEF LESKSTIGVEFATR++QV
Sbjct: 2  YDYLFKVVLIGDSGVGKSNLLSRFTRNEFNLESKSTIGVEFATRSIQV 49

>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 =  100 bits (250), Expect = 9e-29
 Identities = 29/53 (54%), Positives = 38/53 (71%)

Query: 4  RADEEYDYLFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQV 56
            + EYDYLFK++LIGDSGVGKS LL RF  + +     STIGV+F  RT+++
Sbjct: 25 SMNPEYDYLFKLLLIGDSGVGKSCLLLRFADDTYTESYISTIGVDFKIRTIEL 77

>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 = 99.6 bits (249), Expect = 1e-28
 Identities = 18/56 (32%), Positives = 33/56 (58%)

Query: 1  MARRADEEYDYLFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQV 56
                  +DY+FK+++IG+S VGK++ L R+  + F     ST+G++F  +T+  
Sbjct: 12 ENLYFQGNFDYMFKLLIIGNSSVGKTSFLFRYADDTFTPAFVSTVGIDFKVKTVYR 67

>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 = 99.2 bits (248), Expect = 1e-28
 Identities = 26/51 (50%), Positives = 38/51 (74%)

Query: 6  DEEYDYLFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQV 56
           + YDYLFK++LIGDSGVGK+ +L RF+ + F     STIG++F  RT+++
Sbjct: 2  AKTYDYLFKLLLIGDSGVGKTCVLFRFSEDAFNSTFISTIGIDFKIRTIEL 52

>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 = 99.6 bits (249), Expect = 1e-28
 Identities = 24/52 (46%), Positives = 30/52 (57%)

Query: 5  ADEEYDYLFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQV 56
                YLFK ++IGD+GVGKS LL +FT   F      TIGVEF  R + +
Sbjct: 14 LVPRGSYLFKYIIIGDTGVGKSCLLLQFTDKRFQPVHDLTIGVEFGARMVNI 65

>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 = 98.4 bits (246), Expect = 2e-28
 Identities = 24/49 (48%), Positives = 34/49 (69%)

Query: 8  EYDYLFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQV 56
              LFKV+L+GD GVGKS+L++R+  N+F  +   TIGVEF  + L+V
Sbjct: 3  GKSSLFKVILLGDGGVGKSSLMNRYVTNKFDTQLFHTIGVEFLNKDLEV 51

>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 = 99.3 bits (248), Expect = 3e-28
 Identities = 19/50 (38%), Positives = 34/50 (68%)

Query: 7  EEYDYLFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQV 56
               L KV+++GDSGVGK++L++++   +F  + K+TIG +F T+ + V
Sbjct: 3  SRKKVLLKVIILGDSGVGKTSLMNQYVNKKFSNQYKATIGADFLTKEVMV 52

>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 = 97.6 bits (244), Expect = 5e-28
 Identities = 24/53 (45%), Positives = 33/53 (62%), Gaps = 1/53 (1%)

Query: 5  ADEEYDYLFKVVLIGDSGVGKSNLLSRFTRNEFCLES-KSTIGVEFATRTLQV 56
            + YD  FKV+L+GDSGVGK+ LL RF    F   +  ST+G++F  + L V
Sbjct: 3  GVDFYDVAFKVMLVGDSGVGKTCLLVRFKDGAFLAGTFISTVGIDFRNKVLDV 55

>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 = 97.6 bits (244), Expect = 6e-28
 Identities = 22/52 (42%), Positives = 32/52 (61%)

Query: 5  ADEEYDYLFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQV 56
          A        K+VL+GD G GKS+L+ RF +++F    +STIG  F ++TL V
Sbjct: 5  AAGNKSINAKLVLLGDVGAGKSSLVLRFVKDQFVEFQESTIGAAFFSQTLAV 56

>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 = 97.7 bits (244), Expect = 6e-28
 Identities = 21/55 (38%), Positives = 30/55 (54%)

Query: 2  ARRADEEYDYLFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQV 56
                     +K+VL GD+ VGKS+ L R  +NEF     +T+GV+F  +TL V
Sbjct: 18 GSAKSFSSQKAYKIVLAGDAAVGKSSFLMRLCKNEFRENISATLGVDFQMKTLIV 72

>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 = 97.2 bits (243), Expect = 7e-28
 Identities = 15/48 (31%), Positives = 28/48 (58%)

Query: 9  YDYLFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQV 56
          +    K+V++GD   GK++L + F +  F  + K TIG++F  R + +
Sbjct: 3  HMRQLKIVVLGDGASGKTSLTTCFAQETFGKQYKQTIGLDFFLRRITL 50

>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 = 96.0 bits (240), Expect = 1e-27
 Identities = 18/48 (37%), Positives = 31/48 (64%)

Query: 9  YDYLFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQV 56
           +   K+V++G+  VGKS+++ R+ +  F  + K TIGV+F  R +QV
Sbjct: 2  SEVAIKMVVVGNGAVGKSSMIQRYCKGIFTKDYKKTIGVDFLERQIQV 49

>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 = 95.7 bits (239), Expect = 3e-27
 Identities = 18/50 (36%), Positives = 34/50 (68%)

Query: 7  EEYDYLFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQV 56
               + KV+++GDSGVGK++L+ R+  +++  + K+TIG +F T+ + V
Sbjct: 3  SRKKNILKVIILGDSGVGKTSLMHRYVNDKYSQQYKATIGADFLTKEVTV 52

>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 = 95.3 bits (238), Expect = 3e-27
 Identities = 19/48 (39%), Positives = 31/48 (64%)

Query: 9  YDYLFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQV 56
            Y FKVVL+G+  VGK++L+ R+  N+F  +  +T+G  F T+ L +
Sbjct: 3  RAYSFKVVLLGEGCVGKTSLVLRYCENKFNDKHITTLGASFLTKKLNI 50

>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 = 95.3 bits (238), Expect = 4e-27
 Identities = 17/56 (30%), Positives = 34/56 (60%)

Query: 1  MARRADEEYDYLFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQV 56
          M+          FK+V +G+  VGK++L++RF  + F    ++TIG++F ++T+ +
Sbjct: 3  MSSGDFGNPLRKFKLVFLGEQSVGKTSLITRFMYDSFDNTYQATIGIDFLSKTMYL 58

>2yc2_C IFT27, small RAB-related GTPase; transport protein, cilium, IFT complex; 2.59A {Chlamydomonas reinhardtii} PDB: 2yc4_C Length = 208

 Score = 95.4 bits (238), Expect = 7e-27
 Identities = 17/53 (32%), Positives = 27/53 (50%), Gaps = 2/53 (3%)

Query: 6  DEEYDYLFKVVLIGDSGVGKSNLLSRFTR--NEFCLESKSTIGVEFATRTLQV 56
          D       KV ++G++ VGKS L+S FT   ++F  +   T GVE     + +
Sbjct: 14 DITATLRCKVAVVGEATVGKSALISMFTSKGSKFLKDYAMTSGVEVVVAPVTI 66

>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 = 95.5 bits (238), Expect = 9e-27
 Identities = 15/56 (26%), Positives = 24/56 (42%), Gaps = 1/56 (1%)

Query: 2  ARRADEEYDYLFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVE-FATRTLQV 56
             + E  +  +K+ LIGD GVGK+  ++R     F     +T+G        L  
Sbjct: 1  GPGSMERRELTYKICLIGDGGVGKTTYINRVLDGRFEKNYNATVGAVNHPVTFLDD 56

>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 = 93.9 bits (234), Expect = 3e-26
 Identities = 18/57 (31%), Positives = 35/57 (61%), Gaps = 1/57 (1%)

Query: 1  MARRADE-EYDYLFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQV 56
          M+   D       FK+V +G+  VGK++L++RF  + F    ++TIG++F ++T+ +
Sbjct: 4  MSTGGDFGNPLRKFKLVFLGEQSVGKTSLITRFMYDSFDNTYQATIGIDFLSKTMYL 60

>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 = 92.6 bits (231), Expect = 3e-26
 Identities = 22/47 (46%), Positives = 33/47 (70%)

Query: 10 DYLFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQV 56
          D + K++LIGDSGVGKS LL RF  ++F     +TIG++F  +T+ +
Sbjct: 1  DSIMKILLIGDSGVGKSCLLVRFVEDKFNPSFITTIGIDFKIKTVDI 47

>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 = 93.1 bits (232), Expect = 4e-26
 Identities = 19/55 (34%), Positives = 28/55 (50%)

Query: 2  ARRADEEYDYLFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQV 56
                      KV L+GD+GVGKS+++ RF ++ F      TIG  F T+T+  
Sbjct: 13 GLVPRGSAIRELKVCLLGDTGVGKSSIVCRFVQDHFDHNISPTIGASFMTKTVPC 67

>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 = 87.9 bits (219), Expect = 3e-24
 Identities = 20/44 (45%), Positives = 28/44 (63%)

Query: 13 FKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQV 56
           KV L+GD+GVGKS+++ RF  + F      TIG  F T+T+Q 
Sbjct: 7  LKVCLLGDTGVGKSSIMWRFVEDSFDPNINPTIGASFMTKTVQY 50

>3clv_A RAB5 protein, putative; malaria, GTPase, structural genomics, GTP-binding, nucleotide-binding, signaling protein; HET: GDP; 1.89A {Plasmodium falciparum} Length = 208

 Score = 88.7 bits (220), Expect = 3e-24
 Identities = 18/49 (36%), Positives = 30/49 (61%)

Query: 8  EYDYLFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQV 56
          E    +K VL+G+S VGKS+++ R T++ F   + +TIG  F T  + +
Sbjct: 3  EKKSSYKTVLLGESSVGKSSIVLRLTKDTFHENTNTTIGASFCTYVVNL 51

>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 = 87.2 bits (217), Expect = 5e-24
 Identities = 21/46 (45%), Positives = 32/46 (69%)

Query: 11 YLFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQV 56
            FK+VL+G+S VGKS+L+ RF + +F    +STIG  F T+T+ +
Sbjct: 5  CQFKLVLLGESAVGKSSLVLRFVKGQFHEFQESTIGAAFLTQTVCL 50

>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 = 85.6 bits (212), Expect = 2e-23
 Identities = 17/44 (38%), Positives = 29/44 (65%)

Query: 13 FKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQV 56
           K+VL+G++ VGKS+++ RF  N+F    + TIG  F T+ + +
Sbjct: 4  IKLVLLGEAAVGKSSIVLRFVSNDFAENKEPTIGAAFLTQRVTI 47

>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 = 81.9 bits (203), Expect = 1e-21
 Identities = 16/51 (31%), Positives = 25/51 (49%)

Query: 6  DEEYDYLFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQV 56
            + D +FKV+L+G+SGVGKS L   F   +     +     +   R + V
Sbjct: 17 QGQKDGIFKVMLVGESGVGKSTLAGTFGGLQGDSAHEPENPEDTYERRIMV 67

>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 = 72.8 bits (179), Expect = 3e-18
 Identities = 10/46 (21%), Positives = 26/46 (56%), Gaps = 2/46 (4%)

Query: 13 FKVVLIGDSGVGKSNLLSRFTRNEF--CLESKSTIGVEFATRTLQV 56
           K++++G++G GK+ LL +  + +        +T+G++     +Q+
Sbjct: 3  MKLMIVGNTGSGKTTLLQQLMKTKKSDLGMQSATVGIDVKDWPIQI 48

>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 = 73.1 bits (180), Expect = 4e-18
 Identities = 19/54 (35%), Positives = 29/54 (53%), Gaps = 1/54 (1%)

Query: 4  RADEEYDYLFKVVLIGDSGVGKSNLLSRFTRNEFCLESK-STIGVEFATRTLQV 56
           + E  +  ++VVLIG+ GVGKS L + F      ++S    +G +   RTL V
Sbjct: 29 ISSESGNTYYRVVLIGEQGVGKSTLANIFAGVHDSMDSDCEVLGEDTYERTLMV 82

>3q85_A GTP-binding protein REM 2; G-domain, CAV2 beta, signaling protein; HET: GNP; 1.76A {Mus musculus} Length = 169

 Score = 71.8 bits (177), Expect = 5e-18
 Identities = 15/45 (33%), Positives = 23/45 (51%)

Query: 12 LFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQV 56
          +FKV+L+G+SGVGKS L   F   +     +     +   R + V
Sbjct: 2  VFKVMLVGESGVGKSTLAGTFGGLQGDHAHEMENSEDTYERRIMV 46

>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 = 68.3 bits (168), Expect = 2e-16
 Identities = 14/55 (25%), Positives = 26/55 (47%), Gaps = 1/55 (1%)

Query: 2  ARRADEEYDYLFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQV 56
               +    L KV+++G  GVGKS L  +F  +EF  + + T    +  + + +
Sbjct: 8  GGGGSQNSLALHKVIMVGSGGVGKSALTLQFMYDEFVEDYEPTKADSY-RKKVVL 61

>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 = 68.4 bits (168), Expect = 2e-16
 Identities = 16/58 (27%), Positives = 29/58 (50%), Gaps = 3/58 (5%)

Query: 1  MA--RRADEEYDYLFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQV 56
          MA  +   +    L KV+++G  GVGKS L  +F  +EF  + + T    +  + + +
Sbjct: 1  MAANKPKGQNSLALHKVIMVGSGGVGKSALTLQFMYDEFVEDYEPTKADSY-RKKVVL 57

>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 = 67.6 bits (166), Expect = 2e-16
 Identities = 18/45 (40%), Positives = 27/45 (60%), Gaps = 1/45 (2%)

Query: 12 LFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQV 56
          L++VVL+GD GVGK++L S F   +   +    +G +   RTL V
Sbjct: 4  LYRVVLLGDPGVGKTSLASLFAGKQE-RDLHEQLGEDVYERTLTV 47

>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 = 68.1 bits (167), Expect = 2e-16
 Identities = 19/51 (37%), Positives = 27/51 (52%), Gaps = 1/51 (1%)

Query: 7  EEYDYLFKVVLIGDSGVGKSNLLSRFTRNEFCLESK-STIGVEFATRTLQV 56
          E     ++VVLIG+ GVGKS L + F      ++S    +G +   RTL V
Sbjct: 1  EFGMTYYRVVLIGEQGVGKSTLANIFAGVHDSMDSDXEVLGEDTYERTLMV 51

>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 = 62.9 bits (154), Expect = 2e-14
 Identities = 16/51 (31%), Positives = 25/51 (49%), Gaps = 1/51 (1%)

Query: 6  DEEYDYLFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQV 56
          D       K+V++G  GVGKS L  +F ++ F  +   TI   + T+   V
Sbjct: 3  DPPPSETHKLVVVGGGGVGKSALTIQFIQSYFVSDYDPTIEDSY-TKICSV 52

>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 = 61.3 bits (150), Expect = 6e-14
 Identities = 14/45 (31%), Positives = 25/45 (55%), Gaps = 1/45 (2%)

Query: 12 LFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQV 56
          L KV+++G  GVGKS L  +F  +EF  + + T    +  + + +
Sbjct: 4  LHKVIMVGSGGVGKSALTLQFMYDEFVEDYEPTKADSY-RKKVVL 47

>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 = 59.2 bits (144), Expect = 5e-13
 Identities = 15/49 (30%), Positives = 24/49 (48%), Gaps = 1/49 (2%)

Query: 8  EYDYLFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQV 56
          E    ++VV+ G  GVGKS+L+ RF +  F      TI   +  + +  
Sbjct: 4  EQSNDYRVVVFGAGGVGKSSLVLRFVKGTFRDTYIPTIEDTY-RQVISC 51

>3oes_A GTPase rhebl1; small GTPase, structural genomics, structural genomics conso SGC, hydrolase; HET: GNP; 2.30A {Homo sapiens} Length = 201

 Score = 59.1 bits (144), Expect = 7e-13
 Identities = 12/48 (25%), Positives = 23/48 (47%), Gaps = 1/48 (2%)

Query: 9  YDYLFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQV 56
               KVV++G   VGK++L  +F   EF      T+   + ++ + +
Sbjct: 21 LVRYRKVVILGYRCVGKTSLAHQFVEGEFSEGYDPTVENTY-SKIVTL 67

>3dpu_A RAB family protein; roccor, G-domain, COR, GTP-binding, nucleotide-binding, SIGN protein; 2.90A {Chlorobaculum tepidum} Length = 535

 Score = 60.4 bits (146), Expect = 7e-13
 Identities = 14/61 (22%), Positives = 23/61 (37%)

Query: 1  MARRADEEYDYLFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQVTNFS 60
           ++     +    KV LIGD   GK++LL +     F  +   T G+   T+        
Sbjct: 30 RSKGEALVHLQEIKVHLIGDGMAGKTSLLKQLIGETFDPKESQTHGLNVVTKQAPNIKGL 89

Query: 61 S 61
           
Sbjct: 90 E 90

>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 = 57.2 bits (139), Expect = 3e-12
 Identities = 15/55 (27%), Positives = 26/55 (47%), Gaps = 1/55 (1%)

Query: 2  ARRADEEYDYLFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQV 56
                E    +K+V++GD GVGKS L  +F +  F  +   TI   +  +  ++
Sbjct: 8  TSAVPSENLPTYKLVVVGDGGVGKSALTIQFFQKIFVDDYDPTIEDSY-LKHTEI 61

>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 = 55.2 bits (134), Expect = 1e-11
 Identities = 16/45 (35%), Positives = 24/45 (53%), Gaps = 2/45 (4%)

Query: 12 LFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQV 56
          ++KV+L+G  GVGKS L   F   E   E+    G  +  R++ V
Sbjct: 2  VYKVLLLGAPGVGKSALARIFGGVEDGPEA-EAAGHTY-DRSIVV 44

>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 = 54.2 bits (131), Expect = 4e-11
 Identities = 13/48 (27%), Positives = 20/48 (41%), Gaps = 1/48 (2%)

Query: 9  YDYLFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQV 56
               K+ + G +GVGKS L+ RF    F  E   T+   +      +
Sbjct: 25 KSAEVKLAIFGRAGVGKSALVVRFLTKRFIWEYDPTLESTY-RHQATI 71

>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 = 53.4 bits (129), Expect = 6e-11
 Identities = 10/45 (22%), Positives = 23/45 (51%), Gaps = 2/45 (4%)

Query: 12 LFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQV 56
            ++ ++GD+  GKS+L+ RF    +    + T   ++  + + V
Sbjct: 7  ELRLGVLGDARSGKSSLIHRFLTGSY-QVLEKTESEQY-KKEMLV 49

>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 = 52.5 bits (127), Expect = 1e-10
 Identities = 14/44 (31%), Positives = 24/44 (54%), Gaps = 1/44 (2%)

Query: 13 FKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQV 56
          +K+V++G  GVGKS L  +  +N F  E   TI   +  + + +
Sbjct: 4  YKLVVVGAGGVGKSALTIQLIQNHFVDECDPTIEDSY-RKQVVI 46

>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 = 52.6 bits (127), Expect = 1e-10
 Identities = 10/47 (21%), Positives = 17/47 (36%), Gaps = 1/47 (2%)

Query: 10 DYLFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQV 56
               + ++G  G GKS L  +F    F  E    +   + +    V
Sbjct: 19 PLEVNLAILGRRGAGKSALTVKFLTKRFISEYDPNLEDTY-SSEETV 64

>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 = 52.1 bits (126), Expect = 2e-10
 Identities = 14/48 (29%), Positives = 22/48 (45%), Gaps = 1/48 (2%)

Query: 9  YDYLFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQV 56
               K+ ++G   VGKS+L  +F   +F      TI   F T+ + V
Sbjct: 3  QSKSRKIAILGYRSVGKSSLTIQFVEGQFVDSYDPTIENTF-TKLITV 49

>2erx_A GTP-binding protein DI-RAS2; GTP hydrolysis, transport protein; HET: GDP; 1.65A {Homo sapiens} SCOP: c.37.1.8 Length = 172

 Score = 52.1 bits (126), Expect = 2e-10
 Identities = 12/44 (27%), Positives = 22/44 (50%), Gaps = 1/44 (2%)

Query: 13 FKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQV 56
          ++V + G  GVGKS+L+ RF +  F      T+   +  + +  
Sbjct: 4  YRVAVFGAGGVGKSSLVLRFVKGTFRESYIPTVEDTY-RQVISC 46

>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 = 51.4 bits (124), Expect = 5e-10
 Identities = 14/44 (31%), Positives = 24/44 (54%), Gaps = 1/44 (2%)

Query: 13 FKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQV 56
          +K+V++G  GVGKS L  +  +N F  E   TI   +  + + +
Sbjct: 5  YKLVVVGADGVGKSALTIQLIQNHFVDEYDPTIEDSY-RKQVVI 47

>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 = 51.1 bits (123), Expect = 6e-10
 Identities = 14/37 (37%), Positives = 21/37 (56%)

Query: 13 FKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEF 49
          +K+V++G  GVGKS L  +  +N F  E   TI   +
Sbjct: 22 YKLVVVGAGGVGKSALTIQLIQNHFVDEYDPTIEDSY 58

>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 = 49.8 bits (120), Expect = 1e-09
 Identities = 13/37 (35%), Positives = 21/37 (56%)

Query: 13 FKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEF 49
          +K+V++G  GVGKS L  +F +  F  +   TI   +
Sbjct: 4  YKLVVLGSGGVGKSALTVQFVQGIFVEKYDPTIEDSY 40

>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 = 49.5 bits (119), Expect = 2e-09
 Identities = 12/44 (27%), Positives = 23/44 (52%), Gaps = 2/44 (4%)

Query: 13 FKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQV 56
           KV ++G+   GKS L+ R+    + ++ +S  G  F  + + V
Sbjct: 21 LKVGIVGNLSSGKSALVHRYLTGTY-VQEESPEGGRF-KKEIVV 62

>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 = 49.7 bits (119), Expect = 2e-09
 Identities = 13/48 (27%), Positives = 22/48 (45%)

Query: 4  RADEEYDYLFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFAT 51
            D   +   K+V++GDS  GK+ LL  F ++ F      T+   +  
Sbjct: 20 HMDPNQNVKCKIVVVGDSQCGKTALLHVFAKDCFPENYVPTVFENYTA 67

>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 = 49.3 bits (118), Expect = 3e-09
 Identities = 14/50 (28%), Positives = 22/50 (44%)

Query: 2  ARRADEEYDYLFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFAT 51
               E      K+V++GD  VGK+ LL  F++ E       T+   F+ 
Sbjct: 13 GAGKIENGKKALKIVVVGDGAVGKTCLLLAFSKGEIPTAYVPTVFENFSH 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 = 48.6 bits (117), Expect = 3e-09
 Identities = 16/44 (36%), Positives = 25/44 (56%), Gaps = 1/44 (2%)

Query: 13 FKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQV 56
          +KVV++G  GVGKS L  +F    F  +   TI  +F  + ++V
Sbjct: 4  YKVVVLGSGGVGKSALTVQFVTGTFIEKYDPTIE-DFYRKEIEV 46

>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 = 47.6 bits (113), Expect = 2e-08
 Identities = 11/49 (22%), Positives = 21/49 (42%)

Query: 3  RRADEEYDYLFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFAT 51
           RA +      K+VL+GD   GK+ +L    ++ +      T+   +  
Sbjct: 18 GRAPQPVVARCKLVLVGDVQCGKTAMLQVLAKDCYPETYVPTVFENYTA 66

>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 = 46.3 bits (110), Expect = 4e-08
 Identities = 12/45 (26%), Positives = 22/45 (48%)

Query: 1  MARRADEEYDYLFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTI 45
          +  R         K+V++GD   GK+ LL  F++++F      T+
Sbjct: 14 LVPRGSHMAAIRKKLVIVGDGACGKTCLLIVFSKDQFPEVYVPTV 58

>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 = 46.3 bits (110), Expect = 5e-08
 Identities = 16/51 (31%), Positives = 21/51 (41%)

Query: 1  MARRADEEYDYLFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFAT 51
          MA           KVVL+GD G GK++LL  F    F      T+   +  
Sbjct: 23 MAGEEAPPGVRSVKVVLVGDGGCGKTSLLMVFADGAFPESYTPTVFERYMV 73

>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 = 45.1 bits (107), Expect = 1e-07
 Identities = 14/45 (31%), Positives = 19/45 (42%)

Query: 1  MARRADEEYDYLFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTI 45
                       K V++GD  VGK+ LL  +T N F  E   T+
Sbjct: 19 SHMENLYFQGQAIKCVVVGDGAVGKTCLLISYTTNAFPGEYIPTV 63

>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 = 45.0 bits (107), Expect = 1e-07
 Identities = 14/39 (35%), Positives = 20/39 (51%)

Query: 13 FKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFAT 51
           K V +GD  VGK+ LL  +T N F  +   T+   F+ 
Sbjct: 9  IKCVTVGDGAVGKTCLLISYTSNTFPTDYVPTVFDNFSA 47

>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 = 43.6 bits (103), Expect = 4e-07
 Identities = 11/34 (32%), Positives = 17/34 (50%)

Query: 4  RADEEYDYLFKVVLIGDSGVGKSNLLSRFTRNEF 37
           A      + K V++GD  VGK+ LL  +  + F
Sbjct: 10 MAHGPGALMLKCVVVGDGAVGKTCLLMSYANDAF 43

>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 = 43.6 bits (103), Expect = 4e-07
 Identities = 12/39 (30%), Positives = 21/39 (53%)

Query: 14 KVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATR 52
          K+V++GD   GK+ LL  F+++EF      T+   +   
Sbjct: 27 KLVVVGDGACGKTCLLIVFSKDEFPEVYVPTVFENYVAD 65

>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 = 43.2 bits (102), Expect = 5e-07
 Identities = 12/38 (31%), Positives = 20/38 (52%)

Query: 14 KVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFAT 51
          K+V++GDS  GK+ LL  F ++ F      T+   +  
Sbjct: 9  KIVVVGDSQCGKTALLHVFAKDCFPENYVPTVFENYTA 46

>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 = 42.7 bits (101), Expect = 8e-07
 Identities = 11/25 (44%), Positives = 16/25 (64%)

Query: 13 FKVVLIGDSGVGKSNLLSRFTRNEF 37
           K V +GD  VGK+ +L  +T N+F
Sbjct: 10 IKCVTVGDGAVGKTCMLICYTSNKF 34

>2q3h_A RAS homolog gene family, member U; GTPase, structural genomics, structural genomics consortium,; HET: GDP; 1.73A {Homo sapiens} Length = 201

 Score = 42.8 bits (101), Expect = 9e-07
 Identities = 11/24 (45%), Positives = 17/24 (70%)

Query: 14 KVVLIGDSGVGKSNLLSRFTRNEF 37
          K VL+GD  VGK++L+  +T N +
Sbjct: 22 KCVLVGDGAVGKTSLVVSYTTNGY 45

>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 = 40.9 bits (96), Expect = 3e-06
 Identities = 12/24 (50%), Positives = 16/24 (66%)

Query: 14 KVVLIGDSGVGKSNLLSRFTRNEF 37
          K V++GD  VGK+ LL  +T N F
Sbjct: 7  KCVVVGDGAVGKTCLLISYTTNAF 30

>3c5h_A Glucocorticoid receptor DNA-binding factor 1; RAS, GTPase, glucorticoid receptor, structural genomics consortium, SGC, alternative splicing; HET: GNP; 1.80A {Homo sapiens} Length = 255

 Score = 35.4 bits (81), Expect = 4e-04
 Identities = 16/45 (35%), Positives = 24/45 (53%), Gaps = 4/45 (8%)

Query: 19 GDSGVGKSNLLSRFTR---NEFCLESKSTIG-VEFATRTLQVTNF 59
          G  G+GKS L +RF R   +EF L+  S +   +F  R +   +F
Sbjct: 35 GQCGIGKSCLCNRFVRPSADEFHLDHTSVLSTSDFGGRVVNNDHF 79

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	68
4dkx_A	216	RAS-related protein RAB-6A; GTP binding fold, memb	99.74
2ew1_A	201	RAS-related protein RAB-30; G-protein, GTP analogu	99.61
1oix_A	191	RAS-related protein RAB-11A; small G protein, intr	99.6
2oil_A	193	CATX-8, RAS-related protein RAB-25; G-protein, GDP	99.58
2y8e_A	179	RAB-protein 6, GH09086P, RAB6; hydrolase, nucleoti	99.58
2a5j_A	191	RAS-related protein RAB-2B; GTPase, signal transdu	99.57
2hup_A	201	RAS-related protein RAB-43; G-protein, GDP, struct	99.55
2f9l_A	199	RAB11B, member RAS oncogene family; RAB11B GTPase,	99.55
1z0f_A	179	RAB14, member RAS oncogene family; RAB GTPase, ves	99.54
3bc1_A	195	RAS-related protein RAB-27A; RAB27, GTPase, RAB, s	99.54
2gf9_A	189	RAS-related protein RAB-3D; G-protein, structural	99.54
2bme_A	186	RAB4A, RAS-related protein RAB4A; GTP-binding prot	99.53
2il1_A	192	RAB12; G-protein, GDP, GTPase, predicted, structur	99.53
1z08_A	170	RAS-related protein RAB-21; RAB GTPase, vesicular	99.53
2o52_A	200	RAS-related protein RAB-4B; G-protein, GDP, struct	99.53
3cpj_B	223	GTP-binding protein YPT31/YPT8; RAB GTPase, prenyl	99.53
1wms_A	177	RAB-9, RAB9, RAS-related protein RAB-9A; GTPase, p	99.52
3c5c_A	187	RAS-like protein 12; GDP, GTPase, structural genom	99.52
1zbd_A	203	Rabphilin-3A; G protein, effector, RABCDR, synapti	99.52
2efe_B	181	Small GTP-binding protein-like; GEF, GTPase, VPS9,	99.52
3tw8_B	181	RAS-related protein RAB-35; longin domain, RAB GTP	99.52
3tkl_A	196	RAS-related protein RAB-1A; vesicle trafficking, p	99.52
2fu5_C	183	RAS-related protein RAB-8A; MSS4:RAB8 protein comp	99.51
1z2a_A	168	RAS-related protein RAB-23; RAB GTPase, vesicular	99.51
2bcg_Y	206	Protein YP2, GTP-binding protein YPT1; RABGTPase,	99.51
2fg5_A	192	RAB-22B, RAS-related protein RAB-31; G-protein, GT	99.51
1x3s_A	195	RAS-related protein RAB-18; GTPase, GNP, structura	99.51
1z06_A	189	RAS-related protein RAB-33B; RAB GTPase, RAB33B GT	99.5
2f7s_A	217	C25KG, RAS-related protein RAB-27B; G-protein, str	99.49
1z0j_A	170	RAB-22, RAS-related protein RAB-22A; RAB GTPase, R	99.49
1r2q_A	170	RAS-related protein RAB-5A; GTPase, GNP, atomic re	99.49
3q3j_B	214	RHO-related GTP-binding protein RHO6; RAS-binding	99.49
3kkq_A	183	RAS-related protein M-RAS; GTP-binding, GTPase, si	99.49
1ek0_A	170	Protein (GTP-binding protein YPT51); vesicular tra	99.49
3ihw_A	184	Centg3; RAS, centaurin, GTPase, structural genomic	99.49
2atx_A	194	Small GTP binding protein TC10; GTPase, P-loop, al	99.49
2p5s_A	199	RAS and EF-hand domain containing; G-protein, RAB,	99.48
3cbq_A	195	GTP-binding protein REM 2; FLJ38964A, structural g	99.48
2iwr_A	178	Centaurin gamma 1; ANK repeat, zinc-finger, GTP-bi	99.47
1g16_A	170	RAS-related protein SEC4; G protein RAB, signaling	99.47
3reg_A	194	RHO-like small GTPase; cytoskeleton, nucleotide-bi	99.47
3gj0_A	221	GTP-binding nuclear protein RAN; G protein, GDP, a	99.47
3dz8_A	191	RAS-related protein RAB-3B; GDP, GTPase, structura	99.47
1vg8_A	207	RAS-related protein RAB-7; GTP-binding protein, pr	99.47
1gwn_A	205	RHO-related GTP-binding protein RHOE; GTPase, inac	99.46
1m7b_A	184	RND3/RHOE small GTP-binding protein; small GTPase,	99.46
2j1l_A	214	RHO-related GTP-binding protein RHOD; GTPase, memb	99.46
2hxs_A	178	RAB-26, RAS-related protein RAB-28; GTPase, signal	99.46
2g6b_A	180	RAS-related protein RAB-26; G-protein, GTP analogu	99.46
2fn4_A	181	P23, RAS-related protein R-RAS; GDP/GTP binding, G	99.45
3cph_A	213	RAS-related protein SEC4; RAB GTPase, prenylation,	99.45
3clv_A	208	RAB5 protein, putative; malaria, GTPase, structura	99.45
2g3y_A	211	GTP-binding protein GEM; small GTPase, GDP, inacti	99.45
3t5g_A	181	GTP-binding protein RHEB; immunoglobulin-like beta	99.44
2q3h_A	201	RAS homolog gene family, member U; GTPase, structu	99.43
2atv_A	196	RERG, RAS-like estrogen-regulated growth inhibitor	99.42
1ky3_A	182	GTP-binding protein YPT7P; vesicular traffic, GTP	99.42
2j0v_A	212	RAC-like GTP-binding protein ARAC7; nucleotide-bin	99.41
1c1y_A	167	RAS-related protein RAP-1A; GTP-binding proteins,	99.41
2bov_A	206	RAla, RAS-related protein RAL-A; C3BOT, exoenzyme,	99.41
3t1o_A	198	Gliding protein MGLA; G domain containing protein,	99.41
2a9k_A	187	RAS-related protein RAL-A; bacterial ADP-ribosyltr	99.4
2nzj_A	175	GTP-binding protein REM 1; GDP/GTP binding, GTP hy	99.39
1mh1_A	186	RAC1; GTP-binding, GTPase, small G-protein, RHO fa	99.39
2yc2_C	208	IFT27, small RAB-related GTPase; transport protein	99.39
2zej_A	184	Dardarin, leucine-rich repeat kinase 2; parkinson'	99.38
2gf0_A	199	GTP-binding protein DI-RAS1; GDP/GTP binding, GTP	99.38
1kao_A	167	RAP2A; GTP-binding protein, small G protein, GDP,	99.38
3q85_A	169	GTP-binding protein REM 2; G-domain, CAV2 beta, si	99.38
1u8z_A	168	RAS-related protein RAL-A; GNP, GTP, GMPPNP, GPPNH	99.38
2gco_A	201	H9, RHO-related GTP-binding protein RHOC; GTPase,s	99.38
3oes_A	201	GTPase rhebl1; small GTPase, structural genomics,	99.37
2erx_A	172	GTP-binding protein DI-RAS2; GTP hydrolysis, trans	99.37
4dsu_A	189	GTPase KRAS, isoform 2B; small G-protein, signalin	99.36
2cjw_A	192	GTP-binding protein GEM; nucleotide-binding, small	99.36
3l0i_B	199	RAS-related protein RAB-1A; GEF-GDF-RAB complex, G	99.36
3con_A	190	GTPase NRAS; structural genomics consortium, SGC,	99.35
2fv8_A	207	H6, RHO-related GTP-binding protein RHOB; GDP/GTP	99.34
2ce2_X	166	GTPase HRAS; signaling protein, guanine nucleotide	99.33
4gzl_A	204	RAS-related C3 botulinum toxin substrate 1; rossma	99.32
4bas_A	199	ADP-ribosylation factor, putative (small GTPase, p	99.32
3bwd_D	182	RAC-like GTP-binding protein ARAC6; G domain, cyto	99.28
2lkc_A	178	Translation initiation factor IF-2; NMR {Geobacill	99.28
1zd9_A	188	ADP-ribosylation factor-like 10B; transport protei	99.26
2wji_A	165	Ferrous iron transport protein B homolog; membrane	99.26
4djt_A	218	GTP-binding nuclear protein GSP1; structural genom	99.24
3q72_A	166	GTP-binding protein RAD; G-domain, CAV2 beta, sign	99.23
3c5h_A	255	Glucocorticoid receptor DNA-binding factor 1; RAS,	99.23
2h57_A	190	ADP-ribosylation factor-like protein 6; GTP, GTPas	99.23
2wjg_A	188	FEOB, ferrous iron transport protein B homolog; me	99.22
2wkq_A	332	NPH1-1, RAS-related C3 botulinum toxin substrate 1	99.2
2h17_A	181	ADP-ribosylation factor-like protein 5A; GDP, GTPa	99.2
1ksh_A	186	ARF-like protein 2; small GTPase, small GTP-bindin	99.18
3th5_A	204	RAS-related C3 botulinum toxin substrate 1; rossma	98.78
1r8s_A	164	ADP-ribosylation factor 1; protein transport/excha	99.14
1zj6_A	187	ADP-ribosylation factor-like protein 5; ARL, GTP-b	99.13
1svi_A	195	GTP-binding protein YSXC; ENGB, GTPase, GDP, hydro	99.13
1fzq_A	181	ADP-ribosylation factor-like protein 3; protein-GD	99.13
2fh5_B	214	SR-beta, signal recognition particle receptor beta	99.13
1upt_A	171	ARL1, ADP-ribosylation factor-like protein 1; hydr	99.11
1m2o_B	190	GTP-binding protein SAR1, GTP binding protein; zin	99.11
3lxx_A	239	GTPase IMAP family member 4; structural genomics c	99.1
1moz_A	183	ARL1, ADP-ribosylation factor-like protein 1; GTP-	99.09
2b6h_A	192	ADP-ribosylation factor 5; membrane trafficking, G	99.09
1f6b_A	198	SAR1; gtpases, N-terminal helix, Mg-containing com	99.09
2dyk_A	161	GTP-binding protein; GTPase, ribosome-binding prot	99.08
3llu_A	196	RAS-related GTP-binding protein C; structural geno	99.06
2gj8_A	172	MNME, tRNA modification GTPase TRME; G-domain dime	99.06
2x77_A	189	ADP-ribosylation factor; GTP-binding protein, smal	99.04
3t5d_A	274	Septin-7; GTP-binding protein, cytoskeleton, signa	99.04
3a1s_A	258	Iron(II) transport protein B; FEOB, iron transport	99.03
3k53_A	271	Ferrous iron transport protein B; GTPase fold, hel	99.02
3dpu_A	535	RAB family protein; roccor, G-domain, COR, GTP-bin	99.02
2qu8_A	228	Putative nucleolar GTP-binding protein 1; GTPase,	99.0
3r7w_A	307	Gtpase1, GTP-binding protein GTR1; RAG gtpases, GT	98.98
2cxx_A	190	Probable GTP-binding protein ENGB; structural geno	98.96
3iby_A	256	Ferrous iron transport protein B; G protein, G dom	98.94
3pqc_A	195	Probable GTP-binding protein ENGB; rossmann fold,	98.94
3r7w_B	331	Gtpase2, GTP-binding protein GTR2; RAG gtpases, GT	98.93
3i8s_A	274	Ferrous iron transport protein B; GTPase, GPCR, ir	98.91
2xtp_A	260	GTPase IMAP family member 2; immune system, G prot	98.9
1nrj_B	218	SR-beta, signal recognition particle receptor beta	98.89
2qag_A	361	Septin-2, protein NEDD5; cell cycle, cell division	98.88
3lxw_A	247	GTPase IMAP family member 1; immunity, structural	98.86
2qnr_A	301	Septin-2, protein NEDD5; structural genomics conso	98.85
4dhe_A	223	Probable GTP-binding protein ENGB; melioidosis, RA	98.84
3o47_A	329	ADP-ribosylation factor GTPase-activating protein	98.83
3b1v_A	272	Ferrous iron uptake transporter protein B; G prote	98.83
1pui_A	210	ENGB, probable GTP-binding protein ENGB; structura	98.81
2hjg_A	436	GTP-binding protein ENGA; GTPase ENGA KH-domain, h	98.79
2hf9_A	226	Probable hydrogenase nickel incorporation protein	98.78
2qag_C	418	Septin-7; cell cycle, cell division, GTP-binding,	98.78
2ged_A	193	SR-beta, signal recognition particle receptor beta	98.78
3lvq_E	497	ARF-GAP with SH3 domain, ANK repeat and PH domain	98.77
1mky_A	439	Probable GTP-binding protein ENGA; GTPase, DER, KH	98.74
3def_A	262	T7I23.11 protein; chloroplast, TOC33, GTPase, hydr	98.73
1mky_A	439	Probable GTP-binding protein ENGA; GTPase, DER, KH	98.72
1h65_A	270	Chloroplast outer envelope protein OEP34; GTPase,	98.65
4dcu_A	456	GTP-binding protein ENGA; GTPase, GDP, protein bin	98.59
3gee_A	476	MNME, tRNA modification GTPase MNME; G protein, cy	98.56
1wf3_A	301	GTP-binding protein; GTPase, riken structural geno	98.56
2qtf_A	364	Protein HFLX, GTP-binding protein; beta-alpha-barr	98.53
3geh_A	462	MNME, tRNA modification GTPase MNME; G protein, U3	98.52
3qq5_A	423	Small GTP-binding protein; hydrogenase, H-cluster,	98.51
3iev_A	308	GTP-binding protein ERA; ERA, GTPase, KH domain, a	98.49
4dcu_A	456	GTP-binding protein ENGA; GTPase, GDP, protein bin	98.46
2e87_A	357	Hypothetical protein PH1320; GTP-binding, GTPase,	98.41
1xzp_A	482	Probable tRNA modification GTPase TRME; GTP-bindin	98.4
2hjg_A	436	GTP-binding protein ENGA; GTPase ENGA KH-domain, h	98.4
3sop_A	270	Neuronal-specific septin-3; hydrolase; HET: GDP; 2	98.39
2aka_B	299	Dynamin-1; fusion protein, GTPase domain, myosin,	98.35
1jal_A	363	YCHF protein; nucleotide-binding fold, structural	98.31
2ohf_A	396	Protein OLA1, GTP-binding protein 9; ATPase, GTPas	98.3
3j2k_7	439	ERF3, eukaryotic polypeptide chain release factor	98.25
3t34_A	360	Dynamin-related protein 1A, linker, dynamin-relat	98.24
1wxq_A	397	GTP-binding protein; structural genomics, riken st	98.23
1lnz_A	342	SPO0B-associated GTP-binding protein; GTPase, OBG,	98.23
3izy_P	537	Translation initiation factor IF-2, mitochondrial;	98.22
1ye8_A	178	Protein THEP1, hypothetical UPF0334 kinase-like pr	98.2
1ni3_A	392	YCHF GTPase, YCHF GTP-binding protein; structural	98.19
1ega_A	301	Protein (GTP-binding protein ERA); GTPase, RNA-bin	98.17
1s0u_A	408	EIF-2-gamma, translation initiation factor 2 gamma	98.13
3tif_A	235	Uncharacterized ABC transporter ATP-binding prote;	98.13
1kgd_A	180	CASK, peripheral plasma membrane CASK; maguk, guan	98.13
3cnl_A	262	YLQF, putative uncharacterized protein; circular p	98.13
1jwy_B	315	Dynamin A GTPase domain; dynamin, GTPase, GDP, myo	98.12
1lvg_A	198	Guanylate kinase, GMP kinase; transferase; HET: AD	98.1
1mv5_A	243	LMRA, multidrug resistance ABC transporter ATP-bin	98.1
1wb1_A	482	Translation elongation factor SELB; selenocysteine	98.1
2wsm_A	221	Hydrogenase expression/formation protein (HYPB); m	98.09
2x2e_A	353	Dynamin-1; nitration, hydrolase, membrane fission,	98.09
2onk_A	240	Molybdate/tungstate ABC transporter, ATP-binding p	98.08
4g1u_C	266	Hemin import ATP-binding protein HMUV; membrane tr	98.08
1znw_A	207	Guanylate kinase, GMP kinase; ATP:GMP-phosphotrans	98.08
2pcj_A	224	ABC transporter, lipoprotein-releasing system ATP-	98.08
1b0u_A	262	Histidine permease; ABC transporter, transport pro	98.08
1htw_A	158	HI0065; nucleotide-binding fold, structural genomi	98.08
1s96_A	219	Guanylate kinase, GMP kinase; E.coli, dimer, SAD,	98.07
2ff7_A	247	Alpha-hemolysin translocation ATP-binding protein	98.06
1g6h_A	257	High-affinity branched-chain amino acid transport	98.06
3a00_A	186	Guanylate kinase, GMP kinase; domain movement, dim	98.06
3gfo_A	275	Cobalt import ATP-binding protein CBIO 1; structur	98.05
2olj_A	263	Amino acid ABC transporter; ABC domain, ATPase, hy	98.04
2pze_A	229	Cystic fibrosis transmembrane conductance regulat;	98.03
1ji0_A	240	ABC transporter; ATP binding protein, structural g	98.03
2ihy_A	279	ABC transporter, ATP-binding protein; ATPase, ABC	98.03
1sgw_A	214	Putative ABC transporter; structural genomics, P p	98.03
3tr0_A	205	Guanylate kinase, GMP kinase; purines, pyrimidines	98.03
1z6g_A	218	Guanylate kinase; structural genomics, SGC, struct	98.03
3mca_A	592	HBS1, elongation factor 1 alpha-like protein; prot	98.02
2dy1_A	665	Elongation factor G; translocation, GTP complex, s	98.02
1vpl_A	256	ABC transporter, ATP-binding protein; TM0544, stru	98.02
2ixe_A	271	Antigen peptide transporter 1; ABC ATPase, hydrola	98.02
1tq4_A	413	IIGP1, interferon-inducible GTPase; interferon gam	98.0
3fvq_A	359	Fe(3+) IONS import ATP-binding protein FBPC; nucle	97.99
2cbz_A	237	Multidrug resistance-associated protein 1; ABC pro	97.99
2qag_B	427	Septin-6, protein NEDD5; cell cycle, cell division	97.99
2yz2_A	266	Putative ABC transporter ATP-binding protein TM_0;	97.97
1dar_A	691	EF-G, elongation factor G; ribosomal translocase,	97.97
2pjz_A	263	Hypothetical protein ST1066; ATP binding protein,	97.97
1z47_A	355	CYSA, putative ABC-transporter ATP-binding protein	97.97
2qpt_A	550	EH domain-containing protein-2; protein-nucleotide	97.97
1ex7_A	186	Guanylate kinase; substrate-induced FIT, domain mo	97.97
3rlf_A	381	Maltose/maltodextrin import ATP-binding protein M;	97.97
1zp6_A	191	Hypothetical protein ATU3015; alpha-beta protein.,	97.96
2it1_A	362	362AA long hypothetical maltose/maltodextrin trans	97.96
4a9a_A	376	Ribosome-interacting GTPase 1; DRG-DFRP complex, r	97.95
3ney_A	197	55 kDa erythrocyte membrane protein; structural ge	97.95
1g29_1	372	MALK, maltose transport protein MALK; ATPase, acti	97.95
2yyz_A	359	Sugar ABC transporter, ATP-binding protein; sugar	97.95
1kk1_A	410	EIF2gamma; initiation of translation; HET: GNP; 1.	97.94
3d31_A	348	Sulfate/molybdate ABC transporter, ATP-binding pro	97.94
1v43_A	372	Sugar-binding transport ATP-binding protein; ATPas	97.94
3sjy_A	403	Translation initiation factor 2 subunit gamma; zin	97.94
3p26_A	483	Elongation factor 1 alpha-like protein; GTP/GDP bi	97.93
4gp7_A	171	Metallophosphoesterase; polynucleotide kinase phos	97.92
3nh6_A	306	ATP-binding cassette SUB-family B member 6, mitoc;	97.92
3tau_A	208	Guanylate kinase, GMP kinase; structural genomics,	97.92
2qi9_C	249	Vitamin B12 import ATP-binding protein BTUD; inner	97.92
3tui_C	366	Methionine import ATP-binding protein METN; ABC-tr	97.91
1u0l_A	301	Probable GTPase ENGC; permutation, OB-fold, zinc-f	97.91
3c8u_A	208	Fructokinase; YP_612366.1, putative fructose trans	97.9
2nq2_C	253	Hypothetical ABC transporter ATP-binding protein H	97.9
1puj_A	282	YLQF, conserved hypothetical protein YLQF; structu	97.89
1oxx_K	353	GLCV, glucose, ABC transporter, ATP binding protei	97.89
2zu0_C	267	Probable ATP-dependent transporter SUFC; iron-sulf	97.88
2d2e_A	250	SUFC protein; ABC-ATPase, SUF protein, 310-helix,	97.88
2rcn_A	358	Probable GTPase ENGC; YJEQ, circularly permuted, G	97.88
2ghi_A	260	Transport protein; multidrug resistance protein, M	97.86
2i3b_A	189	HCR-ntpase, human cancer-related ntpase; AAA, ross	97.86
1lw7_A	365	Transcriptional regulator NADR; NMN, NMN adenylyl	97.85
2yv5_A	302	YJEQ protein; hydrolase, GTPase, permutation, stru	97.84
2bbs_A	290	Cystic fibrosis transmembrane conductance regulato	97.84
2dby_A	368	GTP-binding protein; GDP, structural genomics, NPP	97.84
2bdt_A	189	BH3686; alpha-beta protein, structural genomics, P	97.82
2ehv_A	251	Hypothetical protein PH0186; KAIC, RECA ATPase, un	97.81
1udx_A	416	The GTP-binding protein OBG; TGS domain, riken str	97.81
2j41_A	207	Guanylate kinase; GMP, GMK, transferase, ATP-bindi	97.81
2bbw_A	246	Adenylate kinase 4, AK4; nucleotide kinase, nucleo	97.81
2j69_A	695	Bacterial dynamin-like protein; FZO, FZL, GTPase,	97.81
3b85_A	208	Phosphate starvation-inducible protein; PHOH2, ATP	97.8
1kag_A	173	SKI, shikimate kinase I; transferase, structural g	97.79
2gza_A	361	Type IV secretion system protein VIRB11; ATPase, h	97.79
2qor_A	204	Guanylate kinase; phosphotransferase, purine metab	97.79
3szr_A	608	Interferon-induced GTP-binding protein MX1; interf	97.79
3asz_A	211	Uridine kinase; cytidine phosphorylation, transfer	97.79
4eun_A	200	Thermoresistant glucokinase; putative sugar kinase	97.79
4a74_A	231	DNA repair and recombination protein RADA; hydrola	97.78
2www_A	349	Methylmalonic aciduria type A protein, mitochondri	97.78
2pt7_A	330	CAG-ALFA; ATPase, protein-protein complex, type IV	97.76
3lnc_A	231	Guanylate kinase, GMP kinase; ALS collaborative cr	97.75
3kb2_A	173	SPBC2 prophage-derived uncharacterized protein YOR	97.75
2eyu_A	261	Twitching motility protein PILT; pilus retraction	97.75
1via_A	175	Shikimate kinase; structural genomics, transferase	97.74
3ec2_A	180	DNA replication protein DNAC; helicase loader, rep	97.74
2v9p_A	305	Replication protein E1; AAA+ molecular motor, DNA	97.73
3b5x_A	582	Lipid A export ATP-binding/permease protein MSBA;	97.72
1t9h_A	307	YLOQ, probable GTPase ENGC; N-terminal beta-barrel	97.72
1rj9_A	304	FTSY, signal recognition protein; SRP-GTPase domai	97.72
3aez_A	312	Pantothenate kinase; transferase, homodimer, COA b	97.72
3uie_A	200	Adenylyl-sulfate kinase 1, chloroplastic; rossmann	97.72
1zo1_I	501	IF2, translation initiation factor 2; E. coli, rib	97.71
2if2_A	204	Dephospho-COA kinase; alpha-beta protein, structur	97.7
1yqt_A	538	RNAse L inhibitor; ATP-binding cassette, ribosome	97.69
3vaa_A	199	Shikimate kinase, SK; structural genomics, center	97.69
3gd7_A	390	Fusion complex of cystic fibrosis transmembrane co	97.67
1knq_A	175	Gluconate kinase; ALFA/beta structure, transferase	97.67
1zun_B	434	Sulfate adenylate transferase, subunit 1/adenylyls	97.67
3t61_A	202	Gluconokinase; PSI-biology, structural genomics, p	97.66
3b60_A	582	Lipid A export ATP-binding/permease protein MSBA;	97.66
3b9q_A	302	Chloroplast SRP receptor homolog, alpha subunit CP	97.66
1cke_A	227	CK, MSSA, protein (cytidine monophosphate kinase);	97.65
1qhx_A	178	CPT, protein (chloramphenicol phosphotransferase);	97.64
2f1r_A	171	Molybdopterin-guanine dinucleotide biosynthesis pr	97.64
3euj_A	483	Chromosome partition protein MUKB, linker; MUKB, M	97.63
1nks_A	194	Adenylate kinase; thermophilic, transferase; HET:	97.63
1jjv_A	206	Dephospho-COA kinase; P-loop nucleotide-binding fo	97.63
3e70_C	328	DPA, signal recognition particle receptor; FTSY, S	97.63
2jeo_A	245	Uridine-cytidine kinase 1; UCK, transferase, ATP-b	97.62
3fb4_A	216	Adenylate kinase; psychrophIle, phosphotransferase	97.62
3izq_1	611	HBS1P, elongation factor 1 alpha-like protein; NO-	97.62
2jaq_A	205	Deoxyguanosine kinase; transferase, deoxyribonucle	97.61
1ixz_A	254	ATP-dependent metalloprotease FTSH; AAA domain fol	97.61
1n0u_A	842	EF-2, elongation factor 2; G-protein, CIS-proline,	97.61
3ozx_A	538	RNAse L inhibitor; ATP binding cassette protein, h	97.61
3j16_B	608	RLI1P; ribosome recycling, translation, eukarya, r	97.6
3dl0_A	216	Adenylate kinase; phosphotransferase, zinc coordin	97.6
2qm8_A	337	GTPase/ATPase; G protein, G3E, metallochaperone, c	97.59
1np6_A	174	Molybdopterin-guanine dinucleotide biosynthesis pr	97.59
1ly1_A	181	Polynucleotide kinase; PNK, phosphatase, transfera	97.59
1jbk_A	195	CLPB protein; beta barrel, chaperone; 1.80A {Esche	97.59
3lw7_A	179	Adenylate kinase related protein (ADKA-like); AMP,	97.59
3tqc_A	321	Pantothenate kinase; biosynthesis of cofactors, pr	97.58
2w0m_A	235	SSO2452; RECA, SSPF, unknown FUN; 2.0A {Sulfolobus	97.57
2x8a_A	274	Nuclear valosin-containing protein-like; nuclear p	97.57
3bk7_A	607	ABC transporter ATP-binding protein; ABC ATPase, i	97.56
3kta_A	182	Chromosome segregation protein SMC; structural mai	97.56
2yl4_A	595	ATP-binding cassette SUB-family B member 10, mitoc	97.55
2npi_A	460	Protein CLP1; CLP1-PCF11 complex, ATP binding, ter	97.55
1ukz_A	203	Uridylate kinase; transferase; HET: ADP AMP; 1.90A	97.55
2vp4_A	230	Deoxynucleoside kinase; ATP-binding, DNA synthesis	97.55
2og2_A	359	Putative signal recognition particle receptor; nuc	97.54
2oap_1	511	GSPE-2, type II secretion system protein; hexameri	97.54
3avx_A	1289	Elongation factor TS, elongation factor TU, linke	97.54
2qt1_A	207	Nicotinamide riboside kinase 1; non-protein kinase	97.54
1yqt_A	538	RNAse L inhibitor; ATP-binding cassette, ribosome	97.54
3jvv_A	356	Twitching mobility protein; hexameric P-loop ATPas	97.53
2kjq_A	149	DNAA-related protein; solution structure, NESG, st	97.53
3trf_A	185	Shikimate kinase, SK; amino acid biosynthesis, tra	97.53
3bk7_A	607	ABC transporter ATP-binding protein; ABC ATPase, i	97.53
1kht_A	192	Adenylate kinase; phosphotransferase, signaling pr	97.53
1iy2_A	278	ATP-dependent metalloprotease FTSH; AAA domain fol	97.53
4e22_A	252	Cytidylate kinase; P-loop, CMP/ATP binding, transf	97.53
1f60_A	458	Elongation factor EEF1A; protein-protein complex,	97.53
1jny_A	435	EF-1-alpha, elongation factor 1-alpha, EF-TU, TUF-	97.53
1in4_A	334	RUVB, holliday junction DNA helicase RUVB; AAA+-cl	97.53
3qf4_B	598	Uncharacterized ABC transporter ATP-binding prote	97.52
4a82_A	578	Cystic fibrosis transmembrane conductance regulat;	97.52
2c78_A	405	Elongation factor TU-A; hydrolase, GTPase, transla	97.52
2obl_A	347	ESCN; ATPase, hydrolase; 1.80A {Escherichia coli O	97.52
1sq5_A	308	Pantothenate kinase; P-loop, transferase; HET: PAU	97.51
2yhs_A	503	FTSY, cell division protein FTSY; cell cycle, prot	97.51
1odf_A	290	YGR205W, hypothetical 33.3 kDa protein in ADE3-Ser	97.51
1nij_A	318	Hypothetical protein YJIA; structural genomics, P-	97.5
3qf4_A	587	ABC transporter, ATP-binding protein; multidrug tr	97.49
3ozx_A	538	RNAse L inhibitor; ATP binding cassette protein, h	97.48
3iij_A	180	Coilin-interacting nuclear ATPase protein; alpha a	97.48
3cm0_A	186	Adenylate kinase; ATP-binding, cytoplasm, nucleoti	97.48
2dpy_A	438	FLII, flagellum-specific ATP synthase; beta barrel	97.46
2ewv_A	372	Twitching motility protein PILT; pilus retraction	97.46
1d2e_A	397	Elongation factor TU (EF-TU); G-protein, beta-barr	97.46
3cb4_D	599	GTP-binding protein LEPA; GTPase, OB-fold, membran	97.46
1cr0_A	296	DNA primase/helicase; RECA-type protein fold, tran	97.45
3tlx_A	243	Adenylate kinase 2; structural genomics, structura	97.44
1r5b_A	467	Eukaryotic peptide chain release factor GTP-bindi	97.44
1n0w_A	243	DNA repair protein RAD51 homolog 1; DNA repair, ho	97.44
1g7s_A	594	Translation initiation factor IF2/EIF5B; translati	97.44
2p65_A	187	Hypothetical protein PF08_0063; CLPB, malaria, str	97.44
2rhm_A	193	Putative kinase; P-loop containing nucleoside trip	97.44
3d3q_A	340	TRNA delta(2)-isopentenylpyrophosphate transferase	97.44
2cdn_A	201	Adenylate kinase; phosphoryl transfer, associative	97.44
1rz3_A	201	Hypothetical protein rbstp0775; MCSG, structural g	97.44
3bos_A	242	Putative DNA replication factor; P-loop containing	97.43
1f5n_A	592	Interferon-induced guanylate-binding protein 1; GB	97.43
1lv7_A	257	FTSH; alpha/beta domain, four helix bundle, hydrol	97.43
1uj2_A	252	Uridine-cytidine kinase 2; alpha/beta mononucleoti	97.42
3sr0_A	206	Adenylate kinase; phosphoryl transfer analogue, AL	97.41
2ze6_A	253	Isopentenyl transferase; crown GALL tumor, cytokin	97.41
2plr_A	213	DTMP kinase, probable thymidylate kinase; TMP-bind	97.41
2cvh_A	220	DNA repair and recombination protein RADB; filamen	97.41
1e4v_A	214	Adenylate kinase; transferase(phosphotransferase);	97.41
1ak2_A	233	Adenylate kinase isoenzyme-2; nucleoside monophosp	97.41
1aky_A	220	Adenylate kinase; ATP:AMP phosphotransferase, myok	97.39
3p32_A	355	Probable GTPase RV1496/MT1543; structural genomics	97.39
1zcb_A	362	G alpha I/13; GTP-binding, lipoprotein, membrane,	97.39
2w58_A	202	DNAI, primosome component (helicase loader); ATP-b	97.38
1zd8_A	227	GTP:AMP phosphotransferase mitochondrial; ATP:AMP	97.38
3j16_B	608	RLI1P; ribosome recycling, translation, eukarya, r	97.38
1gvn_B	287	Zeta; postsegregational killing system, plasmid; 1	97.37
2pt5_A	168	Shikimate kinase, SK; aromatic amino acid biosynth	97.37
1y63_A	184	LMAJ004144AAA protein; structural genomics, protei	97.37
1p9r_A	418	General secretion pathway protein E; bacterial typ	97.37
2v54_A	204	DTMP kinase, thymidylate kinase; nucleotide biosyn	97.36
1njg_A	250	DNA polymerase III subunit gamma; rossman-like fol	97.36
1zak_A	222	Adenylate kinase; ATP:AMP-phosphotransferase, tran	97.35
1uf9_A	203	TT1252 protein; P-loop, nucleotide binding domain,	97.35
1xjc_A	169	MOBB protein homolog; structural genomics, midwest	97.34
2chg_A	226	Replication factor C small subunit; DNA-binding pr	97.34
2z0h_A	197	DTMP kinase, thymidylate kinase; ATP-binding, nucl	97.34
1tev_A	196	UMP-CMP kinase; ploop, NMP binding region, LID reg	97.34
2yvu_A	186	Probable adenylyl-sulfate kinase; transferase, str	97.33
2xb4_A	223	Adenylate kinase; ATP-binding, nucleotide-binding,	97.32
1gtv_A	214	TMK, thymidylate kinase; transferase, transferase	97.31
1f2t_A	149	RAD50 ABC-ATPase; DNA double-strand break repair,	97.3
2xtz_A	354	Guanine nucleotide-binding protein alpha-1 subuni;	97.29
2xex_A	693	Elongation factor G; GTPase, translation, biosynth	97.29
2h5e_A	529	Peptide chain release factor RF-3; beta barrel, tr	97.29
3nwj_A	250	ATSK2; P loop, shikimate, nucleoside monophosphate	97.28
2pez_A	179	Bifunctional 3'-phosphoadenosine 5'- phosphosulfat	97.28
2grj_A	192	Dephospho-COA kinase; TM1387, EC 2.7.1.24, dephosp	97.28
2iw3_A	986	Elongation factor 3A; acetylation, ATP-binding, pr	97.28
3tr5_A	528	RF-3, peptide chain release factor 3; protein synt	97.27
2wwf_A	212	Thymidilate kinase, putative; transferase, malaria	97.27
3h4m_A	285	Proteasome-activating nucleotidase; ATPase, PAN, A	97.26
2pbr_A	195	DTMP kinase, thymidylate kinase; transferase, nucl	97.26
3qf7_A	365	RAD50; ABC-ATPase, ATPase, hydrolase; HET: ANP; 1.	97.26
2bwj_A	199	Adenylate kinase 5; phosphoryl transfer reaction,	97.26
3b9p_A	297	CG5977-PA, isoform A; AAA ATPase, ATP-binding, nuc	97.26
2qz4_A	262	Paraplegin; AAA+, SPG7, protease, ADP, structural	97.26
2c95_A	196	Adenylate kinase 1; transferase, AP4A, nucleotide	97.26
2elf_A	370	Protein translation elongation factor 1A; tRNA, py	97.25
1q3t_A	236	Cytidylate kinase; nucleotide monophosphate kinase	97.25
1e6c_A	173	Shikimate kinase; phosphoryl transfer, ADP, shikim	97.25
1qf9_A	194	UMP/CMP kinase, protein (uridylmonophosphate/cytid	97.25
1yrb_A	262	ATP(GTP)binding protein; GTPase, P-loop, rossman f	97.25
3ec1_A	369	YQEH GTPase; atnos1, atnoa1, trap, PVHL, hydrolase	97.25
2qby_A	386	CDC6 homolog 1, cell division control protein 6 ho	97.24
1nlf_A	279	Regulatory protein REPA; replicative DNA helicase	97.24
1l8q_A	324	Chromosomal replication initiator protein DNAA; AA	97.23
1sxj_E	354	Activator 1 40 kDa subunit; clamp loader, processi	97.22
3be4_A	217	Adenylate kinase; malaria, cryptosporidium parvum	97.22
1vht_A	218	Dephospho-COA kinase; structural genomics, transfe	97.22
2p5t_B	253	PEZT; postsegregational killing system, phosphoryl	97.21
3n70_A	145	Transport activator; sigma-54, ntpase, PSI, MCSG,	97.2
1nn5_A	215	Similar to deoxythymidylate kinase (thymidylate K;	97.19
1m7g_A	211	Adenylylsulfate kinase; APS kinase, transferase, s	97.19
2f6r_A	281	COA synthase, bifunctional coenzyme A synthase; 18	97.19
1fnn_A	389	CDC6P, cell division control protein 6; ORC1, AAA	97.19
4f4c_A	1321	Multidrug resistance protein PGP-1; ABC transporte	97.18
2dr3_A	247	UPF0273 protein PH0284; RECA superfamily ATPase, h	97.18
3a4m_A	260	L-seryl-tRNA(SEC) kinase; P-loop motif, walker A m	97.18
3zvr_A	772	Dynamin-1; hydrolase, DRP1, DRP, endocytosis, mito	97.18
1bif_A	469	6-phosphofructo-2-kinase/ fructose-2,6-bisphospha;	97.17
3umf_A	217	Adenylate kinase; rossmann fold, transferase; 2.05	97.17
4fid_A	340	G protein alpha subunit; RAS-like domain, all-heli	97.17
2iyv_A	184	Shikimate kinase, SK; transferase, aromatic amino	97.17
3cf0_A	301	Transitional endoplasmic reticulum ATPase; AAA, P9	97.17
3g5u_A	1284	MCG1178, multidrug resistance protein 1A; P-glycop	97.16
3r20_A	233	Cytidylate kinase; structural genomics, seattle st	97.16
2p67_A	341	LAO/AO transport system kinase; ARGK, structural G	97.15
4eaq_A	229	DTMP kinase, thymidylate kinase; structural genomi	97.15
3crm_A	323	TRNA delta(2)-isopentenylpyrophosphate transferase	97.15
1ofh_A	310	ATP-dependent HSL protease ATP-binding subunit HSL	97.15
2vli_A	183	Antibiotic resistance protein; transferase, tunica	97.15
2qen_A	350	Walker-type ATPase; unknown function; HET: ADP; 2.	97.15
1qhl_A	227	Protein (cell division protein MUKB); SMC, chromos	97.14
3ohm_A	327	Guanine nucleotide-binding protein G(Q) subunit A;	97.14
2px0_A	296	Flagellar biosynthesis protein FLHF; SRP GTPase, f	97.14
1sxj_C	340	Activator 1 40 kDa subunit; clamp loader, processi	97.13
3syl_A	309	Protein CBBX; photosynthesis, rubisco activase, AA	97.13
3h2y_A	368	GTPase family protein; GTP-binding protein YQEH, p	97.13
4fcw_A	311	Chaperone protein CLPB; AAA domain; HET: ADP; 2.35	97.13
1d2n_A	272	N-ethylmaleimide-sensitive fusion protein; hexamer	97.13
1svm_A	377	Large T antigen; AAA+ fold, viral protein; HET: AT	97.12
4f4c_A	1321	Multidrug resistance protein PGP-1; ABC transporte	97.11
2iw3_A	986	Elongation factor 3A; acetylation, ATP-binding, pr	97.11
2fna_A	357	Conserved hypothetical protein; structural genomic	97.11
1vma_A	306	Cell division protein FTSY; TM0570, structural gen	97.1
3t15_A	293	Ribulose bisphosphate carboxylase/oxygenase activ	97.09
2rdo_7	704	EF-G, elongation factor G; elongation factor G, EF	97.08
1ltq_A	301	Polynucleotide kinase; phosphatase, alpha/beta, P-	97.08
1tf7_A	525	KAIC; homohexamer, hexamer, circadian clock protei	97.07
1pzn_A	349	RAD51, DNA repair and recombination protein RAD51,	97.06
3g5u_A	1284	MCG1178, multidrug resistance protein 1A; P-glycop	97.05
3qks_A	203	DNA double-strand break repair RAD50 ATPase; RECA-	97.04
1cip_A	353	Protein (guanine nucleotide-binding protein alpha-	97.04
2v1u_A	387	Cell division control protein 6 homolog; DNA repli	97.04
3cr8_A	552	Sulfate adenylyltranferase, adenylylsulfate kinase	97.04
1sxj_D	353	Activator 1 41 kDa subunit; clamp loader, processi	97.03
3pfi_A	338	Holliday junction ATP-dependent DNA helicase RUVB;	97.02
3m6a_A	543	ATP-dependent protease LA 1; alpha, beta, ATP-bind	97.02
1zuh_A	168	Shikimate kinase; alpha-beta protein, transferase;	97.01
3uk6_A	368	RUVB-like 2; hexameric AAA+ ATP-ASE, DNA unwinding	96.99
3a8t_A	339	Adenylate isopentenyltransferase; rossmann fold pr	96.99
2qmh_A	205	HPR kinase/phosphorylase; V267F mutation, ATP-bind	96.98
3exa_A	322	TRNA delta(2)-isopentenylpyrophosphate transferase	96.98
2bjv_A	265	PSP operon transcriptional activator; AAA, transcr	96.97
2qgz_A	308	Helicase loader, putative primosome component; str	96.96
3zvl_A	416	Bifunctional polynucleotide phosphatase/kinase; hy	96.96
1um8_A	376	ATP-dependent CLP protease ATP-binding subunit CL;	96.96
1xwi_A	322	SKD1 protein; VPS4B, AAA ATPase, protein transport	96.95
3pxg_A	468	Negative regulator of genetic competence CLPC/MEC;	96.95
2z4s_A	440	Chromosomal replication initiator protein DNAA; AA	96.95
3eie_A	322	Vacuolar protein sorting-associated protein 4; AAA	96.95
1w1w_A	430	Structural maintenance of chromosome 1; cohesin, c	96.94
2qby_B	384	CDC6 homolog 3, cell division control protein 6 ho	96.94
2r62_A	268	Cell division protease FTSH homolog; ATPase domain	96.93
3ake_A	208	Cytidylate kinase; CMP kinase, CMP complex, open c	96.93
3lda_A	400	DNA repair protein RAD51; DNA binding protein, ATP	96.92
2o5v_A	359	DNA replication and repair protein RECF; ABC ATPas	96.91
4aby_A	415	DNA repair protein RECN; hydrolase, double strand	96.91
3foz_A	316	TRNA delta(2)-isopentenylpyrophosphate transferas;	96.9
2r44_A	331	Uncharacterized protein; putative ATPase, structur	96.9
3d8b_A	357	Fidgetin-like protein 1; AAA+, ATPase, ADP, SGC, s	96.9
2ywe_A	600	GTP-binding protein LEPA; G domain, beta-barrel, f	96.89
2dhr_A	499	FTSH; AAA+ protein, hexameric Zn metalloprotease,	96.89
3qkt_A	339	DNA double-strand break repair RAD50 ATPase; RECA-	96.88
3hws_A	363	ATP-dependent CLP protease ATP-binding subunit CL;	96.88
1tf7_A	525	KAIC; homohexamer, hexamer, circadian clock protei	96.87
1p5z_B	263	DCK, deoxycytidine kinase; nucleoside kinase, P-lo	96.86
1azs_C	402	GS-alpha; complex (lyase/hydrolase), hydrolase, si	96.85
3ux8_A	670	Excinuclease ABC, A subunit; UVRA, nucleotide exci	96.85
2qp9_X	355	Vacuolar protein sorting-associated protein 4; ATP	96.85
3k1j_A	604	LON protease, ATP-dependent protease LON; ATP-bind	96.84
3co5_A	143	Putative two-component system transcriptional RES	96.83
1e69_A	322	Chromosome segregation SMC protein; structural mai	96.81
2ce7_A	476	Cell division protein FTSH; metalloprotease; HET:	96.81
3vfd_A	389	Spastin; ATPase, microtubule severing, hydrolase;	96.79
1hqc_A	324	RUVB; extended AAA-ATPase domain, complex with nuc	96.78
3pvs_A	447	Replication-associated recombination protein A; ma	96.78
3tqf_A	181	HPR(Ser) kinase; transferase, hydrolase; 2.80A {Co	96.77
1ewq_A	765	DNA mismatch repair protein MUTS; multiple domains	96.75
1jr3_A	373	DNA polymerase III subunit gamma; processivity, pr	96.74
2ga8_A	359	Hypothetical 39.9 kDa protein; YFR007W, YFH7, unkn	96.73
1wb9_A	800	DNA mismatch repair protein MUTS; DNA-binding, ATP	96.72
4b4t_K	428	26S protease regulatory subunit 6B homolog; hydrol	96.72
3ux8_A	670	Excinuclease ABC, A subunit; UVRA, nucleotide exci	96.71
1zu4_A	320	FTSY; GTPase, signal recognition particle, SRP, re	96.71
2j37_W	504	Signal recognition particle 54 kDa protein (SRP54)	96.71
1iqp_A	327	RFCS; clamp loader, extended AAA-ATPase domain, co	96.7

>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=99.74  E-value=3.2e-18  Score=95.51  Aligned_cols=66  Identities=29%  Similarity=0.538  Sum_probs=41.9

Q ss_pred             CCCCCCc-CCceeeEEEEECCCCChHHHHHHHHhcCcCcCCCccceeeEeEEEEEEECCeEEEEEEEeC
Q 035301            1 MARRADE-EYDYLFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQVTNFSSFTSLHFY   68 (68)
Q Consensus         1 m~~~~~~-~~~~~~ki~~iG~~~vGKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~~w   68 (68)
                      |+...+. ++...|||+++|+++||||||+++|+.+.|.+.+.||+|.+|..+.+.+++..+  +++||
T Consensus         1 ms~~~~~~~P~k~~KivlvGd~~VGKTsLi~r~~~~~f~~~~~~Tig~d~~~k~~~~~~~~v--~l~iw   67 (216)
T 4dkx_A            1 MSTGGDFGNPLRKFKLVFLGEQSVGKTSLITRFMYDSFDNTYQATIGIDFLSKTMYLEDRTI--RLQLW   67 (216)
T ss_dssp             ------------CEEEEEECSTTSSHHHHHHHHHHSCCC----------CEEEEEECSSCEE--EEEEE
T ss_pred             CCCCCCCCCCCCcEEEEEECcCCcCHHHHHHHHHhCCCCCCcCCccceEEEEEEEEecceEE--EEEEE
Confidence            4443332 345679999999999999999999999999999999999999999999998885  77887

>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=99.61  E-value=4.8e-15  Score=81.44  Aligned_cols=62  Identities=42%  Similarity=0.770  Sum_probs=52.5

Q ss_pred             CCcCCceeeEEEEECCCCChHHHHHHHHhcCcCcCCCccceeeEeEEEEEEECCeEEEEEEEeC
Q 035301            5 ADEEYDYLFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQVTNFSSFTSLHFY   68 (68)
Q Consensus         5 ~~~~~~~~~ki~~iG~~~vGKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~~w   68 (68)
                      .+.+++..+||+++|+++||||||++++.+..+...+.+|++.++..+.+.+++..+  .+++|
T Consensus        19 ~~~~~~~~~ki~lvG~~~vGKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~--~l~l~   80 (201)
T 2ew1_A           19 SMEDYDFLFKIVLIGNAGVGKTCLVRRFTQGLFPPGQGATIGVDFMIKTVEINGEKV--KLQIW   80 (201)
T ss_dssp             ---CCSEEEEEEEEESTTSSHHHHHHHHHHSSCCTTCCCCCSEEEEEEEEEETTEEE--EEEEE
T ss_pred             CccccccceEEEEECcCCCCHHHHHHHHHhCCCCCCCCCccceeEEEEEEEECCEEE--EEEEE
Confidence            344567789999999999999999999999999888899999999888999998775  56665

>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=99.60  E-value=8.2e-15  Score=79.73  Aligned_cols=60  Identities=77%  Similarity=1.115  Sum_probs=52.3

Q ss_pred             cCCceeeEEEEECCCCChHHHHHHHHhcCcCcCCCccceeeEeEEEEEEECCeEEEEEEEeC
Q 035301            7 EEYDYLFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQVTNFSSFTSLHFY   68 (68)
Q Consensus         7 ~~~~~~~ki~~iG~~~vGKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~~w   68 (68)
                      .+.+..+|++++|++|||||||++++++..++..+.+|++.++....+.+++..+  .+++|
T Consensus        24 ~~~~~~~kv~lvG~~g~GKSTLl~~l~~~~~~~~~~~t~~~~~~~~~i~~~g~~~--~~~i~   83 (191)
T 1oix_A           24 DEYDYLFKVVLIGDSGVGKSNLLSRFTRNEFNLESKSTIGVEFATRSIQVDGKTI--KAQIW   83 (191)
T ss_dssp             CCCSEEEEEEEEECTTSSHHHHHHHHHHSCCCCSCCCCCSEEEEEEEEEETTEEE--EEEEE
T ss_pred             cccCcceEEEEECcCCCCHHHHHHHHhcCCCCCCCCCccceEEEEEEEEECCEEE--EEEEE
Confidence            3456789999999999999999999999999888999999999889999999875  44554

>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=99.58  E-value=1.6e-14  Score=78.16  Aligned_cols=62  Identities=56%  Similarity=0.964  Sum_probs=52.1

Q ss_pred             CCcCCceeeEEEEECCCCChHHHHHHHHhcCcCcCCCccceeeEeEEEEEEECCeEEEEEEEeC
Q 035301            5 ADEEYDYLFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQVTNFSSFTSLHFY   68 (68)
Q Consensus         5 ~~~~~~~~~ki~~iG~~~vGKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~~w   68 (68)
                      ...+++..+||+++|+.+||||||++++.+..+...+.++++.++..+.+.+++...  .+.+|
T Consensus        18 ~~~~~~~~~ki~v~G~~~~GKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~--~~~i~   79 (193)
T 2oil_A           18 GSEDYNFVFKVVLIGESGVGKTNLLSRFTRNEFSHDSRTTIGVEFSTRTVMLGTAAV--KAQIW   79 (193)
T ss_dssp             --CCCSEEEEEEEESSTTSSHHHHHHHHHHSCCCSSCCCCSSEEEEEEEEEETTEEE--EEEEE
T ss_pred             cccccCcceEEEEECcCCCCHHHHHHHHhcCCCCCCCCCccceeEEEEEEEECCEEE--EEEEE
Confidence            344567789999999999999999999999999888889999999888888887775  56665

>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=99.58  E-value=1.6e-14  Score=76.87  Aligned_cols=66  Identities=27%  Similarity=0.508  Sum_probs=50.2

Q ss_pred             CCCCCCcCCceeeEEEEECCCCChHHHHHHHHhcCcCcCCCccceeeEeEEEEEEECCeEEEEEEEeC
Q 035301            1 MARRADEEYDYLFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQVTNFSSFTSLHFY   68 (68)
Q Consensus         1 m~~~~~~~~~~~~ki~~iG~~~vGKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~~w   68 (68)
                      |+......+...+||+++|+.++|||||++++.+..+...+.++++.++..+.+.+++...  .+.+|
T Consensus         3 m~~~~~~~~~~~~~i~v~G~~~~GKssli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~   68 (179)
T 2y8e_A            3 MSSGDFGNPLRKFKLVFLGEQSVGKTSLITRFMYDSFDNTYQATIGIDFLSKTMYLEDRTV--RLQLW   68 (179)
T ss_dssp             ---------CEEEEEEEEESTTSSHHHHHHHHHHSCCCSSCCCCCSEEEEEEEEEETTEEE--EEEEE
T ss_pred             cccccccCCCcceEEEEECCCCCCHHHHHHHHHcCCCCCCCCCceeeEEEEEEEEECCeEE--EEEEE
Confidence            3444444455679999999999999999999999999888899999999888898988775  45555

>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=99.57  E-value=1.8e-14  Score=78.01  Aligned_cols=63  Identities=40%  Similarity=0.610  Sum_probs=49.3

Q ss_pred             CCCcCCceeeEEEEECCCCChHHHHHHHHhcCcCcCCCccceeeEeEEEEEEECCeEEEEEEEeC
Q 035301            4 RADEEYDYLFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQVTNFSSFTSLHFY   68 (68)
Q Consensus         4 ~~~~~~~~~~ki~~iG~~~vGKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~~w   68 (68)
                      ..+......+||+++|+.+||||||++++.+..+...+.++++.++..+.+.+++...  .+++|
T Consensus        13 ~~~~~~~~~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~--~~~i~   75 (191)
T 2a5j_A           13 GLVPRGSYLFKYIIIGDTGVGKSCLLLQFTDKRFQPVHDLTIGVEFGARMVNIDGKQI--KLQIW   75 (191)
T ss_dssp             CCCCTTCEEEEEEEESSTTSSHHHHHHHHHHSCCCC-----CCSSEEEEEEEETTEEE--EEEEE
T ss_pred             ccccccCcceEEEEECcCCCCHHHHHHHHhcCCCCCCCCCcccceeEEEEEEECCEEE--EEEEE
Confidence            3445667899999999999999999999999999888889999888888888888775  56665

>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=99.55  E-value=1.7e-14  Score=78.89  Aligned_cols=60  Identities=42%  Similarity=0.796  Sum_probs=42.2

Q ss_pred             cCCceeeEEEEECCCCChHHHHHHHHhcCcCcCCCccceeeEeEEEEEEECCeEEEEEEEeC
Q 035301            7 EEYDYLFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQVTNFSSFTSLHFY   68 (68)
Q Consensus         7 ~~~~~~~ki~~iG~~~vGKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~~w   68 (68)
                      .+.+..+||+++|+.+||||||++++.+..+...+.+|++.++..+.+.+++..+  .+++|
T Consensus        24 ~~~~~~~ki~vvG~~~vGKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~--~l~i~   83 (201)
T 2hup_A           24 EQYDFLFKLVLVGDASVGKTCVVQRFKTGAFSERQGSTIGVDFTMKTLEIQGKRV--KLQIW   83 (201)
T ss_dssp             --CCEEEEEEEEECTTSSHHHHHHHHHHSCC----------CEEEEEEEETTEEE--EEEEE
T ss_pred             cccccceEEEEECcCCCCHHHHHHHHhhCCCCCCCCCCcceEEEEEEEEECCEEE--EEEEE
Confidence            3456789999999999999999999999999888889999999888899988764  56666

>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=99.55  E-value=3.4e-14  Score=77.47  Aligned_cols=57  Identities=77%  Similarity=1.091  Sum_probs=47.6

Q ss_pred             ceeeEEEEECCCCChHHHHHHHHhcCcCcCCCccceeeEeEEEEEEECCeEEEEEEEeC
Q 035301           10 DYLFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQVTNFSSFTSLHFY   68 (68)
Q Consensus        10 ~~~~ki~~iG~~~vGKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~~w   68 (68)
                      ++.+|++++|++|||||||++++++..+...+.++++.++....+.+++..+  .+++|
T Consensus         3 ~~~~kv~lvG~~g~GKSTLl~~l~~~~~~~~~~~t~~~~~~~~~i~~~g~~~--~~~i~   59 (199)
T 2f9l_A            3 DYLFKVVLIGDSGVGKSNLLSRFTRNEFNLESKSTIGVEFATRSIQVDGKTI--KAQIW   59 (199)
T ss_dssp             SEEEEEEEESSTTSSHHHHHHHHHHSCCCC---CCCSCEEEEEEEEETTEEE--EEEEE
T ss_pred             cceEEEEEECcCCCCHHHHHHHHhcCCCCCCCCCccceeEEEEEEEECCEEE--EEEEE
Confidence            5679999999999999999999999999888889999898888999999875  45555

>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=99.54  E-value=4.4e-14  Score=75.12  Aligned_cols=61  Identities=44%  Similarity=0.785  Sum_probs=51.5

Q ss_pred             CcCCceeeEEEEECCCCChHHHHHHHHhcCcCcCCCccceeeEeEEEEEEECCeEEEEEEEeC
Q 035301            6 DEEYDYLFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQVTNFSSFTSLHFY   68 (68)
Q Consensus         6 ~~~~~~~~ki~~iG~~~vGKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~~w   68 (68)
                      +.+.+..+||+++|+.++|||||++++.+..+...+.++.+.++..+.+.+++...  .+.+|
T Consensus         9 ~~~~~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~--~~~l~   69 (179)
T 1z0f_A            9 PYNYSYIFKYIIIGDMGVGKSCLLHQFTEKKFMADCPHTIGVEFGTRIIEVSGQKI--KLQIW   69 (179)
T ss_dssp             --CCSEEEEEEEECSTTSSHHHHHHHHHHSCCCSSCTTSCCCCEEEEEEEETTEEE--EEEEE
T ss_pred             ccccccceEEEEECCCCCCHHHHHHHHHcCCCCCCCCCccceEEEEEEEEECCeEE--EEEEE
Confidence            34567789999999999999999999999999888889999888888888888765  55655

>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=99.54  E-value=5.1e-14  Score=75.65  Aligned_cols=56  Identities=38%  Similarity=0.687  Sum_probs=46.7

Q ss_pred             CCCcCCceeeEEEEECCCCChHHHHHHHHhcCcCcCCCccceeeEeE-EEEEEECCe
Q 035301            4 RADEEYDYLFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFA-TRTLQVTNF   59 (68)
Q Consensus         4 ~~~~~~~~~~ki~~iG~~~vGKtsl~~~~~~~~~~~~~~~t~~~~~~-~~~~~~~~~   59 (68)
                      |...+++..+||+++|+.++|||||++++.+..+...+.+|++.++. .+.+.+++.
T Consensus         3 m~~~~~~~~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~   59 (195)
T 3bc1_A            3 MSDGDYDYLIKFLALGDSGVGKTSVLYQYTDGKFNSKFITTVGIDFREKRVVYRANG   59 (195)
T ss_dssp             ---CCCSEEEEEEEECSTTSSHHHHHHHHHHSCCCCSCCCCCSEEEEEEEEEECTTS
T ss_pred             CcccccceeEEEEEECCCCCCHHHHHHHHhcCCCCcCcccccceeeeeEEEEEecCC
Confidence            44556788999999999999999999999999998888899999887 667777765

>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=99.54  E-value=7.5e-14  Score=75.38  Aligned_cols=61  Identities=33%  Similarity=0.621  Sum_probs=51.9

Q ss_pred             CcCCceeeEEEEECCCCChHHHHHHHHhcCcCcCCCccceeeEeEEEEEEECCeEEEEEEEeC
Q 035301            6 DEEYDYLFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQVTNFSSFTSLHFY   68 (68)
Q Consensus         6 ~~~~~~~~ki~~iG~~~vGKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~~w   68 (68)
                      +...+..+||+++|+.+||||||++++.+..+...+.++++.++..+.+..++...  .+.+|
T Consensus        16 ~~~~~~~~ki~vvG~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~--~~~l~   76 (189)
T 2gf9_A           16 PRGSDYMFKLLLIGNSSVGKTSFLFRYADDSFTPAFVSTVGIDFKVKTVYRHDKRI--KLQIW   76 (189)
T ss_dssp             CTTCSEEEEEEEECSTTSSHHHHHHHHHHSCCCCSCCCCCCCEEEEEEEEETTEEE--EEEEE
T ss_pred             CcccCceeEEEEECCCCCCHHHHHHHHHcCCCCCCcCCceeEEEEEEEEEECCeEE--EEEEE
Confidence            34456789999999999999999999999999888889999998888888888765  55665

>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=99.53  E-value=9.9e-14  Score=74.41  Aligned_cols=59  Identities=41%  Similarity=0.743  Sum_probs=51.6

Q ss_pred             CCceeeEEEEECCCCChHHHHHHHHhcCcCcCCCccceeeEeEEEEEEECCeEEEEEEEeC
Q 035301            8 EYDYLFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQVTNFSSFTSLHFY   68 (68)
Q Consensus         8 ~~~~~~ki~~iG~~~vGKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~~w   68 (68)
                      +.+..+||+++|+.+||||||++++.+..+...+.++++.++..+.+.+++...  .+++|
T Consensus         6 ~~~~~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~l~   64 (186)
T 2bme_A            6 TYDFLFKFLVIGNAGTGKSCLLHQFIEKKFKDDSNHTIGVEFGSKIINVGGKYV--KLQIW   64 (186)
T ss_dssp             CCSEEEEEEEEESTTSSHHHHHHHHHHSSCCTTCCCCSEEEEEEEEEEETTEEE--EEEEE
T ss_pred             ccccceEEEEECCCCCCHHHHHHHHHcCCCCCCCCCccceEEEEEEEEECCEEE--EEEEE
Confidence            457789999999999999999999999999888889999999888888888764  56665

>2il1_A RAB12; G-protein, GDP, GTPase, predicted, structural genomics, structural genomics consortium, SGC, protein transport; HET: GDP; 2.10A {Homo sapiens}

Probab=99.53  E-value=4.4e-14  Score=76.68  Aligned_cols=61  Identities=36%  Similarity=0.737  Sum_probs=44.5

Q ss_pred             CcCCceeeEEEEECCCCChHHHHHHHHhcCcCcCCCccceeeEeEEEEEEECCeEEEEEEEeC
Q 035301            6 DEEYDYLFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQVTNFSSFTSLHFY   68 (68)
Q Consensus         6 ~~~~~~~~ki~~iG~~~vGKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~~w   68 (68)
                      +...+..+||+++|+.+||||||++++.+..+...+.++++.++..+.+.+++..+  .+.+|
T Consensus        20 p~~~~~~~ki~vvG~~~~GKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~--~l~l~   80 (192)
T 2il1_A           20 PRPADFKLQVIIIGSRGVGKTSLMERFTDDTFCEACKSTVGVDFKIKTVELRGKKI--RLQIW   80 (192)
T ss_dssp             --CCSEEEEEEEECSTTSSHHHHHHHHCC--------CCTTEEEEEEEEEETTEEE--EEEEE
T ss_pred             CcccCCceEEEEECCCCCCHHHHHHHHhcCCCCcCCCCccceeEEEEEEEECCeEE--EEEEE
Confidence            34456789999999999999999999999999888889999999888899988764  56665

>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=99.53  E-value=5.3e-14  Score=74.40  Aligned_cols=58  Identities=34%  Similarity=0.608  Sum_probs=49.9

Q ss_pred             CceeeEEEEECCCCChHHHHHHHHhcCcCcCCCccceeeEeEEEEEEECCeEEEEEEEeC
Q 035301            9 YDYLFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQVTNFSSFTSLHFY   68 (68)
Q Consensus         9 ~~~~~ki~~iG~~~vGKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~~w   68 (68)
                      .+..+||+++|++++|||||++++.+..+...+.++++.++..+.+.+++..+  .+.+|
T Consensus         3 ~~~~~~i~v~G~~~~GKssli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~--~l~i~   60 (170)
T 1z08_A            3 RAYSFKVVLLGEGCVGKTSLVLRYCENKFNDKHITTLGASFLTKKLNIGGKRV--NLAIW   60 (170)
T ss_dssp             -CEEEEEEEECCTTSCHHHHHHHHHHCCCCSSCCCCCSCEEEEEEEESSSCEE--EEEEE
T ss_pred             CCcceEEEEECcCCCCHHHHHHHHHcCCCCcCCCCccceEEEEEEEEECCEEE--EEEEE
Confidence            46789999999999999999999999999888899999998888888888775  55655

>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=99.53  E-value=3.3e-14  Score=77.65  Aligned_cols=59  Identities=42%  Similarity=0.714  Sum_probs=40.1

Q ss_pred             CCceeeEEEEECCCCChHHHHHHHHhcCcCcCCCccceeeEeEEEEEEECCeEEEEEEEeC
Q 035301            8 EYDYLFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQVTNFSSFTSLHFY   68 (68)
Q Consensus         8 ~~~~~~ki~~iG~~~vGKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~~w   68 (68)
                      +.+..+||+++|+.+||||||++++.++.+...+.++++.++..+.+.+++...  .+++|
T Consensus        21 ~~~~~~ki~v~G~~~~GKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~--~l~l~   79 (200)
T 2o52_A           21 WSDFLFKFLVIGSAGTGKSCLLHQFIENKFKQDSNHTIGVEFGSRVVNVGGKTV--KLQIW   79 (200)
T ss_dssp             -CCEEEEEEEEESTTSSHHHHHHHHHC------------CCEEEEEEEETTEEE--EEEEE
T ss_pred             ccCcceEEEEECcCCCCHHHHHHHHHhCCCCccCCCcccceeEEEEEEECCeee--EEEEE
Confidence            456789999999999999999999999999888889999888888888888764  56665

>3cpj_B GTP-binding protein YPT31/YPT8; RAB GTPase, prenylation, vesicular transport, acetylation, golgi apparatus, lipoprotein, membrane; HET: GDP; 2.35A {Saccharomyces cerevisiae}

Probab=99.53  E-value=4.6e-14  Score=78.16  Aligned_cols=66  Identities=62%  Similarity=0.929  Sum_probs=45.8

Q ss_pred             CCCCCC-cCCceeeEEEEECCCCChHHHHHHHHhcCcCcCCCccceeeEeEEEEEEECCeEEEEEEEeC
Q 035301            1 MARRAD-EEYDYLFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQVTNFSSFTSLHFY   68 (68)
Q Consensus         1 m~~~~~-~~~~~~~ki~~iG~~~vGKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~~w   68 (68)
                      |+.... ..++..+||+++|+.+||||||++++.+..+...+.++++.++..+.+.+++..+  .+++|
T Consensus         1 Ms~~~~~~~~~~~~ki~v~G~~~vGKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~--~~~i~   67 (223)
T 3cpj_B            1 MSSEDYGYDYDLLFKIVLIGDSGVGKSNLLSRFTKNEFNMDSKSTIGVEFATRTLEIEGKRI--KAQIW   67 (223)
T ss_dssp             ---------CCEEEEEEEESCTTSSHHHHHHHHHHCCCCC------CCSEEEEEEEETTEEE--EEEEE
T ss_pred             CCccccCCCCCeeeEEEEECcCCCCHHHHHHHHhcCCCCCCCCCcccceeEEEEEEECCEEE--EEEEE
Confidence            444333 2457789999999999999999999999999888889999999888888988765  56665

>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=99.52  E-value=8.7e-14  Score=74.06  Aligned_cols=58  Identities=41%  Similarity=0.717  Sum_probs=47.2

Q ss_pred             CceeeEEEEECCCCChHHHHHHHHhcCcCcCCCccceeeEeEEEEEEECCeEEEEEEEeC
Q 035301            9 YDYLFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQVTNFSSFTSLHFY   68 (68)
Q Consensus         9 ~~~~~ki~~iG~~~vGKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~~w   68 (68)
                      ....+||+++|+.++|||||++++.+..+...+.++++.++....+.+++...  .+.+|
T Consensus         4 ~~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~i~   61 (177)
T 1wms_A            4 KSSLFKVILLGDGGVGKSSLMNRYVTNKFDTQLFHTIGVEFLNKDLEVDGHFV--TMQIW   61 (177)
T ss_dssp             CEEEEEEEEECCTTSSHHHHHHHHHHSCCCC----CCSEEEEEEEEEETTEEE--EEEEE
T ss_pred             ccceeEEEEECCCCCCHHHHHHHHHcCCCCCCCCCceeeeEEEEEEEECCEEE--EEEEE
Confidence            45689999999999999999999999998888889999999888888988764  56665

>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=99.52  E-value=7.7e-14  Score=75.53  Aligned_cols=58  Identities=19%  Similarity=0.308  Sum_probs=47.7

Q ss_pred             CCceeeEEEEECCCCChHHHHHHHHhcCcCcCCCccceeeEeEEEEEEECCeEEEEEEEeC
Q 035301            8 EYDYLFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQVTNFSSFTSLHFY   68 (68)
Q Consensus         8 ~~~~~~ki~~iG~~~vGKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~~w   68 (68)
                      .....+||+++|+.+||||||++++.++.|...+.+|++.++ ...+.+++..+  .+++|
T Consensus        17 ~~~~~~ki~vvG~~~vGKTsLi~~l~~~~~~~~~~~t~~~~~-~~~~~~~~~~~--~l~i~   74 (187)
T 3c5c_A           17 QGPLEVNLAILGRRGAGKSALTVKFLTKRFISEYDPNLEDTY-SSEETVDHQPV--HLRVM   74 (187)
T ss_dssp             ---CEEEEEEECCTTSSHHHHHHHHHHSSCCSCCCTTCCEEE-EEEEEETTEEE--EEEEE
T ss_pred             CCCceEEEEEECCCCCcHHHHHHHHHhCCCCcccCCCcccee-eEEEEECCEEE--EEEEE
Confidence            345679999999999999999999999999988999999887 56677888775  56665

>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=99.52  E-value=1.4e-13  Score=74.93  Aligned_cols=59  Identities=32%  Similarity=0.687  Sum_probs=51.5

Q ss_pred             CCceeeEEEEECCCCChHHHHHHHHhcCcCcCCCccceeeEeEEEEEEECCeEEEEEEEeC
Q 035301            8 EYDYLFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQVTNFSSFTSLHFY   68 (68)
Q Consensus         8 ~~~~~~ki~~iG~~~vGKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~~w   68 (68)
                      ..+..+||+++|+.+||||||++++.+..+...+.++++.++..+.+.+++...  .+++|
T Consensus         4 ~~~~~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~--~~~l~   62 (203)
T 1zbd_A            4 MFDYMFKILIIGNSSVGKTSFLFRYADDSFTPAFVSTVGIDFKVKTIYRNDKRI--KLQIW   62 (203)
T ss_dssp             SCSEEEEEEEECSTTSSHHHHHHHHHTCCCCSCCCCCCSEEEEEEEEEETTEEE--EEEEE
T ss_pred             ccceeeEEEEECCCCCCHHHHHHHHhcCCCCCCcCCccceeEEEEEEEECCeEE--EEEEE
Confidence            356789999999999999999999999999888889999999888888888775  56665

>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=99.52  E-value=7.1e-14  Score=74.63  Aligned_cols=61  Identities=34%  Similarity=0.560  Sum_probs=50.2

Q ss_pred             CcCCceeeEEEEECCCCChHHHHHHHHhcCcCcCCCccceeeEeEEEEEEECCeEEEEEEEeC
Q 035301            6 DEEYDYLFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQVTNFSSFTSLHFY   68 (68)
Q Consensus         6 ~~~~~~~~ki~~iG~~~vGKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~~w   68 (68)
                      +......+||+++|+.++|||||++++.+..+...+.++++.++..+.+.+++...  .+++|
T Consensus         6 ~~~~~~~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~i~   66 (181)
T 2efe_B            6 AGNKSINAKLVLLGDVGAGKSSLVLRFVKDQFVEFQESTIGAAFFSQTLAVNDATV--KFEIW   66 (181)
T ss_dssp             ----CEEEEEEEECCTTSCHHHHHHHHHHCCCTTTSCCCSCCSEEEEEEEETTEEE--EEEEE
T ss_pred             CCCCccceEEEEECcCCCCHHHHHHHHHcCCCCCcCCCCceeEEEEEEEEECCEEE--EEEEE
Confidence            34456789999999999999999999999999888889999888888888888765  56665

>3tw8_B RAS-related protein RAB-35; longin domain, RAB GTPase, guanine exchange factor; 2.10A {Homo sapiens}

Probab=99.52  E-value=1.1e-13  Score=73.64  Aligned_cols=59  Identities=47%  Similarity=0.799  Sum_probs=48.6

Q ss_pred             CCceeeEEEEECCCCChHHHHHHHHhcCcCcCCCccceeeEeEEEEEEECCeEEEEEEEeC
Q 035301            8 EYDYLFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQVTNFSSFTSLHFY   68 (68)
Q Consensus         8 ~~~~~~ki~~iG~~~vGKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~~w   68 (68)
                      +++..+||+++|+.++|||||++++.+..+...+.++++.++....+.+++...  .+.+|
T Consensus         5 ~~~~~~~i~v~G~~~~GKssl~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~i~   63 (181)
T 3tw8_B            5 DYDHLFKLLIIGDSGVGKSSLLLRFADNTFSGSYITTIGVDFKIRTVEINGEKV--KLQIW   63 (181)
T ss_dssp             -CCEEEEEEEECCTTSCHHHHHHHHCSCC---CCTTTBSEEEEEEEEEETTEEE--EEEEE
T ss_pred             ccCcceEEEEECCCCCCHHHHHHHHhcCCCCCccCCCceeEEEEEEEEECCEEE--EEEEE
Confidence            456789999999999999999999999999888899999999888999988775  45555

>3tkl_A RAS-related protein RAB-1A; vesicle trafficking, protein transport-protein binding compl; HET: GTP; 2.18A {Homo sapiens}

Probab=99.52  E-value=1.4e-13  Score=74.31  Aligned_cols=60  Identities=50%  Similarity=0.827  Sum_probs=52.3

Q ss_pred             cCCceeeEEEEECCCCChHHHHHHHHhcCcCcCCCccceeeEeEEEEEEECCeEEEEEEEeC
Q 035301            7 EEYDYLFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQVTNFSSFTSLHFY   68 (68)
Q Consensus         7 ~~~~~~~ki~~iG~~~vGKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~~w   68 (68)
                      ...+..+||+++|+.+||||||++++.+..+...+.++++.++....+.+++..+  .+++|
T Consensus        11 ~~~~~~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~i~   70 (196)
T 3tkl_A           11 PEYDYLFKLLLIGDSGVGKSCLLLRFADDTYTESYISTIGVDFKIRTIELDGKTI--KLQIW   70 (196)
T ss_dssp             CCCSEEEEEEEECSTTSSHHHHHHHHHHSCCCSCCCCCSSEEEEEEEEEETTEEE--EEEEE
T ss_pred             cccccceEEEEECcCCCCHHHHHHHHHcCCCCCCCCCcccceEEEEEEEECCEEE--EEEEE
Confidence            3456789999999999999999999999999988999999999889999998775  55555

>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=99.51  E-value=2.3e-14  Score=76.80  Aligned_cols=59  Identities=46%  Similarity=0.802  Sum_probs=36.0

Q ss_pred             CCceeeEEEEECCCCChHHHHHHHHhcCcCcCCCccceeeEeEEEEEEECCeEEEEEEEeC
Q 035301            8 EYDYLFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQVTNFSSFTSLHFY   68 (68)
Q Consensus         8 ~~~~~~ki~~iG~~~vGKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~~w   68 (68)
                      +.+..+||+++|+.+||||||++++.+..+...+.++++.++..+.+.+++...  .+++|
T Consensus         4 ~~~~~~ki~v~G~~~~GKssl~~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~--~~~l~   62 (183)
T 2fu5_C            4 TYDYLFKLLLIGDSGVGKTCVLFRFSEDAFNSTFISTIGIDFKIRTIELDGKRI--KLQIW   62 (183)
T ss_dssp             CCSEEEEEEEECCCCC----------------CHHHHHCEEEEEEEEEETTEEE--EEEEE
T ss_pred             ccCCceEEEEECCCCCCHHHHHHHHHhCCCCCCCCCcccceeEEEEEEECCEEE--EEEEE
Confidence            356789999999999999999999999988888889999999888888888765  56665

>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=99.51  E-value=7.9e-14  Score=73.51  Aligned_cols=57  Identities=33%  Similarity=0.643  Sum_probs=49.4

Q ss_pred             ceeeEEEEECCCCChHHHHHHHHhcCcCcCCCccceeeEeEEEEEEECCeEEEEEEEeC
Q 035301           10 DYLFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQVTNFSSFTSLHFY   68 (68)
Q Consensus        10 ~~~~ki~~iG~~~vGKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~~w   68 (68)
                      +..+||+++|++|+|||||++++.+..+...+.++++.++..+.+.+++...  .+.+|
T Consensus         3 ~~~~~i~v~G~~~~GKssl~~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~--~~~l~   59 (168)
T 1z2a_A            3 EVAIKMVVVGNGAVGKSSMIQRYCKGIFTKDYKKTIGVDFLERQIQVNDEDV--RLMLW   59 (168)
T ss_dssp             -CEEEEEEECSTTSSHHHHHHHHHHCCCCCCSSCCCSSSEEEEEEEETTEEE--EEEEE
T ss_pred             ceeEEEEEECcCCCCHHHHHHHHHcCCCCCCCCCceEEEEEEEEEEECCEEE--EEEEE
Confidence            4679999999999999999999999999888899999888888888888764  56665

>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=99.51  E-value=1.1e-13  Score=75.59  Aligned_cols=59  Identities=47%  Similarity=0.836  Sum_probs=51.8

Q ss_pred             CCceeeEEEEECCCCChHHHHHHHHhcCcCcCCCccceeeEeEEEEEEECCeEEEEEEEeC
Q 035301            8 EYDYLFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQVTNFSSFTSLHFY   68 (68)
Q Consensus         8 ~~~~~~ki~~iG~~~vGKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~~w   68 (68)
                      +.+..+||+++|+.+||||||++++.+..+...+.++++.++..+.+.+++..+  .+++|
T Consensus         4 ~~~~~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~--~~~l~   62 (206)
T 2bcg_Y            4 EYDYLFKLLLIGNSGVGKSCLLLRFSDDTYTNDYISTIGVDFKIKTVELDGKTV--KLQIW   62 (206)
T ss_dssp             CCSEEEEEEEEESTTSSHHHHHHHHHHCCCCTTCCCSSCCCEEEEEEEETTEEE--EEEEE
T ss_pred             ccCcceEEEEECCCCCCHHHHHHHHhcCCCCCCCCCcccceeEEEEEEECCEEE--EEEEE
Confidence            456789999999999999999999999999888899999999888899988775  56665

>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=99.51  E-value=9.4e-14  Score=75.30  Aligned_cols=62  Identities=32%  Similarity=0.499  Sum_probs=50.0

Q ss_pred             CCcCCceeeEEEEECCCCChHHHHHHHHhcCcCcCCCccceeeEeEEEEEEECCeEEEEEEEeC
Q 035301            5 ADEEYDYLFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQVTNFSSFTSLHFY   68 (68)
Q Consensus         5 ~~~~~~~~~ki~~iG~~~vGKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~~w   68 (68)
                      +...++..+||+++|+.++|||||++++.+..+...+.++++.++..+.+.+++...  .+.+|
T Consensus        16 ~~~~~~~~~ki~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~i~   77 (192)
T 2fg5_A           16 PRGSAIRELKVCLLGDTGVGKSSIVCRFVQDHFDHNISPTIGASFMTKTVPCGNELH--KFLIW   77 (192)
T ss_dssp             -----CEEEEEEEEECTTSSHHHHHHHHHHCCCCTTCCCCSSEEEEEEEEECSSSEE--EEEEE
T ss_pred             cccccCCceEEEEECcCCCCHHHHHHHHhcCCCCCCcCCCcceeEEEEEEEeCCEEE--EEEEE
Confidence            344567789999999999999999999999998888899999998888888877764  56665

>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=99.51  E-value=1.6e-13  Score=73.98  Aligned_cols=59  Identities=41%  Similarity=0.653  Sum_probs=51.1

Q ss_pred             CCceeeEEEEECCCCChHHHHHHHHhcCcCcCCCccceeeEeEEEEEEECCeEEEEEEEeC
Q 035301            8 EYDYLFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQVTNFSSFTSLHFY   68 (68)
Q Consensus         8 ~~~~~~ki~~iG~~~vGKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~~w   68 (68)
                      +....+||+++|+.+||||||++++.+..+...+.++++.++..+.+.+++...  .+.+|
T Consensus        11 ~~~~~~~i~v~G~~~~GKssli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~--~~~i~   69 (195)
T 1x3s_A           11 DVLTTLKILIIGESGVGKSSLLLRFTDDTFDPELAATIGVDFKVKTISVDGNKA--KLAIW   69 (195)
T ss_dssp             TEEEEEEEEEECSTTSSHHHHHHHHHHSCCCTTCCCCCSEEEEEEEEEETTEEE--EEEEE
T ss_pred             CCCCceEEEEECCCCCCHHHHHHHHHcCCCCccCCCccceEEEEEEEEECCeEE--EEEEE
Confidence            345679999999999999999999999999888999999999888888888775  56665

>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=99.50  E-value=1.2e-13  Score=74.61  Aligned_cols=57  Identities=33%  Similarity=0.632  Sum_probs=49.6

Q ss_pred             ceeeEEEEECCCCChHHHHHHHHhcCcCcCCCccceeeEeEEEEEEECCeEEEEEEEeC
Q 035301           10 DYLFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQVTNFSSFTSLHFY   68 (68)
Q Consensus        10 ~~~~ki~~iG~~~vGKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~~w   68 (68)
                      ...+||+++|+.+||||||++++.++.+...+.++++.++..+.+.+++...  .+.+|
T Consensus        18 ~~~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~--~~~l~   74 (189)
T 1z06_A           18 SRIFKIIVIGDSNVGKTCLTYRFCAGRFPDRTEATIGVDFRERAVDIDGERI--KIQLW   74 (189)
T ss_dssp             -CEEEEEEECCTTSSHHHHHHHHHHSSCCSSCCCCCSCCEEEEEEEETTEEE--EEEEE
T ss_pred             CceEEEEEECCCCCCHHHHHHHHHcCCCCCCCCCCcceEEEEEEEEECCEEE--EEEEE
Confidence            4579999999999999999999999999888899999999888899988764  56665

>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=99.49  E-value=1.3e-13  Score=75.78  Aligned_cols=53  Identities=38%  Similarity=0.731  Sum_probs=45.9

Q ss_pred             cCCceeeEEEEECCCCChHHHHHHHHhcCcCcCCCccceeeEeEEEEEEECCe
Q 035301            7 EEYDYLFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQVTNF   59 (68)
Q Consensus         7 ~~~~~~~ki~~iG~~~vGKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~   59 (68)
                      .+++..+||+++|+.+||||||++++.+..+...+.+|++.++..+.+.+++.
T Consensus        20 ~~~~~~~ki~vvG~~~~GKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~   72 (217)
T 2f7s_A           20 GDYDYLIKLLALGDSGVGKTTFLYRYTDNKFNPKFITTVGIDFREKRVVYNAQ   72 (217)
T ss_dssp             -CCSEEEEEEEESCTTSSHHHHHHHHHCSCCCCEEEEEEEEEEEEEEEEEEC-
T ss_pred             CCcceeEEEEEECcCCCCHHHHHHHHhcCCCCcCCCCceeEEEEEEEEEECCc
Confidence            34677899999999999999999999999998888899999988788887765

>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=99.49  E-value=2.7e-13  Score=71.57  Aligned_cols=58  Identities=36%  Similarity=0.533  Sum_probs=50.2

Q ss_pred             CceeeEEEEECCCCChHHHHHHHHhcCcCcCCCccceeeEeEEEEEEECCeEEEEEEEeC
Q 035301            9 YDYLFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQVTNFSSFTSLHFY   68 (68)
Q Consensus         9 ~~~~~ki~~iG~~~vGKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~~w   68 (68)
                      ....+|++++|+.++|||||++++.+..+...+.++.+.++..+.+.+++...  .+.+|
T Consensus         3 ~~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~   60 (170)
T 1z0j_A            3 ALRELKVCLLGDTGVGKSSIMWRFVEDSFDPNINPTIGASFMTKTVQYQNELH--KFLIW   60 (170)
T ss_dssp             SEEEEEEEEECCTTSSHHHHHHHHHHSCCCTTCCCCCSEEEEEEEEEETTEEE--EEEEE
T ss_pred             CCcceEEEEECcCCCCHHHHHHHHHcCCCCCCCCCceeEEEEEEEEEECCeEE--EEEEE
Confidence            35679999999999999999999999998888899999998888888888765  55555

>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=99.49  E-value=2.3e-13  Score=71.74  Aligned_cols=58  Identities=36%  Similarity=0.576  Sum_probs=50.1

Q ss_pred             CceeeEEEEECCCCChHHHHHHHHhcCcCcCCCccceeeEeEEEEEEECCeEEEEEEEeC
Q 035301            9 YDYLFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQVTNFSSFTSLHFY   68 (68)
Q Consensus         9 ~~~~~ki~~iG~~~vGKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~~w   68 (68)
                      +...+||+++|+.++|||||++++.++.+...+.++++.++..+.+.+++...  .+++|
T Consensus         3 ~~~~~~i~v~G~~~~GKssli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~   60 (170)
T 1r2q_A            3 KICQFKLVLLGESAVGKSSLVLRFVKGQFHEFQESTIGAAFLTQTVCLDDTTV--KFEIW   60 (170)
T ss_dssp             EEEEEEEEEECSTTSSHHHHHHHHHHSCCCTTCCCCSSEEEEEEEEEETTEEE--EEEEE
T ss_pred             CCceEEEEEECCCCCCHHHHHHHHHcCCCCCCCCCccceEEEEEEEEECCEEE--EEEEE
Confidence            34679999999999999999999999999888889999999888888888765  55655

>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=99.49  E-value=1.2e-13  Score=76.28  Aligned_cols=58  Identities=21%  Similarity=0.290  Sum_probs=45.7

Q ss_pred             CCceeeEEEEECCCCChHHHHHHHHhcCcCcCCCccceeeEeEEEEEEECCeEEEEEEEeC
Q 035301            8 EYDYLFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQVTNFSSFTSLHFY   68 (68)
Q Consensus         8 ~~~~~~ki~~iG~~~vGKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~~w   68 (68)
                      .....+||+++|+.+||||||++++.++.+...+.+|++.++ .+.+.+++..+  .+++|
T Consensus        23 ~~~~~~ki~vvG~~~vGKSsL~~~l~~~~~~~~~~~t~~~~~-~~~~~~~~~~~--~l~i~   80 (214)
T 3q3j_B           23 PVVARCKLVLVGDVQCGKTAMLQVLAKDCYPETYVPTVFENY-TACLETEEQRV--ELSLW   80 (214)
T ss_dssp             ----CEEEEEECSTTSSHHHHHHHHHHSCCCSSCCCCSEEEE-EEEEEC--CEE--EEEEE
T ss_pred             CccceEEEEEECcCCCCHHHHHHHHhcCCCCCCcCCeeeeeE-EEEEEECCEEE--EEEEE
Confidence            345579999999999999999999999999999999999887 56777777765  56666

>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=99.49  E-value=2.7e-13  Score=72.61  Aligned_cols=58  Identities=29%  Similarity=0.412  Sum_probs=49.8

Q ss_pred             CCceeeEEEEECCCCChHHHHHHHHhcCcCcCCCccceeeEeEEEEEEECCeEEEEEEEeC
Q 035301            8 EYDYLFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQVTNFSSFTSLHFY   68 (68)
Q Consensus         8 ~~~~~~ki~~iG~~~vGKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~~w   68 (68)
                      .....+||+++|+.+||||||++++.+..+...+.++++..+ .+.+.+++...  .+++|
T Consensus        14 ~~~~~~ki~v~G~~~~GKSsl~~~l~~~~~~~~~~~t~~~~~-~~~~~~~~~~~--~l~i~   71 (183)
T 3kkq_A           14 ENLPTYKLVVVGDGGVGKSALTIQFFQKIFVDDYDPTIEDSY-LKHTEIDNQWA--ILDVL   71 (183)
T ss_dssp             CCCCEEEEEEECSTTSSHHHHHHHHHHSCCCSCCCTTCCEEE-EEEEEETTEEE--EEEEE
T ss_pred             cCCCceEEEEECCCCCCHHHHHHHHHhCCCCCCCCCCcccee-EEEEEeCCcEE--EEEEE
Confidence            345689999999999999999999999999989999999888 78888888875  45555

>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=99.49  E-value=2.8e-13  Score=71.40  Aligned_cols=55  Identities=31%  Similarity=0.644  Sum_probs=48.4

Q ss_pred             eeEEEEECCCCChHHHHHHHHhcCcCcCCCccceeeEeEEEEEEECCeEEEEEEEeC
Q 035301           12 LFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQVTNFSSFTSLHFY   68 (68)
Q Consensus        12 ~~ki~~iG~~~vGKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~~w   68 (68)
                      .+||+++|+.++|||||++++.++.+...+.++++.++..+.+.+++...  .+++|
T Consensus         3 ~~~i~v~G~~~~GKssli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~   57 (170)
T 1ek0_A            3 SIKLVLLGEAAVGKSSIVLRFVSNDFAENKEPTIGAAFLTQRVTINEHTV--KFEIW   57 (170)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHSCCCTTCCCCSSEEEEEEEEEETTEEE--EEEEE
T ss_pred             eEEEEEECCCCCCHHHHHHHHhcCCCCCCCCCccceeEEEEEEEECCEEE--EEEEE
Confidence            58999999999999999999999999888889999998888888888765  55655

>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=99.49  E-value=2.8e-13  Score=73.30  Aligned_cols=57  Identities=23%  Similarity=0.258  Sum_probs=47.4

Q ss_pred             CCceeeEEEEECCCCChHHHHHHHHhcCcCcCCCccceeeEeEEEEEEECCeEEEEEEEeC
Q 035301            8 EYDYLFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQVTNFSSFTSLHFY   68 (68)
Q Consensus         8 ~~~~~~ki~~iG~~~vGKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~~w   68 (68)
                      .....+||+++|++|||||||+++++++.|...+.+|. .++ .+.+.+++..+  .+++|
T Consensus        16 ~~~~~~ki~ivG~~~vGKSsL~~~~~~~~~~~~~~~t~-~~~-~~~~~~~~~~~--~l~i~   72 (184)
T 3ihw_A           16 FQGPELKVGIVGNLSSGKSALVHRYLTGTYVQEESPEG-GRF-KKEIVVDGQSY--LLLIR   72 (184)
T ss_dssp             CCCCEEEEEEECCTTSCHHHHHHHHHHSSCCCCCCTTC-EEE-EEEEEETTEEE--EEEEE
T ss_pred             CCCCeeEEEEECCCCCCHHHHHHHHhcCCCCCCcCCCc-ceE-EEEEEECCEEE--EEEEE
Confidence            34558999999999999999999999999988888884 455 58888998875  56666

>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=99.49  E-value=1.2e-13  Score=74.69  Aligned_cols=61  Identities=26%  Similarity=0.371  Sum_probs=49.9

Q ss_pred             CCcCCceeeEEEEECCCCChHHHHHHHHhcCcCcCCCccceeeEeEEEEEEECCeEEEEEEEeC
Q 035301            5 ADEEYDYLFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQVTNFSSFTSLHFY   68 (68)
Q Consensus         5 ~~~~~~~~~ki~~iG~~~vGKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~~w   68 (68)
                      ........+||+++|+.+||||||++++.+..+...+.+|++..+ .+.+.+++..+  .+++|
T Consensus        11 ~~~~~~~~~ki~v~G~~~~GKssli~~l~~~~~~~~~~~t~~~~~-~~~~~~~~~~~--~~~i~   71 (194)
T 2atx_A           11 AHGPGALMLKCVVVGDGAVGKTCLLMSYANDAFPEEYVPTVFDHY-AVSVTVGGKQY--LLGLY   71 (194)
T ss_dssp             SSCCEEEEEEEEEEECTTSSHHHHHHHHHHSSCCCSCCCSSCCCE-EEEEESSSCEE--EEEEE
T ss_pred             CCCCCCceEEEEEECCCCCCHHHHHHHHhcCCCCCCCCCccccee-EEEEEECCEEE--EEEEE
Confidence            334456789999999999999999999999999888899998776 56777777764  56665

>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=99.48  E-value=1.3e-13  Score=75.14  Aligned_cols=59  Identities=37%  Similarity=0.618  Sum_probs=40.1

Q ss_pred             CCceeeEEEEECCCCChHHHHHHHHhcCcCcCCCccceeeEeEEEEEEECCeEEEEEEEeC
Q 035301            8 EYDYLFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQVTNFSSFTSLHFY   68 (68)
Q Consensus         8 ~~~~~~ki~~iG~~~vGKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~~w   68 (68)
                      ..+..+||+++|+.+||||||++++.+..+...+.++++.++..+.+.+++...  .+++|
T Consensus        24 ~~~~~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~--~l~i~   82 (199)
T 2p5s_A           24 SSQKAYKIVLAGDAAVGKSSFLMRLCKNEFRENISATLGVDFQMKTLIVDGERT--VLQLW   82 (199)
T ss_dssp             ----CEEEEEESSTTSSHHHHHHHHHHCCCC----------CEEEEEEETTEEE--EEEEE
T ss_pred             CcCCCeEEEEECcCCCCHHHHHHHHHhCCCCccCCCCccceeEEEEEEECCEEE--EEEEE
Confidence            345579999999999999999999999998888889999999888899988775  56665

>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=99.48  E-value=6.3e-14  Score=76.50  Aligned_cols=59  Identities=31%  Similarity=0.374  Sum_probs=45.0

Q ss_pred             CCceeeEEEEECCCCChHHHHHHHHhcCcCcCCCccceeeEeEEEEEEECCeEEEEEEEeC
Q 035301            8 EYDYLFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQVTNFSSFTSLHFY   68 (68)
Q Consensus         8 ~~~~~~ki~~iG~~~vGKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~~w   68 (68)
                      ..+..+||+++|+++||||||++++.+..+...+.++.+.++..+.+.+++..+  .+++|
T Consensus        19 ~~~~~~ki~vvG~~~vGKSsLi~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~l~i~   77 (195)
T 3cbq_A           19 QKDGIFKVMLVGESGVGKSTLAGTFGGLQGDSAHEPENPEDTYERRIMVDKEEV--TLVVY   77 (195)
T ss_dssp             ---CEEEEEEECSTTSSHHHHHHHTCCEECCGGGTTTSCTTEEEEEEEETTEEE--EEEEE
T ss_pred             CCCcEEEEEEECCCCCCHHHHHHHHHhccCCccCCCCcccceEEEEEEECCEEE--EEEEE
Confidence            445689999999999999999999986555444556777777778888888875  56666

>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=99.47  E-value=1.7e-13  Score=73.14  Aligned_cols=54  Identities=19%  Similarity=0.340  Sum_probs=46.1

Q ss_pred             eeeEEEEECCCCChHHHHHHHHhcCcCcCCCccceeeEeEEEEEEECCeEEEEEEEeC
Q 035301           11 YLFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQVTNFSSFTSLHFY   68 (68)
Q Consensus        11 ~~~ki~~iG~~~vGKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~~w   68 (68)
                      ..+||+++|+++||||||+++++++.+.. +.+|++..+ .+.+.+++..+  .+++|
T Consensus         6 ~~~ki~~vG~~~vGKTsli~~l~~~~~~~-~~~t~~~~~-~~~~~~~~~~~--~l~i~   59 (178)
T 2iwr_A            6 PELRLGVLGDARSGKSSLIHRFLTGSYQV-LEKTESEQY-KKEMLVDGQTH--LVLIR   59 (178)
T ss_dssp             CEEEEEEECCGGGCHHHHHHHHHHSCCCC-CSSCSSSEE-EEEEEETTEEE--EEEEE
T ss_pred             CceEEEEECCCCCCHHHHHHHHHhCCCCC-cCCCcceeE-EEEEEECCEEE--EEEEE
Confidence            46999999999999999999999999876 788988666 68888888775  66766

>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=99.47  E-value=1.2e-13  Score=72.95  Aligned_cols=56  Identities=39%  Similarity=0.700  Sum_probs=42.2

Q ss_pred             eeeEEEEECCCCChHHHHHHHHhcCcCcCCCccceeeEeEEEEEEECCeEEEEEEEeC
Q 035301           11 YLFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQVTNFSSFTSLHFY   68 (68)
Q Consensus        11 ~~~ki~~iG~~~vGKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~~w   68 (68)
                      ..+||+++|+.++|||||++++.+..+...+.++++.++..+.+.+++...  .+.+|
T Consensus         2 ~~~~i~v~G~~~~GKssli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~l~   57 (170)
T 1g16_A            2 SIMKILLIGDSGVGKSCLLVRFVEDKFNPSFITTIGIDFKIKTVDINGKKV--KLQIW   57 (170)
T ss_dssp             CEEEEEEEESTTSSHHHHHHHHHHCCCCC-------CCEEEEEEESSSCEE--EEEEE
T ss_pred             CceEEEEECcCCCCHHHHHHHHHhCCCCCCCCCccceeEEEEEEEECCEEE--EEEEE
Confidence            468999999999999999999999999888889999888888888887764  56665

>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=99.47  E-value=4.1e-13  Score=72.72  Aligned_cols=58  Identities=28%  Similarity=0.419  Sum_probs=48.3

Q ss_pred             CCceeeEEEEECCCCChHHHHHHHHhcCcCcCCCccceeeEeEEEEEEECCeEEEEEEEeC
Q 035301            8 EYDYLFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQVTNFSSFTSLHFY   68 (68)
Q Consensus         8 ~~~~~~ki~~iG~~~vGKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~~w   68 (68)
                      .....+||+++|+++||||||++++.+..+...+.+|++.++. ..+.+++..+  .+++|
T Consensus        19 ~~~~~~ki~~vG~~~~GKSsl~~~l~~~~~~~~~~~t~~~~~~-~~~~~~~~~~--~~~i~   76 (194)
T 3reg_A           19 NGKKALKIVVVGDGAVGKTCLLLAFSKGEIPTAYVPTVFENFS-HVMKYKNEEF--ILHLW   76 (194)
T ss_dssp             --CEEEEEEEECSTTSSHHHHHHHHHHSCCCSSCCCCSEEEEE-EEEEETTEEE--EEEEE
T ss_pred             ccceeeEEEEECcCCCCHHHHHHHHhcCCCCCccCCeeeeeeE-EEEEECCEEE--EEEEE
Confidence            3456899999999999999999999999998889999998884 5777888775  55665

>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=99.47  E-value=4.3e-14  Score=78.04  Aligned_cols=65  Identities=29%  Similarity=0.452  Sum_probs=53.7

Q ss_pred             CCCCCcCCceeeEEEEECCCCChHHHHHHHHhcCcCcCCCccceeeEeEEEEEEECCeEEEEEEEeC
Q 035301            2 ARRADEEYDYLFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQVTNFSSFTSLHFY   68 (68)
Q Consensus         2 ~~~~~~~~~~~~ki~~iG~~~vGKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~~w   68 (68)
                      +.+........+||+++|+.+||||||+++++.+.+...+.+++|.++....+.+++...  .+++|
T Consensus         5 ~~~~~~~~~~~~ki~v~G~~~~GKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~--~~~i~   69 (221)
T 3gj0_A            5 ASAAQGEPQVQFKLVLVGDGGTGKTTFVKRHLTGEFEKKYVATLGVEVHPLVFHTNRGPI--KFNVW   69 (221)
T ss_dssp             -CCSTTCCCCEEEEEEEECTTSSHHHHHTTBHHHHHTCEEETTTTEEEEEEEEEETTEEE--EEEEE
T ss_pred             ccccCCCcccceEEEEECCCCCCHHHHHHHHHcCCCCCCCCCccceeEEEEEEEECCEEE--EEEEE
Confidence            344555667789999999999999999999888888888889999988888888888775  56665

>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=99.47  E-value=3.9e-14  Score=76.68  Aligned_cols=59  Identities=32%  Similarity=0.682  Sum_probs=51.2

Q ss_pred             CCceeeEEEEECCCCChHHHHHHHHhcCcCcCCCccceeeEeEEEEEEECCeEEEEEEEeC
Q 035301            8 EYDYLFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQVTNFSSFTSLHFY   68 (68)
Q Consensus         8 ~~~~~~ki~~iG~~~vGKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~~w   68 (68)
                      +++..+||+++|+.+||||||++++.+..+...+.++++.++..+.+.+++...  .++||
T Consensus        19 ~~~~~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~--~~~i~   77 (191)
T 3dz8_A           19 NFDYMFKLLIIGNSSVGKTSFLFRYADDTFTPAFVSTVGIDFKVKTVYRHEKRV--KLQIW   77 (191)
T ss_dssp             EEEECEEEEEEESTTSSHHHHHHHHHHHTTCCCEEEEETTTEEEEEEEETTTTE--EEEEE
T ss_pred             ccCeeeEEEEECCCCcCHHHHHHHHhcCCCCcccCCCeeeEEEEEEEEECCEEE--EEEEE
Confidence            456789999999999999999999999998888889999888888888887764  56665

>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=99.47  E-value=2.9e-13  Score=73.71  Aligned_cols=58  Identities=33%  Similarity=0.670  Sum_probs=49.3

Q ss_pred             CceeeEEEEECCCCChHHHHHHHHhcCcCcCCCccceeeEeEEEEEEECCeEEEEEEEeC
Q 035301            9 YDYLFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQVTNFSSFTSLHFY   68 (68)
Q Consensus         9 ~~~~~ki~~iG~~~vGKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~~w   68 (68)
                      .+..+||+++|+.++|||||++++.+..+...+.++++.++....+.+++...  .+.+|
T Consensus         5 ~~~~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~--~~~l~   62 (207)
T 1vg8_A            5 KKVLLKVIILGDSGVGKTSLMNQYVNKKFSNQYKATIGADFLTKEVMVDDRLV--TMQIW   62 (207)
T ss_dssp             --CEEEEEEECCTTSSHHHHHHHHHHSCCCSSCCCCCSEEEEEEEEESSSCEE--EEEEE
T ss_pred             cCcceEEEEECcCCCCHHHHHHHHHcCCCCCCCCCcccceEEEEEEEECCEEE--EEEEE
Confidence            45679999999999999999999999999888999999999888888888764  55655

>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=99.46  E-value=2.2e-13  Score=74.93  Aligned_cols=57  Identities=25%  Similarity=0.407  Sum_probs=47.4

Q ss_pred             CceeeEEEEECCCCChHHHHHHHHhcCcCcCCCccceeeEeEEEEEEECCeEEEEEEEeC
Q 035301            9 YDYLFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQVTNFSSFTSLHFY   68 (68)
Q Consensus         9 ~~~~~ki~~iG~~~vGKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~~w   68 (68)
                      .+..+||+++|+.+||||||++++.+..+...+.+|++.++ .+.+.+++..+  .+++|
T Consensus        25 ~~~~~ki~vvG~~~vGKSsLi~~l~~~~~~~~~~~t~~~~~-~~~~~~~~~~~--~l~i~   81 (205)
T 1gwn_A           25 QNVKCKIVVVGDSQCGKTALLHVFAKDCFPENYVPTVFENY-TASFEIDTQRI--ELSLW   81 (205)
T ss_dssp             --CEEEEEEEESTTSSHHHHHHHHHHSCCCSSCCCCSEEEE-EEEEESSSSEE--EEEEE
T ss_pred             cceeeEEEEECCCCCCHHHHHHHHhcCCCCCCcCCccceeE-EEEEEECCEEE--EEEEE
Confidence            45679999999999999999999999999888899998887 56777777764  56666

>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=99.46  E-value=2.8e-13  Score=72.93  Aligned_cols=57  Identities=25%  Similarity=0.407  Sum_probs=47.2

Q ss_pred             CceeeEEEEECCCCChHHHHHHHHhcCcCcCCCccceeeEeEEEEEEECCeEEEEEEEeC
Q 035301            9 YDYLFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQVTNFSSFTSLHFY   68 (68)
Q Consensus         9 ~~~~~ki~~iG~~~vGKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~~w   68 (68)
                      ....+||+++|+++||||||++++.+..+...+.+|++.++ .+.+.+++..+  .+++|
T Consensus         4 ~~~~~ki~v~G~~~vGKSsli~~l~~~~~~~~~~~t~~~~~-~~~~~~~~~~~--~~~i~   60 (184)
T 1m7b_A            4 QNVKCKIVVVGDSQCGKTALLHVFAKDCFPENYVPTVFENY-TASFEIDTQRI--ELSLW   60 (184)
T ss_dssp             --CEEEEEEEESTTSSHHHHHHHHHHSCCCSSCCCCSEEEE-EEEEECSSCEE--EEEEE
T ss_pred             CceEEEEEEECCCCCCHHHHHHHHhcCCCCCCCCCccceeE-EEEEEECCEEE--EEEEE
Confidence            45679999999999999999999999999888899998877 56777777764  56665

>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=99.46  E-value=2.6e-13  Score=74.77  Aligned_cols=56  Identities=34%  Similarity=0.457  Sum_probs=40.8

Q ss_pred             ceeeEEEEECCCCChHHHHHHHHhcCcCcCCCccceeeEeEEEEEEECCeEEEEEEEeC
Q 035301           10 DYLFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQVTNFSSFTSLHFY   68 (68)
Q Consensus        10 ~~~~ki~~iG~~~vGKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~~w   68 (68)
                      ...+||+++|+.+||||||++++.++.+...+.+|++..+ ...+.+++..+  .+++|
T Consensus        32 ~~~~ki~vvG~~~vGKSsli~~l~~~~~~~~~~~t~~~~~-~~~~~~~~~~~--~l~l~   87 (214)
T 2j1l_A           32 VRSVKVVLVGDGGCGKTSLLMVFADGAFPESYTPTVFERY-MVNLQVKGKPV--HLHIW   87 (214)
T ss_dssp             CCEEEEEEEECTTSSHHHHHHHHHC-------CCCCCEEE-EEEEEETTEEE--EEEEE
T ss_pred             cceEEEEEECcCCCCHHHHHHHHHcCCCCCCCCCccceeE-EEEEEECCEEE--EEEEE
Confidence            4579999999999999999999999999888889988766 56778888775  55665

>2hxs_A RAB-26, RAS-related protein RAB-28; GTPase, signaling protein; HET: G3D; 1.10A {Homo sapiens} PDB: 2hy4_A* 3e5h_A*

Probab=99.46  E-value=8.3e-14  Score=74.19  Aligned_cols=58  Identities=28%  Similarity=0.537  Sum_probs=48.9

Q ss_pred             CceeeEEEEECCCCChHHHHHHHHhcCcCcCCCccceeeEeEEEEEEECC-eEEEEEEEeC
Q 035301            9 YDYLFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQVTN-FSSFTSLHFY   68 (68)
Q Consensus         9 ~~~~~ki~~iG~~~vGKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~-~~~~~~l~~w   68 (68)
                      ....+||+++|+++||||||++++.+..+...+.+|++.++..+.+.+++ ...  .+++|
T Consensus         3 ~~~~~ki~v~G~~~~GKssl~~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~--~~~~~   61 (178)
T 2hxs_A            3 HMRQLKIVVLGDGASGKTSLTTCFAQETFGKQYKQTIGLDFFLRRITLPGNLNV--TLQIW   61 (178)
T ss_dssp             CCCEEEEEEECCTTSSHHHHHHHHHGGGTTHHHHHTTTSSEEEEEEEETTTEEE--EEEEE
T ss_pred             CCceEEEEEECcCCCCHHHHHHHHHhCcCCCCCCCceeEEEEEEEEEeCCCCEE--EEEEE
Confidence            34579999999999999999999999998877889999888888888887 343  56666

>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=99.46  E-value=7.1e-13  Score=70.66  Aligned_cols=60  Identities=42%  Similarity=0.711  Sum_probs=49.8

Q ss_pred             cCCceeeEEEEECCCCChHHHHHHHHhcCcCc-CCCccceeeEeEEEEEEECCeEEEEEEEeC
Q 035301            7 EEYDYLFKVVLIGDSGVGKSNLLSRFTRNEFC-LESKSTIGVEFATRTLQVTNFSSFTSLHFY   68 (68)
Q Consensus         7 ~~~~~~~ki~~iG~~~vGKtsl~~~~~~~~~~-~~~~~t~~~~~~~~~~~~~~~~~~~~l~~w   68 (68)
                      ..++..+||+++|+.++|||||++++.+..+. ..+.++++.++....+.+++...  .+++|
T Consensus         5 ~~~~~~~~i~v~G~~~~GKssli~~l~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~--~~~~~   65 (180)
T 2g6b_A            5 DFYDVAFKVMLVGDSGVGKTCLLVRFKDGAFLAGTFISTVGIDFRNKVLDVDGVKV--KLQMW   65 (180)
T ss_dssp             CCCSEEEEEEEECSTTSSHHHHHHHHHHSCCCCCCCCCCCSCEEEEEEEEETTEEE--EEEEE
T ss_pred             ccCCcceEEEEECcCCCCHHHHHHHHHhCCCCCCCcCCceeeEEEEEEEEECCEEE--EEEEE
Confidence            34567899999999999999999999998885 56778999998777778888765  55655

>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=99.45  E-value=7.1e-13  Score=70.54  Aligned_cols=57  Identities=26%  Similarity=0.419  Sum_probs=48.5

Q ss_pred             CceeeEEEEECCCCChHHHHHHHHhcCcCcCCCccceeeEeEEEEEEECCeEEEEEEEeC
Q 035301            9 YDYLFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQVTNFSSFTSLHFY   68 (68)
Q Consensus         9 ~~~~~ki~~iG~~~vGKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~~w   68 (68)
                      +...+||+++|+.++|||||++++.+..+...+.+|++..+. +.+.+++...  .+++|
T Consensus         6 ~~~~~~i~v~G~~~~GKssli~~l~~~~~~~~~~~t~~~~~~-~~~~~~~~~~--~~~~~   62 (181)
T 2fn4_A            6 PSETHKLVVVGGGGVGKSALTIQFIQSYFVSDYDPTIEDSYT-KICSVDGIPA--RLDIL   62 (181)
T ss_dssp             SSCEEEEEEEECTTSSHHHHHHHHHHSSCCSSCCTTCCEEEE-EEEEETTEEE--EEEEE
T ss_pred             CCCceEEEEECCCCCCHHHHHHHHHhCcCccccCCCcCceEE-EEEEECCEEE--EEEEE
Confidence            455799999999999999999999999998889999998874 7788888764  55665

>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=99.45  E-value=4.2e-13  Score=73.31  Aligned_cols=58  Identities=41%  Similarity=0.753  Sum_probs=48.8

Q ss_pred             CceeeEEEEECCCCChHHHHHHHHhcCcCcCCCccceeeEeEEEEEEECCeEEEEEEEeC
Q 035301            9 YDYLFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQVTNFSSFTSLHFY   68 (68)
Q Consensus         9 ~~~~~ki~~iG~~~vGKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~~w   68 (68)
                      .+..+||+++|+.+||||||++++.+..+...+.++++.++....+.+++...  .+.+|
T Consensus        17 ~~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~l~   74 (213)
T 3cph_A           17 YDSIMKILLIGDSGVGKSCLLVRFVEDKFNPSFITTIGIDFKIKTVDINGKKV--KLQLW   74 (213)
T ss_dssp             ---CEEEEEECSTTSSHHHHHHHHHHCCCCCSSSCCCSCCEEEEEEEETTEEE--EEEEE
T ss_pred             CCcceEEEEECCCCCCHHHHHHHHHhCCCCcccCCcccceEEEEEEEECCEEE--EEEEE
Confidence            45679999999999999999999999999888889999999888888888765  56665

>3clv_A RAB5 protein, putative; malaria, GTPase, structural genomics, GTP-binding, nucleotide-binding, signaling protein; HET: GDP; 1.89A {Plasmodium falciparum}

Probab=99.45  E-value=3.4e-13  Score=72.75  Aligned_cols=52  Identities=33%  Similarity=0.614  Sum_probs=44.9

Q ss_pred             CceeeEEEEECCCCChHHHHHHHHhcCcCcCCCccceeeEeEEEEEEECCeE
Q 035301            9 YDYLFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQVTNFS   60 (68)
Q Consensus         9 ~~~~~ki~~iG~~~vGKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~   60 (68)
                      .+..+||+++|+.++|||||++++++..+...+.+|++.++..+.+.+++..
T Consensus         4 ~~~~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~   55 (208)
T 3clv_A            4 KKSSYKTVLLGESSVGKSSIVLRLTKDTFHENTNTTIGASFCTYVVNLNDIN   55 (208)
T ss_dssp             CCSSEEEEEECCTTSSHHHHHHHHHHSCCCSSCCCCCSCEEEEEEEETTC--
T ss_pred             CCcceEEEEECCCCCCHHHHHHHHHhCcCCCCcCccccceeEEEEEEecCcc
Confidence            3457999999999999999999999999988899999999888888877644

>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=99.45  E-value=3.5e-13  Score=74.84  Aligned_cols=58  Identities=31%  Similarity=0.459  Sum_probs=42.0

Q ss_pred             CCceeeEEEEECCCCChHHHHHHHHhcCc--CcCCCccceeeEeEEEEEEECCeEEEEEEEeC
Q 035301            8 EYDYLFKVVLIGDSGVGKSNLLSRFTRNE--FCLESKSTIGVEFATRTLQVTNFSSFTSLHFY   68 (68)
Q Consensus         8 ~~~~~~ki~~iG~~~vGKtsl~~~~~~~~--~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~~w   68 (68)
                      .....+||+++|+++||||||++++++..  +...+ ++++.++..+.+.+++..+  .+.+|
T Consensus        33 ~~~~~~kVvlvG~~~vGKSSLl~r~~~~~~~~~~~~-~~~g~d~~~~~i~~~~~~~--~l~~~   92 (211)
T 2g3y_A           33 SGNTYYRVVLIGEQGVGKSTLANIFAGVHDSMDSDC-EVLGEDTYERTLMVDGESA--TIILL   92 (211)
T ss_dssp             --CCEEEEEEECCTTSSHHHHHHHHHCCCCTTCCC----CCTTEEEEEEEETTEEE--EEEEE
T ss_pred             cCCCceEEEEECCCCCCHHHHHHHHHhCCCCCCCcC-CccceeeEEEEEEECCeee--EEEEe
Confidence            44567999999999999999999999643  34433 4577788788889998875  44443

>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=99.44  E-value=7.5e-13  Score=70.78  Aligned_cols=56  Identities=27%  Similarity=0.373  Sum_probs=48.7

Q ss_pred             ceeeEEEEECCCCChHHHHHHHHhcCcCcCCCccceeeEeEEEEEEECCeEEEEEEEeC
Q 035301           10 DYLFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQVTNFSSFTSLHFY   68 (68)
Q Consensus        10 ~~~~ki~~iG~~~vGKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~~w   68 (68)
                      ...+||+++|+.+||||||++++.++.+...+.+|.+..+ .+.+.+++..+  .+++|
T Consensus         4 ~~~~ki~~~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~-~~~~~~~~~~~--~~~l~   59 (181)
T 3t5g_A            4 SKSRKIAILGYRSVGKSSLTIQFVEGQFVDSYDPTIENTF-TKLITVNGQEY--HLQLV   59 (181)
T ss_dssp             EEEEEEEEEESTTSSHHHHHHHHHHSSCCSCCCTTCCEEE-EEEEEETTEEE--EEEEE
T ss_pred             CceEEEEEECcCCCCHHHHHHHHHcCCCCCCCCCCccccE-EEEEEECCEEE--EEEEE
Confidence            4579999999999999999999999889999999999888 78888888775  55665

>2q3h_A RAS homolog gene family, member U; GTPase, structural genomics, structural genomics consortium,; HET: GDP; 1.73A {Homo sapiens}

Probab=99.43  E-value=5.6e-13  Score=72.43  Aligned_cols=58  Identities=28%  Similarity=0.343  Sum_probs=39.3

Q ss_pred             CCceeeEEEEECCCCChHHHHHHHHhcCcCcCCCccceeeEeEEEEEEECCeEEEEEEEeC
Q 035301            8 EYDYLFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQVTNFSSFTSLHFY   68 (68)
Q Consensus         8 ~~~~~~ki~~iG~~~vGKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~~w   68 (68)
                      .....+||+++|+.+||||||++++.+..+...+.+|++..+ ...+.+++..+  .+++|
T Consensus        16 ~~~~~~ki~~~G~~~~GKssl~~~l~~~~~~~~~~~t~~~~~-~~~~~~~~~~~--~~~i~   73 (201)
T 2q3h_A           16 AEGRGVKCVLVGDGAVGKTSLVVSYTTNGYPTEYIPTAFDNF-SAVVSVDGRPV--RLQLC   73 (201)
T ss_dssp             ----CEEEEEECSTTSSHHHHHHHHHC--------CCSSEEE-EEEEEETTEEE--EEEEE
T ss_pred             CCCcceEEEEECCCCCCHHHHHHHHHhCCCCCCCCCccccee-EEEEEECCEEE--EEEEE
Confidence            345689999999999999999999999989888889998776 56778888765  55665

>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=99.42  E-value=1.1e-12  Score=71.22  Aligned_cols=56  Identities=25%  Similarity=0.424  Sum_probs=47.1

Q ss_pred             ceeeEEEEECCCCChHHHHHHHHhcCcCcCCCccceeeEeEEEEEEECCeEEEEEEEeC
Q 035301           10 DYLFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQVTNFSSFTSLHFY   68 (68)
Q Consensus        10 ~~~~ki~~iG~~~vGKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~~w   68 (68)
                      ...+||+++|+.+||||||++++.+..+...+.+|++..+ .+.+.+++...  .+++|
T Consensus        26 ~~~~ki~v~G~~~vGKSsli~~l~~~~~~~~~~~t~~~~~-~~~~~~~~~~~--~~~l~   81 (196)
T 2atv_A           26 SAEVKLAIFGRAGVGKSALVVRFLTKRFIWEYDPTLESTY-RHQATIDDEVV--SMEIL   81 (196)
T ss_dssp             -CCEEEEEECCTTSSHHHHHHHHHHSCCCSCCCTTCCEEE-EEEEEETTEEE--EEEEE
T ss_pred             CCceEEEEECCCCCCHHHHHHHHHhCCCCcccCCCCCceE-EEEEEECCEEE--EEEEE
Confidence            4578999999999999999999999999888999998777 56778888775  56665

>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=99.42  E-value=3.7e-13  Score=71.71  Aligned_cols=58  Identities=31%  Similarity=0.697  Sum_probs=44.4

Q ss_pred             CceeeEEEEECCCCChHHHHHHHHhcCcCcCCCccceeeEeEEEEEEEC-CeEEEEEEEeC
Q 035301            9 YDYLFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQVT-NFSSFTSLHFY   68 (68)
Q Consensus         9 ~~~~~ki~~iG~~~vGKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~-~~~~~~~l~~w   68 (68)
                      ....+||+++|+.++|||||++++.+..+...+.++++.++....+.++ +...  .+.+|
T Consensus         5 ~~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~l~   63 (182)
T 1ky3_A            5 KKNILKVIILGDSGVGKTSLMHRYVNDKYSQQYKATIGADFLTKEVTVDGDKVA--TMQVW   63 (182)
T ss_dssp             --CEEEEEEECCTTSSHHHHHHHHHHSCCCTTC---CCCSCEEEEECCSSSCCE--EEEEE
T ss_pred             cCceEEEEEECCCCCCHHHHHHHHHhCcCCcccCCccceEEEEEEEEEcCCcEE--EEEEE
Confidence            4567999999999999999999999999988889999988887888777 3332  45555

>2j0v_A RAC-like GTP-binding protein ARAC7; nucleotide-binding protein, ROP9, atrac7, membrane, palmitate, RHO GTPase; HET: GDP; 1.78A {Arabidopsis thaliana}

Probab=99.41  E-value=8.6e-13  Score=72.28  Aligned_cols=56  Identities=27%  Similarity=0.407  Sum_probs=47.2

Q ss_pred             ceeeEEEEECCCCChHHHHHHHHhcCcCcCCCccceeeEeEEEEEEECCeEEEEEEEeC
Q 035301           10 DYLFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQVTNFSSFTSLHFY   68 (68)
Q Consensus        10 ~~~~ki~~iG~~~vGKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~~w   68 (68)
                      ...+||+++|+.+||||||++++.++.+...+.+|++..+ ...+.+++..+  .+++|
T Consensus         7 ~~~~ki~i~G~~~~GKTsli~~l~~~~~~~~~~~t~~~~~-~~~~~~~~~~~--~~~i~   62 (212)
T 2j0v_A            7 SKFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNF-SANVAVDGQIV--NLGLW   62 (212)
T ss_dssp             CCEEEEEEEESTTSSHHHHHHHHHHSCCCSSCCCSSCCCE-EEEEECSSCEE--EEEEE
T ss_pred             CceEEEEEECCCCCCHHHHHHHHhcCCCCccCCCccceeE-EEEEEECCEEE--EEEEE
Confidence            4579999999999999999999999999888899998766 56777787764  56666

>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=99.41  E-value=1.3e-12  Score=68.75  Aligned_cols=54  Identities=28%  Similarity=0.468  Sum_probs=45.5

Q ss_pred             eeEEEEECCCCChHHHHHHHHhcCcCcCCCccceeeEeEEEEEEECCeEEEEEEEeC
Q 035301           12 LFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQVTNFSSFTSLHFY   68 (68)
Q Consensus        12 ~~ki~~iG~~~vGKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~~w   68 (68)
                      .+||+++|+.+||||||++++.++.+...+.+|.+..+ .+.+.+++...  .+++|
T Consensus         3 ~~ki~v~G~~~~GKssli~~l~~~~~~~~~~~t~~~~~-~~~~~~~~~~~--~~~l~   56 (167)
T 1c1y_A            3 EYKLVVLGSGGVGKSALTVQFVQGIFVEKYDPTIEDSY-RKQVEVDCQQC--MLEIL   56 (167)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHCCCCCSCCCCSEEEE-EEEEESSSCEE--EEEEE
T ss_pred             eeEEEEECCCCCCHHHHHHHHHcCCCCCCCCCCccceE-EEEEEECCEEE--EEEEE
Confidence            58999999999999999999999999888889998777 46677777764  55655

>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=99.41  E-value=1.9e-12  Score=70.35  Aligned_cols=57  Identities=25%  Similarity=0.398  Sum_probs=47.6

Q ss_pred             CceeeEEEEECCCCChHHHHHHHHhcCcCcCCCccceeeEeEEEEEEECCeEEEEEEEeC
Q 035301            9 YDYLFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQVTNFSSFTSLHFY   68 (68)
Q Consensus         9 ~~~~~ki~~iG~~~vGKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~~w   68 (68)
                      ....+||+++|+.+||||||++++.+..+...+.+|.+..+ ...+.+++..+  .+.+|
T Consensus        11 ~~~~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~-~~~~~~~~~~~--~~~l~   67 (206)
T 2bov_A           11 SLALHKVIMVGSGGVGKSALTLQFMYDEFVEDYEPTKADSY-RKKVVLDGEEV--QIDIL   67 (206)
T ss_dssp             CCCEEEEEEECSTTSSHHHHHHHHHHSCCCTTCCTTCCEEE-EEEEEETTEEE--EEEEE
T ss_pred             CCceEEEEEECCCCCCHHHHHHHHHhCCCCCCCCCccceEE-EEEEEECCEEE--EEEEE
Confidence            34579999999999999999999999999888889998776 56778888764  55665

>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=99.41  E-value=9.3e-14  Score=74.86  Aligned_cols=65  Identities=22%  Similarity=0.318  Sum_probs=45.5

Q ss_pred             CCCCCCcCCceeeEEEEECCCCChHHHHHHHHhcCcCcCC-----------CccceeeEeEEEEE-EECCeEEEEEEEeC
Q 035301            1 MARRADEEYDYLFKVVLIGDSGVGKSNLLSRFTRNEFCLE-----------SKSTIGVEFATRTL-QVTNFSSFTSLHFY   68 (68)
Q Consensus         1 m~~~~~~~~~~~~ki~~iG~~~vGKtsl~~~~~~~~~~~~-----------~~~t~~~~~~~~~~-~~~~~~~~~~l~~w   68 (68)
                      |+.......+..+||+++|+++||||||++.+ .+.+...           +.+|++.++..+.+ .+++..+  .+++|
T Consensus         3 m~~~~~~~~~~~~ki~vvG~~~~GKssL~~~l-~~~~~~~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~--~~~i~   79 (198)
T 3t1o_A            3 MSTINFANREINFKIVYYGPGLSGKTTNLKWI-YSKVPEGRKGEMVSLATEDERTLFFDFLPLDIGEVKGFKT--RFHLY   79 (198)
T ss_dssp             -CEEETTTTEEEEEEEEECSTTSSHHHHHHHH-HHTSCGGGBCCCEEEECSSCEEEEEEECCSSCCCSSSCEE--EEEEE
T ss_pred             ccccchhccccccEEEEECCCCCCHHHHHHHH-HhhccccccccccccccccccceeeeecccccccccCCce--EEEEE
Confidence            44445556778999999999999999999544 4455544           34688888766655 5666664  56665

>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=99.40  E-value=2.4e-12  Score=68.78  Aligned_cols=57  Identities=25%  Similarity=0.398  Sum_probs=46.4

Q ss_pred             CceeeEEEEECCCCChHHHHHHHHhcCcCcCCCccceeeEeEEEEEEECCeEEEEEEEeC
Q 035301            9 YDYLFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQVTNFSSFTSLHFY   68 (68)
Q Consensus         9 ~~~~~ki~~iG~~~vGKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~~w   68 (68)
                      ....+||+++|+.++|||||++++.+..+...+.++.+..+ ...+.+++..+  .+.+|
T Consensus        15 ~~~~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~-~~~~~~~~~~~--~~~l~   71 (187)
T 2a9k_A           15 SLALHKVIMVGSGGVGKSALTLQFMYDEFVEDYEPTKADSY-RKKVVLDGEEV--QIDIL   71 (187)
T ss_dssp             --CEEEEEEECSTTSSHHHHHHHHHHSCCCCSCCTTCCEEE-EEEEEETTEEE--EEEEE
T ss_pred             CCCceEEEEECCCCCCHHHHHHHHhhCCCCCcCCCccceEE-EEEEEECCEEE--EEEEE
Confidence            34579999999999999999999999999888889988777 56677888764  55555

>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=99.39  E-value=1.4e-12  Score=69.18  Aligned_cols=55  Identities=35%  Similarity=0.484  Sum_probs=41.4

Q ss_pred             eeeEEEEECCCCChHHHHHHHHhcCcCcCCCccceeeEeEEEEEEECCeEEEEEEEeC
Q 035301           11 YLFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQVTNFSSFTSLHFY   68 (68)
Q Consensus        11 ~~~ki~~iG~~~vGKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~~w   68 (68)
                      ..+||+++|+++||||||++++.+..+...+ ++.+.++..+.+.+++...  .+++|
T Consensus         3 ~~~ki~i~G~~~vGKSsl~~~l~~~~~~~~~-~~~~~~~~~~~~~~~~~~~--~~~~~   57 (175)
T 2nzj_A            3 ALYRVVLLGDPGVGKTSLASLFAGKQERDLH-EQLGEDVYERTLTVDGEDT--TLVVV   57 (175)
T ss_dssp             CEEEEEEECCTTSSHHHHHHHHHCC-----C-CCSSSSEEEEEEEETTEEE--EEEEE
T ss_pred             eEEEEEEECCCCccHHHHHHHHhcCCCcccc-CccccceeEEEEEECCEEE--EEEEE
Confidence            4689999999999999999999998876544 5677777778888888764  55555

>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=99.39  E-value=3.3e-12  Score=68.27  Aligned_cols=55  Identities=29%  Similarity=0.405  Sum_probs=46.6

Q ss_pred             eeeEEEEECCCCChHHHHHHHHhcCcCcCCCccceeeEeEEEEEEECCeEEEEEEEeC
Q 035301           11 YLFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQVTNFSSFTSLHFY   68 (68)
Q Consensus        11 ~~~ki~~iG~~~vGKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~~w   68 (68)
                      ..+||+++|++++|||||++++.++.+...+.+|++..+ ...+.+++..+  .+++|
T Consensus         4 ~~~~i~~~G~~~~GKssl~~~l~~~~~~~~~~~t~~~~~-~~~~~~~~~~~--~~~i~   58 (186)
T 1mh1_A            4 QAIKCVVVGDGAVGKTCLLISYTTNAFPGEYIPTVFDNY-SANVMVDGKPV--NLGLW   58 (186)
T ss_dssp             EEEEEEEECSTTSSHHHHHHHHHHSSCCSSCCCCSCCEE-EEEEEETTEEE--EEEEE
T ss_pred             cEEEEEEECCCCCCHHHHHHHHHcCCCCCCcCCccccee-EEEEEECCEEE--EEEEE
Confidence            468999999999999999999999999888889988766 56777888775  56665

>2yc2_C IFT27, small RAB-related GTPase; transport protein, cilium, IFT complex; 2.59A {Chlamydomonas reinhardtii} PDB: 2yc4_C

Probab=99.39  E-value=1.8e-13  Score=74.37  Aligned_cols=57  Identities=32%  Similarity=0.470  Sum_probs=19.4

Q ss_pred             ceeeEEEEECCCCChHHHHHHHHhcC--cCcCCCccceeeEeEEEEEEECCe--EEEEEEEeC
Q 035301           10 DYLFKVVLIGDSGVGKSNLLSRFTRN--EFCLESKSTIGVEFATRTLQVTNF--SSFTSLHFY   68 (68)
Q Consensus        10 ~~~~ki~~iG~~~vGKtsl~~~~~~~--~~~~~~~~t~~~~~~~~~~~~~~~--~~~~~l~~w   68 (68)
                      ...+||+++|+.+||||||++++.+.  .+...+.+|++.++..+.+.+++.  ..  .+++|
T Consensus        18 ~~~~~i~v~G~~~~GKssli~~l~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~--~~~l~   78 (208)
T 2yc2_C           18 TLRCKVAVVGEATVGKSALISMFTSKGSKFLKDYAMTSGVEVVVAPVTIPDTTVSV--ELFLL   78 (208)
T ss_dssp             EEEEEEEEC----------------------------------CEEEECTTSSEEE--EEEEE
T ss_pred             ccceEEEEECCCCCCHHHHHHHHHhCCCcccCCCCCccceEEEEEEEEECCcccEE--EEEEE
Confidence            45789999999999999999999998  888888899998888888998886  43  56666

>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=99.38  E-value=5e-13  Score=72.10  Aligned_cols=45  Identities=22%  Similarity=0.504  Sum_probs=29.7

Q ss_pred             eeEEEEECCCCChHHHHHHHHhcC--cCcCCCccceeeEeEEEEEEE
Q 035301           12 LFKVVLIGDSGVGKSNLLSRFTRN--EFCLESKSTIGVEFATRTLQV   56 (68)
Q Consensus        12 ~~ki~~iG~~~vGKtsl~~~~~~~--~~~~~~~~t~~~~~~~~~~~~   56 (68)
                      .+|++++|++|||||||++++++.  .+...+.+|+|.++....+.+
T Consensus         2 ~~kv~ivG~~gvGKStLl~~l~~~~~~~~~~~~~t~g~~~~~~~~~~   48 (184)
T 2zej_A            2 RMKLMIVGNTGSGKTTLLQQLMKTKKSDLGMQSATVGIDVKDWPIQI   48 (184)
T ss_dssp             -CEEEEESCTTSSHHHHHHHHTCC-----------CSEEEEEEEC--
T ss_pred             ceEEEEECCCCCCHHHHHHHHhcCCCccCCCcceeccEEeEEeeecc
Confidence            479999999999999999999984  566678899999887666554

>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=99.38  E-value=2.9e-12  Score=69.29  Aligned_cols=56  Identities=27%  Similarity=0.433  Sum_probs=46.0

Q ss_pred             ceeeEEEEECCCCChHHHHHHHHhcCcCcCCCccceeeEeEEEEEEECCeEEEEEEEeC
Q 035301           10 DYLFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQVTNFSSFTSLHFY   68 (68)
Q Consensus        10 ~~~~ki~~iG~~~vGKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~~w   68 (68)
                      ...+||+++|+.+||||||++++.++.+...+.++++..+ ...+..++...  .+.+|
T Consensus         6 ~~~~ki~vvG~~~~GKSsli~~l~~~~~~~~~~~t~~~~~-~~~~~~~~~~~--~~~l~   61 (199)
T 2gf0_A            6 SNDYRVVVFGAGGVGKSSLVLRFVKGTFRDTYIPTIEDTY-RQVISCDKSVC--TLQIT   61 (199)
T ss_dssp             CCCEEEEEEECTTSSHHHHHHHHHHSCCCCTTSCCCCEEE-EEEEEETTEEE--EEEEE
T ss_pred             CCeeEEEEECCCCCcHHHHHHHHHcCCCCCcccCccccce-eEEEEECCEEE--EEEEE
Confidence            4568999999999999999999999998888889988766 45667777764  55665

>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=99.38  E-value=3.9e-12  Score=66.73  Aligned_cols=54  Identities=31%  Similarity=0.489  Sum_probs=45.5

Q ss_pred             eeEEEEECCCCChHHHHHHHHhcCcCcCCCccceeeEeEEEEEEECCeEEEEEEEeC
Q 035301           12 LFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQVTNFSSFTSLHFY   68 (68)
Q Consensus        12 ~~ki~~iG~~~vGKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~~w   68 (68)
                      .+||+++|+.++|||||++++.++.+...+.++.+..+ .+.+.+++...  .+.+|
T Consensus         3 ~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~-~~~~~~~~~~~--~~~l~   56 (167)
T 1kao_A            3 EYKVVVLGSGGVGKSALTVQFVTGTFIEKYDPTIEDFY-RKEIEVDSSPS--VLEIL   56 (167)
T ss_dssp             EEEEEEECCTTSSHHHHHHHHHHSCCCSCCCTTCCEEE-EEEEEETTEEE--EEEEE
T ss_pred             EEEEEEECCCCCCHHHHHHHHHcCCCcccCCCCcceeE-EEEEEECCEEE--EEEEE
Confidence            58999999999999999999999999888888888655 67788888775  45555

>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=99.38  E-value=2e-12  Score=68.27  Aligned_cols=55  Identities=31%  Similarity=0.394  Sum_probs=37.1

Q ss_pred             eeEEEEECCCCChHHHHHHHHhcCcCcCCCccceeeEeEEEEEEECCeEEEEEEEeC
Q 035301           12 LFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQVTNFSSFTSLHFY   68 (68)
Q Consensus        12 ~~ki~~iG~~~vGKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~~w   68 (68)
                      .+||+++|+++||||||++++.+..+...+.++.+.++..+.+.+++...  .+.+|
T Consensus         2 ~~ki~ivG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~i~   56 (169)
T 3q85_A            2 VFKVMLVGESGVGKSTLAGTFGGLQGDHAHEMENSEDTYERRIMVDKEEV--TLIVY   56 (169)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHCC------------CEEEEEEEETTEEE--EEEEE
T ss_pred             cEEEEEECCCCCCHHHHHHHHHhccCcccccCCCcCCeeeEEEEECCeEE--EEEEE
Confidence            58999999999999999999998877766667777778788888888875  55555

>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=99.38  E-value=3.8e-12  Score=66.81  Aligned_cols=54  Identities=26%  Similarity=0.469  Sum_probs=45.4

Q ss_pred             eeEEEEECCCCChHHHHHHHHhcCcCcCCCccceeeEeEEEEEEECCeEEEEEEEeC
Q 035301           12 LFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQVTNFSSFTSLHFY   68 (68)
Q Consensus        12 ~~ki~~iG~~~vGKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~~w   68 (68)
                      .+||+++|+.++|||||++++.+..+...+.++.+..+ ...+.+++...  .+.+|
T Consensus         4 ~~~i~v~G~~~~GKssl~~~l~~~~~~~~~~~t~~~~~-~~~~~~~~~~~--~~~l~   57 (168)
T 1u8z_A            4 LHKVIMVGSGGVGKSALTLQFMYDEFVEDYEPTKADSY-RKKVVLDGEEV--QIDIL   57 (168)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHSCCCSCCCTTCCEEE-EEEEEETTEEE--EEEEE
T ss_pred             eEEEEEECCCCCCHHHHHHHHHhCccCCCCCCCcceEE-EEEEEECCEEE--EEEEE
Confidence            58999999999999999999999998888889988777 46677888764  45555

>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=99.38  E-value=2.3e-12  Score=70.26  Aligned_cols=56  Identities=23%  Similarity=0.368  Sum_probs=47.3

Q ss_pred             ceeeEEEEECCCCChHHHHHHHHhcCcCcCCCccceeeEeEEEEEEECCeEEEEEEEeC
Q 035301           10 DYLFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQVTNFSSFTSLHFY   68 (68)
Q Consensus        10 ~~~~ki~~iG~~~vGKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~~w   68 (68)
                      ...+||+++|+.+||||||++++.+..+...+.++++.++. ..+.+++...  .+++|
T Consensus        23 ~~~~ki~vvG~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~-~~~~~~~~~~--~l~i~   78 (201)
T 2gco_A           23 AIRKKLVIVGDGACGKTCLLIVFSKDQFPEVYVPTVFENYI-ADIEVDGKQV--ELALW   78 (201)
T ss_dssp             CEEEEEEEEESTTSSHHHHHHHHHHSSCCSSCCCSSCCCCE-EEEEETTEEE--EEEEE
T ss_pred             ccceEEEEECCCCCCHHHHHHHHHhCcCCcccCCcccceEE-EEEEECCEEE--EEEEE
Confidence            45789999999999999999999999998888999988874 5577888764  56665

>3oes_A GTPase rhebl1; small GTPase, structural genomics, structural genomics conso SGC, hydrolase; HET: GNP; 2.30A {Homo sapiens}

Probab=99.37  E-value=1.4e-12  Score=71.05  Aligned_cols=56  Identities=25%  Similarity=0.364  Sum_probs=43.7

Q ss_pred             ceeeEEEEECCCCChHHHHHHHHhcCcCcCCCccceeeEeEEEEEEECCeEEEEEEEeC
Q 035301           10 DYLFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQVTNFSSFTSLHFY   68 (68)
Q Consensus        10 ~~~~ki~~iG~~~vGKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~~w   68 (68)
                      ...+||+++|+.+||||||++++.+..+...+.+|.+..+ ...+.+++..+  .+++|
T Consensus        22 ~~~~ki~vvG~~~~GKSsli~~l~~~~~~~~~~~t~~~~~-~~~~~~~~~~~--~~~l~   77 (201)
T 3oes_A           22 VRYRKVVILGYRCVGKTSLAHQFVEGEFSEGYDPTVENTY-SKIVTLGKDEF--HLHLV   77 (201)
T ss_dssp             -CEEEEEEEESTTSSHHHHHHHHHHSCCCSCCCCCSEEEE-EEEEC----CE--EEEEE
T ss_pred             CCcEEEEEECCCCcCHHHHHHHHHhCCCCCCCCCccceEE-EEEEEECCEEE--EEEEE
Confidence            4579999999999999999999999999988999999877 66666666654  45555

>2erx_A GTP-binding protein DI-RAS2; GTP hydrolysis, transport protein; HET: GDP; 1.65A {Homo sapiens} SCOP: c.37.1.8

Probab=99.37  E-value=5.1e-12  Score=66.62  Aligned_cols=54  Identities=24%  Similarity=0.433  Sum_probs=44.5

Q ss_pred             eeEEEEECCCCChHHHHHHHHhcCcCcCCCccceeeEeEEEEEEECCeEEEEEEEeC
Q 035301           12 LFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQVTNFSSFTSLHFY   68 (68)
Q Consensus        12 ~~ki~~iG~~~vGKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~~w   68 (68)
                      .+||+++|+.++|||||++++.++.+...+.++++..+ ...+..++...  .+.+|
T Consensus         3 ~~~i~v~G~~~~GKssli~~l~~~~~~~~~~~t~~~~~-~~~~~~~~~~~--~~~~~   56 (172)
T 2erx_A            3 DYRVAVFGAGGVGKSSLVLRFVKGTFRESYIPTVEDTY-RQVISCDKSIC--TLQIT   56 (172)
T ss_dssp             EEEEEEECCTTSSHHHHHHHHHTCCCCSSCCCCSCEEE-EEEEEETTEEE--EEEEE
T ss_pred             ceEEEEECCCCCCHHHHHHHHHcCCCCCCCCCCccccE-EEEEEECCEEE--EEEEE
Confidence            58999999999999999999999998888888888776 45666777664  45555

>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=99.36  E-value=6.7e-12  Score=67.18  Aligned_cols=56  Identities=27%  Similarity=0.437  Sum_probs=46.0

Q ss_pred             ceeeEEEEECCCCChHHHHHHHHhcCcCcCCCccceeeEeEEEEEEECCeEEEEEEEeC
Q 035301           10 DYLFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQVTNFSSFTSLHFY   68 (68)
Q Consensus        10 ~~~~ki~~iG~~~vGKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~~w   68 (68)
                      +..+||+++|+.+||||||++++.+..+...+.++.+..+ ...+.+++...  .+++|
T Consensus         2 ~~~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~-~~~~~~~~~~~--~~~i~   57 (189)
T 4dsu_A            2 STEYKLVVVGADGVGKSALTIQLIQNHFVDEYDPTIEDSY-RKQVVIDGETC--LLDIL   57 (189)
T ss_dssp             CEEEEEEEECCTTSSHHHHHHHHHHSSCCCCCCTTCCEEE-EEEEEETTEEE--EEEEE
T ss_pred             CcEEEEEEECCCCCCHHHHHHHHHhCCCCCCCCCCchheE-EEEEEECCcEE--EEEEE
Confidence            3578999999999999999999999998888888886555 57777888775  45555

>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=99.36  E-value=2.4e-12  Score=70.04  Aligned_cols=51  Identities=35%  Similarity=0.488  Sum_probs=38.7

Q ss_pred             ceeeEEEEECCCCChHHHHHHHHhcC--cCcCCCccceeeEeEEEEEEECCeEE
Q 035301           10 DYLFKVVLIGDSGVGKSNLLSRFTRN--EFCLESKSTIGVEFATRTLQVTNFSS   61 (68)
Q Consensus        10 ~~~~ki~~iG~~~vGKtsl~~~~~~~--~~~~~~~~t~~~~~~~~~~~~~~~~~   61 (68)
                      ...+||+++|+++||||||++++++.  .+...+ ++++.++..+.+.+++..+
T Consensus         4 ~~~~kv~lvG~~~vGKSsL~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~   56 (192)
T 2cjw_A            4 MTYYRVVLIGEQGVGKSTLANIFAGVHDSMDSDX-EVLGEDTYERTLMVDGESA   56 (192)
T ss_dssp             CCEEEEEEECSTTSSHHHHHHHHHHHSCCC-----GGGCTTEEEEEEEETTEEE
T ss_pred             CceEEEEEECCCCCCHHHHHHHHhcCcCCcCccc-cccceeEEEEEEEECCeEE
Confidence            34689999999999999999999963  344444 4577777788889998875

>3l0i_B RAS-related protein RAB-1A; GEF-GDF-RAB complex, GTP-binding, guanine-nucleotide exchang GDI-displacement factor; 2.85A {Homo sapiens}

Probab=99.36  E-value=1.4e-13  Score=75.02  Aligned_cols=59  Identities=51%  Similarity=0.844  Sum_probs=51.2

Q ss_pred             CCceeeEEEEECCCCChHHHHHHHHhcCcCcCCCccceeeEeEEEEEEECCeEEEEEEEeC
Q 035301            8 EYDYLFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQVTNFSSFTSLHFY   68 (68)
Q Consensus         8 ~~~~~~ki~~iG~~~vGKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~~w   68 (68)
                      ..+..+||+++|+.+||||||++++.+..+...+.++++.++....+.+++..+  .+.+|
T Consensus        29 ~~~~~~ki~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~i~   87 (199)
T 3l0i_B           29 EYDYLFKLLLIGDSGVGKSCLLLRFADDTYTESYISTIGVDFKIRTIELDGKTI--KLQIW   87 (199)
T ss_dssp             CCSEEEEEEEECCTTSCCTTTTTSSBCCCCCCHHHHHHCCSEEEEEEEETTEEE--EEEEE
T ss_pred             ccCcceEEEEECCCCCCHHHHHHHHhcCCCCCCcCCcccceEEEEEEEECCEEE--EEEEE
Confidence            346789999999999999999999999999888889999888888899988775  55665

>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=99.35  E-value=8.3e-12  Score=67.20  Aligned_cols=55  Identities=27%  Similarity=0.441  Sum_probs=45.4

Q ss_pred             eeeEEEEECCCCChHHHHHHHHhcCcCcCCCccceeeEeEEEEEEECCeEEEEEEEeC
Q 035301           11 YLFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQVTNFSSFTSLHFY   68 (68)
Q Consensus        11 ~~~ki~~iG~~~vGKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~~w   68 (68)
                      ..+||+++|+.|||||||++++.+..+...+.++.+..+ .+.+.+++...  .+.+|
T Consensus        20 ~~~ki~vvG~~~~GKSsli~~l~~~~~~~~~~~t~~~~~-~~~~~~~~~~~--~~~l~   74 (190)
T 3con_A           20 TEYKLVVVGAGGVGKSALTIQLIQNHFVDEYDPTIEDSY-RKQVVIDGETC--LLDIL   74 (190)
T ss_dssp             EEEEEEEECSTTSSHHHHHHHHHHSSCCSCCCTTCCEEE-EEEEEETTEEE--EEEEE
T ss_pred             ceeEEEEECcCCCCHHHHHHHHHcCCCccccCCccceEE-EEEEEECCEEE--EEEEE
Confidence            468999999999999999999999988888888887666 56777787764  45555

>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=99.34  E-value=5.2e-12  Score=69.13  Aligned_cols=55  Identities=25%  Similarity=0.387  Sum_probs=39.8

Q ss_pred             eeeEEEEECCCCChHHHHHHHHhcCcCcCCCccceeeEeEEEEEEECCeEEEEEEEeC
Q 035301           11 YLFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQVTNFSSFTSLHFY   68 (68)
Q Consensus        11 ~~~ki~~iG~~~vGKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~~w   68 (68)
                      ..+||+++|+.+||||||++++.+..+...+.++++.++. ..+.+++...  .+.+|
T Consensus        24 ~~~ki~vvG~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~-~~~~~~~~~~--~~~i~   78 (207)
T 2fv8_A           24 IRKKLVVVGDGACGKTCLLIVFSKDEFPEVYVPTVFENYV-ADIEVDGKQV--ELALW   78 (207)
T ss_dssp             EEEEEEEEECTTSSHHHHHHHHHHSSCC-------CCEEE-EEEEETTEEE--EEEEE
T ss_pred             cCcEEEEECcCCCCHHHHHHHHhcCCCCCcCCCcccceEE-EEEEECCEEE--EEEEE
Confidence            4689999999999999999999999998888899988774 4577788764  55665

>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=99.33  E-value=9.4e-12  Score=65.09  Aligned_cols=54  Identities=28%  Similarity=0.473  Sum_probs=44.7

Q ss_pred             eeEEEEECCCCChHHHHHHHHhcCcCcCCCccceeeEeEEEEEEECCeEEEEEEEeC
Q 035301           12 LFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQVTNFSSFTSLHFY   68 (68)
Q Consensus        12 ~~ki~~iG~~~vGKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~~w   68 (68)
                      .+|++++|+.|+|||||++++.+..+...+.++.+..+ .+.+.+++...  .+.+|
T Consensus         3 ~~~i~v~G~~~~GKssl~~~l~~~~~~~~~~~~~~~~~-~~~~~~~~~~~--~~~~~   56 (166)
T 2ce2_X            3 EYKLVVVGAGGVGKSALTIQLIQNHFVDECDPTIEDSY-RKQVVIDGETC--LLDIL   56 (166)
T ss_dssp             EEEEEEEESTTSSHHHHHHHHHHSSCCSCCCTTCCEEE-EEEEEETTEEE--EEEEE
T ss_pred             eeEEEEECCCCCCHHHHHHHHHhCcCccccCCccceEE-EEEEEECCEEE--EEEEE
Confidence            47999999999999999999999988888888887666 57777887764  45554

>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=99.32  E-value=5.8e-12  Score=68.95  Aligned_cols=56  Identities=29%  Similarity=0.398  Sum_probs=43.9

Q ss_pred             ceeeEEEEECCCCChHHHHHHHHhcCcCcCCCccceeeEeEEEEEEECCeEEEEEEEeC
Q 035301           10 DYLFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQVTNFSSFTSLHFY   68 (68)
Q Consensus        10 ~~~~ki~~iG~~~vGKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~~w   68 (68)
                      ...+||+++|+.+||||||++++.++.+...+.++++..+ ...+.+++..+  .+++|
T Consensus        28 ~~~~ki~vvG~~~~GKSsLi~~l~~~~~~~~~~~t~~~~~-~~~~~~~~~~~--~l~i~   83 (204)
T 4gzl_A           28 GQAIKCVVVGDGAVGKTCLLISYTTNAFPGEYIPTVFDNY-SANVMVDGKPV--NLGLW   83 (204)
T ss_dssp             --CEEEEEEESTTSSHHHHHHHHHHSCCCC-CCCCSEEEE-EEEEECC-CEE--EEEEE
T ss_pred             CCeEEEEEECcCCCCHHHHHHHHHhCCCCCCcCCeeccee-EEEEEECCEEE--EEEEE
Confidence            4578999999999999999999999999888888887555 67777888775  55555

>4bas_A ADP-ribosylation factor, putative (small GTPase, putative); hydrolase; HET: GNP; 2.00A {Trypanosoma brucei TREU927}

Probab=99.32  E-value=6.1e-12  Score=68.00  Aligned_cols=43  Identities=16%  Similarity=0.293  Sum_probs=32.8

Q ss_pred             cCCceeeEEEEECCCCChHHHHHHHHhcCcCcC-CCccceeeEe
Q 035301            7 EEYDYLFKVVLIGDSGVGKSNLLSRFTRNEFCL-ESKSTIGVEF   49 (68)
Q Consensus         7 ~~~~~~~ki~~iG~~~vGKtsl~~~~~~~~~~~-~~~~t~~~~~   49 (68)
                      ......+||+++|+.+||||||++++.+..+.. .+.+|++..+
T Consensus        12 ~~~~~~~ki~v~G~~~~GKSsl~~~l~~~~~~~~~~~~t~~~~~   55 (199)
T 4bas_A           12 GQSKTKLQVVMCGLDNSGKTTIINQVKPAQSSSKHITATVGYNV   55 (199)
T ss_dssp             ----CEEEEEEECCTTSCHHHHHHHHSCCC----CCCCCSSEEE
T ss_pred             cCCCCCcEEEEECCCCCCHHHHHHHHhcCCCcccccccccceeE
Confidence            445678999999999999999999999999988 7889998544

>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=99.28  E-value=7.9e-13  Score=70.58  Aligned_cols=56  Identities=29%  Similarity=0.439  Sum_probs=31.1

Q ss_pred             ceeeEEEEECCCCChHHHHHHHHhcCcCcCCCccceeeEeEEEEEEECCeEEEEEEEeC
Q 035301           10 DYLFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQVTNFSSFTSLHFY   68 (68)
Q Consensus        10 ~~~~ki~~iG~~~vGKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~~w   68 (68)
                      ...+|++++|+.++|||||++++.+..+...+.+|++..+ ...+.+++..+  .+++|
T Consensus         6 ~~~~ki~v~G~~~~GKssl~~~~~~~~~~~~~~~t~~~~~-~~~~~~~~~~~--~~~i~   61 (182)
T 3bwd_D            6 SRFIKCVTVGDGAVGKTCLLISYTSNTFPTDYVPTVFDNF-SANVVVNGATV--NLGLW   61 (182)
T ss_dssp             -CCCEEEEECSTTSSHHHHHHHHHHSCCC----------C-BCCCC---------CEEE
T ss_pred             CceEEEEEECCCCCCHHHHHHHHhcCCCCCCCCCeeeeeE-EEEEEECCEEE--EEEEE
Confidence            3468999999999999999999999998888889988666 33445555543  44454

>2lkc_A Translation initiation factor IF-2; NMR {Geobacillus stearothermophilus} PDB: 2lkd_A*

Probab=99.28  E-value=8.1e-12  Score=66.41  Aligned_cols=51  Identities=16%  Similarity=0.221  Sum_probs=42.5

Q ss_pred             ceeeEEEEECCCCChHHHHHHHHhcCcCcCCCccceeeEeEEEEEEECCeE
Q 035301           10 DYLFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQVTNFS   60 (68)
Q Consensus        10 ~~~~ki~~iG~~~vGKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~   60 (68)
                      ...++|+++|+.+||||||++++.+..+...+.+++..++....+.+++..
T Consensus         6 ~~~~~i~v~G~~~~GKssl~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~   56 (178)
T 2lkc_A            6 ERPPVVTIMGHVDHGKTTLLDAIRHSKVTEQEAGGITQHIGAYQVTVNDKK   56 (178)
T ss_dssp             CCCCEEEEESCTTTTHHHHHHHHHTTCSSCSSCCSSSTTCCCCEEEETTEE
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHhCCccccCCCCceeEeeeEEEEEeCCce
Confidence            456899999999999999999999999887777777766666677777755

>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=99.26  E-value=3.3e-11  Score=65.04  Aligned_cols=41  Identities=17%  Similarity=0.316  Sum_probs=36.9

Q ss_pred             ceeeEEEEECCCCChHHHHHHHHhcCcCcCCCccceeeEeE
Q 035301           10 DYLFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFA   50 (68)
Q Consensus        10 ~~~~ki~~iG~~~vGKtsl~~~~~~~~~~~~~~~t~~~~~~   50 (68)
                      ...+||+++|+.+||||||++++.+..+...+.+|++.++.
T Consensus        20 ~~~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~   60 (188)
T 1zd9_A           20 KEEMELTLVGLQYSGKTTFVNVIASGQFNEDMIPTVGFNMR   60 (188)
T ss_dssp             CEEEEEEEECSTTSSHHHHHHHHHHSCCCCSCCCCCSEEEE
T ss_pred             CCccEEEEECCCCCCHHHHHHHHHcCCCCCccCCCCceeEE
Confidence            45799999999999999999999999998888899998764

>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=99.26  E-value=2.1e-11  Score=64.74  Aligned_cols=48  Identities=21%  Similarity=0.371  Sum_probs=34.7

Q ss_pred             eeEEEEECCCCChHHHHHHHHhcCcCcCCCccceeeEeEEEEEEECCe
Q 035301           12 LFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQVTNF   59 (68)
Q Consensus        12 ~~ki~~iG~~~vGKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~   59 (68)
                      .++++++|++|||||||++++.+..+.....|+...++....+.+++.
T Consensus         3 ~~~v~lvG~~gvGKStL~~~l~~~~~~~~~~~~~t~~~~~~~~~~~~~   50 (165)
T 2wji_A            3 SYEIALIGNPNVGKSTIFNALTGENVYIGNWPGVTVEKKEGEFEYNGE   50 (165)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHCCSSSCC-----CCCCCEEEEEETTE
T ss_pred             ccEEEEECCCCCCHHHHHHHHhCCCeeccCCCCcceeeeEEEEEECCc
Confidence            479999999999999999999988776555566655665666666654

>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=99.24  E-value=7.7e-12  Score=68.69  Aligned_cols=60  Identities=23%  Similarity=0.392  Sum_probs=44.5

Q ss_pred             CCceeeEEEEECCCCChHHHHHHHHhcCcCcCCCccceeeEeEEEEEEECCeEEEEEEEeC
Q 035301            8 EYDYLFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQVTNFSSFTSLHFY   68 (68)
Q Consensus         8 ~~~~~~ki~~iG~~~vGKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~~w   68 (68)
                      .....+||+++|+.+||||||++++++..+...+.++.+..+.......++... +.+.+|
T Consensus         7 ~~~~~~ki~vvG~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~-~~~~l~   66 (218)
T 4djt_A            7 RRELTYKICLIGDGGVGKTTYINRVLDGRFEKNYNATVGAVNHPVTFLDDQGNV-IKFNVW   66 (218)
T ss_dssp             ---CEEEEEEECCTTSSHHHHHCBCTTCSTTCEEETTTTEEEEEEEEEBTTSCE-EEEEEE
T ss_pred             cccCccEEEEECCCCCCHHHHHHHHhcCCCCCCCCCccceeeEEEEEEeCCCcE-EEEEEE
Confidence            345689999999999999999999999888888888988877655555443321 245555

>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=99.23  E-value=2.6e-11  Score=63.78  Aligned_cols=53  Identities=34%  Similarity=0.510  Sum_probs=35.4

Q ss_pred             eeEEEEECCCCChHHHHHHHHhcCcCcCCCccceeeEeEEEEEEECCeEEEEEEEeC
Q 035301           12 LFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQVTNFSSFTSLHFY   68 (68)
Q Consensus        12 ~~ki~~iG~~~vGKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~~w   68 (68)
                      .+||+++|+++||||||++++.+..+. ...++.+..+ .+.+.+++...  .+++|
T Consensus         2 ~~ki~~vG~~~~GKSsli~~l~~~~~~-~~~~~~~~~~-~~~~~~~~~~~--~~~i~   54 (166)
T 3q72_A            2 VYKVLLLGAPGVGKSALARIFGGVEDG-PEAEAAGHTY-DRSIVVDGEEA--SLMVY   54 (166)
T ss_dssp             CCEEEEEESTTSSHHHHHHHHCCC-----------CEE-EEEEEETTEEE--EEEEE
T ss_pred             eEEEEEECCCCCCHHHHHHHHcCcccc-CCCCccccce-EEEEEECCEEE--EEEEE
Confidence            589999999999999999999977654 3456677666 57778888775  55555

>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=99.23  E-value=7.7e-13  Score=74.99  Aligned_cols=48  Identities=33%  Similarity=0.623  Sum_probs=37.7

Q ss_pred             CcCCceeeEEEEECCC---------CChHHHHHHHHhc---CcCcCCCccce-eeEeEEEE
Q 035301            6 DEEYDYLFKVVLIGDS---------GVGKSNLLSRFTR---NEFCLESKSTI-GVEFATRT   53 (68)
Q Consensus         6 ~~~~~~~~ki~~iG~~---------~vGKtsl~~~~~~---~~~~~~~~~t~-~~~~~~~~   53 (68)
                      +......+||+++|++         +||||||++++++   +.+...+.+++ +.+|..+.
T Consensus        13 ~~~~~~~~ki~lvG~~~~~~~~~~~~vGKSsLi~~l~~~~~~~~~~~~~~t~~~~~~~~~~   73 (255)
T 3c5h_A           13 NLYFQGTYNISVVGLSGTEKEKGQCGIGKSCLCNRFVRPSADEFHLDHTSVLSTSDFGGRV   73 (255)
T ss_dssp             TSSCCSCEEEEEEESCCCTTTTTTCCCSHHHHHHHHHCCSTTTCCSCCCCEECHHHHTSTT
T ss_pred             CCCCCceeEEEEECCCccccccCCCCcCHHHHHHHHHhccCCccccccCCcccccccceeE
Confidence            3445678999999999         9999999999998   66777777776 56654333

>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=99.23  E-value=1.9e-11  Score=65.92  Aligned_cols=49  Identities=16%  Similarity=0.318  Sum_probs=38.2

Q ss_pred             CceeeEEEEECCCCChHHHHHHHHhcCc-CcCCCccceeeEeEEEEEEECCe
Q 035301            9 YDYLFKVVLIGDSGVGKSNLLSRFTRNE-FCLESKSTIGVEFATRTLQVTNF   59 (68)
Q Consensus         9 ~~~~~ki~~iG~~~vGKtsl~~~~~~~~-~~~~~~~t~~~~~~~~~~~~~~~   59 (68)
                      ....+||+++|+.+||||||++++.+.. +...+.+|++  +..+.+.+++.
T Consensus        18 ~~~~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~~t~~--~~~~~~~~~~~   67 (190)
T 2h57_A           18 GSKEVHVLCLGLDNSGKTTIINKLKPSNAQSQNILPTIG--FSIEKFKSSSL   67 (190)
T ss_dssp             ---CEEEEEEECTTSSHHHHHHHTSCGGGCCSSCCCCSS--EEEEEEECSSC
T ss_pred             CCCccEEEEECCCCCCHHHHHHHHhcCCCCCCCcCCccc--eeEEEEEECCE
Confidence            3457899999999999999999999887 6777888887  44466666653

>2wjg_A FEOB, ferrous iron transport protein B homolog; membrane G-proteins, cell membrane, ION transport, transmembrane; HET: GDP; 2.20A {Methanocaldococcus jannaschii}

Probab=99.22  E-value=3.7e-11  Score=64.47  Aligned_cols=50  Identities=20%  Similarity=0.343  Sum_probs=39.3

Q ss_pred             eeeEEEEECCCCChHHHHHHHHhcCcCcCCCccceeeEeEEEEEEECCeE
Q 035301           11 YLFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQVTNFS   60 (68)
Q Consensus        11 ~~~ki~~iG~~~vGKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~   60 (68)
                      ..+|++++|++|||||||++++++..+...+.+++..++....+.+++..
T Consensus         6 ~~~~i~lvG~~gvGKStL~~~l~~~~~~~~~~~~~t~~~~~~~~~~~~~~   55 (188)
T 2wjg_A            6 KSYEIALIGNPNVGKSTIFNALTGENVYIGNWPGVTVEKKEGEFEYNGEK   55 (188)
T ss_dssp             CEEEEEEECSTTSSHHHHHHHHHTTCEEEEECTTSCCEEEEEEEEETTEE
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCCccccCCCCeeccceEEEEEeCCcE
Confidence            46899999999999999999999877665556666666666677776643

>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=99.20  E-value=8.2e-11  Score=67.83  Aligned_cols=55  Identities=31%  Similarity=0.430  Sum_probs=46.6

Q ss_pred             eeeEEEEECCCCChHHHHHHHHhcCcCcCCCccceeeEeEEEEEEECCeEEEEEEEeC
Q 035301           11 YLFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQVTNFSSFTSLHFY   68 (68)
Q Consensus        11 ~~~ki~~iG~~~vGKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~~w   68 (68)
                      ..+|++++|++++|||||++++.++.+...+.+|++..+ ...+.+++..+  .+++|
T Consensus       154 ~~~~i~i~G~~~~GKssli~~~~~~~~~~~~~~t~~~~~-~~~~~~~~~~~--~~~l~  208 (332)
T 2wkq_A          154 ELIKCVVVGDGAVGKTCLLISYTTNAFPGEYIPTVFDNY-SANVMVDGKPV--NLGLW  208 (332)
T ss_dssp             TCEEEEEEESTTSSHHHHHHHHHHSCCCCSCCCCSEEEE-EEEEEETTEEE--EEEEE
T ss_pred             ceeEEEEECCCCCChHHHHHHHHhCCCCcccCCccccee-EEEEEECCEEE--EEEEE
Confidence            358999999999999999999999999888889998766 56778888775  55665

>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=99.20  E-value=1.6e-11  Score=65.91  Aligned_cols=47  Identities=28%  Similarity=0.497  Sum_probs=36.5

Q ss_pred             CceeeEEEEECCCCChHHHHHHHHhcCcCcCCCccceeeEeEEEEEEECC
Q 035301            9 YDYLFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQVTN   58 (68)
Q Consensus         9 ~~~~~ki~~iG~~~vGKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~   58 (68)
                      ....+||+++|+.+||||||++++.+..+ ..+.+|++..+  +.+.+++
T Consensus        18 ~~~~~~i~v~G~~~~GKSsli~~l~~~~~-~~~~~t~~~~~--~~~~~~~   64 (181)
T 2h17_A           18 GSQEHKVIIVGLDNAGKTTILYQFSMNEV-VHTSPTIGSNV--EEIVINN   64 (181)
T ss_dssp             ---CEEEEEEEETTSSHHHHHHHHHTTSC-EEEECCSSSSC--EEEEETT
T ss_pred             CCceeEEEEECCCCCCHHHHHHHHhcCCC-CccCCcCceee--EEEEECC
Confidence            44579999999999999999999999888 56678887544  5666665

>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=99.18  E-value=1.1e-10  Score=62.65  Aligned_cols=47  Identities=21%  Similarity=0.498  Sum_probs=37.7

Q ss_pred             ceeeEEEEECCCCChHHHHHHHHhcCcCcCCCccceeeEeEEEEEEECCe
Q 035301           10 DYLFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQVTNF   59 (68)
Q Consensus        10 ~~~~ki~~iG~~~vGKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~   59 (68)
                      ...+||+++|+.+||||||++++.++. ...+.||++..  .+.+.+++.
T Consensus        16 ~~~~~i~v~G~~~~GKssl~~~l~~~~-~~~~~~t~~~~--~~~~~~~~~   62 (186)
T 1ksh_A           16 ERELRLLMLGLDNAGKTTILKKFNGED-VDTISPTLGFN--IKTLEHRGF   62 (186)
T ss_dssp             -CCEEEEEECSTTSSHHHHHHHHTTCC-CSSCCCCSSEE--EEEEEETTE
T ss_pred             CCeeEEEEECCCCCCHHHHHHHHhcCC-CCcccccCccc--eEEEEECCE
Confidence            457999999999999999999999887 66788888844  356666643

>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=98.78  E-value=2.8e-12  Score=69.96  Aligned_cols=56  Identities=29%  Similarity=0.398  Sum_probs=44.7

Q ss_pred             ceeeEEEEECCCCChHHHHHHHHhcCcCcCCCccceeeEeEEEEEEECCeEEEEEEEeC
Q 035301           10 DYLFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQVTNFSSFTSLHFY   68 (68)
Q Consensus        10 ~~~~ki~~iG~~~vGKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~~w   68 (68)
                      ...+||+++|+.+||||||++++.++.+...+.+|++..+ ...+.+++..+  .+++|
T Consensus        28 ~~~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~-~~~~~~~~~~~--~l~i~   83 (204)
T 3th5_A           28 GQAIKCVVVGDGAVGKTCLLISYTTNAFPGEYIPTVFDNY-SANVMVDGKPV--NLGLW   83 (204)
Confidence            4578999999999999999999999998888888887666 45566666653  45555

>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=99.14  E-value=7.1e-11  Score=62.02  Aligned_cols=43  Identities=23%  Similarity=0.495  Sum_probs=33.6

Q ss_pred             eEEEEECCCCChHHHHHHHHhcCcCcCCCccceeeEeEEEEEEECC
Q 035301           13 FKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQVTN   58 (68)
Q Consensus        13 ~ki~~iG~~~vGKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~   58 (68)
                      +||+++|+++||||||++++.++.+.. +.||++.  ....+..++
T Consensus         1 ~ki~~~G~~~~GKssl~~~l~~~~~~~-~~~t~~~--~~~~~~~~~   43 (164)
T 1r8s_A            1 MRILMVGLDAAGKTTILYKLKLGEIVT-TIPTIGF--NVETVEYKN   43 (164)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHHHCSSC-CCCCSSC--CEEEEECSS
T ss_pred             CEEEEECCCCCCHHHHHHHHHcCCcCc-ccCcCce--eEEEEEECC
Confidence            589999999999999999999888764 6788873  334555444

>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=99.13  E-value=5.9e-11  Score=63.85  Aligned_cols=46  Identities=28%  Similarity=0.522  Sum_probs=37.2

Q ss_pred             ceeeEEEEECCCCChHHHHHHHHhcCcCcCCCccceeeEeEEEEEEECC
Q 035301           10 DYLFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQVTN   58 (68)
Q Consensus        10 ~~~~ki~~iG~~~vGKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~   58 (68)
                      ...+||+++|+.+||||||++++.++.+. .+.+|++..  .+.+.+++
T Consensus        14 ~~~~~i~v~G~~~~GKssl~~~l~~~~~~-~~~~t~~~~--~~~~~~~~   59 (187)
T 1zj6_A           14 HQEHKVIIVGLDNAGKTTILYQFSMNEVV-HTSPTIGSN--VEEIVINN   59 (187)
T ss_dssp             TSCEEEEEEESTTSSHHHHHHHHHTTSCE-EEECCSCSS--CEEEEETT
T ss_pred             CCccEEEEECCCCCCHHHHHHHHhcCCCC-cCcCCCccc--eEEEEECC
Confidence            34689999999999999999999988887 677888743  35666665

>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=99.13  E-value=6.1e-11  Score=63.91  Aligned_cols=50  Identities=20%  Similarity=0.232  Sum_probs=29.4

Q ss_pred             CceeeEEEEECCCCChHHHHHHHHhcCcCcCCCccceeeEeEEEEEEECC
Q 035301            9 YDYLFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQVTN   58 (68)
Q Consensus         9 ~~~~~ki~~iG~~~vGKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~   58 (68)
                      ....++++++|+.|+|||||++++.+..+...+.++.+.........+++
T Consensus        20 ~~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~t~~~~~~~~~~   69 (195)
T 1svi_A           20 EGGLPEIALAGRSNVGKSSFINSLINRKNLARTSSKPGKTQTLNFYIIND   69 (195)
T ss_dssp             CSCCCEEEEEEBTTSSHHHHHHHHHTC-------------CCEEEEEETT
T ss_pred             CCCCCEEEEECCCCCCHHHHHHHHhCCCCccccCCCCCceeeEEEEEECC
Confidence            34579999999999999999999999887666667766555444444443

>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=99.13  E-value=8.4e-11  Score=63.21  Aligned_cols=47  Identities=23%  Similarity=0.472  Sum_probs=36.8

Q ss_pred             ceeeEEEEECCCCChHHHHHHHHhcCcCcCCCccceeeEeEEEEEEECCe
Q 035301           10 DYLFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQVTNF   59 (68)
Q Consensus        10 ~~~~ki~~iG~~~vGKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~   59 (68)
                      ...+|++++|+++||||||++++.+..+ ..+.||+|..  .+.+.+++.
T Consensus        14 ~~~~ki~ivG~~~vGKSsL~~~l~~~~~-~~~~~t~g~~--~~~~~~~~~   60 (181)
T 1fzq_A           14 DQEVRILLLGLDNAGKTTLLKQLASEDI-SHITPTQGFN--IKSVQSQGF   60 (181)
T ss_dssp             SSCEEEEEEESTTSSHHHHHHHHCCSCC-EEEEEETTEE--EEEEEETTE
T ss_pred             CCceEEEEECCCCCCHHHHHHHHhcCCC-CcccCcCCeE--EEEEEECCE
Confidence            4579999999999999999999998765 3466888743  456666643

>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=99.13  E-value=1.1e-10  Score=63.92  Aligned_cols=54  Identities=24%  Similarity=0.256  Sum_probs=38.3

Q ss_pred             ceeeEEEEECCCCChHHHHHHHHhcCcCcCCCccceeeEeEEEEEEECCe-EEEEEEEeC
Q 035301           10 DYLFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQVTNF-SSFTSLHFY   68 (68)
Q Consensus        10 ~~~~ki~~iG~~~vGKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~-~~~~~l~~w   68 (68)
                      ...+||+++|+++||||||++++.+..+...+.+ ++.++.  .+.+++. ..  .+++|
T Consensus         5 ~~~~ki~vvG~~~~GKTsli~~l~~~~~~~~~~~-~~~~~~--~~~~~~~~~~--~~~i~   59 (214)
T 2fh5_B            5 SSQRAVLFVGLCDSGKTLLFVRLLTGQYRDTQTS-ITDSSA--IYKVNNNRGN--SLTLI   59 (214)
T ss_dssp             ---CEEEEECSTTSSHHHHHHHHHHSCCCCBCCC-CSCEEE--EEECSSTTCC--EEEEE
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHhCCCcccccCC-cceeeE--EEEecCCCcc--EEEEE
Confidence            4568999999999999999999999988877754 444553  3666643 32  45655

>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=99.11  E-value=3.5e-10  Score=59.61  Aligned_cols=46  Identities=26%  Similarity=0.500  Sum_probs=36.4

Q ss_pred             eeeEEEEECCCCChHHHHHHHHhcCcCcCCCccceeeEeEEEEEEECCe
Q 035301           11 YLFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQVTNF   59 (68)
Q Consensus        11 ~~~ki~~iG~~~vGKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~   59 (68)
                      ..+||+++|+.++|||||++++.++.+. .+.||++...  +.+.+++.
T Consensus         6 ~~~~i~v~G~~~~GKssl~~~l~~~~~~-~~~~t~~~~~--~~~~~~~~   51 (171)
T 1upt_A            6 REMRILILGLDGAGKTTILYRLQVGEVV-TTIPTIGFNV--ETVTYKNL   51 (171)
T ss_dssp             SCEEEEEECSTTSSHHHHHHHHHHSSCC-CCCCCSSEEE--EEEEETTE
T ss_pred             CccEEEEECCCCCCHHHHHHHHhcCCCC-CcCCcCccce--EEEEECCE
Confidence            4689999999999999999999988875 4668887443  55666643

>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=99.11  E-value=2.4e-10  Score=61.88  Aligned_cols=45  Identities=20%  Similarity=0.297  Sum_probs=36.2

Q ss_pred             eeeEEEEECCCCChHHHHHHHHhcCcCcCCCccceeeEeEEEEEEECC
Q 035301           11 YLFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQVTN   58 (68)
Q Consensus        11 ~~~ki~~iG~~~vGKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~   58 (68)
                      ..+|++++|++|||||||++++.++.+. .+.+|++..  ...+.+++
T Consensus        22 ~~~ki~~vG~~~vGKSsli~~l~~~~~~-~~~~t~~~~--~~~~~~~~   66 (190)
T 1m2o_B           22 KHGKLLFLGLDNAGKTTLLHMLKNDRLA-TLQPTWHPT--SEELAIGN   66 (190)
T ss_dssp             --CEEEEEESTTSSHHHHHHHHHHSCCC-CCCCCCSCE--EEEEEETT
T ss_pred             CccEEEEECCCCCCHHHHHHHHhcCCCC-ccccCCCCC--eEEEEECC
Confidence            4579999999999999999999998875 567888764  45677777

>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=99.10  E-value=2.9e-10  Score=63.55  Aligned_cols=51  Identities=18%  Similarity=0.278  Sum_probs=35.8

Q ss_pred             ceeeEEEEECCCCChHHHHHHHHhcCcCcCCCcc--ceeeEeEEEEEEECCeE
Q 035301           10 DYLFKVVLIGDSGVGKSNLLSRFTRNEFCLESKS--TIGVEFATRTLQVTNFS   60 (68)
Q Consensus        10 ~~~~ki~~iG~~~vGKtsl~~~~~~~~~~~~~~~--t~~~~~~~~~~~~~~~~   60 (68)
                      ...++|+++|++|+|||||++++++..+.....+  ++..++....+.+++..
T Consensus        27 ~~~~~i~lvG~~g~GKStlin~l~g~~~~~~~~~~~~~t~~~~~~~~~~~~~~   79 (239)
T 3lxx_A           27 NSQLRIVLVGKTGAGKSATGNSILGRKVFHSGTAAKSITKKCEKRSSSWKETE   79 (239)
T ss_dssp             -CEEEEEEECCTTSSHHHHHHHHHTSCCSCC-------CCSCEEEEEEETTEE
T ss_pred             CCceEEEEECCCCCCHHHHHHHHcCCCcCccCCCCCceeeeEEEEEEEeCCce
Confidence            4579999999999999999999999887666655  33444445566666655

>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=99.09  E-value=6.7e-11  Score=63.14  Aligned_cols=46  Identities=30%  Similarity=0.567  Sum_probs=36.9

Q ss_pred             ceeeEEEEECCCCChHHHHHHHHhcCcCcCCCccceeeEeEEEEEEECC
Q 035301           10 DYLFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQVTN   58 (68)
Q Consensus        10 ~~~~ki~~iG~~~vGKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~   58 (68)
                      ...+||+++|+.+||||||++++.++.+ ..+.+|++..  ...+.+++
T Consensus        16 ~~~~~i~v~G~~~~GKssli~~l~~~~~-~~~~~t~~~~--~~~~~~~~   61 (183)
T 1moz_A           16 NKELRILILGLDGAGKTTILYRLQIGEV-VTTKPTIGFN--VETLSYKN   61 (183)
T ss_dssp             SSCEEEEEEEETTSSHHHHHHHTCCSEE-EEECSSTTCC--EEEEEETT
T ss_pred             CCccEEEEECCCCCCHHHHHHHHhcCCc-CccCCcCccc--eEEEEECC
Confidence            4579999999999999999999998887 5667888743  35566655

>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=99.09  E-value=1.5e-10  Score=62.84  Aligned_cols=46  Identities=22%  Similarity=0.448  Sum_probs=35.9

Q ss_pred             ceeeEEEEECCCCChHHHHHHHHhcCcCcCCCccceeeEeEEEEEEECC
Q 035301           10 DYLFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQVTN   58 (68)
Q Consensus        10 ~~~~ki~~iG~~~vGKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~   58 (68)
                      ...+||+++|+.+||||||++++.++.+. .+.||++.  ..+.+..++
T Consensus        27 ~~~~ki~v~G~~~vGKSsLi~~l~~~~~~-~~~~t~~~--~~~~~~~~~   72 (192)
T 2b6h_A           27 KKQMRILMVGLDAAGKTTILYKLKLGEIV-TTIPTIGF--NVETVEYKN   72 (192)
T ss_dssp             TSCEEEEEEESTTSSHHHHHHHHCSSCCE-EEEEETTE--EEEEEEETT
T ss_pred             CCccEEEEECCCCCCHHHHHHHHHhCCcc-ccCCcCce--eEEEEEECC
Confidence            44689999999999999999999988876 45678773  334555554

>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=99.09  E-value=1.5e-10  Score=63.09  Aligned_cols=45  Identities=20%  Similarity=0.285  Sum_probs=32.9

Q ss_pred             eeeEEEEECCCCChHHHHHHHHhcCcCcCCCccceeeEeEEEEEEECC
Q 035301           11 YLFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQVTN   58 (68)
Q Consensus        11 ~~~ki~~iG~~~vGKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~   58 (68)
                      ..+|++++|++|||||||++++.++.+. .+.+|++...  ..+.+++
T Consensus        24 ~~~ki~lvG~~~vGKSsLi~~l~~~~~~-~~~~t~~~~~--~~~~~~~   68 (198)
T 1f6b_A           24 KTGKLVFLGLDNAGKTTLLHMLKDDRLG-QHVPTLHPTS--EELTIAG   68 (198)
T ss_dssp             CCEEEEEEEETTSSHHHHHHHHSCC-------CCCCCSC--EEEEETT
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhcCCCC-ccCCCCCcee--EEEEECC
Confidence            4679999999999999999999988875 4678887653  5667776

>2dyk_A GTP-binding protein; GTPase, ribosome-binding protein, structural genomics; HET: GDP; 1.96A {Thermus thermophilus}

Probab=99.08  E-value=4.3e-10  Score=58.73  Aligned_cols=48  Identities=21%  Similarity=0.380  Sum_probs=31.4

Q ss_pred             eEEEEECCCCChHHHHHHHHhcCcCc-CCCccceeeEeEEEEEEECCeE
Q 035301           13 FKVVLIGDSGVGKSNLLSRFTRNEFC-LESKSTIGVEFATRTLQVTNFS   60 (68)
Q Consensus        13 ~ki~~iG~~~vGKtsl~~~~~~~~~~-~~~~~t~~~~~~~~~~~~~~~~   60 (68)
                      +|++++|+.|+|||||++++.+..+. ....+....++....+..++..
T Consensus         2 ~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   50 (161)
T 2dyk_A            2 HKVVIVGRPNVGKSSLFNRLLKKRSAVVADVPGVTRDLKEGVVETDRGR   50 (161)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHCCC-----------CCEEEEEEETTEE
T ss_pred             CEEEEECCCCCCHHHHHHHHhCCCeeeccCCCCceecceEEEEEeCCce
Confidence            69999999999999999999987753 2223344445555666777654

>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=99.06  E-value=3.7e-11  Score=65.26  Aligned_cols=56  Identities=13%  Similarity=0.173  Sum_probs=34.4

Q ss_pred             CCceeeEEEEECCCCChHHHHHHHHhcCcCcCCCccceeeEeEEEEEE--EC-CeEEEEEEEeC
Q 035301            8 EYDYLFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQ--VT-NFSSFTSLHFY   68 (68)
Q Consensus         8 ~~~~~~ki~~iG~~~vGKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~--~~-~~~~~~~l~~w   68 (68)
                      ..+..+||+++|+++||||||++++.+. +...  ++++.++..+.+.  ++ +..+  .+++|
T Consensus        16 ~~~~~~ki~~vG~~~vGKTsLi~~l~~~-~~~~--~~~~~~~~~~~~~~~~~~~~~~--~l~i~   74 (196)
T 3llu_A           16 FQGSKPRILLMGLRRSGKSSIQKVVFHK-MSPN--ETLFLESTNKIYKDDISNSSFV--NFQIW   74 (196)
T ss_dssp             ----CCEEEEEESTTSSHHHHHHHHHSC-CCGG--GGGGCCCCCSCEEEEECCTTSC--CEEEE
T ss_pred             ccCcceEEEEECCCCCCHHHHHHHHHhc-CCCc--ceeeeccccceeeeeccCCCee--EEEEE
Confidence            4566899999999999999999987764 3322  5555555443333  32 3433  45555

>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=99.06  E-value=6.1e-10  Score=59.54  Aligned_cols=49  Identities=20%  Similarity=0.333  Sum_probs=36.4

Q ss_pred             eeEEEEECCCCChHHHHHHHHhcCcCc-CCCccceeeEeEEEEEEECCeE
Q 035301           12 LFKVVLIGDSGVGKSNLLSRFTRNEFC-LESKSTIGVEFATRTLQVTNFS   60 (68)
Q Consensus        12 ~~ki~~iG~~~vGKtsl~~~~~~~~~~-~~~~~t~~~~~~~~~~~~~~~~   60 (68)
                      .+|++++|++|||||||++++.+..+. ....++...++....+.+++..
T Consensus         4 ~~ki~ivG~~g~GKStLl~~l~~~~~~~~~~~~~~t~~~~~~~~~~~~~~   53 (172)
T 2gj8_A            4 GMKVVIAGRPNAGKSSLLNALAGREAAIVTDIAGTTRDVLREHIHIDGMP   53 (172)
T ss_dssp             CEEEEEEESTTSSHHHHHHHHHTSCCSCCCSSTTCCCSCEEEEEEETTEE
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCCCcceeeCCCCceeceeeEEEEECCeE
Confidence            479999999999999999999987643 1222344456666777888754

>2x77_A ADP-ribosylation factor; GTP-binding protein, small GTPase, nucleotide-binding; HET: GDP; 2.10A {Leishmania major}

Probab=99.04  E-value=2.2e-10  Score=61.57  Aligned_cols=47  Identities=30%  Similarity=0.495  Sum_probs=36.5

Q ss_pred             ceeeEEEEECCCCChHHHHHHHHhcCcCcCCCccceeeEeEEEEEEECCe
Q 035301           10 DYLFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQVTNF   59 (68)
Q Consensus        10 ~~~~ki~~iG~~~vGKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~   59 (68)
                      ...+||+++|+.+||||||++++.++.+.. +.||++.  ..+.+.+++.
T Consensus        20 ~~~~~i~v~G~~~~GKssli~~l~~~~~~~-~~~t~~~--~~~~~~~~~~   66 (189)
T 2x77_A           20 DRKIRVLMLGLDNAGKTSILYRLHLGDVVT-TVPTVGV--NLETLQYKNI   66 (189)
T ss_dssp             TSCEEEEEEEETTSSHHHHHHHTCCSCCEE-ECSSTTC--CEEEEEETTE
T ss_pred             CCceEEEEECCCCCCHHHHHHHHHcCCCCC-cCCCCce--EEEEEEECCE
Confidence            457899999999999999999999888764 6678773  3455666543

>3t5d_A Septin-7; GTP-binding protein, cytoskeleton, signaling protein; HET: GDP; 3.30A {Homo sapiens} PDB: 3tw4_A*

Probab=99.04  E-value=2.7e-10  Score=65.05  Aligned_cols=58  Identities=24%  Similarity=0.388  Sum_probs=34.5

Q ss_pred             CceeeEEEEECCCCChHHHHHHHHhcC-cCcCCC-------ccceeeEeEEEEEEECCeEEEEEEEeC
Q 035301            9 YDYLFKVVLIGDSGVGKSNLLSRFTRN-EFCLES-------KSTIGVEFATRTLQVTNFSSFTSLHFY   68 (68)
Q Consensus         9 ~~~~~ki~~iG~~~vGKtsl~~~~~~~-~~~~~~-------~~t~~~~~~~~~~~~~~~~~~~~l~~w   68 (68)
                      ....++|+++|.+|+|||||++++.+. .+...+       .+|++.++....+..++...  .+.+|
T Consensus         5 ~g~~~~I~vvG~~g~GKSTLin~L~~~~~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~--~l~li   70 (274)
T 3t5d_A            5 SGFEFTLMVVGESGLGKSTLINSLFLTDLYSPEYPGPSHRIKKTVQVEQSKVLIKEGGVQL--LLTIV   70 (274)
T ss_dssp             --CEEEEEEEECTTSSHHHHHHHHSSSCC---------------CCCEEEEEEECC--CCE--EEEEE
T ss_pred             CccEEEEEEECCCCCCHHHHHHHHhCCCccccCCCCcccccCCceEEEEEEEEEecCCeEE--EEEEE
Confidence            345799999999999999999997654 444444       67777777656655555543  45554

>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=99.03  E-value=7.6e-10  Score=62.97  Aligned_cols=49  Identities=22%  Similarity=0.266  Sum_probs=35.7

Q ss_pred             ceeeEEEEECCCCChHHHHHHHHhcCcCcCCCccceeeEeEEEEEEECC
Q 035301           10 DYLFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQVTN   58 (68)
Q Consensus        10 ~~~~ki~~iG~~~vGKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~   58 (68)
                      ...++|+++|+++||||||++++.+..+.....|.+..+.....+..++
T Consensus         3 ~~~~kI~lvG~~nvGKTsL~n~l~g~~~~~~~~pg~tv~~~~~~~~~~~   51 (258)
T 3a1s_A            3 LHMVKVALAGCPNVGKTSLFNALTGTKQYVANWPGVTVEKKEGVFTYKG   51 (258)
T ss_dssp             CEEEEEEEECCTTSSHHHHHHHHHTTCEEEEECTTSCCEEEEEEEEETT
T ss_pred             CCceEEEEECCCCCCHHHHHHHHHCCCCcccCCCCceEEEEEEEEEECC
Confidence            4578999999999999999999998776544445444444444455444

>3k53_A Ferrous iron transport protein B; GTPase fold, helical bundle, G-protein, prokaryote, GTP-BIND nucleotide-binding, metal transport; 2.70A {Pyrococcus furiosus}

Probab=99.02  E-value=5.2e-10  Score=63.71  Aligned_cols=49  Identities=20%  Similarity=0.278  Sum_probs=40.4

Q ss_pred             eeEEEEECCCCChHHHHHHHHhcCcCcCCCccceeeEeEEEEEEECCeE
Q 035301           12 LFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQVTNFS   60 (68)
Q Consensus        12 ~~ki~~iG~~~vGKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~   60 (68)
                      .++++++|++|+|||||++++.+..+.....+++..+.....+.+++..
T Consensus         3 ~~~i~lvG~~g~GKTTL~n~l~g~~~~~~~~~~~t~~~~~~~~~~~~~~   51 (271)
T 3k53_A            3 LKTVALVGNPNVGKTTIFNALTGLRQHVGNWPGVTVEKKEGIMEYREKE   51 (271)
T ss_dssp             CEEEEEEECSSSSHHHHHHHHHTTCEEEEECTTSSCEEEEEEEEETTEE
T ss_pred             eeEEEEECCCCCCHHHHHHHHhCCCcccCCCCCeEEEeeEEEEEECCce
Confidence            5799999999999999999999988765566777777766777777665

>3dpu_A RAB family protein; roccor, G-domain, COR, GTP-binding, nucleotide-binding, SIGN protein; 2.90A {Chlorobaculum tepidum}

Probab=99.02  E-value=4.6e-11  Score=73.48  Aligned_cols=44  Identities=32%  Similarity=0.398  Sum_probs=29.3

Q ss_pred             CceeeEEEEECCCCChHHHHHHHHhcCcCcCCCccceeeEeEEE
Q 035301            9 YDYLFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATR   52 (68)
Q Consensus         9 ~~~~~ki~~iG~~~vGKtsl~~~~~~~~~~~~~~~t~~~~~~~~   52 (68)
                      ....+||+++|+++||||||++++.+..+...+.+|++.++..+
T Consensus        38 ~~~~~kV~lvG~~~vGKSSLl~~l~~~~~~~~~~~t~g~~~~~~   81 (535)
T 3dpu_A           38 HLQEIKVHLIGDGMAGKTSLLKQLIGETFDPKESQTHGLNVVTK   81 (535)
T ss_dssp             CCCEEEEEEESSSCSSHHHHHHHHHC-----------CCCEEEE
T ss_pred             cccceEEEEECCCCCCHHHHHHHHhcCCCCCCCCCccceEEEEe
Confidence            45679999999999999999999999999888889999888654

>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=99.00  E-value=1e-09  Score=60.82  Aligned_cols=29  Identities=24%  Similarity=0.354  Sum_probs=26.2

Q ss_pred             ceeeEEEEECCCCChHHHHHHHHhcCcCc
Q 035301           10 DYLFKVVLIGDSGVGKSNLLSRFTRNEFC   38 (68)
Q Consensus        10 ~~~~ki~~iG~~~vGKtsl~~~~~~~~~~   38 (68)
                      ...+||+++|++|||||||++++++..+.
T Consensus        27 ~~~~kI~vvG~~~vGKSsLin~l~~~~~~   55 (228)
T 2qu8_A           27 PHKKTIILSGAPNVGKSSFMNIVSRANVD   55 (228)
T ss_dssp             TTSEEEEEECSTTSSHHHHHHHHTTTCEE
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHhCCCCc
Confidence            45689999999999999999999988775

>3r7w_A Gtpase1, GTP-binding protein GTR1; RAG gtpases, GTR1P, GTR2P, MTOR, protein transport; HET: GNP; 2.77A {Saccharomyces cerevisiae} PDB: 4arz_A*

Probab=98.98  E-value=2.1e-09  Score=62.36  Aligned_cols=53  Identities=32%  Similarity=0.386  Sum_probs=38.8

Q ss_pred             eeeEEEEECCCCChHHHHHHHHhcCc--Cc-CCCccceeeEeEEEEEEECCeEEEEEEEeC
Q 035301           11 YLFKVVLIGDSGVGKSNLLSRFTRNE--FC-LESKSTIGVEFATRTLQVTNFSSFTSLHFY   68 (68)
Q Consensus        11 ~~~ki~~iG~~~vGKtsl~~~~~~~~--~~-~~~~~t~~~~~~~~~~~~~~~~~~~~l~~w   68 (68)
                      ..+|++++|+++||||||++++.++.  +. ..+.+|++.++.  .+.+++.   +.+++|
T Consensus         2 ~~~KI~lvG~~~vGKSSLi~~l~~~~~~~~~~~~~~Ti~~~~~--~~~~~~~---~~l~i~   57 (307)
T 3r7w_A            2 LGSKLLLMGRSGSGKSSMRSIIFSNYSAFDTRRLGATIDVEHS--HLRFLGN---MTLNLW   57 (307)
T ss_dssp             CEEEEEEECCTTSSHHHHHHHHHSCCCTGGGGGCCCCCSEEEE--EEEETTT---EEEEEE
T ss_pred             CceEEEEECCCCCCHHHHHHHHHhCCCCccccCcCCccceEEE--EEEeCCc---eEEEEE
Confidence            35899999999999999999998763  32 356688888775  3444442   256666

>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=98.96  E-value=4.1e-10  Score=60.30  Aligned_cols=35  Identities=26%  Similarity=0.448  Sum_probs=29.9

Q ss_pred             eeEEEEECCCCChHHHHHHHHhcCcCcCCCcccee
Q 035301           12 LFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIG   46 (68)
Q Consensus        12 ~~ki~~iG~~~vGKtsl~~~~~~~~~~~~~~~t~~   46 (68)
                      .+||+++|+.|||||||++++.+..+...+.+++.
T Consensus         1 ~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~~~t   35 (190)
T 2cxx_A            1 MATIIFAGRSNVGKSTLIYRLTGKKVRRGKRPGVT   35 (190)
T ss_dssp             -CEEEEEEBTTSSHHHHHHHHHSCCCSSSSSTTCT
T ss_pred             CcEEEEECCCCCCHHHHHHHHhCcCCccCCCCCcc
Confidence            36999999999999999999999988777766553

>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=98.94  E-value=1.5e-09  Score=61.72  Aligned_cols=48  Identities=21%  Similarity=0.285  Sum_probs=38.7

Q ss_pred             eEEEEECCCCChHHHHHHHHhcCcCcCCCccceeeEeEEEEEEECCeE
Q 035301           13 FKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQVTNFS   60 (68)
Q Consensus        13 ~ki~~iG~~~vGKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~   60 (68)
                      .+|+++|+++||||||++++.+..+.....|.+..+.....+.+++..
T Consensus         2 ~kI~lvG~~n~GKSTL~n~L~g~~~~v~~~pg~Tv~~~~~~~~~~~~~   49 (256)
T 3iby_A            2 THALLIGNPNCGKTTLFNALTNANQRVGNWPGVTVEKKTGEFLLGEHL   49 (256)
T ss_dssp             CEEEEEESTTSSHHHHHHHHHTTSEEEEECTTSSSEEEEEEEEETTEE
T ss_pred             CEEEEECCCCCCHHHHHHHHHCCCCCccCCCCceEEEEEEEEEECCeE
Confidence            589999999999999999999887665555666666766777777764

>3pqc_A Probable GTP-binding protein ENGB; rossmann fold, GTPase, cell cycle, hydrolase; HET: GDP; 1.90A {Thermotoga maritima} PDB: 3pr1_A

Probab=98.94  E-value=4.1e-09  Score=56.46  Aligned_cols=41  Identities=27%  Similarity=0.245  Sum_probs=31.4

Q ss_pred             CCceeeEEEEECCCCChHHHHHHHHhcCcCcCCCccceeeEe
Q 035301            8 EYDYLFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEF   49 (68)
Q Consensus         8 ~~~~~~ki~~iG~~~vGKtsl~~~~~~~~~~~~~~~t~~~~~   49 (68)
                      .....+|++++|+.|+|||||++++.+..+ ..+.++.+...
T Consensus        19 ~~~~~~~i~v~G~~~~GKSsli~~l~~~~~-~~~~~~~~~t~   59 (195)
T 3pqc_A           19 PPPLKGEVAFVGRSNVGKSSLLNALFNRKI-AFVSKTPGKTR   59 (195)
T ss_dssp             CCCTTCEEEEEEBTTSSHHHHHHHHHTSCC-SCCCSSCCCCC
T ss_pred             CCCCCeEEEEECCCCCCHHHHHHHHHcCcc-ccccCCCCCcc
Confidence            345678999999999999999999998874 34445555444

>3r7w_B Gtpase2, GTP-binding protein GTR2; RAG gtpases, GTR1P, GTR2P, MTOR, protein transport; HET: GNP; 2.77A {Saccharomyces cerevisiae} PDB: 4arz_B*

Probab=98.93  E-value=4e-10  Score=66.45  Aligned_cols=48  Identities=23%  Similarity=0.167  Sum_probs=36.3

Q ss_pred             EEEEECCCCChHHHHHHHHhcCcCcC---CCccceeeEeEEEEEEECCeEEEEEEEeC
Q 035301           14 KVVLIGDSGVGKSNLLSRFTRNEFCL---ESKSTIGVEFATRTLQVTNFSSFTSLHFY   68 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~~~~~~---~~~~t~~~~~~~~~~~~~~~~~~~~l~~w   68 (68)
                      |++++|++|||||||++++.++.++.   .+.||+|.++..    ++ ..  +++++|
T Consensus         1 KIvllGdsgvGKTSLl~~~~~~~~~~~~~~~~~Tig~~~~~----v~-~~--v~LqIW   51 (331)
T 3r7w_B            1 MVLLMGVRRCGKSSICKVVFHNMQPLDTLYLESTSNPSLEH----FS-TL--IDLAVM   51 (331)
T ss_dssp             CEEEECSTTSSTTHHHHHHHSCCCSGGGTTCCCCCSCCCEE----EC-SS--SCEEEE
T ss_pred             CEEEECCCCCCHHHHHHHHHcCCCCCccceecCeeeeeeEE----Ec-cE--EEEEEE
Confidence            78999999999999999888665543   256899988842    23 22  478888

>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=98.91  E-value=1.7e-09  Score=61.85  Aligned_cols=49  Identities=20%  Similarity=0.316  Sum_probs=38.3

Q ss_pred             eeEEEEECCCCChHHHHHHHHhcCcCcCCCccceeeEeEEEEEEECCeE
Q 035301           12 LFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQVTNFS   60 (68)
Q Consensus        12 ~~ki~~iG~~~vGKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~   60 (68)
                      .++|+++|++++|||||++++.+..+.....+.+..+.....+..++..
T Consensus         3 ~~~I~lvG~~n~GKSTLin~l~g~~~~v~~~~g~t~~~~~~~~~~~~~~   51 (274)
T 3i8s_A            3 KLTIGLIGNPNSGKTTLFNQLTGSRQRVGNWAGVTVERKEGQFSTTDHQ   51 (274)
T ss_dssp             CEEEEEEECTTSSHHHHHHHHHTTCEEEEECTTSSSEEEEEEEECSSCE
T ss_pred             ccEEEEECCCCCCHHHHHHHHhCCCcccCCCCCeeEEEEEEEEEeCCCc
Confidence            4899999999999999999999887655555666556656666666654

>2xtp_A GTPase IMAP family member 2; immune system, G protein; HET: MSE; 1.50A {Homo sapiens} PDB: 2xto_A* 2xtm_A* 2xtn_A* 3p1j_A

Probab=98.90  E-value=4.8e-09  Score=59.17  Aligned_cols=51  Identities=20%  Similarity=0.244  Sum_probs=35.8

Q ss_pred             ceeeEEEEECCCCChHHHHHHHHhcCc-CcCCCccc-eeeEeEEEEEEECCeE
Q 035301           10 DYLFKVVLIGDSGVGKSNLLSRFTRNE-FCLESKST-IGVEFATRTLQVTNFS   60 (68)
Q Consensus        10 ~~~~ki~~iG~~~vGKtsl~~~~~~~~-~~~~~~~t-~~~~~~~~~~~~~~~~   60 (68)
                      ...++|+++|..|+|||||++++++.. +...+.++ +..+.....+..++..
T Consensus        20 ~~~~~I~lvG~~g~GKStl~n~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~   72 (260)
T 2xtp_A           20 RSELRIILVGKTGTGKSAAGNSILRKQAFESKLGSQTLTKTCSKSQGSWGNRE   72 (260)
T ss_dssp             -CCEEEEEEECTTSCHHHHHHHHHTSCCSCCCTTSCCCCCSCEEEEEEETTEE
T ss_pred             CCceEEEEECCCCCCHHHHHHHHhCCCCcccCCCCCceeeeeEEEEEEeCCCE
Confidence            356899999999999999999999876 55444443 3334444455566654

>1nrj_B SR-beta, signal recognition particle receptor beta subunit; transmembrane, endoplasmic reticulum, GTP-binding; HET: GTP; 1.70A {Saccharomyces cerevisiae} SCOP: c.37.1.8

Probab=98.89  E-value=1.4e-09  Score=59.67  Aligned_cols=42  Identities=17%  Similarity=0.331  Sum_probs=31.6

Q ss_pred             cCCceeeEEEEECCCCChHHHHHHHHhcCcCcC---CCccceeeE
Q 035301            7 EEYDYLFKVVLIGDSGVGKSNLLSRFTRNEFCL---ESKSTIGVE   48 (68)
Q Consensus         7 ~~~~~~~ki~~iG~~~vGKtsl~~~~~~~~~~~---~~~~t~~~~   48 (68)
                      ......++++++|++|+|||||++++.+..+..   .+.++++.+
T Consensus         7 ~~~~~~~~i~~~G~~g~GKTsl~~~l~~~~~~~~~~~~~~~~~~~   51 (218)
T 1nrj_B            7 KQKSYQPSIIIAGPQNSGKTSLLTLLTTDSVRPTVVSQEPLSAAD   51 (218)
T ss_dssp             ---CCCCEEEEECSTTSSHHHHHHHHHHSSCCCBCCCSSCEEETT
T ss_pred             CccCCCCEEEEECCCCCCHHHHHHHHhcCCCCCeeeecCceEEEE
Confidence            334567999999999999999999999887754   355665543

>2qag_A Septin-2, protein NEDD5; cell cycle, cell division, GTP-binding, nucleotide-binding, phosphorylation, acetylation, alternative splicing, coiled coil; HET: GDP GTP; 4.00A {Homo sapiens}

Probab=98.88  E-value=4e-09  Score=62.51  Aligned_cols=57  Identities=21%  Similarity=0.375  Sum_probs=33.0

Q ss_pred             ceeeEEEEECCCCChHHHHHHHHhcC-cCcCCCc--------cceeeEeEEEEEEECCeEEEEEEEeC
Q 035301           10 DYLFKVVLIGDSGVGKSNLLSRFTRN-EFCLESK--------STIGVEFATRTLQVTNFSSFTSLHFY   68 (68)
Q Consensus        10 ~~~~ki~~iG~~~vGKtsl~~~~~~~-~~~~~~~--------~t~~~~~~~~~~~~~~~~~~~~l~~w   68 (68)
                      ...++|+++|++|+|||||++++.+. .+...+.        +|++.++....+..++..  +.+.+|
T Consensus        35 ~~~~~I~vvG~~g~GKSTLln~L~~~~~~~~~~~~~~~~~~~~ti~~~~~~~~~~~~~~~--~~l~i~  100 (361)
T 2qag_A           35 GFEFTLMVVGESGLGKSTLINSLFLTDLYPERVIPGAAEKIERTVQIEASTVEIEERGVK--LRLTVV  100 (361)
T ss_dssp             CCEECEEECCCTTSCHHHHHHHHTTCCC---------------CEEEEEEEEC----CEE--EEEEEE
T ss_pred             CCCEEEEEEcCCCCCHHHHHHHHhCCCCCCCCcccCCCcccCCceeEEEEEEEeecCCcc--cceEEE
Confidence            45689999999999999999997653 3433332        566665544444444544  355555

>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=98.85  E-value=2.3e-09  Score=62.20  Aligned_cols=33  Identities=24%  Similarity=0.501  Sum_probs=21.9

Q ss_pred             CceeeEEEEECCCCChHHHHHHHHhcC-cCcCCC
Q 035301            9 YDYLFKVVLIGDSGVGKSNLLSRFTRN-EFCLES   41 (68)
Q Consensus         9 ~~~~~ki~~iG~~~vGKtsl~~~~~~~-~~~~~~   41 (68)
                      ....++++++|++|+|||||++++.+. .++..+
T Consensus        15 ~~~~~~I~lvG~nG~GKSTLl~~L~g~~~~~~~g   48 (301)
T 2qnr_A           15 KGFEFTLMVVGESGLGKSTLINSLFLTDLYPERV   48 (301)
T ss_dssp             ---CEEEEEEEETTSSHHHHHHHHHC--------
T ss_pred             cCCCEEEEEECCCCCCHHHHHHHHhCCCccCCCC
Confidence            345789999999999999999998875 565544

>4dhe_A Probable GTP-binding protein ENGB; melioidosis, RAS-like GTPase, cell division, cell cycle, SEP GTP-binding; 2.20A {Burkholderia thailandensis}

Probab=98.84  E-value=2.4e-09  Score=58.82  Aligned_cols=29  Identities=17%  Similarity=0.214  Sum_probs=25.7

Q ss_pred             CceeeEEEEECCCCChHHHHHHHHhcCcC
Q 035301            9 YDYLFKVVLIGDSGVGKSNLLSRFTRNEF   37 (68)
Q Consensus         9 ~~~~~ki~~iG~~~vGKtsl~~~~~~~~~   37 (68)
                      ....++|+++|+.|+|||||++++.+..+
T Consensus        26 ~~~~~~i~v~G~~~~GKSslin~l~~~~~   54 (223)
T 4dhe_A           26 PTVQPEIAFAGRSNAGKSTAINVLCNQKR   54 (223)
T ss_dssp             CCCSCEEEEEESCHHHHHHHHHHHTTCSS
T ss_pred             CCCCCEEEEEcCCCCCHHHHHHHHhCCCc
Confidence            44578999999999999999999998863

>3o47_A ADP-ribosylation factor GTPase-activating protein ribosylation factor 1; structural genomics consortium, GTPase activation; HET: GDP; 2.80A {Homo sapiens}

Probab=98.83  E-value=3.6e-09  Score=61.97  Aligned_cols=45  Identities=22%  Similarity=0.431  Sum_probs=34.7

Q ss_pred             eeeEEEEECCCCChHHHHHHHHhcCcCcCCCccceeeEeEEEEEEECC
Q 035301           11 YLFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQVTN   58 (68)
Q Consensus        11 ~~~ki~~iG~~~vGKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~   58 (68)
                      ..+||+++|+.+||||||++++.+..+... .||++..+.  .+..++
T Consensus       164 ~~~kI~ivG~~~vGKSsLl~~l~~~~~~~~-~pT~~~~~~--~~~~~~  208 (329)
T 3o47_A          164 KEMRILMVGLDAAGKTTILYKLKLGEIVTT-IPTIGFNVE--TVEYKN  208 (329)
T ss_dssp             CSEEEEEEESTTSSHHHHHHHTCSSCCEEE-EEETTEEEE--EEEETT
T ss_pred             CcceEEEECCCCccHHHHHHHHhCCCCCCc-ccccceEEE--EEecCc
Confidence            357999999999999999999999887654 378776653  344444

>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=98.83  E-value=3.1e-09  Score=60.96  Aligned_cols=33  Identities=21%  Similarity=0.357  Sum_probs=26.0

Q ss_pred             eeeEEEEECCCCChHHHHHHHHhcCcCcCCCcc
Q 035301           11 YLFKVVLIGDSGVGKSNLLSRFTRNEFCLESKS   43 (68)
Q Consensus        11 ~~~ki~~iG~~~vGKtsl~~~~~~~~~~~~~~~   43 (68)
                      ..+||+++|+++||||||++++.+..+.....|
T Consensus         2 ~~~kI~lvG~~nvGKSTL~n~L~g~~~~v~~~p   34 (272)
T 3b1v_A            2 SMTEIALIGNPNSGKTSLFNLITGHNQRVGNWP   34 (272)
T ss_dssp             -CEEEEEECCTTSSHHHHHHHHHCCCCCCCSSS
T ss_pred             CceEEEEECCCCCCHHHHHHHHHCCCCcccCCC
Confidence            358999999999999999999998764333334

>1pui_A ENGB, probable GTP-binding protein ENGB; structural genomics, nysgxrc T16, GTPase, PSI, protein structure initiative; 2.00A {Escherichia coli} SCOP: c.37.1.8

Probab=98.81  E-value=1.9e-09  Score=58.77  Aligned_cols=46  Identities=24%  Similarity=0.258  Sum_probs=26.2

Q ss_pred             eeeEEEEECCCCChHHHHHHHHhcCcCcCCCccceeeEeEEEEEEE
Q 035301           11 YLFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQV   56 (68)
Q Consensus        11 ~~~ki~~iG~~~vGKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~   56 (68)
                      ...+++++|++|+|||||++++++..+...+.++.|..+....+.+
T Consensus        25 ~~~~v~lvG~~g~GKSTLl~~l~g~~~~~~~~~~~G~~~~~~~~~~   70 (210)
T 1pui_A           25 TGIEVAFAGRSNAGKSSALNTLTNQKSLARTSKTPGRTQLINLFEV   70 (210)
T ss_dssp             CSEEEEEEECTTSSHHHHHTTTCCC-------------CCEEEEEE
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhCCCccccccCCCccceeeEEEEe
Confidence            4579999999999999999999988765555666665543333333

>2hjg_A GTP-binding protein ENGA; GTPase ENGA KH-domain, hydrolase; HET: GDP; 2.50A {Bacillus subtilis}

Probab=98.79  E-value=1.4e-08  Score=61.29  Aligned_cols=51  Identities=18%  Similarity=0.273  Sum_probs=33.7

Q ss_pred             ceeeEEEEECCCCChHHHHHHHHhcCcCc-CCCccceeeEeEEEEEEECCeE
Q 035301           10 DYLFKVVLIGDSGVGKSNLLSRFTRNEFC-LESKSTIGVEFATRTLQVTNFS   60 (68)
Q Consensus        10 ~~~~ki~~iG~~~vGKtsl~~~~~~~~~~-~~~~~t~~~~~~~~~~~~~~~~   60 (68)
                      +..+|++++|+++||||||++++.+..+. ....+....+.....+.+++..
T Consensus       173 ~~~~ki~lvG~~nvGKSSLin~l~~~~~~~~~~~~gtT~d~~~~~~~~~~~~  224 (436)
T 2hjg_A          173 EEVIQFCLIGRPNVGKSSLVNAMLGEERVIVSNVAGTTRDAVDTSFTYNQQE  224 (436)
T ss_dssp             TTCEEEEEECSTTSSHHHHHHHHHTSTTEEEC---------CCEEEEETTEE
T ss_pred             ccCcEEEEEcCCCCCHHHHHHHHhCCCceeecCCCCceeeeeEEEEEECCeE
Confidence            35689999999999999999999987763 2333444445555677777765

>2hf9_A Probable hydrogenase nickel incorporation protein HYPB; alpha and beta protein; HET: GSP; 1.90A {Methanocaldococcus jannaschii} PDB: 2hf8_A*

Probab=98.78  E-value=4.4e-09  Score=57.96  Aligned_cols=40  Identities=18%  Similarity=0.168  Sum_probs=34.1

Q ss_pred             eeeEEEEECCCCChHHHHHHHHhcCcCcCCCccceeeEeE
Q 035301           11 YLFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFA   50 (68)
Q Consensus        11 ~~~ki~~iG~~~vGKtsl~~~~~~~~~~~~~~~t~~~~~~   50 (68)
                      ..++++++|++|||||||+++++...+...+.++++.++.
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            4689999999999999999999987776666778887764

>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=98.78  E-value=1.2e-08  Score=61.63  Aligned_cols=30  Identities=27%  Similarity=0.647  Sum_probs=25.9

Q ss_pred             CceeeEEEEECCCCChHHHHHHHHhcCcCc
Q 035301            9 YDYLFKVVLIGDSGVGKSNLLSRFTRNEFC   38 (68)
Q Consensus         9 ~~~~~ki~~iG~~~vGKtsl~~~~~~~~~~   38 (68)
                      ....++++++|++|+|||||++.+++..++
T Consensus        28 ~~vsf~I~lvG~sGaGKSTLln~L~g~~~~   57 (418)
T 2qag_C           28 RGFEFTLMVVGESGLGKSTLINSLFLTDLY   57 (418)
T ss_dssp             -CCCEEEEEECCTTSSHHHHHHHHTTCCCC
T ss_pred             cCCCEEEEEECCCCCcHHHHHHHHhCCCCC
Confidence            345789999999999999999999988763

>2ged_A SR-beta, signal recognition particle receptor beta subunit; protein transport, G protein, proline isomerization, circular permutation; 2.20A {Saccharomyces cerevisiae}

Probab=98.78  E-value=5.2e-09  Score=56.26  Aligned_cols=30  Identities=23%  Similarity=0.429  Sum_probs=26.2

Q ss_pred             ceeeEEEEECCCCChHHHHHHHHhcCcCcC
Q 035301           10 DYLFKVVLIGDSGVGKSNLLSRFTRNEFCL   39 (68)
Q Consensus        10 ~~~~ki~~iG~~~vGKtsl~~~~~~~~~~~   39 (68)
                      ...++|+++|+.|||||||++++.+..+..
T Consensus        46 ~~~~~i~vvG~~g~GKSsll~~l~~~~~~~   75 (193)
T 2ged_A           46 SYQPSIIIAGPQNSGKTSLLTLLTTDSVRP   75 (193)
T ss_dssp             CCCCEEEEECCTTSSHHHHHHHHHHSSCC-
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHhcCCCCc
Confidence            457899999999999999999999887654

>1mky_A Probable GTP-binding protein ENGA; GTPase, DER, KH-domain, tandem G-domains, ligand binding protein; HET: GDP; 1.90A {Thermotoga maritima} SCOP: c.37.1.8 c.37.1.8 d.52.5.1

Probab=98.74  E-value=1.7e-08  Score=61.00  Aligned_cols=48  Identities=19%  Similarity=0.351  Sum_probs=30.1

Q ss_pred             eEEEEECCCCChHHHHHHHHhcCcCc-CCCccceeeEeEEEEEEECCeE
Q 035301           13 FKVVLIGDSGVGKSNLLSRFTRNEFC-LESKSTIGVEFATRTLQVTNFS   60 (68)
Q Consensus        13 ~ki~~iG~~~vGKtsl~~~~~~~~~~-~~~~~t~~~~~~~~~~~~~~~~   60 (68)
                      .+|+++|.++||||||++++++.... ....|.+..++....+.+++..
T Consensus         2 ~~v~ivG~pnvGKStL~nrl~~~~~~~v~~~~g~T~d~~~~~~~~~~~~   50 (439)
T 1mky_A            2 ATVLIVGRPNVGKSTLFNKLVKKKKAIVEDEEGVTRDPVQDTVEWYGKT   50 (439)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHC--------------CCSEEEEEETTEE
T ss_pred             CEEEEECCCCCCHHHHHHHHhCCCCceecCCCCCccceeeEEEEECCeE
Confidence            48999999999999999999987643 2233444455656777777765

>3def_A T7I23.11 protein; chloroplast, TOC33, GTPase, hydrolase; HET: GDP; 1.96A {Arabidopsis thaliana} PDB: 3bb3_A* 3bb4_A* 2j3e_A*

Probab=98.73  E-value=4.9e-08  Score=55.38  Aligned_cols=27  Identities=26%  Similarity=0.528  Sum_probs=24.8

Q ss_pred             eeeEEEEECCCCChHHHHHHHHhcCcC
Q 035301           11 YLFKVVLIGDSGVGKSNLLSRFTRNEF   37 (68)
Q Consensus        11 ~~~ki~~iG~~~vGKtsl~~~~~~~~~   37 (68)
                      ..++|+++|+.|+|||||++++.+..+
T Consensus        35 ~~~~I~lvG~~g~GKSSLin~l~~~~~   61 (262)
T 3def_A           35 NSMTVLVLGKGGVGKSSTVNSLIGEQV   61 (262)
T ss_dssp             CEEEEEEEECTTSSHHHHHHHHHTSCC
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhCCCC
Confidence            468999999999999999999998774

>1mky_A Probable GTP-binding protein ENGA; GTPase, DER, KH-domain, tandem G-domains, ligand binding protein; HET: GDP; 1.90A {Thermotoga maritima} SCOP: c.37.1.8 c.37.1.8 d.52.5.1

Probab=98.72  E-value=3.6e-08  Score=59.54  Aligned_cols=50  Identities=18%  Similarity=0.233  Sum_probs=32.5

Q ss_pred             eeeEEEEECCCCChHHHHHHHHhcCcCc-CCCccceeeEeEEEEEEECCeE
Q 035301           11 YLFKVVLIGDSGVGKSNLLSRFTRNEFC-LESKSTIGVEFATRTLQVTNFS   60 (68)
Q Consensus        11 ~~~ki~~iG~~~vGKtsl~~~~~~~~~~-~~~~~t~~~~~~~~~~~~~~~~   60 (68)
                      ..+|++++|++|||||||++++++..+. ....+....+.....+.+++..
T Consensus       179 ~~~kvaivG~~gvGKSTLln~l~g~~~~~v~~~~gtT~d~~~~~i~~~g~~  229 (439)
T 1mky_A          179 DAIKVAIVGRPNVGKSTLFNAILNKERALVSPIPGTTRDPVDDEVFIDGRK  229 (439)
T ss_dssp             SCEEEEEECSTTSSHHHHHHHHHTSTTEEECCCC------CCEEEEETTEE
T ss_pred             cCceEEEECCCCCCHHHHHHHHhCCcccccCCCCCCcCCceEEEEEECCEE
Confidence            4689999999999999999999987642 1222333334444566667664

>1h65_A Chloroplast outer envelope protein OEP34; GTPase, translocon; HET: GDP; 2.0A {Pisum sativum} SCOP: c.37.1.8 PDB: 3bb1_A*

Probab=98.65  E-value=2.7e-08  Score=56.61  Aligned_cols=27  Identities=22%  Similarity=0.497  Sum_probs=24.8

Q ss_pred             eeeEEEEECCCCChHHHHHHHHhcCcC
Q 035301           11 YLFKVVLIGDSGVGKSNLLSRFTRNEF   37 (68)
Q Consensus        11 ~~~ki~~iG~~~vGKtsl~~~~~~~~~   37 (68)
                      ..++|+++|+.|+|||||++++++..+
T Consensus        38 ~~~~I~vvG~~g~GKSSLin~l~~~~~   64 (270)
T 1h65_A           38 NSLTILVMGKGGVGKSSTVNSIIGERV   64 (270)
T ss_dssp             CEEEEEEEESTTSSHHHHHHHHHTSCC
T ss_pred             CCeEEEEECCCCCCHHHHHHHHhCCCc
Confidence            478999999999999999999998775

>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=98.59  E-value=9.1e-08  Score=58.04  Aligned_cols=55  Identities=16%  Similarity=0.266  Sum_probs=36.5

Q ss_pred             ceeeEEEEECCCCChHHHHHHHHhcCc-CcCCCccceeeEeEEEEEEECCeEEEEEEEeC
Q 035301           10 DYLFKVVLIGDSGVGKSNLLSRFTRNE-FCLESKSTIGVEFATRTLQVTNFSSFTSLHFY   68 (68)
Q Consensus        10 ~~~~ki~~iG~~~vGKtsl~~~~~~~~-~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~~w   68 (68)
                      ...+|++++|++++|||||++++.+.. ......++...+.....+..++..    +++|
T Consensus       193 ~~~~ki~ivG~~~vGKSslin~l~~~~~~~~~~~~gtt~~~~~~~~~~~~~~----~~l~  248 (456)
T 4dcu_A          193 EEVIQFCLIGRPNVGKSSLVNAMLGEERVIVSNVAGTTRDAVDTSFTYNQQE----FVIV  248 (456)
T ss_dssp             TTCEEEEEECSTTSSHHHHHHHHHTSTTEEECC------CTTSEEEEETTEE----EEET
T ss_pred             cccceeEEecCCCCCHHHHHHHHhCCCccccCCCCCeEEEEEEEEEEECCce----EEEE
Confidence            457899999999999999999999765 223333444555555677777764    5565

>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=98.56  E-value=8.3e-08  Score=58.82  Aligned_cols=49  Identities=16%  Similarity=0.205  Sum_probs=27.7

Q ss_pred             eeEEEEECCCCChHHHHHHHHhcCcCc-CCCccceeeEeEEEEEEECCeE
Q 035301           12 LFKVVLIGDSGVGKSNLLSRFTRNEFC-LESKSTIGVEFATRTLQVTNFS   60 (68)
Q Consensus        12 ~~ki~~iG~~~vGKtsl~~~~~~~~~~-~~~~~t~~~~~~~~~~~~~~~~   60 (68)
                      .++|+++|+++||||||++++.+.... ....+....++....+.+++..
T Consensus       233 ~~kV~ivG~~nvGKSSLln~L~~~~~a~vs~~~gtT~d~~~~~i~~~g~~  282 (476)
T 3gee_A          233 GVSTVIAGKPNAGKSTLLNTLLGQERAIVSHMPGTTRDYIEECFIHDKTM  282 (476)
T ss_dssp             CEEEEEECCTTSSHHHHHHHCC------------------CEEEEETTEE
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCCCCcccCCCCCceEEEEEEEEEECCeE
Confidence            478999999999999999999987532 2333444455555677777754

>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=98.56  E-value=4.2e-07  Score=52.76  Aligned_cols=29  Identities=31%  Similarity=0.448  Sum_probs=25.6

Q ss_pred             ceeeEEEEECCCCChHHHHHHHHhcCcCc
Q 035301           10 DYLFKVVLIGDSGVGKSNLLSRFTRNEFC   38 (68)
Q Consensus        10 ~~~~ki~~iG~~~vGKtsl~~~~~~~~~~   38 (68)
                      ....+++++|.++||||||++++++..+.
T Consensus         5 ~~~g~V~ivG~~nvGKSTLln~l~g~~~~   33 (301)
T 1wf3_A            5 TYSGFVAIVGKPNVGKSTLLNNLLGVKVA   33 (301)
T ss_dssp             CEEEEEEEECSTTSSHHHHHHHHHTSCCS
T ss_pred             ccCCEEEEECCCCCCHHHHHHHHhCCcee
Confidence            34678999999999999999999988774

>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=98.53  E-value=1.5e-07  Score=55.94  Aligned_cols=48  Identities=15%  Similarity=0.217  Sum_probs=30.0

Q ss_pred             eE-EEEECCCCChHHHHHHHHhcCcCcCCCccceeeEeEEEEEEECCeE
Q 035301           13 FK-VVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQVTNFS   60 (68)
Q Consensus        13 ~k-i~~iG~~~vGKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~   60 (68)
                      ++ ++++|++|+|||||++++.+..+.....+....+.....+.+++..
T Consensus       179 ~~~V~lvG~~naGKSTLln~L~~~~~~~~~~~~~T~d~~~~~i~~~g~~  227 (364)
T 2qtf_A          179 IPSIGIVGYTNSGKTSLFNSLTGLTQKVDTKLFTTMSPKRYAIPINNRK  227 (364)
T ss_dssp             CCEEEEECBTTSSHHHHHHHHHCC-----------CCSCEEEEEETTEE
T ss_pred             CcEEEEECCCCCCHHHHHHHHHCCCccccCCcccccCCEEEEEEECCEE
Confidence            44 9999999999999999999877643222222234555677777754

>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=98.52  E-value=3.9e-08  Score=60.08  Aligned_cols=49  Identities=22%  Similarity=0.371  Sum_probs=34.3

Q ss_pred             eeEEEEECCCCChHHHHHHHHhcCcCc-CCCccceeeEeEEEEEEECCeE
Q 035301           12 LFKVVLIGDSGVGKSNLLSRFTRNEFC-LESKSTIGVEFATRTLQVTNFS   60 (68)
Q Consensus        12 ~~ki~~iG~~~vGKtsl~~~~~~~~~~-~~~~~t~~~~~~~~~~~~~~~~   60 (68)
                      .++++++|++++|||||++++.+..+. ....++...++....+.+++..
T Consensus       224 ~~kV~ivG~~nvGKSSLln~L~~~~~a~v~~~~gtT~d~~~~~i~~~g~~  273 (462)
T 3geh_A          224 GLKVAIVGRPNVGKSSLLNAWSQSDRAIVTDLPGTTRDVVESQLVVGGIP  273 (462)
T ss_dssp             CEEEEEEECTTSSHHHHHHHHHHHHBSCCSCCTTCCHHHHHHEEEETTEE
T ss_pred             CCEEEEEcCCCCCHHHHHHHHhCCCcccccCCCCeeEEEEEEEEEECCEE
Confidence            578999999999999999999986543 2233444444444555666654

>3qq5_A Small GTP-binding protein; hydrogenase, H-cluster, HYDA maturation, GTP-binding domain, maturation enzyme, oxidoreductase; 2.99A {Thermotoga neapolitana}

Probab=98.51  E-value=2.7e-08  Score=60.24  Aligned_cols=52  Identities=12%  Similarity=0.274  Sum_probs=31.3

Q ss_pred             CCceeeEEEEECCCCChHHHHHHHHhcCcCc-CCCccceeeEeEEEEEEECCe
Q 035301            8 EYDYLFKVVLIGDSGVGKSNLLSRFTRNEFC-LESKSTIGVEFATRTLQVTNF   59 (68)
Q Consensus         8 ~~~~~~ki~~iG~~~vGKtsl~~~~~~~~~~-~~~~~t~~~~~~~~~~~~~~~   59 (68)
                      .....++|+++|+.++|||||++++.+..+. .+..+....+...+.+.+++.
T Consensus        30 ~~~~~~kI~IvG~~~vGKSTLin~L~~~~~~~~~~~~gtT~d~~~~~~~~~~~   82 (423)
T 3qq5_A           30 DAGFRRYIVVAGRRNVGKSSFMNALVGQNVSIVSDYAGTTTDPVYKSMELHPI   82 (423)
T ss_dssp             --CCCEEEEEECSCSTTTTTTTTSSCC-------------CCCCEEEEEETTT
T ss_pred             CCCCCEEEEEECCCCCCHHHHHHHHHcCCCCccCCCCCeeeeeEEEEEEECCC
Confidence            3456789999999999999999999988763 222333334455566676665

>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=98.49  E-value=7.5e-07  Score=51.72  Aligned_cols=32  Identities=25%  Similarity=0.335  Sum_probs=27.2

Q ss_pred             cCCceeeEEEEECCCCChHHHHHHHHhcCcCc
Q 035301            7 EEYDYLFKVVLIGDSGVGKSNLLSRFTRNEFC   38 (68)
Q Consensus         7 ~~~~~~~ki~~iG~~~vGKtsl~~~~~~~~~~   38 (68)
                      +.+...-.++++|.++||||||++++.+..+.
T Consensus         5 ~~~~~~g~v~ivG~~nvGKSTLin~l~g~~~~   36 (308)
T 3iev_A            5 HHHMKVGYVAIVGKPNVGKSTLLNNLLGTKVS   36 (308)
T ss_dssp             --CCEEEEEEEECSTTSSHHHHHHHHHTSCCS
T ss_pred             CCCCCCCEEEEECCCCCcHHHHHHHHhCCCcc
Confidence            45567889999999999999999999998765

>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=98.46  E-value=5.4e-08  Score=59.03  Aligned_cols=43  Identities=23%  Similarity=0.281  Sum_probs=26.3

Q ss_pred             eeEEEEECCCCChHHHHHHHHhcCcCcCCCccceeeEeEEEEEE
Q 035301           12 LFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQ   55 (68)
Q Consensus        12 ~~ki~~iG~~~vGKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~   55 (68)
                      ..+|+++|.+|||||||++++.+..+. ....+.|.........
T Consensus        23 ~~~V~lvG~~nvGKSTL~n~l~~~~~~-~v~~~~g~t~~~~~~~   65 (456)
T 4dcu_A           23 KPVVAIVGRPNVGKSTIFNRIAGERIS-IVEDTPGVTRDRIYSS   65 (456)
T ss_dssp             CCEEEEECSSSSSHHHHHHHHEEEEEC------------CEEEE
T ss_pred             CCEEEEECCCCCcHHHHHHHHhCCCCc-ccCCCCCcceeEEEEE
Confidence            579999999999999999999987764 2233445444333333

>2e87_A Hypothetical protein PH1320; GTP-binding, GTPase, OBG, bundle, GDP, complex, structural G NPPSFA; HET: GDP; 2.35A {Pyrococcus horikoshii}

Probab=98.41  E-value=5.7e-07  Score=53.04  Aligned_cols=28  Identities=36%  Similarity=0.404  Sum_probs=24.8

Q ss_pred             ceeeEEEEECCCCChHHHHHHHHhcCcC
Q 035301           10 DYLFKVVLIGDSGVGKSNLLSRFTRNEF   37 (68)
Q Consensus        10 ~~~~ki~~iG~~~vGKtsl~~~~~~~~~   37 (68)
                      ...++++++|.+|||||||++++++..+
T Consensus       165 ~~~~~v~lvG~~gvGKSTLin~L~~~~~  192 (357)
T 2e87_A          165 LEIPTVVIAGHPNVGKSTLLKALTTAKP  192 (357)
T ss_dssp             SSSCEEEEECSTTSSHHHHHHHHCSSCC
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHhCCCC
Confidence            3467999999999999999999998764

>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=98.40  E-value=7.8e-08  Score=59.03  Aligned_cols=49  Identities=18%  Similarity=0.365  Sum_probs=35.9

Q ss_pred             eeEEEEECCCCChHHHHHHHHhcCcCc-CCCccceeeEeEEEEEEECCeE
Q 035301           12 LFKVVLIGDSGVGKSNLLSRFTRNEFC-LESKSTIGVEFATRTLQVTNFS   60 (68)
Q Consensus        12 ~~ki~~iG~~~vGKtsl~~~~~~~~~~-~~~~~t~~~~~~~~~~~~~~~~   60 (68)
                      .++|+++|.++||||||++++.+..+. ....+....++....+.+++..
T Consensus       243 ~~kV~ivG~pnvGKSSLln~L~~~~~a~vs~~~gTT~d~~~~~i~~~g~~  292 (482)
T 1xzp_A          243 GLRMVIVGKPNVGKSTLLNRLLNEDRAIVTDIPGTTRDVISEEIVIRGIL  292 (482)
T ss_dssp             CEEEEEECCHHHHTCHHHHHHHHHTBCCCCCSSCCSSCSCCEEEEETTEE
T ss_pred             CCEEEEECcCCCcHHHHHHHHHCCCCCccCCCCCeeeeeEEEEEecCCeE
Confidence            379999999999999999999987542 2223433445656777777765

>2hjg_A GTP-binding protein ENGA; GTPase ENGA KH-domain, hydrolase; HET: GDP; 2.50A {Bacillus subtilis}

Probab=98.40  E-value=1.1e-07  Score=57.37  Aligned_cols=34  Identities=29%  Similarity=0.474  Sum_probs=23.7

Q ss_pred             eEEEEECCCCChHHHHHHHHhcCcCcCCCccceee
Q 035301           13 FKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGV   47 (68)
Q Consensus        13 ~ki~~iG~~~vGKtsl~~~~~~~~~~~~~~~t~~~   47 (68)
                      ++|+++|.++||||||++++++..+. ...++.|.
T Consensus         4 ~~V~ivG~~nvGKStL~n~l~~~~~~-~v~~~~g~   37 (436)
T 2hjg_A            4 PVVAIVGRPNVGKSTIFNRIAGERIS-IVEDTPGV   37 (436)
T ss_dssp             CEEEEECSTTSSHHHHHHHHEEEECC---------
T ss_pred             CEEEEECCCCCCHHHHHHHHhCCCce-eecCCCCC
Confidence            68999999999999999999987653 23344444

>3sop_A Neuronal-specific septin-3; hydrolase; HET: GDP; 2.88A {Homo sapiens}

Probab=98.39  E-value=1.3e-07  Score=54.16  Aligned_cols=29  Identities=28%  Similarity=0.630  Sum_probs=23.5

Q ss_pred             eeEEEEECCCCChHHHHHHHHhcCcCcCC
Q 035301           12 LFKVVLIGDSGVGKSNLLSRFTRNEFCLE   40 (68)
Q Consensus        12 ~~ki~~iG~~~vGKtsl~~~~~~~~~~~~   40 (68)
                      .|+++++|++|+|||||++.+++...+..
T Consensus         2 ~f~v~lvG~nGaGKSTLln~L~g~~~~~~   30 (270)
T 3sop_A            2 DFNIMVVGQSGLGKSTLVNTLFKSQVSRK   30 (270)
T ss_dssp             EEEEEEEESSSSSHHHHHHHHHHHHC---
T ss_pred             eeEEEEECCCCCCHHHHHHHHhCCCCCCC
Confidence            58999999999999999999998655443

>2aka_B Dynamin-1; fusion protein, GTPase domain, myosin, contractIle protein; 1.90A {Rattus norvegicus} SCOP: c.37.1.8 PDB: 3l43_A*

Probab=98.35  E-value=3.3e-07  Score=52.30  Aligned_cols=29  Identities=28%  Similarity=0.508  Sum_probs=26.0

Q ss_pred             ceeeEEEEECCCCChHHHHHHHHhcCcCc
Q 035301           10 DYLFKVVLIGDSGVGKSNLLSRFTRNEFC   38 (68)
Q Consensus        10 ~~~~ki~~iG~~~vGKtsl~~~~~~~~~~   38 (68)
                      ...++|+++|++++|||||++++.+..+.
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            45689999999999999999999998873

>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=98.31  E-value=3.1e-07  Score=54.82  Aligned_cols=25  Identities=36%  Similarity=0.607  Sum_probs=22.6

Q ss_pred             eEEEEECCCCChHHHHHHHHhcCcC
Q 035301           13 FKVVLIGDSGVGKSNLLSRFTRNEF   37 (68)
Q Consensus        13 ~ki~~iG~~~vGKtsl~~~~~~~~~   37 (68)
                      ++++++|.++||||||++++.+..+
T Consensus         3 ~kI~IVG~pnvGKSTL~n~Lt~~~~   27 (363)
T 1jal_A            3 FKCGIVGLPNVGKSTLFNALTKAGI   27 (363)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHTC-
T ss_pred             CEEEEECCCCCCHHHHHHHHHCCCC
Confidence            6899999999999999999998664

>2ohf_A Protein OLA1, GTP-binding protein 9; ATPase, GTPase, P-loop, OBG-like, hydrolase; HET: ACP; 2.70A {Homo sapiens}

Probab=98.30  E-value=6.2e-07  Score=54.03  Aligned_cols=48  Identities=19%  Similarity=0.271  Sum_probs=26.6

Q ss_pred             eeeEEEEECCCCChHHHHHHHHhcCcCcCCCccceeeEeEEEEEEECC
Q 035301           11 YLFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQVTN   58 (68)
Q Consensus        11 ~~~ki~~iG~~~vGKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~   58 (68)
                      ..+++.++|.++||||||++++.+..+.....|....+.....+.+++
T Consensus        21 ~~~kvgIVG~pnvGKSTL~n~Ltg~~~~~~~~p~tTi~p~~g~v~v~~   68 (396)
T 2ohf_A           21 TSLKIGIVGLPNVGKSTFFNVLTNSQASAENFPFCTIDPNESRVPVPD   68 (396)
T ss_dssp             SCCCEEEECCSSSSHHHHHHHHHC-------------CCSEEEEECCC
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHCCCccccCCCccccCceeEEEEECC
Confidence            357999999999999999999998765433333322233333444443

>3j2k_7 ERF3, eukaryotic polypeptide chain release factor 3; rabbit 80S ribosome, ribosome-translation complex; 17.00A {Oryctolagus cuniculus}

Probab=98.25  E-value=4.6e-06  Score=50.57  Aligned_cols=26  Identities=27%  Similarity=0.323  Sum_probs=22.7

Q ss_pred             CceeeEEEEECCCCChHHHHHHHHhc
Q 035301            9 YDYLFKVVLIGDSGVGKSNLLSRFTR   34 (68)
Q Consensus         9 ~~~~~ki~~iG~~~vGKtsl~~~~~~   34 (68)
                      ....++++++|..++|||||++++..
T Consensus        14 ~k~~~~i~iiG~~d~GKSTL~~~Ll~   39 (439)
T 3j2k_7           14 KKEHVNVVFIGHVDAGKSTIGGQIMY   39 (439)
T ss_pred             CCceeEEEEEeCCCCCHHHHHHHHHH
Confidence            34578999999999999999999954

>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=98.24  E-value=1.1e-06  Score=51.75  Aligned_cols=28  Identities=25%  Similarity=0.477  Sum_probs=25.0

Q ss_pred             eeeEEEEECCCCChHHHHHHHHhcCcCc
Q 035301           11 YLFKVVLIGDSGVGKSNLLSRFTRNEFC   38 (68)
Q Consensus        11 ~~~ki~~iG~~~vGKtsl~~~~~~~~~~   38 (68)
                      ...+|+++|++|+|||||++++.+..|.
T Consensus        33 ~lp~I~vvG~~~sGKSSLln~l~g~~~l   60 (360)
T 3t34_A           33 SLPAIAVVGGQSSGKSSVLESIVGKDFL   60 (360)
T ss_dssp             CCCEEEEECBTTSSHHHHHHHHHTSCCS
T ss_pred             cCCEEEEECCCCCcHHHHHHHHhCCCcC
Confidence            3559999999999999999999998774

>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=98.23  E-value=2.5e-06  Score=51.26  Aligned_cols=24  Identities=29%  Similarity=0.493  Sum_probs=20.9

Q ss_pred             eEEEEECCCCChHHHHHHHHhcCc
Q 035301           13 FKVVLIGDSGVGKSNLLSRFTRNE   36 (68)
Q Consensus        13 ~ki~~iG~~~vGKtsl~~~~~~~~   36 (68)
                      +||+++|.++||||||++++.+..
T Consensus         1 ~kI~ivG~pnvGKSTL~n~L~~~~   24 (397)
T 1wxq_A            1 MEIGVVGKPNVGKSTFFSAATLVD   24 (397)
T ss_dssp             CEEEEEECTTSSHHHHHHHHHC--
T ss_pred             CEEEEECCCCCCHHHHHHHHHCCC
Confidence            589999999999999999999876

>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=98.23  E-value=8.3e-07  Score=52.48  Aligned_cols=25  Identities=40%  Similarity=0.413  Sum_probs=22.0

Q ss_pred             eEEEEECCCCChHHHHHHHHhcCcC
Q 035301           13 FKVVLIGDSGVGKSNLLSRFTRNEF   37 (68)
Q Consensus        13 ~ki~~iG~~~vGKtsl~~~~~~~~~   37 (68)
                      .+|+++|.++||||||++++.+...
T Consensus       159 a~V~lvG~~nvGKSTLln~L~~~~~  183 (342)
T 1lnz_A          159 ADVGLVGFPSVGKSTLLSVVSSAKP  183 (342)
T ss_dssp             CCEEEESSTTSSHHHHHHHSEEECC
T ss_pred             CeeeeeCCCCCCHHHHHHHHHcCCC
Confidence            4688999999999999999997653

>3izy_P Translation initiation factor IF-2, mitochondrial; E coli, RNA, ribosomal; 10.80A {Bos taurus}

Probab=98.22  E-value=2.9e-08  Score=61.61  Aligned_cols=46  Identities=15%  Similarity=0.239  Sum_probs=33.8

Q ss_pred             eeeEEEEECCCCChHHHHHHHHhcCcCcCCCccceeeEeEEEEEEE
Q 035301           11 YLFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQV   56 (68)
Q Consensus        11 ~~~ki~~iG~~~vGKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~   56 (68)
                      ..++++++|..++|||||++++.+..+.....+++..++....+..
T Consensus         3 r~pkV~IvG~~~vGKTSLl~~L~~~~~~~~~~~giT~~i~~~~v~~   48 (537)
T 3izy_P            3 RSPVVTIMGHVDHGKTTLLDKLRKTQVAAMEAGGITQHIGAFLVSL   48 (537)
T ss_dssp             CCCBCEEEESTTTTHHHHHHHHHHHHHHHSSSCCBCCCTTSCCBCS
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCCcccccCCceeEEEeEEEEEe
Confidence            3578999999999999999999987776555565555443333333

>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=98.20  E-value=1.1e-06  Score=47.57  Aligned_cols=23  Identities=30%  Similarity=0.733  Sum_probs=20.5

Q ss_pred             EEEEECCCCChHHHHHHHHhcCc
Q 035301           14 KVVLIGDSGVGKSNLLSRFTRNE   36 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~~~   36 (68)
                      +++++|++|+|||||++.+++..
T Consensus         2 ~i~l~G~nGsGKTTLl~~l~g~l   24 (178)
T 1ye8_A            2 KIIITGEPGVGKTTLVKKIVERL   24 (178)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHh
Confidence            68999999999999999988643

>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=98.19  E-value=2.4e-06  Score=51.45  Aligned_cols=26  Identities=27%  Similarity=0.456  Sum_probs=23.6

Q ss_pred             eeEEEEECCCCChHHHHHHHHhcCcC
Q 035301           12 LFKVVLIGDSGVGKSNLLSRFTRNEF   37 (68)
Q Consensus        12 ~~ki~~iG~~~vGKtsl~~~~~~~~~   37 (68)
                      ..++.++|.+|+|||||++.+.+...
T Consensus        20 g~~vgiVG~pnaGKSTL~n~Ltg~~~   45 (392)
T 1ni3_A           20 NLKTGIVGMPNVGKSTFFRAITKSVL   45 (392)
T ss_dssp             CCEEEEEECSSSSHHHHHHHHHHSTT
T ss_pred             CCEEEEECCCCCCHHHHHHHHHCCCc
Confidence            56999999999999999999998665

>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=98.17  E-value=7.1e-06  Score=47.50  Aligned_cols=28  Identities=29%  Similarity=0.527  Sum_probs=24.6

Q ss_pred             eeeEEEEECCCCChHHHHHHHHhcCcCc
Q 035301           11 YLFKVVLIGDSGVGKSNLLSRFTRNEFC   38 (68)
Q Consensus        11 ~~~ki~~iG~~~vGKtsl~~~~~~~~~~   38 (68)
                      ...+++++|.+|+|||||++++++..+.
T Consensus         7 r~~~VaIvG~~nvGKSTLln~L~g~~~~   34 (301)
T 1ega_A            7 YCGFIAIVGRPNVGKSTLLNKLLGQKIS   34 (301)
T ss_dssp             EEEEEEEECSSSSSHHHHHHHHHTCSEE
T ss_pred             cCCEEEEECCCCCCHHHHHHHHHCCCcc
Confidence            4568999999999999999999987753

>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=98.13  E-value=1.3e-05  Score=48.08  Aligned_cols=45  Identities=18%  Similarity=0.279  Sum_probs=29.5

Q ss_pred             ceeeEEEEECCCCChHHHHHHHHhcC---cCcCCCcc--ceeeEeEEEEE
Q 035301           10 DYLFKVVLIGDSGVGKSNLLSRFTRN---EFCLESKS--TIGVEFATRTL   54 (68)
Q Consensus        10 ~~~~ki~~iG~~~vGKtsl~~~~~~~---~~~~~~~~--t~~~~~~~~~~   54 (68)
                      ...++++++|..++|||||++++.+.   .+.++..+  |+...|....+
T Consensus         6 ~~~~~I~iiG~~d~GKSTLi~~L~g~~~~~~~~e~~~giTi~~~~~~~~~   55 (408)
T 1s0u_A            6 QAEVNIGMVGHVDHGKTSLTKALTGVWTDRHSEELRRGISIRLGYADCEI   55 (408)
T ss_dssp             CCCEEEEEESCTTSSHHHHHHHHHSCCCCC-------CCCCCCEEEEEEE
T ss_pred             CCceEEEEEcCCCCCHHHHHHHHhCCccccCcccccCCcEEEeccccccc
Confidence            45689999999999999999999843   34444444  67666654443

>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=98.13  E-value=1.6e-06  Score=48.73  Aligned_cols=26  Identities=31%  Similarity=0.330  Sum_probs=22.3

Q ss_pred             EEEEECCCCChHHHHHHHHhcCcCcC
Q 035301           14 KVVLIGDSGVGKSNLLSRFTRNEFCL   39 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~~~~~~   39 (68)
                      .+.++|++|+|||||++.+++...+.
T Consensus        33 ~~~iiG~nGsGKSTLl~~l~Gl~~p~   58 (235)
T 3tif_A           33 FVSIMGPSGSGKSTMLNIIGCLDKPT   58 (235)
T ss_dssp             EEEEECSTTSSHHHHHHHHTTSSCCS
T ss_pred             EEEEECCCCCcHHHHHHHHhcCCCCC
Confidence            57899999999999999999865443

>1kgd_A CASK, peripheral plasma membrane CASK; maguk, guanylate kinase like domain, protein binding; 1.31A {Homo sapiens} SCOP: c.37.1.1

Probab=98.13  E-value=1.7e-06  Score=46.51  Aligned_cols=22  Identities=27%  Similarity=0.635  Sum_probs=19.8

Q ss_pred             EEEEECCCCChHHHHHHHHhcC
Q 035301           14 KVVLIGDSGVGKSNLLSRFTRN   35 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~~   35 (68)
                      .++++|++|+|||||++.+.+.
T Consensus         7 ~i~i~GpsGsGKSTL~~~L~~~   28 (180)
T 1kgd_A            7 TLVLLGAHGVGRRHIKNTLITK   28 (180)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHhh
Confidence            5889999999999999999863

>3cnl_A YLQF, putative uncharacterized protein; circular permutation, GNP, signaling protein; HET: GNP; 2.00A {Thermotoga maritima} PDB: 3cnn_A* 3cno_A*

Probab=98.13  E-value=2.6e-06  Score=48.65  Aligned_cols=26  Identities=19%  Similarity=0.485  Sum_probs=23.0

Q ss_pred             eEEEEECCCCChHHHHHHHHhcCcCc
Q 035301           13 FKVVLIGDSGVGKSNLLSRFTRNEFC   38 (68)
Q Consensus        13 ~ki~~iG~~~vGKtsl~~~~~~~~~~   38 (68)
                      ++++++|.+|||||||++++.+....
T Consensus       100 ~~v~~vG~~~vGKSslin~l~~~~~~  125 (262)
T 3cnl_A          100 ARVLIVGVPNTGKSTIINKLKGKRAS  125 (262)
T ss_dssp             CEEEEEESTTSSHHHHHHHHHTTCC-
T ss_pred             hheEEeCCCCCCHHHHHHHHhccccc
Confidence            69999999999999999999987653

>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=98.12  E-value=2e-06  Score=49.50  Aligned_cols=28  Identities=29%  Similarity=0.503  Sum_probs=25.3

Q ss_pred             ceeeEEEEECCCCChHHHHHHHHhcCcC
Q 035301           10 DYLFKVVLIGDSGVGKSNLLSRFTRNEF   37 (68)
Q Consensus        10 ~~~~ki~~iG~~~vGKtsl~~~~~~~~~   37 (68)
                      ...++|+++|+.++|||||++++++..+
T Consensus        22 ~~~~~I~vvG~~~~GKSTlln~l~g~~~   49 (315)
T 1jwy_B           22 LDLPQIVVVGSQSSGKSSVLENIVGRDF   49 (315)
T ss_dssp             TCCCEEEEEECSSSSHHHHHHHHHTSCC
T ss_pred             CCCCeEEEEcCCCCCHHHHHHHHHCCCc
Confidence            4567999999999999999999998876

>1lvg_A Guanylate kinase, GMP kinase; transferase; HET: ADP 5GP; 2.10A {Mus musculus} SCOP: c.37.1.1

Probab=98.10  E-value=2e-06  Score=47.03  Aligned_cols=21  Identities=52%  Similarity=0.759  Sum_probs=19.5

Q ss_pred             EEEEECCCCChHHHHHHHHhc
Q 035301           14 KVVLIGDSGVGKSNLLSRFTR   34 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~   34 (68)
                      .++++|++|+|||||++.+.+
T Consensus         6 ~i~lvGpsGaGKSTLl~~L~~   26 (198)
T 1lvg_A            6 PVVLSGPSGAGKSTLLKKLFQ   26 (198)
T ss_dssp             CEEEECCTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHh
Confidence            689999999999999999886

>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=98.10  E-value=3.6e-06  Score=47.47  Aligned_cols=29  Identities=28%  Similarity=0.305  Sum_probs=24.0

Q ss_pred             EEEEECCCCChHHHHHHHHhcCcCcCCCc
Q 035301           14 KVVLIGDSGVGKSNLLSRFTRNEFCLESK   42 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~~~~~~~~~   42 (68)
                      .+.++|++|+|||||++.+++...+.++.
T Consensus        30 ~~~i~G~nGsGKSTLl~~l~Gl~~p~~G~   58 (243)
T 1mv5_A           30 IIAFAGPSGGGKSTIFSLLERFYQPTAGE   58 (243)
T ss_dssp             EEEEECCTTSSHHHHHHHHTTSSCCSBSC
T ss_pred             EEEEECCCCCCHHHHHHHHhcCCCCCCcE
Confidence            68899999999999999999876554443

>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=98.10  E-value=9.3e-06  Score=49.82  Aligned_cols=26  Identities=19%  Similarity=0.210  Sum_probs=23.7

Q ss_pred             eeeEEEEECCCCChHHHHHHHHhcCc
Q 035301           11 YLFKVVLIGDSGVGKSNLLSRFTRNE   36 (68)
Q Consensus        11 ~~~ki~~iG~~~vGKtsl~~~~~~~~   36 (68)
                      ..++++++|..++|||||++++.+..
T Consensus        18 ~~~~I~iiG~~d~GKSTLi~~L~~~~   43 (482)
T 1wb1_A           18 KNINLGIFGHIDHGKTTLSKVLTEIA   43 (482)
T ss_dssp             EEEEEEEEECTTSSHHHHHHHHHTTC
T ss_pred             CCCEEEEECCCCChHHHHHHHHHCCC
Confidence            36899999999999999999999766

>2wsm_A Hydrogenase expression/formation protein (HYPB); metal binding protein; 2.30A {Archaeoglobus fulgidus}

Probab=98.09  E-value=1.7e-06  Score=47.39  Aligned_cols=26  Identities=27%  Similarity=0.337  Sum_probs=22.8

Q ss_pred             eeeEEEEECCCCChHHHHHHHHhcCc
Q 035301           11 YLFKVVLIGDSGVGKSNLLSRFTRNE   36 (68)
Q Consensus        11 ~~~ki~~iG~~~vGKtsl~~~~~~~~   36 (68)
                      ...+++++|..|+|||||+++++...
T Consensus        29 ~~~~i~i~G~~g~GKTTl~~~l~~~~   54 (221)
T 2wsm_A           29 GTVAVNIMGAIGSGKTLLIERTIERI   54 (221)
T ss_dssp             TCEEEEEEECTTSCHHHHHHHHHHHH
T ss_pred             CceEEEEEcCCCCCHHHHHHHHHHHh
Confidence            35799999999999999999998653

>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=98.09  E-value=1.5e-06  Score=51.18  Aligned_cols=28  Identities=29%  Similarity=0.573  Sum_probs=25.3

Q ss_pred             eeeEEEEECCCCChHHHHHHHHhcCcCc
Q 035301           11 YLFKVVLIGDSGVGKSNLLSRFTRNEFC   38 (68)
Q Consensus        11 ~~~ki~~iG~~~vGKtsl~~~~~~~~~~   38 (68)
                      ..++|+++|++++|||||++++.+..+.
T Consensus        30 ~~~~I~vvG~~~~GKSSLln~L~g~~~~   57 (353)
T 2x2e_A           30 DLPQIAVVGGQSAGKSSVLENFVGRDFL   57 (353)
T ss_dssp             CCCEEEEECBTTSSHHHHHHTTTTSCCS
T ss_pred             CCCeEEEECCCCCCHHHHHHHHhCCCcC
Confidence            4579999999999999999999998873

>2onk_A Molybdate/tungstate ABC transporter, ATP-binding protein; membrane protein; 3.10A {Archaeoglobus fulgidus} SCOP: c.37.1.12

Probab=98.08  E-value=2.5e-06  Score=48.21  Aligned_cols=26  Identities=31%  Similarity=0.277  Sum_probs=22.2

Q ss_pred             EEEEECCCCChHHHHHHHHhcCcCcC
Q 035301           14 KVVLIGDSGVGKSNLLSRFTRNEFCL   39 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~~~~~~   39 (68)
                      .+.++|++|+|||||++.+++...+.
T Consensus        26 ~~~liG~nGsGKSTLl~~l~Gl~~p~   51 (240)
T 2onk_A           26 YCVLLGPTGAGKSVFLELIAGIVKPD   51 (240)
T ss_dssp             EEEEECCTTSSHHHHHHHHHTSSCCS
T ss_pred             EEEEECCCCCCHHHHHHHHhCCCCCC
Confidence            57899999999999999999865443

>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=98.08  E-value=3.4e-06  Score=48.30  Aligned_cols=28  Identities=36%  Similarity=0.389  Sum_probs=23.5

Q ss_pred             EEEEECCCCChHHHHHHHHhcCcCcCCC
Q 035301           14 KVVLIGDSGVGKSNLLSRFTRNEFCLES   41 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~~~~~~~~   41 (68)
                      .+.++|++|+|||||++.+++...+..+
T Consensus        39 ~~~liG~nGsGKSTLl~~l~Gl~~p~~G   66 (266)
T 4g1u_C           39 MVAIIGPNGAGKSTLLRLLTGYLSPSHG   66 (266)
T ss_dssp             EEEEECCTTSCHHHHHHHHTSSSCCSSC
T ss_pred             EEEEECCCCCcHHHHHHHHhcCCCCCCc
Confidence            5789999999999999999987655444

>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=98.08  E-value=2.3e-06  Score=46.88  Aligned_cols=23  Identities=39%  Similarity=0.476  Sum_probs=20.2

Q ss_pred             EEEEECCCCChHHHHHHHHhcCc
Q 035301           14 KVVLIGDSGVGKSNLLSRFTRNE   36 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~~~   36 (68)
                      -+.++|++|+|||||++.+++..
T Consensus        22 i~~l~GpnGsGKSTLl~~l~gl~   44 (207)
T 1znw_A           22 VVVLSGPSAVGKSTVVRCLRERI   44 (207)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHHhhC
Confidence            57899999999999999998643

>2pcj_A ABC transporter, lipoprotein-releasing system ATP-binding protein; structural genomics; 1.70A {Aquifex aeolicus} PDB: 2pcl_A

Probab=98.08  E-value=2.1e-06  Score=47.98  Aligned_cols=26  Identities=38%  Similarity=0.359  Sum_probs=22.1

Q ss_pred             EEEEECCCCChHHHHHHHHhcCcCcC
Q 035301           14 KVVLIGDSGVGKSNLLSRFTRNEFCL   39 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~~~~~~   39 (68)
                      .+.++|++|+|||||++.+++...+.
T Consensus        32 ~~~iiG~nGsGKSTLl~~l~Gl~~p~   57 (224)
T 2pcj_A           32 FVSIIGASGSGKSTLLYILGLLDAPT   57 (224)
T ss_dssp             EEEEEECTTSCHHHHHHHHTTSSCCS
T ss_pred             EEEEECCCCCCHHHHHHHHhcCCCCC
Confidence            57899999999999999999865443

>1b0u_A Histidine permease; ABC transporter, transport protein; HET: ATP; 1.50A {Salmonella typhimurium} SCOP: c.37.1.12

Probab=98.08  E-value=2.4e-06  Score=48.74  Aligned_cols=26  Identities=35%  Similarity=0.368  Sum_probs=22.2

Q ss_pred             EEEEECCCCChHHHHHHHHhcCcCcC
Q 035301           14 KVVLIGDSGVGKSNLLSRFTRNEFCL   39 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~~~~~~   39 (68)
                      .+.++|++|+|||||++.+++...+.
T Consensus        34 ~~~liG~nGsGKSTLlk~l~Gl~~p~   59 (262)
T 1b0u_A           34 VISIIGSSGSGKSTFLRCINFLEKPS   59 (262)
T ss_dssp             EEEEECCTTSSHHHHHHHHTTSSCCS
T ss_pred             EEEEECCCCCCHHHHHHHHhcCCCCC
Confidence            57899999999999999999865443

>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=98.08  E-value=2.8e-06  Score=45.34  Aligned_cols=28  Identities=29%  Similarity=0.356  Sum_probs=22.9

Q ss_pred             EEEEECCCCChHHHHHHHHhcCcCcCCCc
Q 035301           14 KVVLIGDSGVGKSNLLSRFTRNEFCLESK   42 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~~~~~~~~~   42 (68)
                      .+.++|++|+|||||++.+++.. +....
T Consensus        35 ~v~L~G~nGaGKTTLlr~l~g~l-~~~G~   62 (158)
T 1htw_A           35 MVYLNGDLGAGKTTLTRGMLQGI-GHQGN   62 (158)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHT-TCCSC
T ss_pred             EEEEECCCCCCHHHHHHHHHHhC-CCCCe
Confidence            57899999999999999998765 44443

>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=98.07  E-value=2.5e-06  Score=47.57  Aligned_cols=23  Identities=26%  Similarity=0.486  Sum_probs=20.5

Q ss_pred             EEEEECCCCChHHHHHHHHhcCc
Q 035301           14 KVVLIGDSGVGKSNLLSRFTRNE   36 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~~~   36 (68)
                      -++++|++|+|||||++.+++..
T Consensus        18 ii~l~GpsGsGKSTLlk~L~g~~   40 (219)
T 1s96_A           18 LYIVSAPSGAGKSSLIQALLKTQ   40 (219)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHhccC
Confidence            68899999999999999998743

>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=98.06  E-value=2.9e-06  Score=48.03  Aligned_cols=26  Identities=31%  Similarity=0.337  Sum_probs=22.4

Q ss_pred             EEEEECCCCChHHHHHHHHhcCcCcC
Q 035301           14 KVVLIGDSGVGKSNLLSRFTRNEFCL   39 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~~~~~~   39 (68)
                      .+.++|++|+|||||++.+++...+.
T Consensus        37 ~~~i~G~nGsGKSTLl~~l~Gl~~p~   62 (247)
T 2ff7_A           37 VIGIVGRSGSGKSTLTKLIQRFYIPE   62 (247)
T ss_dssp             EEEEECSTTSSHHHHHHHHTTSSCCS
T ss_pred             EEEEECCCCCCHHHHHHHHhcCCCCC
Confidence            67899999999999999999865443

>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=98.06  E-value=2.7e-06  Score=48.35  Aligned_cols=26  Identities=31%  Similarity=0.351  Sum_probs=22.3

Q ss_pred             EEEEECCCCChHHHHHHHHhcCcCcC
Q 035301           14 KVVLIGDSGVGKSNLLSRFTRNEFCL   39 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~~~~~~   39 (68)
                      .+.++|++|+|||||++.+++...+.
T Consensus        35 ~~~liG~nGsGKSTLlk~l~Gl~~p~   60 (257)
T 1g6h_A           35 VTLIIGPNGSGKSTLINVITGFLKAD   60 (257)
T ss_dssp             EEEEECSTTSSHHHHHHHHTTSSCCS
T ss_pred             EEEEECCCCCCHHHHHHHHhCCCCCC
Confidence            57899999999999999999865443

>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=98.05  E-value=2.8e-06  Score=48.89  Aligned_cols=25  Identities=32%  Similarity=0.469  Sum_probs=21.8

Q ss_pred             EEEEECCCCChHHHHHHHHhcCcCc
Q 035301           14 KVVLIGDSGVGKSNLLSRFTRNEFC   38 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~~~~~   38 (68)
                      .+.++|++|+|||||++.+++...+
T Consensus        36 ~~~iiGpnGsGKSTLl~~l~Gl~~p   60 (275)
T 3gfo_A           36 VTAILGGNGVGKSTLFQNFNGILKP   60 (275)
T ss_dssp             EEEEECCTTSSHHHHHHHHTTSSCC
T ss_pred             EEEEECCCCCCHHHHHHHHHcCCCC
Confidence            5789999999999999999986544

>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=98.04  E-value=3.2e-06  Score=48.37  Aligned_cols=26  Identities=42%  Similarity=0.415  Sum_probs=22.2

Q ss_pred             EEEEECCCCChHHHHHHHHhcCcCcC
Q 035301           14 KVVLIGDSGVGKSNLLSRFTRNEFCL   39 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~~~~~~   39 (68)
                      .+.++|++|+|||||++.+++...+.
T Consensus        52 i~~liG~NGsGKSTLlk~l~Gl~~p~   77 (263)
T 2olj_A           52 VVVVIGPSGSGKSTFLRCLNLLEDFD   77 (263)
T ss_dssp             EEEEECCTTSSHHHHHHHHTTSSCCS
T ss_pred             EEEEEcCCCCcHHHHHHHHHcCCCCC
Confidence            57899999999999999999865443

>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=98.03  E-value=3.8e-06  Score=47.04  Aligned_cols=27  Identities=26%  Similarity=0.313  Sum_probs=22.8

Q ss_pred             EEEEECCCCChHHHHHHHHhcCcCcCC
Q 035301           14 KVVLIGDSGVGKSNLLSRFTRNEFCLE   40 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~~~~~~~   40 (68)
                      .+.++|++|+|||||++.+++...+.+
T Consensus        36 ~~~i~G~nGsGKSTLl~~l~Gl~~p~~   62 (229)
T 2pze_A           36 LLAVAGSTGAGKTSLLMMIMGELEPSE   62 (229)
T ss_dssp             EEEEECCTTSSHHHHHHHHTTSSCCSE
T ss_pred             EEEEECCCCCCHHHHHHHHhCCCcCCc
Confidence            578999999999999999998654443

>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=98.03  E-value=3.2e-06  Score=47.61  Aligned_cols=26  Identities=35%  Similarity=0.395  Sum_probs=22.3

Q ss_pred             EEEEECCCCChHHHHHHHHhcCcCcC
Q 035301           14 KVVLIGDSGVGKSNLLSRFTRNEFCL   39 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~~~~~~   39 (68)
                      .+.++|++|+|||||++.+++...+.
T Consensus        34 ~~~l~G~nGsGKSTLl~~l~Gl~~p~   59 (240)
T 1ji0_A           34 IVTLIGANGAGKTTTLSAIAGLVRAQ   59 (240)
T ss_dssp             EEEEECSTTSSHHHHHHHHTTSSCCS
T ss_pred             EEEEECCCCCCHHHHHHHHhCCCCCC
Confidence            57899999999999999999865443

>2ihy_A ABC transporter, ATP-binding protein; ATPase, ABC cassette, hydrolase; HET: MSE; 1.90A {Staphylococcus aureus}

Probab=98.03  E-value=3.7e-06  Score=48.45  Aligned_cols=26  Identities=35%  Similarity=0.450  Sum_probs=22.3

Q ss_pred             EEEEECCCCChHHHHHHHHhcCcCcC
Q 035301           14 KVVLIGDSGVGKSNLLSRFTRNEFCL   39 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~~~~~~   39 (68)
                      .+.++|++|+|||||++.+++...+.
T Consensus        49 ~~~liG~NGsGKSTLlk~l~Gl~~p~   74 (279)
T 2ihy_A           49 KWILYGLNGAGKTTLLNILNAYEPAT   74 (279)
T ss_dssp             EEEEECCTTSSHHHHHHHHTTSSCCS
T ss_pred             EEEEECCCCCcHHHHHHHHhCCCCCC
Confidence            57899999999999999999865443

>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=98.03  E-value=3.5e-06  Score=46.93  Aligned_cols=26  Identities=31%  Similarity=0.401  Sum_probs=22.0

Q ss_pred             EEEEECCCCChHHHHHHHHhcCcCcC
Q 035301           14 KVVLIGDSGVGKSNLLSRFTRNEFCL   39 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~~~~~~   39 (68)
                      .+.++|++|+|||||++.+++...+.
T Consensus        37 ~~~iiG~NGsGKSTLlk~l~Gl~~p~   62 (214)
T 1sgw_A           37 VVNFHGPNGIGKTTLLKTISTYLKPL   62 (214)
T ss_dssp             CEEEECCTTSSHHHHHHHHTTSSCCS
T ss_pred             EEEEECCCCCCHHHHHHHHhcCCCCC
Confidence            57899999999999999999865443

>3tr0_A Guanylate kinase, GMP kinase; purines, pyrimidines, nucleosides, nucleotides, transferase; HET: 5GP; 1.85A {Coxiella burnetii}

Probab=98.03  E-value=3.4e-06  Score=45.71  Aligned_cols=22  Identities=23%  Similarity=0.492  Sum_probs=19.9

Q ss_pred             EEEEECCCCChHHHHHHHHhcC
Q 035301           14 KVVLIGDSGVGKSNLLSRFTRN   35 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~~   35 (68)
                      -++++|++|+||||+++.+++.
T Consensus         9 ii~l~Gp~GsGKSTl~~~L~~~   30 (205)
T 3tr0_A            9 LFIISAPSGAGKTSLVRALVKA   30 (205)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHH
T ss_pred             EEEEECcCCCCHHHHHHHHHhh
Confidence            5889999999999999999864

>1z6g_A Guanylate kinase; structural genomics, SGC, structural genom consortium, transferase; HET: EPE; 2.18A {Plasmodium falciparum}

Probab=98.03  E-value=3.3e-06  Score=46.78  Aligned_cols=23  Identities=35%  Similarity=0.619  Sum_probs=20.4

Q ss_pred             EEEEECCCCChHHHHHHHHhcCc
Q 035301           14 KVVLIGDSGVGKSNLLSRFTRNE   36 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~~~   36 (68)
                      .++++|++|+|||||++.+++..
T Consensus        25 ~~~lvGpsGsGKSTLl~~L~g~~   47 (218)
T 1z6g_A           25 PLVICGPSGVGKGTLIKKLLNEF   47 (218)
T ss_dssp             CEEEECSTTSSHHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHHhhC
Confidence            58899999999999999998743

>3mca_A HBS1, elongation factor 1 alpha-like protein; protein protein complex, translation regulation; 2.74A {Schizosaccharomyces pombe}

Probab=98.02  E-value=6e-06  Score=51.81  Aligned_cols=26  Identities=27%  Similarity=0.385  Sum_probs=22.6

Q ss_pred             CceeeEEEEECCCCChHHHHHHHHhc
Q 035301            9 YDYLFKVVLIGDSGVGKSNLLSRFTR   34 (68)
Q Consensus         9 ~~~~~ki~~iG~~~vGKtsl~~~~~~   34 (68)
                      ....++|+++|..++|||||+++++.
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            34568999999999999999999963

>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=98.02  E-value=3.8e-06  Score=53.26  Aligned_cols=28  Identities=25%  Similarity=0.396  Sum_probs=23.7

Q ss_pred             CceeeEEEEECCCCChHHHHHHHHhcCc
Q 035301            9 YDYLFKVVLIGDSGVGKSNLLSRFTRNE   36 (68)
Q Consensus         9 ~~~~~ki~~iG~~~vGKtsl~~~~~~~~   36 (68)
                      .+...+++++|..|+|||||++++++..
T Consensus         6 ~~~~~~i~IiG~~gaGKTTLl~~L~~~~   33 (665)
T 2dy1_A            6 GAMIRTVALVGHAGSGKTTLTEALLYKT   33 (665)
T ss_dssp             CCCEEEEEEEESTTSSHHHHHHHHHHHT
T ss_pred             cCCCcEEEEECCCCChHHHHHHHHHHhc
Confidence            3456799999999999999999998543

>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=98.02  E-value=3.7e-06  Score=47.93  Aligned_cols=26  Identities=27%  Similarity=0.209  Sum_probs=22.3

Q ss_pred             EEEEECCCCChHHHHHHHHhcCcCcC
Q 035301           14 KVVLIGDSGVGKSNLLSRFTRNEFCL   39 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~~~~~~   39 (68)
                      .+.++|++|+|||||++.+++...+.
T Consensus        43 i~~l~G~NGsGKSTLlk~l~Gl~~p~   68 (256)
T 1vpl_A           43 IFGLIGPNGAGKTTTLRIISTLIKPS   68 (256)
T ss_dssp             EEEEECCTTSSHHHHHHHHTTSSCCS
T ss_pred             EEEEECCCCCCHHHHHHHHhcCCCCC
Confidence            57899999999999999999865443

>2ixe_A Antigen peptide transporter 1; ABC ATPase, hydrolase; HET: ATP; 2.0A {Rattus norvegicus} PDB: 2ixg_A* 2ixf_A* 1jj7_A*

Probab=98.02  E-value=4e-06  Score=48.06  Aligned_cols=26  Identities=23%  Similarity=0.252  Sum_probs=22.3

Q ss_pred             EEEEECCCCChHHHHHHHHhcCcCcC
Q 035301           14 KVVLIGDSGVGKSNLLSRFTRNEFCL   39 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~~~~~~   39 (68)
                      .+.++|++|+|||||++.+++...+.
T Consensus        47 ~~~i~G~nGsGKSTLlk~l~Gl~~p~   72 (271)
T 2ixe_A           47 VTALVGPNGSGKSTVAALLQNLYQPT   72 (271)
T ss_dssp             EEEEECSTTSSHHHHHHHHTTSSCCS
T ss_pred             EEEEECCCCCCHHHHHHHHhcCCCCC
Confidence            57899999999999999999865443

>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=98.00  E-value=5.9e-06  Score=50.03  Aligned_cols=33  Identities=21%  Similarity=0.353  Sum_probs=26.4

Q ss_pred             eEEEEECCCCChHHHHHHHHhcCcCcCCCccce
Q 035301           13 FKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTI   45 (68)
Q Consensus        13 ~ki~~iG~~~vGKtsl~~~~~~~~~~~~~~~t~   45 (68)
                      ..+.++|++|+|||||++.+++...+..+..++
T Consensus        70 ~~valvG~nGaGKSTLln~L~Gl~~p~~GsI~~  102 (413)
T 1tq4_A           70 LNVAVTGETGSGKSSFINTLRGIGNEEEGAAKT  102 (413)
T ss_dssp             EEEEEEECTTSSHHHHHHHHHTCCTTSTTSCCC
T ss_pred             eEEEEECCCCCcHHHHHHHHhCCCCccCceEEE
Confidence            478999999999999999999866555554433

>3fvq_A Fe(3+) IONS import ATP-binding protein FBPC; nucleotide binding domain, ABC motor domain, ferric iron TRA ATP-binding, cell inner membrane; HET: ATP; 1.90A {Neisseria gonorrhoeae}

Probab=97.99  E-value=3.3e-06  Score=50.34  Aligned_cols=28  Identities=32%  Similarity=0.383  Sum_probs=23.5

Q ss_pred             EEEEECCCCChHHHHHHHHhcCcCcCCC
Q 035301           14 KVVLIGDSGVGKSNLLSRFTRNEFCLES   41 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~~~~~~~~   41 (68)
                      .+.++|++|+|||||++.+++...+.++
T Consensus        32 ~~~llGpsGsGKSTLLr~iaGl~~p~~G   59 (359)
T 3fvq_A           32 ILFIIGASGCGKTTLLRCLAGFEQPDSG   59 (359)
T ss_dssp             EEEEEESTTSSHHHHHHHHHTSSCCSEE
T ss_pred             EEEEECCCCchHHHHHHHHhcCCCCCCc
Confidence            4789999999999999999987655443

>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=97.99  E-value=3.3e-06  Score=47.54  Aligned_cols=25  Identities=36%  Similarity=0.449  Sum_probs=21.9

Q ss_pred             EEEEECCCCChHHHHHHHHhcCcCc
Q 035301           14 KVVLIGDSGVGKSNLLSRFTRNEFC   38 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~~~~~   38 (68)
                      .+.++|++|+|||||++.+++...+
T Consensus        33 ~~~i~G~nGsGKSTLl~~l~Gl~~p   57 (237)
T 2cbz_A           33 LVAVVGQVGCGKSSLLSALLAEMDK   57 (237)
T ss_dssp             EEEEECSTTSSHHHHHHHHTTCSEE
T ss_pred             EEEEECCCCCCHHHHHHHHhcCCCC
Confidence            6789999999999999999986543

>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=97.99  E-value=3.7e-06  Score=51.16  Aligned_cols=26  Identities=31%  Similarity=0.774  Sum_probs=22.8

Q ss_pred             eeEEEEECCCCChHHHHHHHHhcCcC
Q 035301           12 LFKVVLIGDSGVGKSNLLSRFTRNEF   37 (68)
Q Consensus        12 ~~ki~~iG~~~vGKtsl~~~~~~~~~   37 (68)
                      .++++++|++|+|||||++.+++..+
T Consensus        42 i~~vaLvG~nGaGKSTLln~L~G~~l   67 (427)
T 2qag_B           42 CFNILCVGETGLGKSTLMDTLFNTKF   67 (427)
T ss_dssp             EEEEEEECSTTSSSHHHHHHHHTSCC
T ss_pred             eeEEEEECCCCCCHHHHHHHHhCccc
Confidence            35699999999999999999998754

>2yz2_A Putative ABC transporter ATP-binding protein TM_0; cobalt transport, TM02 hydrolase, inner membrane, membrane, nucleotide-binding; 2.30A {Thermotoga maritima}

Probab=97.97  E-value=4.8e-06  Score=47.59  Aligned_cols=26  Identities=27%  Similarity=0.280  Sum_probs=22.2

Q ss_pred             EEEEECCCCChHHHHHHHHhcCcCcC
Q 035301           14 KVVLIGDSGVGKSNLLSRFTRNEFCL   39 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~~~~~~   39 (68)
                      .+.++|++|+|||||++.+++...+.
T Consensus        35 ~~~liG~nGsGKSTLl~~i~Gl~~p~   60 (266)
T 2yz2_A           35 CLLVAGNTGSGKSTLLQIVAGLIEPT   60 (266)
T ss_dssp             EEEEECSTTSSHHHHHHHHTTSSCCS
T ss_pred             EEEEECCCCCcHHHHHHHHhCCCCCC
Confidence            57899999999999999999865443

>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=97.97  E-value=1.6e-05  Score=50.72  Aligned_cols=34  Identities=18%  Similarity=0.233  Sum_probs=27.9

Q ss_pred             CCCCCCcCCceeeEEEEECCCCChHHHHHHHHhc
Q 035301            1 MARRADEEYDYLFKVVLIGDSGVGKSNLLSRFTR   34 (68)
Q Consensus         1 m~~~~~~~~~~~~ki~~iG~~~vGKtsl~~~~~~   34 (68)
                      |+.......+...+++++|..++|||||+++++.
T Consensus         1 M~~~l~~~~~~~~~I~IvG~~~aGKTTL~~~Ll~   34 (691)
T 1dar_A            1 MAVKVEYDLKRLRNIGIAAHIDAGKTTTTERILY   34 (691)
T ss_dssp             CCTTCCCCGGGEEEEEEEECTTSCHHHHHHHHHH
T ss_pred             CCccccCccccccEEEEECCCCCCHHHHHHHHHH
Confidence            5544444567789999999999999999999984

>2pjz_A Hypothetical protein ST1066; ATP binding protein, structural genomics, NPPSFA; 1.90A {Sulfolobus tokodaii}

Probab=97.97  E-value=5.3e-06  Score=47.49  Aligned_cols=27  Identities=30%  Similarity=0.493  Sum_probs=23.0

Q ss_pred             EEEEECCCCChHHHHHHHHhcCcCcCCC
Q 035301           14 KVVLIGDSGVGKSNLLSRFTRNEFCLES   41 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~~~~~~~~   41 (68)
                      .+.++|++|+|||||++.+++.. +.++
T Consensus        32 ~~~i~G~NGsGKSTLlk~l~Gl~-p~~G   58 (263)
T 2pjz_A           32 KVIILGPNGSGKTTLLRAISGLL-PYSG   58 (263)
T ss_dssp             EEEEECCTTSSHHHHHHHHTTSS-CCEE
T ss_pred             EEEEECCCCCCHHHHHHHHhCCC-CCCc
Confidence            57899999999999999999876 5443

>1z47_A CYSA, putative ABC-transporter ATP-binding protein; alpha/beta motif, beta sandwich, ligand binding protein; 1.90A {Alicyclobacillus acidocaldarius}

Probab=97.97  E-value=4.6e-06  Score=49.65  Aligned_cols=28  Identities=32%  Similarity=0.366  Sum_probs=23.2

Q ss_pred             EEEEECCCCChHHHHHHHHhcCcCcCCC
Q 035301           14 KVVLIGDSGVGKSNLLSRFTRNEFCLES   41 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~~~~~~~~   41 (68)
                      .+.++|++|+|||||++.+++...+.++
T Consensus        43 ~~~llGpnGsGKSTLLr~iaGl~~p~~G   70 (355)
T 1z47_A           43 MVGLLGPSGSGKTTILRLIAGLERPTKG   70 (355)
T ss_dssp             EEEEECSTTSSHHHHHHHHHTSSCCSEE
T ss_pred             EEEEECCCCCcHHHHHHHHhCCCCCCcc
Confidence            5789999999999999999987654433

>2qpt_A EH domain-containing protein-2; protein-nucleotide complex, membrane protein, endocytosis; HET: ANP; 3.10A {Mus musculus}

Probab=97.97  E-value=1.1e-05  Score=50.32  Aligned_cols=30  Identities=20%  Similarity=0.318  Sum_probs=26.5

Q ss_pred             CceeeEEEEECCCCChHHHHHHHHhcCcCc
Q 035301            9 YDYLFKVVLIGDSGVGKSNLLSRFTRNEFC   38 (68)
Q Consensus         9 ~~~~~ki~~iG~~~vGKtsl~~~~~~~~~~   38 (68)
                      .+..++|+++|..++|||||++++++..+.
T Consensus        62 ~~~~~~V~vvG~~n~GKSTLIN~Llg~~~~   91 (550)
T 2qpt_A           62 FDGKPMVLVAGQYSTGKTSFIQYLLEQEVP   91 (550)
T ss_dssp             TSSCCEEEEEEBTTSCHHHHHHHHHTSCCS
T ss_pred             ccCCcEEEEECCCCCCHHHHHHHHhCCccc
Confidence            345789999999999999999999998763

>1ex7_A Guanylate kinase; substrate-induced FIT, domain movement, GMP, ATP, substrate specificity, X-RAY diffraction, transferase; HET: 5GP; 1.90A {Saccharomyces cerevisiae} SCOP: c.37.1.1 PDB: 1ex6_A* 1gky_A* 3sqk_A 4f4j_A

Probab=97.97  E-value=5.7e-06  Score=45.28  Aligned_cols=20  Identities=45%  Similarity=0.745  Sum_probs=18.5

Q ss_pred             EEEECCCCChHHHHHHHHhc
Q 035301           15 VVLIGDSGVGKSNLLSRFTR   34 (68)
Q Consensus        15 i~~iG~~~vGKtsl~~~~~~   34 (68)
                      |+++|++|+|||||+++++.
T Consensus         4 IVi~GPSG~GK~Tl~~~L~~   23 (186)
T 1ex7_A            4 IVISGPSGTGKSTLLKKLFA   23 (186)
T ss_dssp             EEEECCTTSSHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHH
Confidence            78999999999999999874

>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=97.97  E-value=4.8e-06  Score=50.02  Aligned_cols=28  Identities=39%  Similarity=0.466  Sum_probs=23.3

Q ss_pred             EEEEECCCCChHHHHHHHHhcCcCcCCC
Q 035301           14 KVVLIGDSGVGKSNLLSRFTRNEFCLES   41 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~~~~~~~~   41 (68)
                      .+.++|++|+|||||++.+++...+.++
T Consensus        31 ~~~llGpsGsGKSTLLr~iaGl~~p~~G   58 (381)
T 3rlf_A           31 FVVFVGPSGCGKSTLLRMIAGLETITSG   58 (381)
T ss_dssp             EEEEECCTTSSHHHHHHHHHTSSCCSEE
T ss_pred             EEEEEcCCCchHHHHHHHHHcCCCCCCe
Confidence            4789999999999999999987654433

>1zp6_A Hypothetical protein ATU3015; alpha-beta protein., structural genomics, PSI, protein struc initiative; 3.20A {Agrobacterium tumefaciens str} SCOP: c.37.1.25

Probab=97.96  E-value=4.9e-06  Score=44.65  Aligned_cols=23  Identities=26%  Similarity=0.395  Sum_probs=20.6

Q ss_pred             eEEEEECCCCChHHHHHHHHhcC
Q 035301           13 FKVVLIGDSGVGKSNLLSRFTRN   35 (68)
Q Consensus        13 ~ki~~iG~~~vGKtsl~~~~~~~   35 (68)
                      -.++++|++|+||||+++.+++.
T Consensus        10 ~~i~l~G~~GsGKSTl~~~La~~   32 (191)
T 1zp6_A           10 NILLLSGHPGSGKSTIAEALANL   32 (191)
T ss_dssp             EEEEEEECTTSCHHHHHHHHHTC
T ss_pred             eEEEEECCCCCCHHHHHHHHHhc
Confidence            35899999999999999999875

>2it1_A 362AA long hypothetical maltose/maltodextrin transport ATP-binding protein; structural genomics, NPPSFA; 1.94A {Pyrococcus horikoshii}

Probab=97.96  E-value=5e-06  Score=49.57  Aligned_cols=27  Identities=33%  Similarity=0.309  Sum_probs=22.8

Q ss_pred             EEEEECCCCChHHHHHHHHhcCcCcCC
Q 035301           14 KVVLIGDSGVGKSNLLSRFTRNEFCLE   40 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~~~~~~~   40 (68)
                      .+.++|++|+|||||++.+++...+.+
T Consensus        31 ~~~llGpnGsGKSTLLr~iaGl~~p~~   57 (362)
T 2it1_A           31 FMALLGPSGSGKSTLLYTIAGIYKPTS   57 (362)
T ss_dssp             EEEEECCTTSSHHHHHHHHHTSSCCSE
T ss_pred             EEEEECCCCchHHHHHHHHhcCCCCCc
Confidence            578999999999999999998765443

>4a9a_A Ribosome-interacting GTPase 1; DRG-DFRP complex, ribosome binding GTPase; 2.67A {Saccharomyces cerevisiae}

Probab=97.95  E-value=3e-05  Score=46.52  Aligned_cols=50  Identities=22%  Similarity=0.189  Sum_probs=31.8

Q ss_pred             eeEEEEECCCCChHHHHHHHHhcCcCcCCCccceeeEeEEEEEEECCeEE
Q 035301           12 LFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQVTNFSS   61 (68)
Q Consensus        12 ~~ki~~iG~~~vGKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~   61 (68)
                      ...|.++|.++||||||++++.+..-.-...|..-.+-....+.+++.++
T Consensus        72 ~a~V~ivG~PNvGKSTL~n~Lt~~~~~v~~~pftT~~~~~g~~~~~~~~i  121 (376)
T 4a9a_A           72 VASVGFVGFPSVGKSTLLSKLTGTESEAAEYEFTTLVTVPGVIRYKGAKI  121 (376)
T ss_dssp             SEEEEEECCCCHHHHHHHHHHHSBCCCGGGTCSSCCCEEEEEEEETTEEE
T ss_pred             CCeEEEECCCCCCHHHHHHHHhCCCCcccCCCCceeeeeeEEEEeCCcEE
Confidence            46899999999999999999997543222212111222234556666654

>3ney_A 55 kDa erythrocyte membrane protein; structural genomics consortium, SGC, 55 kDa erythrocyte MEMB protein; 2.26A {Homo sapiens} SCOP: c.37.1.0

Probab=97.95  E-value=5.8e-06  Score=45.66  Aligned_cols=23  Identities=39%  Similarity=0.629  Sum_probs=20.0

Q ss_pred             eEEEEECCCCChHHHHHHHHhcC
Q 035301           13 FKVVLIGDSGVGKSNLLSRFTRN   35 (68)
Q Consensus        13 ~ki~~iG~~~vGKtsl~~~~~~~   35 (68)
                      --++++|++|+|||||++.++..
T Consensus        20 ~~ivl~GPSGaGKsTL~~~L~~~   42 (197)
T 3ney_A           20 KTLVLIGASGVGRSHIKNALLSQ   42 (197)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHH
T ss_pred             CEEEEECcCCCCHHHHHHHHHhh
Confidence            36789999999999999999853

>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=97.95  E-value=5.3e-06  Score=49.61  Aligned_cols=28  Identities=29%  Similarity=0.339  Sum_probs=23.4

Q ss_pred             EEEEECCCCChHHHHHHHHhcCcCcCCC
Q 035301           14 KVVLIGDSGVGKSNLLSRFTRNEFCLES   41 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~~~~~~~~   41 (68)
                      .+.++|++|+|||||++.+++...+.++
T Consensus        31 ~~~llGpnGsGKSTLLr~iaGl~~p~~G   58 (372)
T 1g29_1           31 FMILLGPSGCGKTTTLRMIAGLEEPSRG   58 (372)
T ss_dssp             EEEEECSTTSSHHHHHHHHHTSSCCSEE
T ss_pred             EEEEECCCCcHHHHHHHHHHcCCCCCcc
Confidence            5789999999999999999987654443

>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=97.95  E-value=5.3e-06  Score=49.42  Aligned_cols=27  Identities=30%  Similarity=0.261  Sum_probs=22.8

Q ss_pred             EEEEECCCCChHHHHHHHHhcCcCcCC
Q 035301           14 KVVLIGDSGVGKSNLLSRFTRNEFCLE   40 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~~~~~~~   40 (68)
                      .+.++|++|+|||||++.+++...+.+
T Consensus        31 ~~~llGpnGsGKSTLLr~iaGl~~p~~   57 (359)
T 2yyz_A           31 FVALLGPSGCGKTTTLLMLAGIYKPTS   57 (359)
T ss_dssp             EEEEECSTTSSHHHHHHHHHTSSCCSE
T ss_pred             EEEEEcCCCchHHHHHHHHHCCCCCCc
Confidence            578999999999999999998765443

>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=97.94  E-value=2.6e-05  Score=46.76  Aligned_cols=46  Identities=22%  Similarity=0.294  Sum_probs=32.1

Q ss_pred             CceeeEEEEECCCCChHHHHHHHHhcC---cCcCCCcc--ceeeEeEEEEE
Q 035301            9 YDYLFKVVLIGDSGVGKSNLLSRFTRN---EFCLESKS--TIGVEFATRTL   54 (68)
Q Consensus         9 ~~~~~ki~~iG~~~vGKtsl~~~~~~~---~~~~~~~~--t~~~~~~~~~~   54 (68)
                      ....++++++|..++|||||++++.+.   .+.++..+  |+...|....+
T Consensus         7 ~~~~~~I~iiG~~~~GKSTLi~~L~g~~~~~~~~e~~~giTi~~~~~~~~~   57 (410)
T 1kk1_A            7 RQAEVNIGMVGHVDHGKTTLTKALTGVWTDTHSEELRRGITIKIGFADAEI   57 (410)
T ss_dssp             CSEEEEEEEECSTTSSHHHHHHHHHTCCCC--CGGGGSCSSSCCEEEEEEE
T ss_pred             CCCccEEEEECCCCCCHHHHHHHHhCCccccChhhhcCCcEEEEeeeeeec
Confidence            356789999999999999999999843   34444444  66666544333

>3d31_A Sulfate/molybdate ABC transporter, ATP-binding protein; ATP-binding, nucleotide-binding, membrane, transmembrane, transport protein; 3.00A {Methanosarcina acetivorans} SCOP: b.40.6.3 c.37.1.12

Probab=97.94  E-value=4.4e-06  Score=49.58  Aligned_cols=27  Identities=22%  Similarity=0.304  Sum_probs=22.9

Q ss_pred             EEEEECCCCChHHHHHHHHhcCcCcCC
Q 035301           14 KVVLIGDSGVGKSNLLSRFTRNEFCLE   40 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~~~~~~~   40 (68)
                      .+.++|++|+|||||++.+++...+.+
T Consensus        28 ~~~llGpnGsGKSTLLr~iaGl~~p~~   54 (348)
T 3d31_A           28 YFVILGPTGAGKTLFLELIAGFHVPDS   54 (348)
T ss_dssp             EEEEECCCTHHHHHHHHHHHTSSCCSE
T ss_pred             EEEEECCCCccHHHHHHHHHcCCCCCC
Confidence            578999999999999999998765443

>1v43_A Sugar-binding transport ATP-binding protein; ATPase, active transport, sugar uptake and regulation, transport protein; 2.20A {Pyrococcus horikoshii} SCOP: b.40.6.3 b.40.6.3 c.37.1.12 PDB: 1vci_A*

Probab=97.94  E-value=5.7e-06  Score=49.50  Aligned_cols=27  Identities=37%  Similarity=0.402  Sum_probs=22.8

Q ss_pred             EEEEECCCCChHHHHHHHHhcCcCcCC
Q 035301           14 KVVLIGDSGVGKSNLLSRFTRNEFCLE   40 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~~~~~~~   40 (68)
                      .+.++|++|+|||||++.+++...+.+
T Consensus        39 ~~~llGpnGsGKSTLLr~iaGl~~p~~   65 (372)
T 1v43_A           39 FLVLLGPSGCGKTTTLRMIAGLEEPTE   65 (372)
T ss_dssp             EEEEECCTTSSHHHHHHHHHTSSCCSE
T ss_pred             EEEEECCCCChHHHHHHHHHcCCCCCc
Confidence            578999999999999999998765443

>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=97.94  E-value=1.3e-05  Score=48.01  Aligned_cols=28  Identities=18%  Similarity=0.195  Sum_probs=24.6

Q ss_pred             CceeeEEEEECCCCChHHHHHHHHhcCc
Q 035301            9 YDYLFKVVLIGDSGVGKSNLLSRFTRNE   36 (68)
Q Consensus         9 ~~~~~ki~~iG~~~vGKtsl~~~~~~~~   36 (68)
                      ....++|+++|..++|||||++++.+..
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            4457899999999999999999999754

>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=97.93  E-value=9.1e-06  Score=49.71  Aligned_cols=25  Identities=28%  Similarity=0.493  Sum_probs=22.5

Q ss_pred             eeeEEEEECCCCChHHHHHHHHhcC
Q 035301           11 YLFKVVLIGDSGVGKSNLLSRFTRN   35 (68)
Q Consensus        11 ~~~ki~~iG~~~vGKtsl~~~~~~~   35 (68)
                      ..+|++++|..++|||||++++++.
T Consensus        32 ~~~ki~iiG~~~~GKSTLi~~Ll~~   56 (483)
T 3p26_A           32 PHLSFVVLGHVDAGKSTLMGRLLYD   56 (483)
T ss_dssp             CEEEEEEESCGGGTHHHHHHHHHHH
T ss_pred             CceEEEEECCCCCCHHHHHHHHHHh
Confidence            4689999999999999999999754

>4gp7_A Metallophosphoesterase; polynucleotide kinase phosphatase, RNA repair, transferase; HET: ATP CIT; 2.00A {Clostridium thermocellum} PDB: 4gp6_A*

Probab=97.92  E-value=6.6e-06  Score=43.96  Aligned_cols=19  Identities=53%  Similarity=0.765  Sum_probs=16.8

Q ss_pred             EEEEECCCCChHHHHHHHH
Q 035301           14 KVVLIGDSGVGKSNLLSRF   32 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~   32 (68)
                      -++++|++|+|||||++.+
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            5789999999999999943

>3nh6_A ATP-binding cassette SUB-family B member 6, mitoc; ABC-transporter, ABCB6, nucleotide binding domain, heme BIOS transport protein; 2.00A {Homo sapiens} PDB: 3nh9_A* 3nha_A* 3nhb_A*

Probab=97.92  E-value=5.8e-06  Score=48.31  Aligned_cols=26  Identities=35%  Similarity=0.409  Sum_probs=22.3

Q ss_pred             EEEEECCCCChHHHHHHHHhcCcCcC
Q 035301           14 KVVLIGDSGVGKSNLLSRFTRNEFCL   39 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~~~~~~   39 (68)
                      .+.++|++|+|||||++.+++...+.
T Consensus        82 ~vaivG~sGsGKSTLl~ll~gl~~p~  107 (306)
T 3nh6_A           82 TLALVGPSGAGKSTILRLLFRFYDIS  107 (306)
T ss_dssp             EEEEESSSCHHHHHHHHHHTTSSCCS
T ss_pred             EEEEECCCCchHHHHHHHHHcCCCCC
Confidence            68999999999999999999765443

>3tau_A Guanylate kinase, GMP kinase; structural genomics, center for structural genomics of infec diseases, csgid, putative guanylate kinase; HET: MSE; 2.05A {Listeria monocytogenes}

Probab=97.92  E-value=7.3e-06  Score=45.00  Aligned_cols=23  Identities=35%  Similarity=0.536  Sum_probs=20.2

Q ss_pred             EEEEECCCCChHHHHHHHHhcCc
Q 035301           14 KVVLIGDSGVGKSNLLSRFTRNE   36 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~~~   36 (68)
                      -++++|++|+||||+++.+++..
T Consensus        10 ~i~l~GpsGsGKsTl~~~L~~~~   32 (208)
T 3tau_A           10 LIVLSGPSGVGKGTVREAVFKDP   32 (208)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHST
T ss_pred             EEEEECcCCCCHHHHHHHHHhhC
Confidence            58899999999999999998653

>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=97.92  E-value=7.9e-06  Score=46.39  Aligned_cols=24  Identities=38%  Similarity=0.566  Sum_probs=21.3

Q ss_pred             EEEEECCCCChHHHHHHHHhcCcC
Q 035301           14 KVVLIGDSGVGKSNLLSRFTRNEF   37 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~~~~   37 (68)
                      .+.++|++|+|||||++.+++...
T Consensus        28 ~~~liG~NGsGKSTLlk~l~Gl~~   51 (249)
T 2qi9_C           28 ILHLVGPNGAGKSTLLARMAGMTS   51 (249)
T ss_dssp             EEEEECCTTSSHHHHHHHHTTSSC
T ss_pred             EEEEECCCCCcHHHHHHHHhCCCC
Confidence            578999999999999999998654

>3tui_C Methionine import ATP-binding protein METN; ABC-transporter, type I ABC type importer, methionine uptake transporter, membrane protein; HET: ADP; 2.90A {Escherichia coli} PDB: 3tuj_C 3tuz_C* 3dhw_C

Probab=97.91  E-value=7.4e-06  Score=48.97  Aligned_cols=26  Identities=35%  Similarity=0.294  Sum_probs=22.3

Q ss_pred             EEEEECCCCChHHHHHHHHhcCcCcC
Q 035301           14 KVVLIGDSGVGKSNLLSRFTRNEFCL   39 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~~~~~~   39 (68)
                      .+.++|++|+|||||++.+.+...+.
T Consensus        56 i~~IiGpnGaGKSTLlr~i~GL~~p~   81 (366)
T 3tui_C           56 IYGVIGASGAGKSTLIRCVNLLERPT   81 (366)
T ss_dssp             EEEEECCTTSSHHHHHHHHHTSSCCS
T ss_pred             EEEEEcCCCchHHHHHHHHhcCCCCC
Confidence            57899999999999999999865543

>1u0l_A Probable GTPase ENGC; permutation, OB-fold, zinc-finger, structural genomics, BSGC structure funded by NIH, protein structure initiative, PSI; HET: GDP; 2.80A {Thermotoga maritima} SCOP: b.40.4.5 c.37.1.8

Probab=97.91  E-value=8.9e-06  Score=47.10  Aligned_cols=29  Identities=34%  Similarity=0.319  Sum_probs=22.6

Q ss_pred             EEEEECCCCChHHHHHHHHhcCcCcCCCc
Q 035301           14 KVVLIGDSGVGKSNLLSRFTRNEFCLESK   42 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~~~~~~~~~   42 (68)
                      .+.++|++|+|||||++.+.+...+..+.
T Consensus       171 iv~l~G~sG~GKSTll~~l~g~~~~~~G~  199 (301)
T 1u0l_A          171 ISTMAGLSGVGKSSLLNAINPGLKLRVSE  199 (301)
T ss_dssp             EEEEECSTTSSHHHHHHHHSTTCCCC---
T ss_pred             eEEEECCCCCcHHHHHHHhcccccccccc
Confidence            57899999999999999999866554443

>3c8u_A Fructokinase; YP_612366.1, putative fructose transport system kinase, STRU genomics, joint center for structural genomics, JCSG; 1.95A {Silicibacter SP}

Probab=97.90  E-value=6.8e-06  Score=45.04  Aligned_cols=25  Identities=32%  Similarity=0.311  Sum_probs=21.3

Q ss_pred             eeeEEEEECCCCChHHHHHHHHhcC
Q 035301           11 YLFKVVLIGDSGVGKSNLLSRFTRN   35 (68)
Q Consensus        11 ~~~ki~~iG~~~vGKtsl~~~~~~~   35 (68)
                      ....+.++|++|+|||||++.+.+.
T Consensus        21 ~g~~v~I~G~sGsGKSTl~~~l~~~   45 (208)
T 3c8u_A           21 GRQLVALSGAPGSGKSTLSNPLAAA   45 (208)
T ss_dssp             SCEEEEEECCTTSCTHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHH
Confidence            3468999999999999999988753

>2nq2_C Hypothetical ABC transporter ATP-binding protein HI1470; putative iron chelatin ABC transporter, nucleotide binding domain; 2.40A {Haemophilus influenzae}

Probab=97.90  E-value=9.4e-06  Score=46.12  Aligned_cols=26  Identities=27%  Similarity=0.411  Sum_probs=22.3

Q ss_pred             EEEEECCCCChHHHHHHHHhcCcCcC
Q 035301           14 KVVLIGDSGVGKSNLLSRFTRNEFCL   39 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~~~~~~   39 (68)
                      .+.++|++|+|||||++.+++...+.
T Consensus        33 ~~~l~G~nGsGKSTLl~~l~Gl~~p~   58 (253)
T 2nq2_C           33 ILAVLGQNGCGKSTLLDLLLGIHRPI   58 (253)
T ss_dssp             EEEEECCSSSSHHHHHHHHTTSSCCS
T ss_pred             EEEEECCCCCCHHHHHHHHhCCCCCC
Confidence            57899999999999999999865443

>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=97.89  E-value=1e-05  Score=46.60  Aligned_cols=26  Identities=31%  Similarity=0.620  Sum_probs=23.5

Q ss_pred             eeeEEEEECCCCChHHHHHHHHhcCc
Q 035301           11 YLFKVVLIGDSGVGKSNLLSRFTRNE   36 (68)
Q Consensus        11 ~~~ki~~iG~~~vGKtsl~~~~~~~~   36 (68)
                      ..++++++|.++||||||++++.+..
T Consensus       119 ~~~~v~~vG~~nvGKSsliN~l~~~~  144 (282)
T 1puj_A          119 RAIRALIIGIPNVGKSTLINRLAKKN  144 (282)
T ss_dssp             CCEEEEEEESTTSSHHHHHHHHHTSC
T ss_pred             CCceEEEEecCCCchHHHHHHHhcCc
Confidence            45799999999999999999999765

>1oxx_K GLCV, glucose, ABC transporter, ATP binding protein; ABC-ATPase, ATP-binding cassette, ATPase, transport protein; 1.45A {Sulfolobus solfataricus} SCOP: b.40.6.3 c.37.1.12 PDB: 1oxs_C 1oxt_A 1oxu_A* 1oxv_A*

Probab=97.89  E-value=4.2e-06  Score=49.71  Aligned_cols=28  Identities=18%  Similarity=0.351  Sum_probs=23.4

Q ss_pred             EEEEECCCCChHHHHHHHHhcCcCcCCC
Q 035301           14 KVVLIGDSGVGKSNLLSRFTRNEFCLES   41 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~~~~~~~~   41 (68)
                      .+.++|++|+|||||++.+++...+.++
T Consensus        33 ~~~llGpnGsGKSTLLr~iaGl~~p~~G   60 (353)
T 1oxx_K           33 RFGILGPSGAGKTTFMRIIAGLDVPSTG   60 (353)
T ss_dssp             EEEEECSCHHHHHHHHHHHHTSSCCSEE
T ss_pred             EEEEECCCCCcHHHHHHHHhCCCCCCce
Confidence            5789999999999999999987654444

>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=97.88  E-value=1e-05  Score=46.23  Aligned_cols=22  Identities=27%  Similarity=0.475  Sum_probs=20.5

Q ss_pred             EEEEECCCCChHHHHHHHHhcC
Q 035301           14 KVVLIGDSGVGKSNLLSRFTRN   35 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~~   35 (68)
                      .+.++|++|+|||||++.+++.
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            5789999999999999999986

>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=97.88  E-value=9.1e-06  Score=46.03  Aligned_cols=22  Identities=32%  Similarity=0.456  Sum_probs=20.4

Q ss_pred             EEEEECCCCChHHHHHHHHhcC
Q 035301           14 KVVLIGDSGVGKSNLLSRFTRN   35 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~~   35 (68)
                      .+.++|++|+|||||++.+++.
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            5789999999999999999985

>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=97.88  E-value=1.6e-05  Score=47.43  Aligned_cols=24  Identities=38%  Similarity=0.520  Sum_probs=21.8

Q ss_pred             EEEEECCCCChHHHHHHHHhcCcC
Q 035301           14 KVVLIGDSGVGKSNLLSRFTRNEF   37 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~~~~   37 (68)
                      .++++|++|+|||||++.+++...
T Consensus       217 ~~~lvG~sG~GKSTLln~L~g~~~  240 (358)
T 2rcn_A          217 ISIFAGQSGVGKSSLLNALLGLQN  240 (358)
T ss_dssp             EEEEECCTTSSHHHHHHHHHCCSS
T ss_pred             EEEEECCCCccHHHHHHHHhcccc
Confidence            589999999999999999998665

>2ghi_A Transport protein; multidrug resistance protein, MDR, structural genomics, structural genomics consortium, SGC; 2.20A {Plasmodium yoelii yoelii str}

Probab=97.86  E-value=1.1e-05  Score=46.01  Aligned_cols=23  Identities=30%  Similarity=0.471  Sum_probs=20.9

Q ss_pred             EEEEECCCCChHHHHHHHHhcCc
Q 035301           14 KVVLIGDSGVGKSNLLSRFTRNE   36 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~~~   36 (68)
                      .+.++|++|+|||||++.+++..
T Consensus        48 ~~~i~G~nGsGKSTLl~~l~Gl~   70 (260)
T 2ghi_A           48 TCALVGHTGSGKSTIAKLLYRFY   70 (260)
T ss_dssp             EEEEECSTTSSHHHHHHHHTTSS
T ss_pred             EEEEECCCCCCHHHHHHHHhccC
Confidence            68899999999999999999854

>2i3b_A HCR-ntpase, human cancer-related ntpase; AAA, rossmann, hydrolase; NMR {Homo sapiens} SCOP: c.37.1.11

Probab=97.86  E-value=9.9e-06  Score=44.28  Aligned_cols=23  Identities=35%  Similarity=0.573  Sum_probs=20.2

Q ss_pred             EEEEECCCCChHHHHHHHHhcCc
Q 035301           14 KVVLIGDSGVGKSNLLSRFTRNE   36 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~~~   36 (68)
                      ++.++|++|+||||+++.+++..
T Consensus         3 ~i~i~G~nG~GKTTll~~l~g~~   25 (189)
T 2i3b_A            3 HVFLTGPPGVGKTTLIHKASEVL   25 (189)
T ss_dssp             CEEEESCCSSCHHHHHHHHHHHH
T ss_pred             EEEEECCCCChHHHHHHHHHhhc
Confidence            57899999999999999988754

>1lw7_A Transcriptional regulator NADR; NMN, NMN adenylyl transferase, ribosylnicotinamide KINA transferase; HET: NAD; 2.90A {Haemophilus influenzae} SCOP: c.26.1.3 c.37.1.1

Probab=97.85  E-value=1.2e-05  Score=47.52  Aligned_cols=25  Identities=24%  Similarity=0.349  Sum_probs=22.1

Q ss_pred             eeEEEEECCCCChHHHHHHHHhcCc
Q 035301           12 LFKVVLIGDSGVGKSNLLSRFTRNE   36 (68)
Q Consensus        12 ~~ki~~iG~~~vGKtsl~~~~~~~~   36 (68)
                      .-++.++|++|+|||||++.+++..
T Consensus       170 g~k~~IvG~nGsGKSTLlk~L~gl~  194 (365)
T 1lw7_A          170 AKTVAILGGESSGKSVLVNKLAAVF  194 (365)
T ss_dssp             CEEEEEECCTTSHHHHHHHHHHHHT
T ss_pred             hCeEEEECCCCCCHHHHHHHHHHHh
Confidence            4589999999999999999998754

>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=97.84  E-value=2e-05  Score=45.74  Aligned_cols=29  Identities=45%  Similarity=0.576  Sum_probs=23.2

Q ss_pred             EEEEECCCCChHHHHHHHHhcCcCcCCCcc
Q 035301           14 KVVLIGDSGVGKSNLLSRFTRNEFCLESKS   43 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~~~~~~~~~~   43 (68)
                      .++++|++|+|||||++.+. ...+..+..
T Consensus       167 i~~l~G~sG~GKSTLln~l~-~~~~~~G~i  195 (302)
T 2yv5_A          167 ICILAGPSGVGKSSILSRLT-GEELRTQEV  195 (302)
T ss_dssp             EEEEECSTTSSHHHHHHHHH-SCCCCCSCC
T ss_pred             EEEEECCCCCCHHHHHHHHH-HhhCccccc
Confidence            57899999999999999999 655444443

>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=97.84  E-value=7.4e-06  Score=47.47  Aligned_cols=25  Identities=24%  Similarity=0.317  Sum_probs=21.8

Q ss_pred             EEEEECCCCChHHHHHHHHhcCcCc
Q 035301           14 KVVLIGDSGVGKSNLLSRFTRNEFC   38 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~~~~~   38 (68)
                      .+.++|++|+|||||++.+++...+
T Consensus        66 ~~~i~G~NGsGKSTLlk~l~Gl~~p   90 (290)
T 2bbs_A           66 LLAVAGSTGAGKTSLLMMIMGELEP   90 (290)
T ss_dssp             EEEEEESTTSSHHHHHHHHTTSSCE
T ss_pred             EEEEECCCCCcHHHHHHHHhcCCCC
Confidence            5789999999999999999986543

>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=97.84  E-value=9.1e-06  Score=48.54  Aligned_cols=24  Identities=38%  Similarity=0.598  Sum_probs=21.8

Q ss_pred             eEEEEECCCCChHHHHHHHHhcCc
Q 035301           13 FKVVLIGDSGVGKSNLLSRFTRNE   36 (68)
Q Consensus        13 ~ki~~iG~~~vGKtsl~~~~~~~~   36 (68)
                      +++.++|.+|+|||||++++.+..
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            689999999999999999998754

>2bdt_A BH3686; alpha-beta protein, structural genomics, PSI, protein struct initiative, northeast structural genomics consortium, NESG, function; 2.40A {Bacillus halodurans} SCOP: c.37.1.25

Probab=97.82  E-value=1.3e-05  Score=43.05  Aligned_cols=21  Identities=33%  Similarity=0.566  Sum_probs=19.0

Q ss_pred             EEEEECCCCChHHHHHHHHhc
Q 035301           14 KVVLIGDSGVGKSNLLSRFTR   34 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~   34 (68)
                      .++++|++|+||||+++.+++
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            478999999999999999975

>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=97.81  E-value=1.8e-05  Score=47.99  Aligned_cols=23  Identities=43%  Similarity=0.619  Sum_probs=20.9

Q ss_pred             EEEEECCCCChHHHHHHHHhcCc
Q 035301           14 KVVLIGDSGVGKSNLLSRFTRNE   36 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~~~   36 (68)
                      .+.++|++|+|||||++++.+..
T Consensus       159 ~VgLVG~~gAGKSTLL~~Lsg~~  181 (416)
T 1udx_A          159 DVGLVGYPNAGKSSLLAAMTRAH  181 (416)
T ss_dssp             SEEEECCGGGCHHHHHHHHCSSC
T ss_pred             EEEEECCCCCcHHHHHHHHHcCC
Confidence            57899999999999999999764

>2j41_A Guanylate kinase; GMP, GMK, transferase, ATP-binding, nucleotide- binding; HET: 5GP; 1.9A {Staphylococcus aureus}

Probab=97.81  E-value=1.4e-05  Score=43.28  Aligned_cols=24  Identities=38%  Similarity=0.594  Sum_probs=21.0

Q ss_pred             eEEEEECCCCChHHHHHHHHhcCc
Q 035301           13 FKVVLIGDSGVGKSNLLSRFTRNE   36 (68)
Q Consensus        13 ~ki~~iG~~~vGKtsl~~~~~~~~   36 (68)
                      ..++++|++|+||||+++.+.+..
T Consensus         7 ~~i~l~G~~GsGKSTl~~~L~~~~   30 (207)
T 2j41_A            7 LLIVLSGPSGVGKGTVRKRIFEDP   30 (207)
T ss_dssp             CEEEEECSTTSCHHHHHHHHHHCT
T ss_pred             CEEEEECCCCCCHHHHHHHHHHhh
Confidence            368999999999999999998754

>2bbw_A Adenylate kinase 4, AK4; nucleotide kinase, nucleotide binding, human, structura genomics, structural genomics consortium, SGC, transferase; HET: GP5; 2.05A {Homo sapiens} PDB: 2ar7_A* 3ndp_A

Probab=97.81  E-value=1.8e-05  Score=44.31  Aligned_cols=21  Identities=29%  Similarity=0.686  Sum_probs=19.7

Q ss_pred             eEEEEECCCCChHHHHHHHHh
Q 035301           13 FKVVLIGDSGVGKSNLLSRFT   33 (68)
Q Consensus        13 ~ki~~iG~~~vGKtsl~~~~~   33 (68)
                      ..++++|++|+||||+++.++
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            479999999999999999998

>2j69_A Bacterial dynamin-like protein; FZO, FZL, GTPase, hydrolase; 3.0A {Nostoc punctiforme} PDB: 2j68_A 2w6d_A*

Probab=97.81  E-value=2.4e-05  Score=49.86  Aligned_cols=27  Identities=26%  Similarity=0.562  Sum_probs=24.5

Q ss_pred             eeeEEEEECCCCChHHHHHHHHhcCcC
Q 035301           11 YLFKVVLIGDSGVGKSNLLSRFTRNEF   37 (68)
Q Consensus        11 ~~~ki~~iG~~~vGKtsl~~~~~~~~~   37 (68)
                      ..++|+++|+.++|||||++++++..+
T Consensus        68 ~~~~V~VvG~~naGKSSLlNaLlg~~~   94 (695)
T 2j69_A           68 GVFRLLVLGDMKRGKSTFLNALIGENL   94 (695)
T ss_dssp             CCEEEEEECCTTSCHHHHHHHHHTSSC
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCCC
Confidence            468999999999999999999998764

>3b85_A Phosphate starvation-inducible protein; PHOH2, ATPase, PFAM: PF02562, ST genomics, PSI-2, protein structure initiative; 2.35A {Corynebacterium glutamicum atcc 13032}

Probab=97.80  E-value=9.1e-06  Score=45.02  Aligned_cols=29  Identities=21%  Similarity=0.169  Sum_probs=23.5

Q ss_pred             EEEEECCCCChHHHHHHHHhcCcCcCCCcc
Q 035301           14 KVVLIGDSGVGKSNLLSRFTRNEFCLESKS   43 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~~~~~~~~~~   43 (68)
                      .+.++|++|+|||||++.+++. .+.++..
T Consensus        24 ~~~liG~nGsGKSTLl~~l~Gl-~p~~G~I   52 (208)
T 3b85_A           24 IVFGLGPAGSGKTYLAMAKAVQ-ALQSKQV   52 (208)
T ss_dssp             EEEEECCTTSSTTHHHHHHHHH-HHHTTSC
T ss_pred             EEEEECCCCCCHHHHHHHHhcC-CCcCCee
Confidence            5789999999999999999987 5544433

>1kag_A SKI, shikimate kinase I; transferase, structural genomics, PSI, protein structure initiative; 2.05A {Escherichia coli} SCOP: c.37.1.2

Probab=97.79  E-value=1.6e-05  Score=42.02  Aligned_cols=22  Identities=27%  Similarity=0.537  Sum_probs=19.8

Q ss_pred             eEEEEECCCCChHHHHHHHHhc
Q 035301           13 FKVVLIGDSGVGKSNLLSRFTR   34 (68)
Q Consensus        13 ~ki~~iG~~~vGKtsl~~~~~~   34 (68)
                      ..++++|.+|+||||+.+.+++
T Consensus         5 ~~i~l~G~~GsGKSTl~~~La~   26 (173)
T 1kag_A            5 RNIFLVGPMGAGKSTIGRQLAQ   26 (173)
T ss_dssp             CCEEEECCTTSCHHHHHHHHHH
T ss_pred             CeEEEECCCCCCHHHHHHHHHH
Confidence            3689999999999999999876

>2gza_A Type IV secretion system protein VIRB11; ATPase, hydrolase; 2.60A {Brucella suis}

Probab=97.79  E-value=2e-05  Score=46.79  Aligned_cols=32  Identities=25%  Similarity=0.386  Sum_probs=25.1

Q ss_pred             EEEEECCCCChHHHHHHHHhcCcCcCCCccce
Q 035301           14 KVVLIGDSGVGKSNLLSRFTRNEFCLESKSTI   45 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~~~~~~~~~~t~   45 (68)
                      .++++|++|+|||||++.+++..-+..+..++
T Consensus       177 ~i~ivG~sGsGKSTll~~l~~~~~~~~g~I~i  208 (361)
T 2gza_A          177 VIVVAGETGSGKTTLMKALMQEIPFDQRLITI  208 (361)
T ss_dssp             CEEEEESSSSCHHHHHHHHHTTSCTTSCEEEE
T ss_pred             EEEEECCCCCCHHHHHHHHHhcCCCCceEEEE
Confidence            78999999999999999999765444444443

>2qor_A Guanylate kinase; phosphotransferase, purine metabolism, structural genomics, structural genomics of pathogenic protozoa consortium; HET: 5GP POP; 1.80A {Plasmodium vivax}

Probab=97.79  E-value=1.6e-05  Score=43.43  Aligned_cols=22  Identities=36%  Similarity=0.584  Sum_probs=19.6

Q ss_pred             eEEEEECCCCChHHHHHHHHhc
Q 035301           13 FKVVLIGDSGVGKSNLLSRFTR   34 (68)
Q Consensus        13 ~ki~~iG~~~vGKtsl~~~~~~   34 (68)
                      .-++++|++|+||||+.+.+..
T Consensus        13 ~~i~l~G~sGsGKsTl~~~L~~   34 (204)
T 2qor_A           13 PPLVVCGPSGVGKGTLIKKVLS   34 (204)
T ss_dssp             CCEEEECCTTSCHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHH
Confidence            4689999999999999999875

>3szr_A Interferon-induced GTP-binding protein MX1; interferon-induced antiviral GTPase, membrane associated, PR binding; 3.50A {Homo sapiens} PDB: 3zys_B

Probab=97.79  E-value=1e-05  Score=50.87  Aligned_cols=33  Identities=24%  Similarity=0.268  Sum_probs=23.4

Q ss_pred             eEEEEECCCCChHHHHHHHHhcCcCc-CCCccce
Q 035301           13 FKVVLIGDSGVGKSNLLSRFTRNEFC-LESKSTI   45 (68)
Q Consensus        13 ~ki~~iG~~~vGKtsl~~~~~~~~~~-~~~~~t~   45 (68)
                      ..++++|++|+|||||++.+++..++ .++..++
T Consensus        46 p~iaIvG~nGsGKSTLL~~I~Gl~~P~~sG~vt~   79 (608)
T 3szr_A           46 PAIAVIGDQSSGKSSVLEALSGVALPRGSGIVTR   79 (608)
T ss_dssp             CCEECCCCTTSCHHHHHHHHHSCC-------CCC
T ss_pred             CeEEEECCCCChHHHHHHHHhCCCCCCCCCeEEE
Confidence            35999999999999999999998655 3454443

>3asz_A Uridine kinase; cytidine phosphorylation, transferase; HET: C5P; 2.25A {Thermus thermophilus} PDB: 3asy_A*

Probab=97.79  E-value=1.5e-05  Score=43.45  Aligned_cols=23  Identities=26%  Similarity=0.534  Sum_probs=20.4

Q ss_pred             eEEEEECCCCChHHHHHHHHhcC
Q 035301           13 FKVVLIGDSGVGKSNLLSRFTRN   35 (68)
Q Consensus        13 ~ki~~iG~~~vGKtsl~~~~~~~   35 (68)
                      ..+.++|++|+||||+++.+.+.
T Consensus         7 ~~i~i~G~~GsGKSTl~~~l~~~   29 (211)
T 3asz_A            7 FVIGIAGGTASGKTTLAQALART   29 (211)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHH
T ss_pred             EEEEEECCCCCCHHHHHHHHHHH
Confidence            57899999999999999988763

>4eun_A Thermoresistant glucokinase; putative sugar kinase, enzyme function initiative, EFI, STRU genomics, transferase; 1.60A {Janibacter SP}

Probab=97.79  E-value=1.6e-05  Score=43.25  Aligned_cols=22  Identities=32%  Similarity=0.495  Sum_probs=19.5

Q ss_pred             eEEEEECCCCChHHHHHHHHhc
Q 035301           13 FKVVLIGDSGVGKSNLLSRFTR   34 (68)
Q Consensus        13 ~ki~~iG~~~vGKtsl~~~~~~   34 (68)
                      ..++++|++|+||||+++.+++
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            3689999999999999998875

>4a74_A DNA repair and recombination protein RADA; hydrolase, recombinase; HET: DNA ANP; 1.48A {Pyrococcus furiosus} PDB: 4a6x_A* 4a6p_A* 4a7o_A*

Probab=97.78  E-value=1.4e-05  Score=43.85  Aligned_cols=22  Identities=23%  Similarity=0.360  Sum_probs=19.9

Q ss_pred             EEEEECCCCChHHHHHHHHhcC
Q 035301           14 KVVLIGDSGVGKSNLLSRFTRN   35 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~~   35 (68)
                      -+.++|++|+|||||++.+++.
T Consensus        27 ~~~l~G~nGsGKSTll~~l~g~   48 (231)
T 4a74_A           27 ITEVFGEFGSGKTQLAHTLAVM   48 (231)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHH
Confidence            5789999999999999999873

>2www_A Methylmalonic aciduria type A protein, mitochondrial; transport protein, nucleotide-binding; HET: GDP 2PE; 2.64A {Homo sapiens}

Probab=97.78  E-value=2e-05  Score=46.58  Aligned_cols=23  Identities=39%  Similarity=0.697  Sum_probs=21.5

Q ss_pred             eeEEEEECCCCChHHHHHHHHhc
Q 035301           12 LFKVVLIGDSGVGKSNLLSRFTR   34 (68)
Q Consensus        12 ~~ki~~iG~~~vGKtsl~~~~~~   34 (68)
                      ...+.++|.+|+|||||++++.+
T Consensus        74 ~~~v~lvG~pgaGKSTLln~L~~   96 (349)
T 2www_A           74 AFRVGLSGPPGAGKSTFIEYFGK   96 (349)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHH
T ss_pred             ceEEEEEcCCCCCHHHHHHHHHH
Confidence            57899999999999999999986

>2pt7_A CAG-ALFA; ATPase, protein-protein complex, type IV secretion, hydrolas binding complex; 2.40A {Helicobacter pylori} SCOP: c.37.1.11 PDB: 1nly_A* 1nlz_A 1opx_A* 1g6o_A

Probab=97.76  E-value=2e-05  Score=46.27  Aligned_cols=32  Identities=22%  Similarity=0.282  Sum_probs=25.2

Q ss_pred             EEEEECCCCChHHHHHHHHhcCcCcCCCccce
Q 035301           14 KVVLIGDSGVGKSNLLSRFTRNEFCLESKSTI   45 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~~~~~~~~~~t~   45 (68)
                      .++++|++|+|||||++.+++...+.+...++
T Consensus       173 ~v~i~G~~GsGKTTll~~l~g~~~~~~g~i~i  204 (330)
T 2pt7_A          173 NVIVCGGTGSGKTTYIKSIMEFIPKEERIISI  204 (330)
T ss_dssp             CEEEEESTTSCHHHHHHHGGGGSCTTSCEEEE
T ss_pred             EEEEECCCCCCHHHHHHHHhCCCcCCCcEEEE
Confidence            68999999999999999999865544444443

>3lnc_A Guanylate kinase, GMP kinase; ALS collaborative crystallography, emerald biostructures, ATP-binding, cytoplasm, nucleotide-binding; HET: 5GP; 1.95A {Anaplasma phagocytophilum}

Probab=97.75  E-value=1e-05  Score=44.83  Aligned_cols=22  Identities=27%  Similarity=0.514  Sum_probs=14.9

Q ss_pred             EEEEECCCCChHHHHHHHHh-cC
Q 035301           14 KVVLIGDSGVGKSNLLSRFT-RN   35 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~-~~   35 (68)
                      -++++|++|+||||+++.++ +.
T Consensus        29 ii~l~Gp~GsGKSTl~~~L~~~~   51 (231)
T 3lnc_A           29 ILVLSSPSGCGKTTVANKLLEKQ   51 (231)
T ss_dssp             EEEEECSCC----CHHHHHHC--
T ss_pred             EEEEECCCCCCHHHHHHHHHhcC
Confidence            58899999999999999999 54

>3kb2_A SPBC2 prophage-derived uncharacterized protein YORR; alpha-beta protein., structural genomics, PSI-2, protein structure initiative; HET: G3D; 2.20A {Bacillus subtilis} SCOP: c.37.1.1 PDB: 2axp_A*

Probab=97.75  E-value=2.2e-05  Score=41.27  Aligned_cols=21  Identities=19%  Similarity=0.336  Sum_probs=19.1

Q ss_pred             EEEEECCCCChHHHHHHHHhc
Q 035301           14 KVVLIGDSGVGKSNLLSRFTR   34 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~   34 (68)
                      .|++.|.+|+||||+.+.+..
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            689999999999999998874

>2eyu_A Twitching motility protein PILT; pilus retraction motor, C-terminal domain PILT, protein transport; 1.87A {Aquifex aeolicus}

Probab=97.75  E-value=1.8e-05  Score=45.11  Aligned_cols=23  Identities=22%  Similarity=0.414  Sum_probs=20.3

Q ss_pred             EEEEECCCCChHHHHHHHHhcCc
Q 035301           14 KVVLIGDSGVGKSNLLSRFTRNE   36 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~~~   36 (68)
                      .++++|++|+||||+++.+++..
T Consensus        27 ~v~i~Gp~GsGKSTll~~l~g~~   49 (261)
T 2eyu_A           27 LILVTGPTGSGKSTTIASMIDYI   49 (261)
T ss_dssp             EEEEECSTTCSHHHHHHHHHHHH
T ss_pred             EEEEECCCCccHHHHHHHHHHhC
Confidence            68999999999999999988643

>1via_A Shikimate kinase; structural genomics, transferase; HET: MSE; 1.57A {Campylobacter jejuni} SCOP: c.37.1.2

Probab=97.74  E-value=2.2e-05  Score=41.76  Aligned_cols=21  Identities=38%  Similarity=0.626  Sum_probs=19.0

Q ss_pred             EEEEECCCCChHHHHHHHHhc
Q 035301           14 KVVLIGDSGVGKSNLLSRFTR   34 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~   34 (68)
                      +++++|.+|+||||+...++.
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            699999999999999998864

>3ec2_A DNA replication protein DNAC; helicase loader, replication initiation factor, ATP-binding, nucleotide-binding; HET: DNA ADP; 2.70A {Aquifex aeolicus} PDB: 3ecc_A*

Probab=97.74  E-value=1.6e-05  Score=42.43  Aligned_cols=24  Identities=25%  Similarity=0.416  Sum_probs=20.4

Q ss_pred             eEEEEECCCCChHHHHHHHHhcCc
Q 035301           13 FKVVLIGDSGVGKSNLLSRFTRNE   36 (68)
Q Consensus        13 ~ki~~iG~~~vGKtsl~~~~~~~~   36 (68)
                      -.+++.|++|+|||+|+..+++.-
T Consensus        39 ~~~~l~G~~G~GKTtL~~~i~~~~   62 (180)
T 3ec2_A           39 KGLTFVGSPGVGKTHLAVATLKAI   62 (180)
T ss_dssp             CEEEECCSSSSSHHHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHHHH
Confidence            468999999999999999887643

>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=97.73  E-value=2.2e-05  Score=45.89  Aligned_cols=22  Identities=27%  Similarity=0.360  Sum_probs=19.6

Q ss_pred             EEEEECCCCChHHHHHHHHhcC
Q 035301           14 KVVLIGDSGVGKSNLLSRFTRN   35 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~~   35 (68)
                      .+.++|++|+|||||++.+++.
T Consensus       128 ~vaIvGpsGsGKSTLl~lL~gl  149 (305)
T 2v9p_A          128 CLAFIGPPNTGKSMLCNSLIHF  149 (305)
T ss_dssp             EEEEECSSSSSHHHHHHHHHHH
T ss_pred             EEEEECCCCCcHHHHHHHHhhh
Confidence            6899999999999999988753

>3b5x_A Lipid A export ATP-binding/permease protein MSBA; ABC transporter, lipid flippase, hydrolase, inner membrane, lipid transport, membrane; 5.50A {Vibrio cholerae}

Probab=97.72  E-value=3.2e-05  Score=48.26  Aligned_cols=31  Identities=35%  Similarity=0.387  Sum_probs=25.3

Q ss_pred             EEEEECCCCChHHHHHHHHhcCcCcCCCccc
Q 035301           14 KVVLIGDSGVGKSNLLSRFTRNEFCLESKST   44 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~~~~~~~~~~t   44 (68)
                      .+.++|++|+|||||++.+++...+.++...
T Consensus       371 ~~~ivG~sGsGKSTll~~l~g~~~p~~G~i~  401 (582)
T 3b5x_A          371 TVALVGRSGSGKSTIANLFTRFYDVDSGSIC  401 (582)
T ss_pred             EEEEECCCCCCHHHHHHHHhcCCCCCCCEEE
Confidence            6889999999999999999987655554433

>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=97.72  E-value=6.9e-06  Score=48.05  Aligned_cols=26  Identities=38%  Similarity=0.468  Sum_probs=20.0

Q ss_pred             EEEEECCCCChHHHHHHHHhcCcCcC
Q 035301           14 KVVLIGDSGVGKSNLLSRFTRNEFCL   39 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~~~~~~   39 (68)
                      .++++|++|+|||||++.+.+...+.
T Consensus       175 ~~~lvG~sG~GKSTLln~L~g~~~~~  200 (307)
T 1t9h_A          175 TTVFAGQSGVGKSSLLNAISPELGLR  200 (307)
T ss_dssp             EEEEEESHHHHHHHHHHHHCC-----
T ss_pred             EEEEECCCCCCHHHHHHHhccccccc
Confidence            78999999999999999999765443

>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=97.72  E-value=1.7e-05  Score=46.22  Aligned_cols=25  Identities=28%  Similarity=0.478  Sum_probs=21.2

Q ss_pred             eEEEEECCCCChHHHHHHHHhcCcC
Q 035301           13 FKVVLIGDSGVGKSNLLSRFTRNEF   37 (68)
Q Consensus        13 ~ki~~iG~~~vGKtsl~~~~~~~~~   37 (68)
                      -.++++|++|+||||++..+++..-
T Consensus       103 ~vi~lvG~nGsGKTTll~~Lagll~  127 (304)
T 1rj9_A          103 RVVLVVGVNGVGKTTTIAKLGRYYQ  127 (304)
T ss_dssp             SEEEEECSTTSSHHHHHHHHHHHHH
T ss_pred             eEEEEECCCCCcHHHHHHHHHHHHH
Confidence            4788999999999999999886443

>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=97.72  E-value=2.2e-05  Score=45.90  Aligned_cols=25  Identities=24%  Similarity=0.248  Sum_probs=21.6

Q ss_pred             eeeEEEEECCCCChHHHHHHHHhcC
Q 035301           11 YLFKVVLIGDSGVGKSNLLSRFTRN   35 (68)
Q Consensus        11 ~~~ki~~iG~~~vGKtsl~~~~~~~   35 (68)
                      ...-+.++|++|+|||||++.+.+.
T Consensus        89 ~g~ivgI~G~sGsGKSTL~~~L~gl  113 (312)
T 3aez_A           89 VPFIIGVAGSVAVGKSTTARVLQAL  113 (312)
T ss_dssp             CCEEEEEECCTTSCHHHHHHHHHHH
T ss_pred             CCEEEEEECCCCchHHHHHHHHHhh
Confidence            3467899999999999999998864

>3uie_A Adenylyl-sulfate kinase 1, chloroplastic; rossmann fold, transferase-transferase complex; HET: ADX ANP; 1.79A {Arabidopsis thaliana} SCOP: c.37.1.0 PDB: 4fxp_A*

Probab=97.72  E-value=2.4e-05  Score=42.58  Aligned_cols=23  Identities=30%  Similarity=0.381  Sum_probs=20.0

Q ss_pred             eEEEEECCCCChHHHHHHHHhcC
Q 035301           13 FKVVLIGDSGVGKSNLLSRFTRN   35 (68)
Q Consensus        13 ~ki~~iG~~~vGKtsl~~~~~~~   35 (68)
                      .-++++|++|+||||+.+.+.+.
T Consensus        26 ~~i~l~G~sGsGKSTl~~~La~~   48 (200)
T 3uie_A           26 CVIWVTGLSGSGKSTLACALNQM   48 (200)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHH
Confidence            46889999999999999988753

>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=97.71  E-value=1.6e-06  Score=53.55  Aligned_cols=30  Identities=20%  Similarity=0.256  Sum_probs=25.1

Q ss_pred             eeeEEEEECCCCChHHHHHHHHhcCcCcCC
Q 035301           11 YLFKVVLIGDSGVGKSNLLSRFTRNEFCLE   40 (68)
Q Consensus        11 ~~~ki~~iG~~~vGKtsl~~~~~~~~~~~~   40 (68)
                      ..++++++|..++|||||++++.+..+...
T Consensus         3 R~~~V~IvGhvd~GKTTLl~~L~~~~v~~~   32 (501)
T 1zo1_I            3 RAPVVTIMGHVDHGKTSLLEYIRSTKVASG   32 (501)
T ss_dssp             CCCCEEEEESTTSSSHHHHHHHHHHHHSBT
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHcCCCccc
Confidence            457899999999999999999987655433

>2if2_A Dephospho-COA kinase; alpha-beta protein, structural genomics, PSI-2, protein STRU initiative, northeast structural genomics consortium, NESG; 3.00A {Aquifex aeolicus}

Probab=97.70  E-value=2.6e-05  Score=42.31  Aligned_cols=22  Identities=32%  Similarity=0.531  Sum_probs=20.1

Q ss_pred             eEEEEECCCCChHHHHHHHHhc
Q 035301           13 FKVVLIGDSGVGKSNLLSRFTR   34 (68)
Q Consensus        13 ~ki~~iG~~~vGKtsl~~~~~~   34 (68)
                      .+|+++|.+|+||||+.+.+++
T Consensus         2 ~~i~i~G~~GsGKSTl~~~L~~   23 (204)
T 2if2_A            2 KRIGLTGNIGCGKSTVAQMFRE   23 (204)
T ss_dssp             CEEEEEECTTSSHHHHHHHHHH
T ss_pred             eEEEEECCCCcCHHHHHHHHHH
Confidence            4799999999999999999876

>1yqt_A RNAse L inhibitor; ATP-binding cassette, ribosome biogenesis, hydrolyase/translation complex; HET: ADP; 1.90A {Pyrococcus furiosus}

Probab=97.69  E-value=4.5e-05  Score=47.41  Aligned_cols=28  Identities=21%  Similarity=0.242  Sum_probs=23.4

Q ss_pred             EEEEECCCCChHHHHHHHHhcCcCcCCC
Q 035301           14 KVVLIGDSGVGKSNLLSRFTRNEFCLES   41 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~~~~~~~~   41 (68)
                      .+.++|++|+|||||++.+++...+..+
T Consensus        49 ~~~LvG~NGaGKSTLlk~l~Gl~~p~~G   76 (538)
T 1yqt_A           49 VVGIVGPNGTGKSTAVKILAGQLIPNLC   76 (538)
T ss_dssp             EEEEECCTTSSHHHHHHHHHTSSCCCTT
T ss_pred             EEEEECCCCCCHHHHHHHHhCCCCCCCC
Confidence            6889999999999999999986554433

>3vaa_A Shikimate kinase, SK; structural genomics, center for structural genomics of infec diseases, csgid, metal binding, transferase; 1.70A {Bacteroides thetaiotaomicron}

Probab=97.69  E-value=3.2e-05  Score=42.04  Aligned_cols=22  Identities=36%  Similarity=0.632  Sum_probs=19.7

Q ss_pred             eEEEEECCCCChHHHHHHHHhc
Q 035301           13 FKVVLIGDSGVGKSNLLSRFTR   34 (68)
Q Consensus        13 ~ki~~iG~~~vGKtsl~~~~~~   34 (68)
                      -.++++|.+|+||||+...++.
T Consensus        26 ~~i~l~G~~GsGKsTl~~~La~   47 (199)
T 3vaa_A           26 VRIFLTGYMGAGKTTLGKAFAR   47 (199)
T ss_dssp             CEEEEECCTTSCHHHHHHHHHH
T ss_pred             CEEEEEcCCCCCHHHHHHHHHH
Confidence            3799999999999999998874

>3gd7_A Fusion complex of cystic fibrosis transmembrane conductance regulator, residues 1193-1427...; CFTR, ABC transporter, nucleotide binding domain, NBD; HET: B44; 2.70A {Homo sapiens}

Probab=97.67  E-value=2.8e-05  Score=46.79  Aligned_cols=23  Identities=52%  Similarity=0.720  Sum_probs=20.7

Q ss_pred             EEEEECCCCChHHHHHHHHhcCc
Q 035301           14 KVVLIGDSGVGKSNLLSRFTRNE   36 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~~~   36 (68)
                      .+.++|++|+|||||++.+++..
T Consensus        49 ~~~llGpsGsGKSTLLr~iaGl~   71 (390)
T 3gd7_A           49 RVGLLGRTGSGKSTLLSAFLRLL   71 (390)
T ss_dssp             EEEEEESTTSSHHHHHHHHHTCS
T ss_pred             EEEEECCCCChHHHHHHHHhCCC
Confidence            68899999999999999999753

>1knq_A Gluconate kinase; ALFA/beta structure, transferase; 2.00A {Escherichia coli} SCOP: c.37.1.17 PDB: 1ko1_A 1ko4_A 1ko5_A* 1ko8_A* 1kof_A*

Probab=97.67  E-value=3.1e-05  Score=41.09  Aligned_cols=22  Identities=41%  Similarity=0.520  Sum_probs=19.5

Q ss_pred             eEEEEECCCCChHHHHHHHHhc
Q 035301           13 FKVVLIGDSGVGKSNLLSRFTR   34 (68)
Q Consensus        13 ~ki~~iG~~~vGKtsl~~~~~~   34 (68)
                      ..++++|.+|+||||+.+.+.+
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            4689999999999999998864

>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=97.67  E-value=6.3e-05  Score=45.47  Aligned_cols=28  Identities=21%  Similarity=0.431  Sum_probs=24.0

Q ss_pred             CceeeEEEEECCCCChHHHHHHHHhcCc
Q 035301            9 YDYLFKVVLIGDSGVGKSNLLSRFTRNE   36 (68)
Q Consensus         9 ~~~~~ki~~iG~~~vGKtsl~~~~~~~~   36 (68)
                      ....++++++|..++|||||++++++..
T Consensus        21 ~~~~~~i~iiG~~~~GKSTLi~~Ll~~~   48 (434)
T 1zun_B           21 RKEMLRFLTCGNVDDGKSTLIGRLLHDS   48 (434)
T ss_dssp             SCEEEEEEEECCTTSSHHHHHHHHHHHT
T ss_pred             cCCceEEEEEECCCCCHHHHHHHHHhhc
Confidence            3456899999999999999999998543

>3t61_A Gluconokinase; PSI-biology, structural genomics, protein structure initiati YORK structural genomics research consortium, nysgrc; 2.20A {Sinorhizobium meliloti}

Probab=97.66  E-value=3.2e-05  Score=41.99  Aligned_cols=22  Identities=32%  Similarity=0.442  Sum_probs=19.7

Q ss_pred             eEEEEECCCCChHHHHHHHHhc
Q 035301           13 FKVVLIGDSGVGKSNLLSRFTR   34 (68)
Q Consensus        13 ~ki~~iG~~~vGKtsl~~~~~~   34 (68)
                      ..|+++|.+|+||||+.+.+..
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            4799999999999999998874

>3b60_A Lipid A export ATP-binding/permease protein MSBA; ABC transporter, lipid flippase, hydrolase, inner membrane, lipid transport, membrane; HET: ANP; 3.70A {Salmonella typhimurium} SCOP: c.37.1.12 f.37.1.1 PDB: 3b5y_A* 3b5z_A* 3b5w_A

Probab=97.66  E-value=2.6e-05  Score=48.65  Aligned_cols=26  Identities=42%  Similarity=0.408  Sum_probs=22.6

Q ss_pred             EEEEECCCCChHHHHHHHHhcCcCcC
Q 035301           14 KVVLIGDSGVGKSNLLSRFTRNEFCL   39 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~~~~~~   39 (68)
                      ++.++|++|+|||||++.+++...+.
T Consensus       371 ~~~ivG~sGsGKSTLl~~l~g~~~p~  396 (582)
T 3b60_A          371 TVALVGRSGSGKSTIASLITRFYDID  396 (582)
T ss_dssp             EEEEEECTTSSHHHHHHHHTTTTCCS
T ss_pred             EEEEECCCCCCHHHHHHHHhhccCCC
Confidence            78999999999999999999865443

>3b9q_A Chloroplast SRP receptor homolog, alpha subunit CPFTSY; protein translocation, GTP-binding, nucleotide-binding, protein transport; 1.75A {Arabidopsis thaliana}

Probab=97.66  E-value=3.1e-05  Score=45.06  Aligned_cols=24  Identities=21%  Similarity=0.445  Sum_probs=20.9

Q ss_pred             eEEEEECCCCChHHHHHHHHhcCc
Q 035301           13 FKVVLIGDSGVGKSNLLSRFTRNE   36 (68)
Q Consensus        13 ~ki~~iG~~~vGKtsl~~~~~~~~   36 (68)
                      --++++|++|+||||++..+++..
T Consensus       101 ~vi~lvG~nGsGKTTll~~Lag~l  124 (302)
T 3b9q_A          101 AVIMIVGVNGGGKTTSLGKLAHRL  124 (302)
T ss_dssp             EEEEEECCTTSCHHHHHHHHHHHH
T ss_pred             cEEEEEcCCCCCHHHHHHHHHHHH
Confidence            468899999999999999988643

>1cke_A CK, MSSA, protein (cytidine monophosphate kinase); nucleotide monophosphate kinase,, transferase; 1.75A {Escherichia coli} SCOP: c.37.1.1 PDB: 1kdo_A* 1kdp_A* 1kdr_A* 1kdt_A* 2cmk_A* 2fem_A 2feo_A*

Probab=97.65  E-value=3.9e-05  Score=42.14  Aligned_cols=22  Identities=27%  Similarity=0.406  Sum_probs=19.8

Q ss_pred             eEEEEECCCCChHHHHHHHHhc
Q 035301           13 FKVVLIGDSGVGKSNLLSRFTR   34 (68)
Q Consensus        13 ~ki~~iG~~~vGKtsl~~~~~~   34 (68)
                      ..+.++|++|+||||+.+.+.+
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            4799999999999999998875

>1qhx_A CPT, protein (chloramphenicol phosphotransferase); kinase, antibiotic resistance, phosphorylation, mononucleoti binding fold; HET: ATP; 2.50A {Streptomyces venezuelae} SCOP: c.37.1.3 PDB: 1grr_A* 1grq_A 1qhs_A* 1qhn_A* 1qhy_A*

Probab=97.64  E-value=3.8e-05  Score=40.70  Aligned_cols=21  Identities=29%  Similarity=0.506  Sum_probs=19.1

Q ss_pred             EEEEECCCCChHHHHHHHHhc
Q 035301           14 KVVLIGDSGVGKSNLLSRFTR   34 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~   34 (68)
                      -|++.|.+|+||||+.+.+..
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            589999999999999998875

>2f1r_A Molybdopterin-guanine dinucleotide biosynthesis protein B (MOBB); structural genomics, PSI, protein structure initiative; 2.10A {Archaeoglobus fulgidus}

Probab=97.64  E-value=1.8e-05  Score=42.66  Aligned_cols=22  Identities=27%  Similarity=0.525  Sum_probs=19.8

Q ss_pred             EEEEECCCCChHHHHHHHHhcC
Q 035301           14 KVVLIGDSGVGKSNLLSRFTRN   35 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~~   35 (68)
                      .+.++|++|+|||||+..+++.
T Consensus         4 ~v~IvG~SGsGKSTL~~~L~~~   25 (171)
T 2f1r_A            4 ILSIVGTSDSGKTTLITRMMPI   25 (171)
T ss_dssp             EEEEEESCHHHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHH
Confidence            6889999999999999998864

>3euj_A Chromosome partition protein MUKB, linker; MUKB, MUKE, chromosome condensation, condensin, SMC, N subunit, ABC-type ATPase, WHD, ATP-binding; HET: AGS; 3.10A {Haemophilus ducreyi} PDB: 3euk_A*

Probab=97.63  E-value=3.3e-05  Score=47.68  Aligned_cols=23  Identities=30%  Similarity=0.473  Sum_probs=20.0

Q ss_pred             EEEEECCCCChHHHHHHHHhcCc
Q 035301           14 KVVLIGDSGVGKSNLLSRFTRNE   36 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~~~   36 (68)
                      .+.++|++|+|||||++.+++..
T Consensus        31 ~~~liG~nGsGKSTLl~~l~Gl~   53 (483)
T 3euj_A           31 VTTLSGGNGAGKSTTMAGFVTAL   53 (483)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHH
T ss_pred             eEEEECCCCCcHHHHHHHHhcCC
Confidence            57899999999999999988643

>1nks_A Adenylate kinase; thermophilic, transferase; HET: AMP ADP; 2.57A {Sulfolobus acidocaldarius} SCOP: c.37.1.1

Probab=97.63  E-value=4.2e-05  Score=40.78  Aligned_cols=22  Identities=32%  Similarity=0.478  Sum_probs=19.4

Q ss_pred             eEEEEECCCCChHHHHHHHHhc
Q 035301           13 FKVVLIGDSGVGKSNLLSRFTR   34 (68)
Q Consensus        13 ~ki~~iG~~~vGKtsl~~~~~~   34 (68)
                      ..|++.|.+|+||||+...+..
T Consensus         2 ~~I~i~G~~GsGKsT~~~~L~~   23 (194)
T 1nks_A            2 KIGIVTGIPGVGKSTVLAKVKE   23 (194)
T ss_dssp             EEEEEEECTTSCHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHH
Confidence            3689999999999999998874

>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=97.63  E-value=5.2e-05  Score=41.20  Aligned_cols=22  Identities=36%  Similarity=0.581  Sum_probs=20.2

Q ss_pred             eEEEEECCCCChHHHHHHHHhc
Q 035301           13 FKVVLIGDSGVGKSNLLSRFTR   34 (68)
Q Consensus        13 ~ki~~iG~~~vGKtsl~~~~~~   34 (68)
                      +.+.++|.+|+||||+.+.+.+
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            5689999999999999999986

>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=97.63  E-value=2.4e-05  Score=46.06  Aligned_cols=27  Identities=15%  Similarity=0.347  Sum_probs=22.4

Q ss_pred             eeEEEEECCCCChHHHHHHHHhcCcCc
Q 035301           12 LFKVVLIGDSGVGKSNLLSRFTRNEFC   38 (68)
Q Consensus        12 ~~ki~~iG~~~vGKtsl~~~~~~~~~~   38 (68)
                      .--++++|++|+||||++..+++...+
T Consensus       129 g~vi~lvG~nGaGKTTll~~Lag~l~~  155 (328)
T 3e70_C          129 PYVIMFVGFNGSGKTTTIAKLANWLKN  155 (328)
T ss_dssp             SEEEEEECCTTSSHHHHHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHHh
Confidence            457899999999999999998865433

>2jeo_A Uridine-cytidine kinase 1; UCK, transferase, ATP-binding, nucleoside kinase, nucleotide-binding; 2.50A {Homo sapiens} PDB: 2uvq_A*

Probab=97.62  E-value=3.8e-05  Score=43.03  Aligned_cols=22  Identities=23%  Similarity=0.439  Sum_probs=20.1

Q ss_pred             eEEEEECCCCChHHHHHHHHhc
Q 035301           13 FKVVLIGDSGVGKSNLLSRFTR   34 (68)
Q Consensus        13 ~ki~~iG~~~vGKtsl~~~~~~   34 (68)
                      ..+.++|++|+||||+++.+++
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            4689999999999999999876

>3fb4_A Adenylate kinase; psychrophIle, phosphotransferase, ATP-binding, nucleotide-binding, transferase; HET: AP5; 2.00A {Marinibacillus marinus}

Probab=97.62  E-value=4.4e-05  Score=41.71  Aligned_cols=22  Identities=27%  Similarity=0.539  Sum_probs=19.4

Q ss_pred             eEEEEECCCCChHHHHHHHHhc
Q 035301           13 FKVVLIGDSGVGKSNLLSRFTR   34 (68)
Q Consensus        13 ~ki~~iG~~~vGKtsl~~~~~~   34 (68)
                      ++|++.|.+|+||||+...++.
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            3689999999999999998864

>3izq_1 HBS1P, elongation factor 1 alpha-like protein; NO-GO mRNA decay, ribosomal protein,hydrolase; 9.50A {Saccharomyces cerevisiae}

Probab=97.62  E-value=5.3e-05  Score=47.78  Aligned_cols=26  Identities=27%  Similarity=0.423  Sum_probs=23.2

Q ss_pred             ceeeEEEEECCCCChHHHHHHHHhcC
Q 035301           10 DYLFKVVLIGDSGVGKSNLLSRFTRN   35 (68)
Q Consensus        10 ~~~~ki~~iG~~~vGKtsl~~~~~~~   35 (68)
                      ...++|+++|..++|||||++++++.
T Consensus       165 k~~lkV~ivG~~n~GKSTLin~Ll~~  190 (611)
T 3izq_1          165 LPHLSFVVLGHVDAGKSTLMGRLLYD  190 (611)
T ss_dssp             CCCCEEEEECCSSSCHHHHHHHHHSC
T ss_pred             CCceEEEEEECCCCCHHHHHHHHHHh
Confidence            34689999999999999999999865

>2jaq_A Deoxyguanosine kinase; transferase, deoxyribonucleoside kinase; HET: DCP; 2.3A {Mycoplasma mycoides subsp} PDB: 2jat_A* 2jas_A*

Probab=97.61  E-value=4.8e-05  Score=40.95  Aligned_cols=21  Identities=29%  Similarity=0.673  Sum_probs=19.0

Q ss_pred             EEEEECCCCChHHHHHHHHhc
Q 035301           14 KVVLIGDSGVGKSNLLSRFTR   34 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~   34 (68)
                      .|++.|.+|+||||+.+.++.
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            589999999999999998875

>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=97.61  E-value=4.2e-05  Score=42.85  Aligned_cols=21  Identities=38%  Similarity=0.694  Sum_probs=19.3

Q ss_pred             EEEECCCCChHHHHHHHHhcC
Q 035301           15 VVLIGDSGVGKSNLLSRFTRN   35 (68)
Q Consensus        15 i~~iG~~~vGKtsl~~~~~~~   35 (68)
                      ++++|++|+|||+|++.+++.
T Consensus        52 ~ll~G~~G~GKTtl~~~i~~~   72 (254)
T 1ixz_A           52 VLLVGPPGVGKTHLARAVAGE   72 (254)
T ss_dssp             EEEECCTTSSHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHH
Confidence            899999999999999998863

>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=97.61  E-value=9.8e-05  Score=48.05  Aligned_cols=27  Identities=19%  Similarity=0.256  Sum_probs=23.6

Q ss_pred             CceeeEEEEECCCCChHHHHHHHHhcC
Q 035301            9 YDYLFKVVLIGDSGVGKSNLLSRFTRN   35 (68)
Q Consensus         9 ~~~~~ki~~iG~~~vGKtsl~~~~~~~   35 (68)
                      .....+|+++|..++|||||+++++..
T Consensus        16 ~~~~rnI~IiG~~~~GKTTL~~~Ll~~   42 (842)
T 1n0u_A           16 VTNVRNMSVIAHVDHGKSTLTDSLVQR   42 (842)
T ss_dssp             GGGEEEEEEECCGGGTHHHHHHHHHHH
T ss_pred             cccccEEEEECCCCCCHHHHHHHHHHh
Confidence            445789999999999999999999853

>3ozx_A RNAse L inhibitor; ATP binding cassette protein, hydrolase, translation; HET: ADP; 2.05A {Sulfolobus solfataricus}

Probab=97.61  E-value=6.3e-05  Score=46.85  Aligned_cols=28  Identities=21%  Similarity=0.305  Sum_probs=23.4

Q ss_pred             EEEEECCCCChHHHHHHHHhcCcCcCCC
Q 035301           14 KVVLIGDSGVGKSNLLSRFTRNEFCLES   41 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~~~~~~~~   41 (68)
                      -+.++|++|+|||||++.+++...+..+
T Consensus        27 i~gLiGpNGaGKSTLlkiL~Gl~~p~~G   54 (538)
T 3ozx_A           27 ILGVLGKNGVGKTTVLKILAGEIIPNFG   54 (538)
T ss_dssp             EEEEECCTTSSHHHHHHHHTTSSCCCTT
T ss_pred             EEEEECCCCCcHHHHHHHHhcCCCCCCC
Confidence            5789999999999999999986655444

>3j16_B RLI1P; ribosome recycling, translation, eukarya, ribosome; HET: ATP; 7.20A {Saccharomyces cerevisiae}

Probab=97.60  E-value=6.4e-05  Score=47.47  Aligned_cols=28  Identities=25%  Similarity=0.316  Sum_probs=23.6

Q ss_pred             EEEEECCCCChHHHHHHHHhcCcCcCCC
Q 035301           14 KVVLIGDSGVGKSNLLSRFTRNEFCLES   41 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~~~~~~~~   41 (68)
                      .+.++|++|+|||||++.+++...+..+
T Consensus       105 i~~LvGpNGaGKSTLLkiL~Gll~P~~G  132 (608)
T 3j16_B          105 VLGLVGTNGIGKSTALKILAGKQKPNLG  132 (608)
T ss_dssp             EEEEECCTTSSHHHHHHHHHTSSCCCTT
T ss_pred             EEEEECCCCChHHHHHHHHhcCCCCCCc
Confidence            5789999999999999999986655444

>3dl0_A Adenylate kinase; phosphotransferase, zinc coordination, ATP-binding, binding, nucleotide biosynthesis, nucleotide-binding, trans; HET: AP5; 1.58A {Bacillus subtilis} PDB: 1p3j_A* 2ori_A* 2eu8_A* 2oo7_A* 2p3s_A* 2qaj_A* 2osb_A* 3dkv_A* 1zin_A* 1zio_A* 1zip_A* 1s3g_A*

Probab=97.60  E-value=5.3e-05  Score=41.43  Aligned_cols=22  Identities=32%  Similarity=0.528  Sum_probs=19.5

Q ss_pred             eEEEEECCCCChHHHHHHHHhc
Q 035301           13 FKVVLIGDSGVGKSNLLSRFTR   34 (68)
Q Consensus        13 ~ki~~iG~~~vGKtsl~~~~~~   34 (68)
                      ++|++.|.+|+||||+...++.
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            3689999999999999998864

>2qm8_A GTPase/ATPase; G protein, G3E, metallochaperone, chaperone; HET: MSE; 1.70A {Methylobacterium extorquens} SCOP: c.37.1.10 PDB: 2qm7_A*

Probab=97.59  E-value=4.8e-05  Score=44.79  Aligned_cols=23  Identities=30%  Similarity=0.486  Sum_probs=20.6

Q ss_pred             eeEEEEECCCCChHHHHHHHHhc
Q 035301           12 LFKVVLIGDSGVGKSNLLSRFTR   34 (68)
Q Consensus        12 ~~ki~~iG~~~vGKtsl~~~~~~   34 (68)
                      ...+.++|++|+|||||++.+.+
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            35799999999999999999974

>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=97.59  E-value=4.8e-05  Score=41.14  Aligned_cols=23  Identities=26%  Similarity=0.351  Sum_probs=20.1

Q ss_pred             eEEEEECCCCChHHHHHHHHhcC
Q 035301           13 FKVVLIGDSGVGKSNLLSRFTRN   35 (68)
Q Consensus        13 ~ki~~iG~~~vGKtsl~~~~~~~   35 (68)
                      .-++++|.+|+|||||++++...
T Consensus         7 ~~i~i~G~sGsGKTTl~~~l~~~   29 (174)
T 1np6_A            7 PLLAFAAWSGTGKTTLLKKLIPA   29 (174)
T ss_dssp             CEEEEECCTTSCHHHHHHHHHHH
T ss_pred             eEEEEEeCCCCCHHHHHHHHHHh
Confidence            46889999999999999998853

>1ly1_A Polynucleotide kinase; PNK, phosphatase, transferase; 2.00A {Enterobacteria phage T4} SCOP: c.37.1.1

Probab=97.59  E-value=5.3e-05  Score=40.03  Aligned_cols=22  Identities=32%  Similarity=0.428  Sum_probs=19.8

Q ss_pred             eEEEEECCCCChHHHHHHHHhc
Q 035301           13 FKVVLIGDSGVGKSNLLSRFTR   34 (68)
Q Consensus        13 ~ki~~iG~~~vGKtsl~~~~~~   34 (68)
                      ..|++.|.+|+||||+.+.+..
T Consensus         3 ~~I~i~G~~GsGKST~a~~L~~   24 (181)
T 1ly1_A            3 KIILTIGCPGSGKSTWAREFIA   24 (181)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHH
T ss_pred             eEEEEecCCCCCHHHHHHHHHh
Confidence            4589999999999999999886

>1jbk_A CLPB protein; beta barrel, chaperone; 1.80A {Escherichia coli} SCOP: c.37.1.20

Probab=97.59  E-value=4.8e-05  Score=40.07  Aligned_cols=23  Identities=35%  Similarity=0.670  Sum_probs=19.6

Q ss_pred             eEEEEECCCCChHHHHHHHHhcC
Q 035301           13 FKVVLIGDSGVGKSNLLSRFTRN   35 (68)
Q Consensus        13 ~ki~~iG~~~vGKtsl~~~~~~~   35 (68)
                      -.+++.|++|+|||+++..++..
T Consensus        44 ~~~ll~G~~G~GKT~l~~~~~~~   66 (195)
T 1jbk_A           44 NNPVLIGEPGVGKTAIVEGLAQR   66 (195)
T ss_dssp             CEEEEECCTTSCHHHHHHHHHHH
T ss_pred             CceEEECCCCCCHHHHHHHHHHH
Confidence            35899999999999999888753

>3lw7_A Adenylate kinase related protein (ADKA-like); AMP, PSI, MCSG, structural genomics, midwest center for structural genomics; HET: AMP; 2.30A {Sulfolobus solfataricus} PDB: 3h0k_A

Probab=97.59  E-value=5.6e-05  Score=39.52  Aligned_cols=20  Identities=25%  Similarity=0.423  Sum_probs=18.2

Q ss_pred             eEEEEECCCCChHHHHHHHH
Q 035301           13 FKVVLIGDSGVGKSNLLSRF   32 (68)
Q Consensus        13 ~ki~~iG~~~vGKtsl~~~~   32 (68)
                      .-|++.|.+|+||||+.+.+
T Consensus         2 ~~I~l~G~~GsGKsT~a~~L   21 (179)
T 3lw7_A            2 KVILITGMPGSGKSEFAKLL   21 (179)
T ss_dssp             CEEEEECCTTSCHHHHHHHH
T ss_pred             cEEEEECCCCCCHHHHHHHH
Confidence            35889999999999999988

>3tqc_A Pantothenate kinase; biosynthesis of cofactors, prosthetic groups, carriers, TRAN; HET: ADP; 2.30A {Coxiella burnetii}

Probab=97.58  E-value=8.3e-05  Score=43.74  Aligned_cols=25  Identities=20%  Similarity=0.272  Sum_probs=21.5

Q ss_pred             ceeeEEEEECCCCChHHHHHHHHhc
Q 035301           10 DYLFKVVLIGDSGVGKSNLLSRFTR   34 (68)
Q Consensus        10 ~~~~ki~~iG~~~vGKtsl~~~~~~   34 (68)
                      ...+-+.++|++|+||||+++.+.+
T Consensus        90 ~~p~iigI~GpsGSGKSTl~~~L~~  114 (321)
T 3tqc_A           90 KVPYIIGIAGSVAVGKSTTSRVLKA  114 (321)
T ss_dssp             CCCEEEEEECCTTSSHHHHHHHHHH
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHH
Confidence            3457899999999999999998865

>2w0m_A SSO2452; RECA, SSPF, unknown FUN; 2.0A {Sulfolobus solfataricus P2}

Probab=97.57  E-value=5.1e-05  Score=41.44  Aligned_cols=21  Identities=29%  Similarity=0.513  Sum_probs=18.8

Q ss_pred             EEEEECCCCChHHHHHHHHhc
Q 035301           14 KVVLIGDSGVGKSNLLSRFTR   34 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~   34 (68)
                      -++++|++|+|||+|+..++.
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            478899999999999999884

>2x8a_A Nuclear valosin-containing protein-like; nuclear protein; 2.60A {Homo sapiens}

Probab=97.57  E-value=5e-05  Score=43.47  Aligned_cols=21  Identities=33%  Similarity=0.537  Sum_probs=19.4

Q ss_pred             EEEECCCCChHHHHHHHHhcC
Q 035301           15 VVLIGDSGVGKSNLLSRFTRN   35 (68)
Q Consensus        15 i~~iG~~~vGKtsl~~~~~~~   35 (68)
                      ++++|++|+|||+|++.+++.
T Consensus        47 vlL~Gp~GtGKTtLakala~~   67 (274)
T 2x8a_A           47 VLLAGPPGCGKTLLAKAVANE   67 (274)
T ss_dssp             EEEESSTTSCHHHHHHHHHHH
T ss_pred             EEEECCCCCcHHHHHHHHHHH
Confidence            899999999999999998863

>3bk7_A ABC transporter ATP-binding protein; ABC ATPase, iron-sulfur cluster, adenosine diphosphate, nucleotide-binding; HET: ADP; 2.80A {Pyrococcus abyssi} PDB: 3j15_B*

Probab=97.56  E-value=8.3e-05  Score=46.91  Aligned_cols=28  Identities=18%  Similarity=0.234  Sum_probs=23.4

Q ss_pred             EEEEECCCCChHHHHHHHHhcCcCcCCC
Q 035301           14 KVVLIGDSGVGKSNLLSRFTRNEFCLES   41 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~~~~~~~~   41 (68)
                      .+.++|++|+|||||++.+++...+..+
T Consensus       119 ~~~LiG~NGsGKSTLlkiL~Gll~p~~G  146 (607)
T 3bk7_A          119 VVGIVGPNGTGKTTAVKILAGQLIPNLC  146 (607)
T ss_dssp             EEEEECCTTSSHHHHHHHHTTSSCCCTT
T ss_pred             EEEEECCCCChHHHHHHHHhCCCCCCCC
Confidence            6889999999999999999986554443

>3kta_A Chromosome segregation protein SMC; structural maintenance of chromosomes, ABC ATPase, CFTR adenylate kinase, AP5A, transferase; HET: AP5; 1.63A {Pyrococcus furiosus} PDB: 1xex_A* 1xew_X*

Probab=97.56  E-value=5.2e-05  Score=40.41  Aligned_cols=21  Identities=29%  Similarity=0.415  Sum_probs=18.3

Q ss_pred             EEEEECCCCChHHHHHHHHhc
Q 035301           14 KVVLIGDSGVGKSNLLSRFTR   34 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~   34 (68)
                      -.+++|++|+|||+|+..+..
T Consensus        28 ~~~i~G~NGsGKStll~ai~~   48 (182)
T 3kta_A           28 FTAIVGANGSGKSNIGDAILF   48 (182)
T ss_dssp             EEEEEECTTSSHHHHHHHHHH
T ss_pred             cEEEECCCCCCHHHHHHHHHH
Confidence            568999999999999998754

>2npi_A Protein CLP1; CLP1-PCF11 complex, ATP binding, ternary complex, transcript; HET: ATP; 2.95A {Saccharomyces cerevisiae}

Probab=97.55  E-value=4.1e-05  Score=46.90  Aligned_cols=25  Identities=28%  Similarity=0.482  Sum_probs=21.8

Q ss_pred             EEEEECCCCChHHHHHHHHhcCcCc
Q 035301           14 KVVLIGDSGVGKSNLLSRFTRNEFC   38 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~~~~~   38 (68)
                      .++++|++|+|||||++.+++...+
T Consensus       140 ~v~IvGpnGsGKSTLlr~L~Gl~~p  164 (460)
T 2npi_A          140 RVVIVGGSQTGKTSLSRTLCSYALK  164 (460)
T ss_dssp             CEEEEESTTSSHHHHHHHHHHTTHH
T ss_pred             EEEEECCCCCCHHHHHHHHhCcccc
Confidence            6899999999999999999876543

>1ukz_A Uridylate kinase; transferase; HET: ADP AMP; 1.90A {Saccharomyces cerevisiae} SCOP: c.37.1.1 PDB: 1uky_A*

Probab=97.55  E-value=0.0001  Score=39.93  Aligned_cols=25  Identities=20%  Similarity=0.496  Sum_probs=21.0

Q ss_pred             ceeeEEEEECCCCChHHHHHHHHhc
Q 035301           10 DYLFKVVLIGDSGVGKSNLLSRFTR   34 (68)
Q Consensus        10 ~~~~ki~~iG~~~vGKtsl~~~~~~   34 (68)
                      .....|++.|.+|+||||+...++.
T Consensus        13 ~~~~~I~l~G~~GsGKsT~~~~L~~   37 (203)
T 1ukz_A           13 DQVSVIFVLGGPGAGKGTQCEKLVK   37 (203)
T ss_dssp             TTCEEEEEECSTTSSHHHHHHHHHH
T ss_pred             CCCcEEEEECCCCCCHHHHHHHHHH
Confidence            3456899999999999999988863

>2vp4_A Deoxynucleoside kinase; ATP-binding, DNA synthesis, phosphoprotein, feedback inhibition, deoxyribonucleoside kinase, salvage pathway; HET: DCP; 2.20A {Drosophila melanogaster} SCOP: c.37.1.1 PDB: 1j90_A* 2jj8_A* 2vp2_A* 1oe0_A* 2vp5_A* 2vp6_A* 2vp9_A* 2vpp_A* 2vqs_A* 2vp0_A* 1ot3_A* 2jcs_A* 1zm7_A* 1zmx_A*

Probab=97.55  E-value=7.3e-05  Score=41.54  Aligned_cols=25  Identities=32%  Similarity=0.620  Sum_probs=21.6

Q ss_pred             eeeEEEEECCCCChHHHHHHHHhcC
Q 035301           11 YLFKVVLIGDSGVGKSNLLSRFTRN   35 (68)
Q Consensus        11 ~~~ki~~iG~~~vGKtsl~~~~~~~   35 (68)
                      .-.-+.+.|.+|+||||+++.+.+.
T Consensus        19 ~g~~i~i~G~~GsGKSTl~~~L~~~   43 (230)
T 2vp4_A           19 QPFTVLIEGNIGSGKTTYLNHFEKY   43 (230)
T ss_dssp             CCEEEEEECSTTSCHHHHHHTTGGG
T ss_pred             CceEEEEECCCCCCHHHHHHHHHhc
Confidence            3467899999999999999998864

>2og2_A Putative signal recognition particle receptor; nucleotide-binding, protein transport; 2.00A {Arabidopsis thaliana}

Probab=97.54  E-value=5.4e-05  Score=45.12  Aligned_cols=24  Identities=21%  Similarity=0.445  Sum_probs=20.9

Q ss_pred             eEEEEECCCCChHHHHHHHHhcCc
Q 035301           13 FKVVLIGDSGVGKSNLLSRFTRNE   36 (68)
Q Consensus        13 ~ki~~iG~~~vGKtsl~~~~~~~~   36 (68)
                      -.++++|++|+||||++..+++..
T Consensus       158 ~vi~lvG~nGsGKTTll~~Lag~l  181 (359)
T 2og2_A          158 AVIMIVGVNGGGKTTSLGKLAHRL  181 (359)
T ss_dssp             EEEEEECCTTSCHHHHHHHHHHHH
T ss_pred             eEEEEEcCCCChHHHHHHHHHhhc
Confidence            468899999999999999988643

>2oap_1 GSPE-2, type II secretion system protein; hexameric ATPase, hydrolase; HET: ANP; 2.95A {Archaeoglobus fulgidus} PDB: 2oaq_1

Probab=97.54  E-value=6.6e-05  Score=46.53  Aligned_cols=32  Identities=16%  Similarity=0.191  Sum_probs=24.5

Q ss_pred             EEEEECCCCChHHHHHHHHhcCcCcCCCccce
Q 035301           14 KVVLIGDSGVGKSNLLSRFTRNEFCLESKSTI   45 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~~~~~~~~~~t~   45 (68)
                      .++++|++|+||||+++.+++.-.+.....++
T Consensus       262 ~i~I~GptGSGKTTlL~aL~~~i~~~~giiti  293 (511)
T 2oap_1          262 SAIVVGETASGKTTTLNAIMMFIPPDAKVVSI  293 (511)
T ss_dssp             CEEEEESTTSSHHHHHHHHGGGSCTTCCEEEE
T ss_pred             EEEEECCCCCCHHHHHHHHHhhCCCCCCEEEE
Confidence            48999999999999999998755444443343

>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=97.54  E-value=4.5e-05  Score=51.51  Aligned_cols=27  Identities=26%  Similarity=0.218  Sum_probs=23.6

Q ss_pred             CceeeEEEEECCCCChHHHHHHHHhcC
Q 035301            9 YDYLFKVVLIGDSGVGKSNLLSRFTRN   35 (68)
Q Consensus         9 ~~~~~ki~~iG~~~vGKtsl~~~~~~~   35 (68)
                      ....++|+++|..++|||||++++.+.
T Consensus       293 ~k~~lnIvIIGhvDvGKSTLInrLt~~  319 (1289)
T 3avx_A          293 TKPHVNVGTIGHVDHGKTTLTAAITTV  319 (1289)
T ss_dssp             CCCEEEEEEEESTTSSHHHHHHHHHHH
T ss_pred             cCCeeEEEEEcCCCCCHHHHHHHHHhh
Confidence            345689999999999999999999863

>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=97.54  E-value=9.1e-05  Score=40.30  Aligned_cols=24  Identities=21%  Similarity=0.416  Sum_probs=21.4

Q ss_pred             eeEEEEECCCCChHHHHHHHHhcC
Q 035301           12 LFKVVLIGDSGVGKSNLLSRFTRN   35 (68)
Q Consensus        12 ~~ki~~iG~~~vGKtsl~~~~~~~   35 (68)
                      ...+.++|.+|+||||+++.+.+.
T Consensus        21 ~~~i~i~G~~GsGKSTl~~~L~~~   44 (207)
T 2qt1_A           21 TFIIGISGVTNSGKTTLAKNLQKH   44 (207)
T ss_dssp             CEEEEEEESTTSSHHHHHHHHHTT
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHh
Confidence            467999999999999999999864

>1yqt_A RNAse L inhibitor; ATP-binding cassette, ribosome biogenesis, hydrolyase/translation complex; HET: ADP; 1.90A {Pyrococcus furiosus}

Probab=97.54  E-value=0.00011  Score=45.76  Aligned_cols=30  Identities=23%  Similarity=0.386  Sum_probs=24.6

Q ss_pred             EEEEECCCCChHHHHHHHHhcCcCcCCCcc
Q 035301           14 KVVLIGDSGVGKSNLLSRFTRNEFCLESKS   43 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~~~~~~~~~~   43 (68)
                      .+.++|++|+|||||++.+++...+..+..
T Consensus       314 ~~~i~G~NGsGKSTLlk~l~Gl~~p~~G~i  343 (538)
T 1yqt_A          314 VIGIVGPNGIGKTTFVKMLAGVEEPTEGKI  343 (538)
T ss_dssp             EEEEECCTTSSHHHHHHHHHTSSCCSBCCC
T ss_pred             EEEEECCCCCCHHHHHHHHhCCCCCCCeEE
Confidence            578999999999999999998765554443

>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=97.53  E-value=5.6e-05  Score=44.95  Aligned_cols=22  Identities=32%  Similarity=0.480  Sum_probs=19.9

Q ss_pred             EEEEECCCCChHHHHHHHHhcC
Q 035301           14 KVVLIGDSGVGKSNLLSRFTRN   35 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~~   35 (68)
                      .++++|++|+||||+++.+++.
T Consensus       125 ~i~I~GptGSGKTTlL~~l~g~  146 (356)
T 3jvv_A          125 LVLVTGPTGSGKSTTLAAMLDY  146 (356)
T ss_dssp             EEEEECSTTSCHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHhc
Confidence            6899999999999999988764

>2kjq_A DNAA-related protein; solution structure, NESG, structural genomics, PSI-2, protei structure initiative; NMR {Neisseria meningitidis serogroup B}

Probab=97.53  E-value=3.2e-05  Score=40.66  Aligned_cols=22  Identities=32%  Similarity=0.597  Sum_probs=19.6

Q ss_pred             EEEEECCCCChHHHHHHHHhcC
Q 035301           14 KVVLIGDSGVGKSNLLSRFTRN   35 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~~   35 (68)
                      .++++|++|+|||+|++.+++.
T Consensus        38 ~~~l~G~~G~GKTtL~~~i~~~   59 (149)
T 2kjq_A           38 FIYVWGEEGAGKSHLLQAWVAQ   59 (149)
T ss_dssp             EEEEESSSTTTTCHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHH
Confidence            5789999999999999998864

>3trf_A Shikimate kinase, SK; amino acid biosynthesis, transferase; 2.60A {Coxiella burnetii}

Probab=97.53  E-value=7.9e-05  Score=39.75  Aligned_cols=22  Identities=32%  Similarity=0.533  Sum_probs=19.6

Q ss_pred             eEEEEECCCCChHHHHHHHHhc
Q 035301           13 FKVVLIGDSGVGKSNLLSRFTR   34 (68)
Q Consensus        13 ~ki~~iG~~~vGKtsl~~~~~~   34 (68)
                      ..|+++|.+|+||||+...++.
T Consensus         6 ~~i~l~G~~GsGKst~a~~La~   27 (185)
T 3trf_A            6 TNIYLIGLMGAGKTSVGSQLAK   27 (185)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHH
Confidence            4789999999999999998874

>3bk7_A ABC transporter ATP-binding protein; ABC ATPase, iron-sulfur cluster, adenosine diphosphate, nucleotide-binding; HET: ADP; 2.80A {Pyrococcus abyssi} PDB: 3j15_B*

Probab=97.53  E-value=0.00011  Score=46.40  Aligned_cols=30  Identities=23%  Similarity=0.395  Sum_probs=24.7

Q ss_pred             EEEEECCCCChHHHHHHHHhcCcCcCCCcc
Q 035301           14 KVVLIGDSGVGKSNLLSRFTRNEFCLESKS   43 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~~~~~~~~~~   43 (68)
                      .+.++|++|+|||||++.+++...+..+..
T Consensus       384 i~~i~G~NGsGKSTLlk~l~Gl~~p~~G~I  413 (607)
T 3bk7_A          384 VIGIVGPNGIGKTTFVKMLAGVEEPTEGKV  413 (607)
T ss_dssp             EEEEECCTTSSHHHHHHHHHTSSCCSBSCC
T ss_pred             EEEEECCCCCCHHHHHHHHhcCCCCCceEE
Confidence            578999999999999999998765555443

>1kht_A Adenylate kinase; phosphotransferase, signaling protein, transferase; HET: AMP; 2.50A {Methanococcus voltae} SCOP: c.37.1.1 PDB: 3h86_B* 1ki9_A

Probab=97.53  E-value=7.9e-05  Score=39.69  Aligned_cols=22  Identities=27%  Similarity=0.250  Sum_probs=19.5

Q ss_pred             eEEEEECCCCChHHHHHHHHhc
Q 035301           13 FKVVLIGDSGVGKSNLLSRFTR   34 (68)
Q Consensus        13 ~ki~~iG~~~vGKtsl~~~~~~   34 (68)
                      ..|++.|.+|+||||+.+.+..
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            4799999999999999998764

>1iy2_A ATP-dependent metalloprotease FTSH; AAA domain fold, hydrolase; 3.20A {Thermus thermophilus} SCOP: c.37.1.20

Probab=97.53  E-value=6.3e-05  Score=42.77  Aligned_cols=22  Identities=36%  Similarity=0.646  Sum_probs=19.6

Q ss_pred             EEEEECCCCChHHHHHHHHhcC
Q 035301           14 KVVLIGDSGVGKSNLLSRFTRN   35 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~~   35 (68)
                      -++++|++|+|||+|++.+++.
T Consensus        75 gvll~Gp~GtGKTtl~~~i~~~   96 (278)
T 1iy2_A           75 GVLLVGPPGVGKTHLARAVAGE   96 (278)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHH
T ss_pred             eEEEECCCcChHHHHHHHHHHH
Confidence            3899999999999999998863

>4e22_A Cytidylate kinase; P-loop, CMP/ATP binding, transferase; 2.32A {Yersinia pseudotuberculosis}

Probab=97.53  E-value=6.2e-05  Score=42.47  Aligned_cols=21  Identities=29%  Similarity=0.409  Sum_probs=19.5

Q ss_pred             eEEEEECCCCChHHHHHHHHh
Q 035301           13 FKVVLIGDSGVGKSNLLSRFT   33 (68)
Q Consensus        13 ~ki~~iG~~~vGKtsl~~~~~   33 (68)
                      ..+.++|++|+||||+++.++
T Consensus        28 ~~I~I~G~~GsGKSTl~k~La   48 (252)
T 4e22_A           28 PVITVDGPSGAGKGTLCKALA   48 (252)
T ss_dssp             CEEEEECCTTSSHHHHHHHHH
T ss_pred             cEEEEECCCCCCHHHHHHHHH
Confidence            479999999999999999988

>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=97.53  E-value=9.1e-05  Score=45.16  Aligned_cols=26  Identities=27%  Similarity=0.354  Sum_probs=23.0

Q ss_pred             ceeeEEEEECCCCChHHHHHHHHhcC
Q 035301           10 DYLFKVVLIGDSGVGKSNLLSRFTRN   35 (68)
Q Consensus        10 ~~~~ki~~iG~~~vGKtsl~~~~~~~   35 (68)
                      ...++++++|..++|||||++++++.
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            34689999999999999999999864

>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=97.53  E-value=7e-05  Score=45.32  Aligned_cols=25  Identities=28%  Similarity=0.497  Sum_probs=22.6

Q ss_pred             eeeEEEEECCCCChHHHHHHHHhcC
Q 035301           11 YLFKVVLIGDSGVGKSNLLSRFTRN   35 (68)
Q Consensus        11 ~~~ki~~iG~~~vGKtsl~~~~~~~   35 (68)
                      ..++++++|..++|||||+++++..
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            4689999999999999999999864

>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=97.53  E-value=6e-05  Score=44.05  Aligned_cols=22  Identities=32%  Similarity=0.576  Sum_probs=19.7

Q ss_pred             EEEEECCCCChHHHHHHHHhcC
Q 035301           14 KVVLIGDSGVGKSNLLSRFTRN   35 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~~   35 (68)
                      .+++.|++|+|||+|++.+++.
T Consensus        53 ~~ll~Gp~G~GKTTLa~~ia~~   74 (334)
T 1in4_A           53 HVLLAGPPGLGKTTLAHIIASE   74 (334)
T ss_dssp             CEEEESSTTSSHHHHHHHHHHH
T ss_pred             eEEEECCCCCcHHHHHHHHHHH
Confidence            4889999999999999998864

>3qf4_B Uncharacterized ABC transporter ATP-binding prote TM_0288; multidrug transporter, transport protein; HET: ANP; 2.90A {Thermotoga maritima}

Probab=97.52  E-value=3.6e-05  Score=48.27  Aligned_cols=27  Identities=30%  Similarity=0.422  Sum_probs=23.0

Q ss_pred             EEEEECCCCChHHHHHHHHhcCcCcCC
Q 035301           14 KVVLIGDSGVGKSNLLSRFTRNEFCLE   40 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~~~~~~~   40 (68)
                      .+.++|++|+|||||++.+++...+.+
T Consensus       383 ~~~ivG~sGsGKSTll~~l~g~~~p~~  409 (598)
T 3qf4_B          383 KVALVGPTGSGKTTIVNLLMRFYDVDR  409 (598)
T ss_dssp             EEEEECCTTSSTTHHHHHHTTSSCCSE
T ss_pred             EEEEECCCCCcHHHHHHHHhcCcCCCC
Confidence            789999999999999999998654443

>4a82_A Cystic fibrosis transmembrane conductance regulat; CFTR, ION channel, transport protein, casse protein; 2.00A {Homo sapiens} PDB: 2onj_A* 2hyd_A

Probab=97.52  E-value=3e-05  Score=48.39  Aligned_cols=26  Identities=35%  Similarity=0.386  Sum_probs=22.1

Q ss_pred             EEEEECCCCChHHHHHHHHhcCcCcC
Q 035301           14 KVVLIGDSGVGKSNLLSRFTRNEFCL   39 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~~~~~~   39 (68)
                      .+.++|++|+|||||++.+.+...+.
T Consensus       369 ~~~ivG~sGsGKSTll~~l~g~~~p~  394 (578)
T 4a82_A          369 TVAFVGMSGGGKSTLINLIPRFYDVT  394 (578)
T ss_dssp             EEEEECSTTSSHHHHHTTTTTSSCCS
T ss_pred             EEEEECCCCChHHHHHHHHhcCCCCC
Confidence            78899999999999999988765443

>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=97.52  E-value=8.6e-05  Score=44.45  Aligned_cols=26  Identities=27%  Similarity=0.247  Sum_probs=22.9

Q ss_pred             CceeeEEEEECCCCChHHHHHHHHhc
Q 035301            9 YDYLFKVVLIGDSGVGKSNLLSRFTR   34 (68)
Q Consensus         9 ~~~~~ki~~iG~~~vGKtsl~~~~~~   34 (68)
                      ....++++++|..++|||||++++.+
T Consensus         8 ~~~~~~I~iiG~~~~GKSTLi~~L~~   33 (405)
T 2c78_A            8 TKPHVNVGTIGHVDHGKTTLTAALTY   33 (405)
T ss_dssp             -CCEEEEEEECSTTSSHHHHHHHHHH
T ss_pred             CCCeEEEEEEcCCCCCHHHHHHHHHh
Confidence            34568999999999999999999986

>2obl_A ESCN; ATPase, hydrolase; 1.80A {Escherichia coli O127} PDB: 2obm_A*

Probab=97.52  E-value=6.1e-05  Score=44.63  Aligned_cols=24  Identities=33%  Similarity=0.511  Sum_probs=21.6

Q ss_pred             EEEEECCCCChHHHHHHHHhcCcC
Q 035301           14 KVVLIGDSGVGKSNLLSRFTRNEF   37 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~~~~   37 (68)
                      ++.++|++|+|||||++.+++...
T Consensus        73 ~~gIiG~nGaGKTTLl~~I~g~~~   96 (347)
T 2obl_A           73 RIGIFAGSGVGKSTLLGMICNGAS   96 (347)
T ss_dssp             EEEEEECTTSSHHHHHHHHHHHSC
T ss_pred             EEEEECCCCCCHHHHHHHHhcCCC
Confidence            789999999999999999998653

>1sq5_A Pantothenate kinase; P-loop, transferase; HET: PAU ADP; 2.20A {Escherichia coli} SCOP: c.37.1.6 PDB: 1esm_A* 1esn_A*

Probab=97.51  E-value=5.6e-05  Score=43.85  Aligned_cols=24  Identities=21%  Similarity=0.293  Sum_probs=21.2

Q ss_pred             eeEEEEECCCCChHHHHHHHHhcC
Q 035301           12 LFKVVLIGDSGVGKSNLLSRFTRN   35 (68)
Q Consensus        12 ~~ki~~iG~~~vGKtsl~~~~~~~   35 (68)
                      ...+.++|++|+|||||++.+.+.
T Consensus        80 g~iigI~G~~GsGKSTl~~~L~~~  103 (308)
T 1sq5_A           80 PYIISIAGSVAVGKSTTARVLQAL  103 (308)
T ss_dssp             CEEEEEEECTTSSHHHHHHHHHHH
T ss_pred             CEEEEEECCCCCCHHHHHHHHHHH
Confidence            457999999999999999998864

>2yhs_A FTSY, cell division protein FTSY; cell cycle, protein targeting, simibi class GTPase, GTP-BIND membrane, nucleotide-binding; 1.60A {Escherichia coli} PDB: 2qy9_A 2xxa_B* 1fts_A

Probab=97.51  E-value=6.3e-05  Score=46.68  Aligned_cols=24  Identities=29%  Similarity=0.711  Sum_probs=20.8

Q ss_pred             eEEEEECCCCChHHHHHHHHhcCc
Q 035301           13 FKVVLIGDSGVGKSNLLSRFTRNE   36 (68)
Q Consensus        13 ~ki~~iG~~~vGKtsl~~~~~~~~   36 (68)
                      -.++++|.+|+||||++..+++..
T Consensus       294 eVI~LVGpNGSGKTTLl~~LAgll  317 (503)
T 2yhs_A          294 FVILMVGVNGVGKTTTIGKLARQF  317 (503)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             eEEEEECCCcccHHHHHHHHHHHh
Confidence            368899999999999999988643

>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=97.51  E-value=0.0001  Score=42.69  Aligned_cols=25  Identities=20%  Similarity=0.216  Sum_probs=21.3

Q ss_pred             ceeeEEEEECCCCChHHHHHHHHhc
Q 035301           10 DYLFKVVLIGDSGVGKSNLLSRFTR   34 (68)
Q Consensus        10 ~~~~ki~~iG~~~vGKtsl~~~~~~   34 (68)
                      .....|.+.|++|+|||||++.+..
T Consensus        29 ~~~~ii~I~G~sGsGKSTla~~L~~   53 (290)
T 1odf_A           29 KCPLFIFFSGPQGSGKSFTSIQIYN   53 (290)
T ss_dssp             CSCEEEEEECCTTSSHHHHHHHHHH
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHH
Confidence            3457899999999999999988764

>1nij_A Hypothetical protein YJIA; structural genomics, P-loop protein, GTP binding, structure function project, S2F, unknown function; 2.00A {Escherichia coli} SCOP: c.37.1.10 d.237.1.1

Probab=97.50  E-value=7e-05  Score=43.65  Aligned_cols=24  Identities=29%  Similarity=0.427  Sum_probs=21.0

Q ss_pred             eEEEEECCCCChHHHHHHHHhcCc
Q 035301           13 FKVVLIGDSGVGKSNLLSRFTRNE   36 (68)
Q Consensus        13 ~ki~~iG~~~vGKtsl~~~~~~~~   36 (68)
                      --++++|.+|+||||+++.+.+..
T Consensus         5 ~v~~i~G~~GaGKTTll~~l~~~~   28 (318)
T 1nij_A            5 AVTLLTGFLGAGKTTLLRHILNEQ   28 (318)
T ss_dssp             EEEEEEESSSSSCHHHHHHHHHSC
T ss_pred             cEEEEEecCCCCHHHHHHHHHhhc
Confidence            457899999999999999999764

>3qf4_A ABC transporter, ATP-binding protein; multidrug transporter, transport protein; HET: ANP; 2.90A {Thermotoga maritima}

Probab=97.49  E-value=4.7e-05  Score=47.68  Aligned_cols=26  Identities=31%  Similarity=0.387  Sum_probs=22.3

Q ss_pred             EEEEECCCCChHHHHHHHHhcCcCcC
Q 035301           14 KVVLIGDSGVGKSNLLSRFTRNEFCL   39 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~~~~~~   39 (68)
                      .+.++|++|+|||||++.+.+...+.
T Consensus       371 ~~~ivG~sGsGKSTll~~l~g~~~~~  396 (587)
T 3qf4_A          371 LVAVLGETGSGKSTLMNLIPRLIDPE  396 (587)
T ss_dssp             EEEEECSSSSSHHHHHHTTTTSSCCS
T ss_pred             EEEEECCCCCCHHHHHHHHhCCccCC
Confidence            78999999999999999998765443

>3ozx_A RNAse L inhibitor; ATP binding cassette protein, hydrolase, translation; HET: ADP; 2.05A {Sulfolobus solfataricus}

Probab=97.48  E-value=0.00012  Score=45.58  Aligned_cols=29  Identities=17%  Similarity=0.316  Sum_probs=24.1

Q ss_pred             EEEEECCCCChHHHHHHHHhcCcCcCCCc
Q 035301           14 KVVLIGDSGVGKSNLLSRFTRNEFCLESK   42 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~~~~~~~~~   42 (68)
                      .+.++|++|+|||||++.+++...+.++.
T Consensus       296 i~~i~G~nGsGKSTLl~~l~Gl~~p~~G~  324 (538)
T 3ozx_A          296 IIGILGPNGIGKTTFARILVGEITADEGS  324 (538)
T ss_dssp             EEEEECCTTSSHHHHHHHHTTSSCCSBCC
T ss_pred             EEEEECCCCCCHHHHHHHHhCCCCCCCcE
Confidence            47899999999999999999876555443

>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=97.48  E-value=0.0001  Score=39.26  Aligned_cols=23  Identities=35%  Similarity=0.589  Sum_probs=20.0

Q ss_pred             eeEEEEECCCCChHHHHHHHHhc
Q 035301           12 LFKVVLIGDSGVGKSNLLSRFTR   34 (68)
Q Consensus        12 ~~ki~~iG~~~vGKtsl~~~~~~   34 (68)
                      ...|++.|.+|+|||++...+..
T Consensus        11 ~~~i~i~G~~GsGKst~~~~l~~   33 (180)
T 3iij_A           11 LPNILLTGTPGVGKTTLGKELAS   33 (180)
T ss_dssp             CCCEEEECSTTSSHHHHHHHHHH
T ss_pred             CCeEEEEeCCCCCHHHHHHHHHH
Confidence            34689999999999999998873

>3cm0_A Adenylate kinase; ATP-binding, cytoplasm, nucleotide biosynthesis, nucleotide-binding, transferase, structural genomics; 1.80A {Thermus thermophilus}

Probab=97.48  E-value=0.00011  Score=39.12  Aligned_cols=22  Identities=32%  Similarity=0.610  Sum_probs=19.7

Q ss_pred             eEEEEECCCCChHHHHHHHHhc
Q 035301           13 FKVVLIGDSGVGKSNLLSRFTR   34 (68)
Q Consensus        13 ~ki~~iG~~~vGKtsl~~~~~~   34 (68)
                      ..++++|.+|+||||+...++.
T Consensus         5 ~~I~l~G~~GsGKST~~~~La~   26 (186)
T 3cm0_A            5 QAVIFLGPPGAGKGTQASRLAQ   26 (186)
T ss_dssp             EEEEEECCTTSCHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHH
Confidence            4799999999999999998873

>2dpy_A FLII, flagellum-specific ATP synthase; beta barrel, alpha-beta structure, hydrolase; HET: ADP; 2.40A {Salmonella typhimurium}

Probab=97.46  E-value=7.6e-05  Score=45.45  Aligned_cols=24  Identities=42%  Similarity=0.522  Sum_probs=21.5

Q ss_pred             EEEEECCCCChHHHHHHHHhcCcC
Q 035301           14 KVVLIGDSGVGKSNLLSRFTRNEF   37 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~~~~   37 (68)
                      ++.++|++|+|||||++.+++...
T Consensus       159 ~~~IvG~sGsGKSTLl~~Iag~~~  182 (438)
T 2dpy_A          159 RMGLFAGSGVGKSVLLGMMARYTR  182 (438)
T ss_dssp             EEEEEECTTSSHHHHHHHHHHHSC
T ss_pred             EEEEECCCCCCHHHHHHHHhcccC
Confidence            789999999999999999997653

>2ewv_A Twitching motility protein PILT; pilus retraction motor, ATPase, hexameric PILT, protein TRAN; HET: ADP; 2.80A {Aquifex aeolicus} PDB: 2eww_A* 2gsz_A*

Probab=97.46  E-value=7.6e-05  Score=44.48  Aligned_cols=22  Identities=23%  Similarity=0.474  Sum_probs=19.9

Q ss_pred             EEEEECCCCChHHHHHHHHhcC
Q 035301           14 KVVLIGDSGVGKSNLLSRFTRN   35 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~~   35 (68)
                      .++++|++|+||||+++.+++.
T Consensus       138 ~i~ivG~~GsGKTTll~~l~~~  159 (372)
T 2ewv_A          138 LILVTGPTGSGKSTTIASMIDY  159 (372)
T ss_dssp             EEEEECSSSSSHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHhh
Confidence            5899999999999999998864

>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=97.46  E-value=0.00011  Score=43.88  Aligned_cols=24  Identities=29%  Similarity=0.339  Sum_probs=22.0

Q ss_pred             eeEEEEECCCCChHHHHHHHHhcC
Q 035301           12 LFKVVLIGDSGVGKSNLLSRFTRN   35 (68)
Q Consensus        12 ~~ki~~iG~~~vGKtsl~~~~~~~   35 (68)
                      .++++++|..++|||||++++.+.
T Consensus         3 ~~~I~iiG~~~~GKSTLi~~L~~~   26 (397)
T 1d2e_A            3 HVNVGTIGHVDHGKTTLTAAITKI   26 (397)
T ss_dssp             EEEEEEESSTTSSHHHHHHHHHHH
T ss_pred             eEEEEEEeCCCCCHHHHHHHHhCh
Confidence            589999999999999999999863

>3cb4_D GTP-binding protein LEPA; GTPase, OB-fold, membrane, nucleotide-binding, translation; 2.80A {Escherichia coli} PDB: 3deg_C*

Probab=97.46  E-value=7.5e-05  Score=47.11  Aligned_cols=24  Identities=25%  Similarity=0.329  Sum_probs=17.9

Q ss_pred             eeeEEEEECCCCChHHHHHHHHhc
Q 035301           11 YLFKVVLIGDSGVGKSNLLSRFTR   34 (68)
Q Consensus        11 ~~~ki~~iG~~~vGKtsl~~~~~~   34 (68)
                      ...+++++|..++|||||+.+++.
T Consensus         3 ~irnI~IiGh~d~GKTTLi~rLl~   26 (599)
T 3cb4_D            3 NIRNFSIIAHIDHGKSTLSDRIIQ   26 (599)
T ss_dssp             TEEEEEEECCC----CCHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHH
Confidence            457999999999999999999985

>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=97.45  E-value=7.6e-05  Score=42.71  Aligned_cols=24  Identities=21%  Similarity=0.275  Sum_probs=20.5

Q ss_pred             EEEEECCCCChHHHHHHHHhcCcC
Q 035301           14 KVVLIGDSGVGKSNLLSRFTRNEF   37 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~~~~   37 (68)
                      -++++|++|+|||+|+..+++...
T Consensus        37 ~~~i~G~~G~GKTTl~~~ia~~~~   60 (296)
T 1cr0_A           37 VIMVTSGSGMGKSTFVRQQALQWG   60 (296)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHHHH
T ss_pred             EEEEEeCCCCCHHHHHHHHHHHHH
Confidence            578999999999999999886543

>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=97.44  E-value=0.00012  Score=41.02  Aligned_cols=24  Identities=17%  Similarity=0.272  Sum_probs=21.2

Q ss_pred             eeeEEEEECCCCChHHHHHHHHhc
Q 035301           11 YLFKVVLIGDSGVGKSNLLSRFTR   34 (68)
Q Consensus        11 ~~~ki~~iG~~~vGKtsl~~~~~~   34 (68)
                      ..+.|++.|.+|+||||+..+++.
T Consensus        28 ~~~~I~l~G~~GsGKsT~a~~L~~   51 (243)
T 3tlx_A           28 PDGRYIFLGAPGSGKGTQSLNLKK   51 (243)
T ss_dssp             CCEEEEEECCTTSSHHHHHHHHHH
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHH
Confidence            357899999999999999998874

>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=97.44  E-value=0.00019  Score=43.83  Aligned_cols=25  Identities=28%  Similarity=0.332  Sum_probs=22.3

Q ss_pred             ceeeEEEEECCCCChHHHHHHHHhc
Q 035301           10 DYLFKVVLIGDSGVGKSNLLSRFTR   34 (68)
Q Consensus        10 ~~~~ki~~iG~~~vGKtsl~~~~~~   34 (68)
                      ...++++++|..++|||||++++..
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            4568999999999999999999864

>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=97.44  E-value=9.7e-05  Score=40.75  Aligned_cols=22  Identities=14%  Similarity=0.294  Sum_probs=19.8

Q ss_pred             EEEEECCCCChHHHHHHHHhcC
Q 035301           14 KVVLIGDSGVGKSNLLSRFTRN   35 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~~   35 (68)
                      -+.++|++|+|||+|+..++..
T Consensus        26 ~~~i~G~~GsGKTtl~~~l~~~   47 (243)
T 1n0w_A           26 ITEMFGEFRTGKTQICHTLAVT   47 (243)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHH
T ss_pred             EEEEECCCCCcHHHHHHHHHHH
Confidence            5789999999999999999873

>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=97.44  E-value=9.7e-05  Score=46.53  Aligned_cols=27  Identities=22%  Similarity=0.314  Sum_probs=23.7

Q ss_pred             eeEEEEECCCCChHHHHHHHHhcCcCc
Q 035301           12 LFKVVLIGDSGVGKSNLLSRFTRNEFC   38 (68)
Q Consensus        12 ~~ki~~iG~~~vGKtsl~~~~~~~~~~   38 (68)
                      .++++++|..++|||||++++.+..+.
T Consensus         5 ~~~V~IvGh~d~GKTTLl~~L~~~~v~   31 (594)
T 1g7s_A            5 SPIVSVLGHVDHGKTTLLDHIRGSAVA   31 (594)
T ss_dssp             CCEEEEECSTTSSHHHHHHHHHHHHHS
T ss_pred             CcEEEEECCCCCcHHHHHHHHhcccCc
Confidence            579999999999999999999876543

>2p65_A Hypothetical protein PF08_0063; CLPB, malaria, structural genomics, structural genomics consortium, SGC, unknown function; 1.70A {Plasmodium falciparum}

Probab=97.44  E-value=6.3e-05  Score=39.64  Aligned_cols=22  Identities=32%  Similarity=0.644  Sum_probs=19.2

Q ss_pred             eEEEEECCCCChHHHHHHHHhc
Q 035301           13 FKVVLIGDSGVGKSNLLSRFTR   34 (68)
Q Consensus        13 ~ki~~iG~~~vGKtsl~~~~~~   34 (68)
                      ..+++.|++|+|||+++..++.
T Consensus        44 ~~vll~G~~G~GKT~la~~~~~   65 (187)
T 2p65_A           44 NNPILLGDPGVGKTAIVEGLAI   65 (187)
T ss_dssp             CEEEEESCGGGCHHHHHHHHHH
T ss_pred             CceEEECCCCCCHHHHHHHHHH
Confidence            3579999999999999988875

>2rhm_A Putative kinase; P-loop containing nucleoside triphosphate hydrolases fold, S genomics, joint center for structural genomics, JCSG; HET: MSE; 1.70A {Chloroflexus aurantiacus}

Probab=97.44  E-value=9.1e-05  Score=39.59  Aligned_cols=22  Identities=18%  Similarity=0.404  Sum_probs=19.6

Q ss_pred             eEEEEECCCCChHHHHHHHHhc
Q 035301           13 FKVVLIGDSGVGKSNLLSRFTR   34 (68)
Q Consensus        13 ~ki~~iG~~~vGKtsl~~~~~~   34 (68)
                      ..|++.|.+|+||||+...+..
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            4789999999999999998864

>3d3q_A TRNA delta(2)-isopentenylpyrophosphate transferase; alpha-beta protein, structural genomics, PSI-2; 2.70A {Staphylococcus epidermidis atcc 12228}

Probab=97.44  E-value=0.00014  Score=43.23  Aligned_cols=22  Identities=27%  Similarity=0.611  Sum_probs=19.5

Q ss_pred             eEEEEECCCCChHHHHHHHHhc
Q 035301           13 FKVVLIGDSGVGKSNLLSRFTR   34 (68)
Q Consensus        13 ~ki~~iG~~~vGKtsl~~~~~~   34 (68)
                      .-|++.|++|+|||+|...++.
T Consensus         8 ~lI~I~GptgSGKTtla~~La~   29 (340)
T 3d3q_A            8 FLIVIVGPTASGKTELSIEVAK   29 (340)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHH
T ss_pred             ceEEEECCCcCcHHHHHHHHHH
Confidence            4689999999999999988874

>2cdn_A Adenylate kinase; phosphoryl transfer, associative mechanism, ATP-binding, nucleotide biosynthesis, nucleotide-binding, transferase; HET: ADP; 1.9A {Mycobacterium tuberculosis} SCOP: c.37.1.1 PDB: 1p4s_A

Probab=97.44  E-value=0.00014  Score=39.39  Aligned_cols=24  Identities=25%  Similarity=0.530  Sum_probs=20.8

Q ss_pred             eeeEEEEECCCCChHHHHHHHHhc
Q 035301           11 YLFKVVLIGDSGVGKSNLLSRFTR   34 (68)
Q Consensus        11 ~~~ki~~iG~~~vGKtsl~~~~~~   34 (68)
                      ....|++.|.+|+||||+.+.+..
T Consensus        19 ~~~~I~l~G~~GsGKST~a~~La~   42 (201)
T 2cdn_A           19 SHMRVLLLGPPGAGKGTQAVKLAE   42 (201)
T ss_dssp             SCCEEEEECCTTSSHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHH
Confidence            356899999999999999998874

>1rz3_A Hypothetical protein rbstp0775; MCSG, structural genomics, PSI, protein structure initiative; 1.90A {Geobacillus stearothermophilus} SCOP: c.37.1.6

Probab=97.44  E-value=8.7e-05  Score=40.43  Aligned_cols=23  Identities=22%  Similarity=0.297  Sum_probs=20.2

Q ss_pred             eeEEEEECCCCChHHHHHHHHhc
Q 035301           12 LFKVVLIGDSGVGKSNLLSRFTR   34 (68)
Q Consensus        12 ~~ki~~iG~~~vGKtsl~~~~~~   34 (68)
                      ...+.++|.+|+||||+++.+.+
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            46799999999999999998764

>3bos_A Putative DNA replication factor; P-loop containing nucleoside triphosphate hydrolases, struct genomics; HET: MSE CDP; 1.75A {Shewanella amazonensis} PDB: 3sc3_A

Probab=97.43  E-value=9.9e-05  Score=40.39  Aligned_cols=22  Identities=18%  Similarity=0.283  Sum_probs=19.6

Q ss_pred             eEEEEECCCCChHHHHHHHHhc
Q 035301           13 FKVVLIGDSGVGKSNLLSRFTR   34 (68)
Q Consensus        13 ~ki~~iG~~~vGKtsl~~~~~~   34 (68)
                      -.+++.|++|+|||+++..++.
T Consensus        53 ~~~ll~G~~G~GKT~la~~l~~   74 (242)
T 3bos_A           53 QAIYLWGPVKSGRTHLIHAACA   74 (242)
T ss_dssp             SEEEEECSTTSSHHHHHHHHHH
T ss_pred             CeEEEECCCCCCHHHHHHHHHH
Confidence            4689999999999999998875

>1f5n_A Interferon-induced guanylate-binding protein 1; GBP, GTP hydrolysis, GDP, GMP, dynamin related, large GTPase family. GMPPNP, GPPNHP.; HET: GNP; 1.70A {Homo sapiens} SCOP: a.114.1.1 c.37.1.8 PDB: 1dg3_A* 2b8w_A* 2b92_A* 2bc9_A* 2d4h_A*

Probab=97.43  E-value=0.00012  Score=46.15  Aligned_cols=26  Identities=23%  Similarity=0.409  Sum_probs=23.5

Q ss_pred             eeeEEEEECCCCChHHHHHHHHhcCc
Q 035301           11 YLFKVVLIGDSGVGKSNLLSRFTRNE   36 (68)
Q Consensus        11 ~~~ki~~iG~~~vGKtsl~~~~~~~~   36 (68)
                      ....|+++|.+++|||+|++++.+..
T Consensus        37 ~~~~VaivG~pnvGKStLiN~L~g~~   62 (592)
T 1f5n_A           37 PMVVVAIVGLYRTGKSYLMNKLAGKK   62 (592)
T ss_dssp             BEEEEEEEEBTTSSHHHHHHHHTTCS
T ss_pred             CCcEEEEECCCCCCHHHHHHhHcCCC
Confidence            45789999999999999999999865

>1lv7_A FTSH; alpha/beta domain, four helix bundle, hydrolase; 1.50A {Escherichia coli} SCOP: c.37.1.20

Probab=97.43  E-value=0.0001  Score=41.33  Aligned_cols=22  Identities=27%  Similarity=0.468  Sum_probs=19.7

Q ss_pred             eEEEEECCCCChHHHHHHHHhc
Q 035301           13 FKVVLIGDSGVGKSNLLSRFTR   34 (68)
Q Consensus        13 ~ki~~iG~~~vGKtsl~~~~~~   34 (68)
                      ..+++.|++|+|||++++.+++
T Consensus        46 ~~vll~G~~GtGKT~la~~la~   67 (257)
T 1lv7_A           46 KGVLMVGPPGTGKTLLAKAIAG   67 (257)
T ss_dssp             CEEEEECCTTSCHHHHHHHHHH
T ss_pred             CeEEEECcCCCCHHHHHHHHHH
Confidence            3589999999999999998875

>1uj2_A Uridine-cytidine kinase 2; alpha/beta mononucleotide-binding HOLD, transferase; HET: C5P ADP; 1.80A {Homo sapiens} SCOP: c.37.1.6 PDB: 1uei_A* 1uej_A* 1udw_A 1ufq_A* 1xrj_A*

Probab=97.42  E-value=0.00014  Score=40.93  Aligned_cols=25  Identities=20%  Similarity=0.361  Sum_probs=21.1

Q ss_pred             ceeeEEEEECCCCChHHHHHHHHhc
Q 035301           10 DYLFKVVLIGDSGVGKSNLLSRFTR   34 (68)
Q Consensus        10 ~~~~ki~~iG~~~vGKtsl~~~~~~   34 (68)
                      ...+.|.+.|.+|+||||+...+..
T Consensus        20 ~~~~iI~I~G~~GSGKST~a~~L~~   44 (252)
T 1uj2_A           20 GEPFLIGVSGGTASGKSSVCAKIVQ   44 (252)
T ss_dssp             -CCEEEEEECSTTSSHHHHHHHHHH
T ss_pred             CCcEEEEEECCCCCCHHHHHHHHHH
Confidence            3457899999999999999998865

>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=97.41  E-value=0.00012  Score=40.46  Aligned_cols=22  Identities=27%  Similarity=0.614  Sum_probs=19.6

Q ss_pred             eEEEEECCCCChHHHHHHHHhc
Q 035301           13 FKVVLIGDSGVGKSNLLSRFTR   34 (68)
Q Consensus        13 ~ki~~iG~~~vGKtsl~~~~~~   34 (68)
                      +.|+++|++|+||+|...+++.
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            3689999999999999998885

>2ze6_A Isopentenyl transferase; crown GALL tumor, cytokinin biosynthesis; HET: DST AMP; 2.10A {Agrobacterium tumefaciens} PDB: 2ze5_A* 2ze7_A* 2ze8_A

Probab=97.41  E-value=0.00011  Score=41.56  Aligned_cols=21  Identities=14%  Similarity=0.352  Sum_probs=18.6

Q ss_pred             EEEEECCCCChHHHHHHHHhc
Q 035301           14 KVVLIGDSGVGKSNLLSRFTR   34 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~   34 (68)
                      -++++|++|+||||+...++.
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            478999999999999998864

>2plr_A DTMP kinase, probable thymidylate kinase; TMP-binding, ATP-binding, structural GEN NPPSFA; HET: 1PE PGE EPE PG4; 1.60A {Sulfolobus tokodaii}

Probab=97.41  E-value=0.00014  Score=39.25  Aligned_cols=22  Identities=23%  Similarity=0.314  Sum_probs=19.9

Q ss_pred             eEEEEECCCCChHHHHHHHHhc
Q 035301           13 FKVVLIGDSGVGKSNLLSRFTR   34 (68)
Q Consensus        13 ~ki~~iG~~~vGKtsl~~~~~~   34 (68)
                      ..|++.|.+|+||||+...+..
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            5799999999999999998875

>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=97.41  E-value=0.00011  Score=39.95  Aligned_cols=21  Identities=19%  Similarity=0.153  Sum_probs=19.4

Q ss_pred             EEEEECCCCChHHHHHHHHhc
Q 035301           14 KVVLIGDSGVGKSNLLSRFTR   34 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~   34 (68)
                      -++++|++|+|||+|+..++.
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            578999999999999999987

>1e4v_A Adenylate kinase; transferase(phosphotransferase); HET: AP5; 1.85A {Escherichia coli} SCOP: c.37.1.1 g.41.2.1 PDB: 1e4y_A* 1ake_A* 1ank_A* 2eck_A* 3hpq_A* 4ake_A 3hpr_A*

Probab=97.41  E-value=0.00011  Score=40.21  Aligned_cols=21  Identities=19%  Similarity=0.396  Sum_probs=19.1

Q ss_pred             EEEEECCCCChHHHHHHHHhc
Q 035301           14 KVVLIGDSGVGKSNLLSRFTR   34 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~   34 (68)
                      +|++.|.+|+||||+...++.
T Consensus         2 ~I~l~G~~GsGKsT~a~~L~~   22 (214)
T 1e4v_A            2 RIILLGAPVAGKGTQAQFIME   22 (214)
T ss_dssp             EEEEEESTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            689999999999999998874

>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=97.41  E-value=0.00014  Score=40.38  Aligned_cols=24  Identities=25%  Similarity=0.499  Sum_probs=20.9

Q ss_pred             eeeEEEEECCCCChHHHHHHHHhc
Q 035301           11 YLFKVVLIGDSGVGKSNLLSRFTR   34 (68)
Q Consensus        11 ~~~ki~~iG~~~vGKtsl~~~~~~   34 (68)
                      ....|+++|..|+||||+...++.
T Consensus        15 ~~~~I~l~G~~GsGKsT~a~~La~   38 (233)
T 1ak2_A           15 KGVRAVLLGPPGAGKGTQAPKLAK   38 (233)
T ss_dssp             CCCEEEEECCTTSSHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHH
Confidence            456899999999999999998874

>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=97.39  E-value=0.00015  Score=39.87  Aligned_cols=23  Identities=30%  Similarity=0.560  Sum_probs=20.2

Q ss_pred             eeEEEEECCCCChHHHHHHHHhc
Q 035301           12 LFKVVLIGDSGVGKSNLLSRFTR   34 (68)
Q Consensus        12 ~~ki~~iG~~~vGKtsl~~~~~~   34 (68)
                      ...|+++|.+|+||||+...++.
T Consensus         4 ~~~I~l~G~~GsGKsT~a~~La~   26 (220)
T 1aky_A            4 SIRMVLIGPPGAGKGTQAPNLQE   26 (220)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHH
T ss_pred             CcEEEEECCCCCCHHHHHHHHHH
Confidence            36899999999999999998864

>3p32_A Probable GTPase RV1496/MT1543; structural genomics, seattle structural genomics center for infectious disease, ssgcid, MEAB, MMAA; HET: GDP PGE; 1.90A {Mycobacterium tuberculosis} PDB: 3md0_A* 4gt1_A* 3nxs_A* 3tk1_A*

Probab=97.39  E-value=0.00015  Score=42.79  Aligned_cols=24  Identities=29%  Similarity=0.408  Sum_probs=21.3

Q ss_pred             eeeEEEEECCCCChHHHHHHHHhc
Q 035301           11 YLFKVVLIGDSGVGKSNLLSRFTR   34 (68)
Q Consensus        11 ~~~ki~~iG~~~vGKtsl~~~~~~   34 (68)
                      ..+.++++|..|+|||||+++++.
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            457899999999999999999874

>1zcb_A G alpha I/13; GTP-binding, lipoprotein, membrane, transducer, signaling PR; HET: GDP; 2.00A {Mus musculus} SCOP: a.66.1.1 c.37.1.8 PDB: 3ab3_A* 3cx8_A* 3cx7_A* 3cx6_A* 1zca_A*

Probab=97.39  E-value=0.00015  Score=43.25  Aligned_cols=24  Identities=33%  Similarity=0.602  Sum_probs=21.0

Q ss_pred             ceeeEEEEECCCCChHHHHHHHHh
Q 035301           10 DYLFKVVLIGDSGVGKSNLLSRFT   33 (68)
Q Consensus        10 ~~~~ki~~iG~~~vGKtsl~~~~~   33 (68)
                      ....|++++|.+++||||+++++.
T Consensus        31 ~~~~killlG~~~SGKST~~kq~~   54 (362)
T 1zcb_A           31 ARLVKILLLGAGESGKSTFLKQMR   54 (362)
T ss_dssp             CCCEEEEEECSTTSSHHHHHHHHH
T ss_pred             cCccEEEEECCCCCcHHHHHHHHH
Confidence            447899999999999999998863

>2w58_A DNAI, primosome component (helicase loader); ATP-binding, nucleotide-binding, hydrolase; HET: ADP; 2.50A {Geobacillus kaustophilus HTA426}

Probab=97.38  E-value=0.00013  Score=39.45  Aligned_cols=22  Identities=36%  Similarity=0.496  Sum_probs=19.5

Q ss_pred             eEEEEECCCCChHHHHHHHHhc
Q 035301           13 FKVVLIGDSGVGKSNLLSRFTR   34 (68)
Q Consensus        13 ~ki~~iG~~~vGKtsl~~~~~~   34 (68)
                      ..+++.|++|+|||+|+..++.
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            5689999999999999988775

>1zd8_A GTP:AMP phosphotransferase mitochondrial; ATP:AMP phosphotransferase, myokinase, structural genomics, structural genomics consortium, SGC; 1.48A {Homo sapiens} PDB: 2ak3_A*

Probab=97.38  E-value=0.00013  Score=40.26  Aligned_cols=23  Identities=39%  Similarity=0.731  Sum_probs=20.4

Q ss_pred             eeEEEEECCCCChHHHHHHHHhc
Q 035301           12 LFKVVLIGDSGVGKSNLLSRFTR   34 (68)
Q Consensus        12 ~~ki~~iG~~~vGKtsl~~~~~~   34 (68)
                      ...|++.|.+|+||||+.+.++.
T Consensus         7 ~~~I~l~G~~GsGKsT~a~~La~   29 (227)
T 1zd8_A            7 LLRAVIMGAPGSGKGTVSSRITT   29 (227)
T ss_dssp             CCEEEEEECTTSSHHHHHHHHHH
T ss_pred             CcEEEEECCCCCCHHHHHHHHHH
Confidence            36799999999999999998874

>3j16_B RLI1P; ribosome recycling, translation, eukarya, ribosome; HET: ATP; 7.20A {Saccharomyces cerevisiae}

Probab=97.38  E-value=0.00018  Score=45.49  Aligned_cols=27  Identities=26%  Similarity=0.444  Sum_probs=23.0

Q ss_pred             EEEECCCCChHHHHHHHHhcCcCcCCC
Q 035301           15 VVLIGDSGVGKSNLLSRFTRNEFCLES   41 (68)
Q Consensus        15 i~~iG~~~vGKtsl~~~~~~~~~~~~~   41 (68)
                      +.++|++|+|||||++.+++...+.++
T Consensus       381 v~iiG~NGsGKSTLlk~l~Gl~~p~~G  407 (608)
T 3j16_B          381 LVMMGENGTGKTTLIKLLAGALKPDEG  407 (608)
T ss_dssp             EEEESCTTSSHHHHHHHHHTSSCCSBC
T ss_pred             EEEECCCCCcHHHHHHHHhcCCCCCCC
Confidence            689999999999999999987655444

>1gvn_B Zeta; postsegregational killing system, plasmid; 1.95A {Streptococcus pyogenes} SCOP: c.37.1.21 PDB: 3q8x_B*

Probab=97.37  E-value=0.00015  Score=41.77  Aligned_cols=23  Identities=30%  Similarity=0.361  Sum_probs=20.4

Q ss_pred             eeEEEEECCCCChHHHHHHHHhc
Q 035301           12 LFKVVLIGDSGVGKSNLLSRFTR   34 (68)
Q Consensus        12 ~~ki~~iG~~~vGKtsl~~~~~~   34 (68)
                      ..-+++.|++|+||||+...+..
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            45789999999999999999874

>2pt5_A Shikimate kinase, SK; aromatic amino acid biosynthesis, P-loop kinase, SHI kinase, shikimate pathway; 2.10A {Aquifex aeolicus}

Probab=97.37  E-value=0.00016  Score=37.93  Aligned_cols=21  Identities=38%  Similarity=0.453  Sum_probs=19.1

Q ss_pred             EEEEECCCCChHHHHHHHHhc
Q 035301           14 KVVLIGDSGVGKSNLLSRFTR   34 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~   34 (68)
                      +|++.|.+|+||||+.+.+..
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            689999999999999998875

>1y63_A LMAJ004144AAA protein; structural genomics, protein structure initiative, PSI, SGPP structural genomics of pathogenic protozoa consortium; HET: ADP; 1.70A {Leishmania major} SCOP: c.37.1.1

Probab=97.37  E-value=0.00016  Score=38.87  Aligned_cols=23  Identities=17%  Similarity=0.533  Sum_probs=20.4

Q ss_pred             eEEEEECCCCChHHHHHHHHhcC
Q 035301           13 FKVVLIGDSGVGKSNLLSRFTRN   35 (68)
Q Consensus        13 ~ki~~iG~~~vGKtsl~~~~~~~   35 (68)
                      ..|+++|.+|+||||+.+.+...
T Consensus        11 ~~I~l~G~~GsGKSTv~~~La~~   33 (184)
T 1y63_A           11 INILITGTPGTGKTSMAEMIAAE   33 (184)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHHh
Confidence            57999999999999999988754

>1p9r_A General secretion pathway protein E; bacterial type II secretion system cytoplasmic protein - GSPE, putative ATPase/ ATP binding protein; 2.50A {Vibrio cholerae} SCOP: c.37.1.11 PDB: 1p9w_A*

Probab=97.37  E-value=0.00012  Score=44.41  Aligned_cols=23  Identities=26%  Similarity=0.332  Sum_probs=20.3

Q ss_pred             EEEEECCCCChHHHHHHHHhcCc
Q 035301           14 KVVLIGDSGVGKSNLLSRFTRNE   36 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~~~   36 (68)
                      -++++|++|+||||+++.+++..
T Consensus       169 ii~I~GpnGSGKTTlL~allg~l  191 (418)
T 1p9r_A          169 IILVTGPTGSGKSTTLYAGLQEL  191 (418)
T ss_dssp             EEEEECSTTSCHHHHHHHHHHHH
T ss_pred             eEEEECCCCCCHHHHHHHHHhhc
Confidence            58899999999999999988644

>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=97.36  E-value=0.00016  Score=38.98  Aligned_cols=23  Identities=17%  Similarity=0.172  Sum_probs=20.7

Q ss_pred             eEEEEECCCCChHHHHHHHHhcC
Q 035301           13 FKVVLIGDSGVGKSNLLSRFTRN   35 (68)
Q Consensus        13 ~ki~~iG~~~vGKtsl~~~~~~~   35 (68)
                      ..|++.|..|+||||+...+...
T Consensus         5 ~~I~l~G~~GsGKsT~~~~L~~~   27 (204)
T 2v54_A            5 ALIVFEGLDKSGKTTQCMNIMES   27 (204)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHT
T ss_pred             cEEEEEcCCCCCHHHHHHHHHHH
Confidence            57999999999999999999864

>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=97.36  E-value=0.00014  Score=39.52  Aligned_cols=21  Identities=24%  Similarity=0.534  Sum_probs=18.7

Q ss_pred             EEEEECCCCChHHHHHHHHhc
Q 035301           14 KVVLIGDSGVGKSNLLSRFTR   34 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~   34 (68)
                      -+++.|++|+|||+++..++.
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            578999999999999998874

>1zak_A Adenylate kinase; ATP:AMP-phosphotransferase, transferase; HET: AP5; 3.50A {Zea mays} SCOP: c.37.1.1 g.41.2.1

Probab=97.35  E-value=0.00012  Score=40.31  Aligned_cols=22  Identities=23%  Similarity=0.363  Sum_probs=19.7

Q ss_pred             eEEEEECCCCChHHHHHHHHhc
Q 035301           13 FKVVLIGDSGVGKSNLLSRFTR   34 (68)
Q Consensus        13 ~ki~~iG~~~vGKtsl~~~~~~   34 (68)
                      ..|+++|.+|+||||+...++.
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            5799999999999999998874

>1uf9_A TT1252 protein; P-loop, nucleotide binding domain, structural genomics, riken structural genomics/proteomics initiative, RSGI; HET: ATP; 2.80A {Thermus thermophilus} SCOP: c.37.1.1

Probab=97.35  E-value=0.00017  Score=38.82  Aligned_cols=24  Identities=21%  Similarity=0.296  Sum_probs=21.3

Q ss_pred             eeEEEEECCCCChHHHHHHHHhcC
Q 035301           12 LFKVVLIGDSGVGKSNLLSRFTRN   35 (68)
Q Consensus        12 ~~ki~~iG~~~vGKtsl~~~~~~~   35 (68)
                      ...|.+.|.+|+||||+...+...
T Consensus         8 ~~~I~i~G~~GsGKST~~~~La~~   31 (203)
T 1uf9_A            8 PIIIGITGNIGSGKSTVAALLRSW   31 (203)
T ss_dssp             CEEEEEEECTTSCHHHHHHHHHHT
T ss_pred             ceEEEEECCCCCCHHHHHHHHHHC
Confidence            468999999999999999998864

>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=97.34  E-value=0.00018  Score=38.84  Aligned_cols=23  Identities=17%  Similarity=0.361  Sum_probs=19.8

Q ss_pred             eeEEEEECCCCChHHHHHHHHhc
Q 035301           12 LFKVVLIGDSGVGKSNLLSRFTR   34 (68)
Q Consensus        12 ~~ki~~iG~~~vGKtsl~~~~~~   34 (68)
                      ..-+.++|.+|+||||++.+++.
T Consensus         4 ~~~i~i~G~sGsGKTTl~~~L~~   26 (169)
T 1xjc_A            4 MNVWQVVGYKHSGKTTLMEKWVA   26 (169)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHH
T ss_pred             CEEEEEECCCCCCHHHHHHHHHH
Confidence            34688999999999999998875

>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=97.34  E-value=0.00015  Score=38.92  Aligned_cols=21  Identities=24%  Similarity=0.488  Sum_probs=18.8

Q ss_pred             EEEEECCCCChHHHHHHHHhc
Q 035301           14 KVVLIGDSGVGKSNLLSRFTR   34 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~   34 (68)
                      .+++.|++|+|||+++..++.
T Consensus        40 ~~ll~G~~G~GKT~l~~~l~~   60 (226)
T 2chg_A           40 HLLFSGPPGTGKTATAIALAR   60 (226)
T ss_dssp             CEEEECSTTSSHHHHHHHHHH
T ss_pred             eEEEECCCCCCHHHHHHHHHH
Confidence            389999999999999988875

>1tev_A UMP-CMP kinase; ploop, NMP binding region, LID region, conformational changes, transferase; 2.10A {Homo sapiens} SCOP: c.37.1.1

Probab=97.34  E-value=0.00022  Score=38.00  Aligned_cols=22  Identities=27%  Similarity=0.561  Sum_probs=19.3

Q ss_pred             eEEEEECCCCChHHHHHHHHhc
Q 035301           13 FKVVLIGDSGVGKSNLLSRFTR   34 (68)
Q Consensus        13 ~ki~~iG~~~vGKtsl~~~~~~   34 (68)
                      ..|++.|.+|+||||+...++.
T Consensus         4 ~~I~l~G~~GsGKsT~a~~L~~   25 (196)
T 1tev_A            4 LVVFVLGGPGAGKGTQCARIVE   25 (196)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHH
Confidence            5689999999999999988764

>2yvu_A Probable adenylyl-sulfate kinase; transferase, structural genomics, NPPSFA, national P protein structural and functional analyses; 2.10A {Aeropyrum pernix}

Probab=97.33  E-value=0.00027  Score=37.84  Aligned_cols=23  Identities=30%  Similarity=0.430  Sum_probs=20.1

Q ss_pred             eeEEEEECCCCChHHHHHHHHhc
Q 035301           12 LFKVVLIGDSGVGKSNLLSRFTR   34 (68)
Q Consensus        12 ~~ki~~iG~~~vGKtsl~~~~~~   34 (68)
                      ...++++|.+|+||||+...++.
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            45789999999999999998764

>2xb4_A Adenylate kinase; ATP-binding, nucleotide-binding, transferase; HET: SRT; 1.80A {Desulfovibrio gigas} PDB: 3l0s_A* 3l0p_A*

Probab=97.32  E-value=0.0002  Score=39.64  Aligned_cols=21  Identities=19%  Similarity=0.401  Sum_probs=19.0

Q ss_pred             EEEEECCCCChHHHHHHHHhc
Q 035301           14 KVVLIGDSGVGKSNLLSRFTR   34 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~   34 (68)
                      .|++.|.+|+||||+...+..
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            689999999999999998864

>1gtv_A TMK, thymidylate kinase; transferase, transferase (ATP:TMP phosphotransferase); HET: TYD TMP; 1.55A {Mycobacterium tuberculosis} SCOP: c.37.1.1 PDB: 1g3u_A* 1gsi_A* 1mrn_A* 1mrs_A* 1n5i_A* 1n5j_A* 1n5k_A* 1n5l_A* 1w2g_A* 1w2h_A*

Probab=97.31  E-value=4.8e-05  Score=41.36  Aligned_cols=21  Identities=24%  Similarity=0.531  Sum_probs=18.7

Q ss_pred             EEEEECCCCChHHHHHHHHhc
Q 035301           14 KVVLIGDSGVGKSNLLSRFTR   34 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~   34 (68)
                      .|++.|.+|+||||++..+..
T Consensus         2 ~I~i~G~~GsGKsTl~~~L~~   22 (214)
T 1gtv_A            2 LIAIEGVDGAGKRTLVEKLSG   22 (214)
T ss_dssp             EEEEEEEEEEEHHHHHHHHHH
T ss_pred             EEEEEcCCCCCHHHHHHHHHH
Confidence            478999999999999998874

>1f2t_A RAD50 ABC-ATPase; DNA double-strand break repair, replication; 1.60A {Pyrococcus furiosus} SCOP: c.37.1.12 PDB: 1f2u_A* 1us8_A*

Probab=97.30  E-value=0.00021  Score=37.53  Aligned_cols=20  Identities=40%  Similarity=0.647  Sum_probs=17.1

Q ss_pred             EEEEECCCCChHHHHHHHHh
Q 035301           14 KVVLIGDSGVGKSNLLSRFT   33 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~   33 (68)
                      -.+++|++|+|||+++..+.
T Consensus        25 ~~~I~G~NGsGKStil~Ai~   44 (149)
T 1f2t_A           25 INLIIGQNGSGKSSLLDAIL   44 (149)
T ss_dssp             EEEEECCTTSSHHHHHHHHH
T ss_pred             eEEEECCCCCCHHHHHHHHH
Confidence            35788999999999998865

>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=97.29  E-value=0.00034  Score=41.58  Aligned_cols=25  Identities=24%  Similarity=0.376  Sum_probs=21.8

Q ss_pred             CceeeEEEEECCCCChHHHHHHHHh
Q 035301            9 YDYLFKVVLIGDSGVGKSNLLSRFT   33 (68)
Q Consensus         9 ~~~~~ki~~iG~~~vGKtsl~~~~~   33 (68)
                      .....|++++|.+++||||+++++.
T Consensus         6 ~~~~~k~lllG~~~sGKsT~~kq~~   30 (354)
T 2xtz_A            6 GIHIRKLLLLGAGESGKSTIFKQIK   30 (354)
T ss_dssp             CCEEEEEEEECSTTSSHHHHHHHHH
T ss_pred             CCCceeEEEECCCCCcHHHHHHHHH
Confidence            4567899999999999999998865

>2xex_A Elongation factor G; GTPase, translation, biosynthetic protein; 1.90A {Staphylococcus aureus}

Probab=97.29  E-value=0.00022  Score=45.58  Aligned_cols=26  Identities=12%  Similarity=0.172  Sum_probs=23.4

Q ss_pred             CceeeEEEEECCCCChHHHHHHHHhc
Q 035301            9 YDYLFKVVLIGDSGVGKSNLLSRFTR   34 (68)
Q Consensus         9 ~~~~~ki~~iG~~~vGKtsl~~~~~~   34 (68)
                      .+...+++++|..++|||||+++++.
T Consensus         7 ~~~~~~I~IvG~~~aGKSTL~~~Ll~   32 (693)
T 2xex_A            7 LEKTRNIGIMAHIDAGKTTTTERILY   32 (693)
T ss_dssp             STTEEEEEEECCGGGTHHHHHHHHHH
T ss_pred             cccceEEEEECCCCCCHHHHHHHHHH
Confidence            45678999999999999999999984

>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=97.29  E-value=0.0002  Score=44.57  Aligned_cols=25  Identities=12%  Similarity=0.182  Sum_probs=22.8

Q ss_pred             ceeeEEEEECCCCChHHHHHHHHhc
Q 035301           10 DYLFKVVLIGDSGVGKSNLLSRFTR   34 (68)
Q Consensus        10 ~~~~ki~~iG~~~vGKtsl~~~~~~   34 (68)
                      ....+++++|..++|||||+++++.
T Consensus        11 ~~~~~I~IiG~~~aGKTTL~~~Ll~   35 (529)
T 2h5e_A           11 AKRRTFAIISHPDAGKTTITEKVLL   35 (529)
T ss_dssp             HTEEEEEEEECTTSSHHHHHHHHHH
T ss_pred             cCCCEEEEECCCCChHHHHHHHHHh
Confidence            4578999999999999999999985

>3nwj_A ATSK2; P loop, shikimate, nucleoside monophosphate kinase, shikimat ATP binding, chloroplast, transferase; 2.35A {Arabidopsis thaliana}

Probab=97.28  E-value=0.00017  Score=41.01  Aligned_cols=22  Identities=27%  Similarity=0.397  Sum_probs=19.6

Q ss_pred             eEEEEECCCCChHHHHHHHHhc
Q 035301           13 FKVVLIGDSGVGKSNLLSRFTR   34 (68)
Q Consensus        13 ~ki~~iG~~~vGKtsl~~~~~~   34 (68)
                      -.++++|.+|+||||+.+.+++
T Consensus        49 ~~i~l~G~~GsGKSTl~~~La~   70 (250)
T 3nwj_A           49 RSMYLVGMMGSGKTTVGKIMAR   70 (250)
T ss_dssp             CCEEEECSTTSCHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHH
Confidence            3699999999999999998875

>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=97.28  E-value=0.00021  Score=38.06  Aligned_cols=22  Identities=32%  Similarity=0.407  Sum_probs=19.5

Q ss_pred             eEEEEECCCCChHHHHHHHHhc
Q 035301           13 FKVVLIGDSGVGKSNLLSRFTR   34 (68)
Q Consensus        13 ~ki~~iG~~~vGKtsl~~~~~~   34 (68)
                      ..++++|.+|+||||+.+.+..
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            4688999999999999998875

>2grj_A Dephospho-COA kinase; TM1387, EC 2.7.1.24, dephosphocoenzyme kinase, structural genomics, joint center for structural GE JCSG; HET: ADP COD; 2.60A {Thermotoga maritima}

Probab=97.28  E-value=0.00029  Score=38.54  Aligned_cols=28  Identities=18%  Similarity=0.253  Sum_probs=22.4

Q ss_pred             CCceeeEEEEECCCCChHHHHHHHHhcC
Q 035301            8 EYDYLFKVVLIGDSGVGKSNLLSRFTRN   35 (68)
Q Consensus         8 ~~~~~~ki~~iG~~~vGKtsl~~~~~~~   35 (68)
                      .-...+.|.+.|..|+||||+.+.+...
T Consensus         8 ~~~~~~iIgltG~~GSGKSTva~~L~~~   35 (192)
T 2grj_A            8 HHHHHMVIGVTGKIGTGKSTVCEILKNK   35 (192)
T ss_dssp             --CCEEEEEEECSTTSSHHHHHHHHHHH
T ss_pred             ccccceEEEEECCCCCCHHHHHHHHHHh
Confidence            3445688999999999999999988753

>2iw3_A Elongation factor 3A; acetylation, ATP-binding, protein biosynthesis, nucleotide-binding, phosphorylation, RNA- binding, rRNA-binding; HET: ADP; 2.4A {Saccharomyces cerevisiae} PDB: 2iwh_A* 2ix3_A 2ix8_A

Probab=97.28  E-value=0.00012  Score=48.45  Aligned_cols=27  Identities=30%  Similarity=0.529  Sum_probs=23.1

Q ss_pred             EEEEECCCCChHHHHHHHHhcCcCcCC
Q 035301           14 KVVLIGDSGVGKSNLLSRFTRNEFCLE   40 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~~~~~~~   40 (68)
                      .+.++|++|+|||||++.+++...+.+
T Consensus       701 ivaIiGpNGSGKSTLLklLaGll~P~s  727 (986)
T 2iw3_A          701 RIAVIGPNGAGKSTLINVLTGELLPTS  727 (986)
T ss_dssp             EEEECSCCCHHHHHHHHHHTTSSCCSE
T ss_pred             EEEEECCCCCCHHHHHHHHhCCCCCCc
Confidence            689999999999999999998655443

>3tr5_A RF-3, peptide chain release factor 3; protein synthesis, translation; HET: GDP; 2.11A {Coxiella burnetii}

Probab=97.27  E-value=0.00022  Score=44.34  Aligned_cols=24  Identities=17%  Similarity=0.289  Sum_probs=21.8

Q ss_pred             ceeeEEEEECCCCChHHHHHHHHh
Q 035301           10 DYLFKVVLIGDSGVGKSNLLSRFT   33 (68)
Q Consensus        10 ~~~~ki~~iG~~~vGKtsl~~~~~   33 (68)
                      ....+++++|..++|||||+++++
T Consensus        11 ~~~r~IaIiG~~~aGKTTL~~~Ll   34 (528)
T 3tr5_A           11 AMRRTFAIISHPDAGKTTLTEKLL   34 (528)
T ss_dssp             HTEEEEEEEECTTSSHHHHHHHHH
T ss_pred             hcCCEEEEECCCCCcHHHHHHHHH
Confidence            456899999999999999999996

>2wwf_A Thymidilate kinase, putative; transferase, malaria; HET: TMP ADP; 1.89A {Plasmodium falciparum} PDB: 2wwg_A* 2wwh_A* 2wwi_A*

Probab=97.27  E-value=0.0003  Score=38.09  Aligned_cols=22  Identities=23%  Similarity=0.144  Sum_probs=19.9

Q ss_pred             eEEEEECCCCChHHHHHHHHhc
Q 035301           13 FKVVLIGDSGVGKSNLLSRFTR   34 (68)
Q Consensus        13 ~ki~~iG~~~vGKtsl~~~~~~   34 (68)
                      ..|++.|..|+||||+.+.+..
T Consensus        11 ~~I~l~G~~GsGKST~~~~L~~   32 (212)
T 2wwf_A           11 KFIVFEGLDRSGKSTQSKLLVE   32 (212)
T ss_dssp             CEEEEEESTTSSHHHHHHHHHH
T ss_pred             CEEEEEcCCCCCHHHHHHHHHH
Confidence            5799999999999999998874

>3h4m_A Proteasome-activating nucleotidase; ATPase, PAN, ATP-binding, nucleotide-binding, HY; HET: ADP; 3.11A {Methanocaldococcus jannaschii}

Probab=97.26  E-value=0.00019  Score=40.59  Aligned_cols=22  Identities=27%  Similarity=0.422  Sum_probs=19.8

Q ss_pred             eEEEEECCCCChHHHHHHHHhc
Q 035301           13 FKVVLIGDSGVGKSNLLSRFTR   34 (68)
Q Consensus        13 ~ki~~iG~~~vGKtsl~~~~~~   34 (68)
                      -.+++.|++|+|||++++.++.
T Consensus        52 ~~~ll~G~~GtGKT~la~~la~   73 (285)
T 3h4m_A           52 KGILLYGPPGTGKTLLAKAVAT   73 (285)
T ss_dssp             SEEEEESSSSSSHHHHHHHHHH
T ss_pred             CeEEEECCCCCcHHHHHHHHHH
Confidence            4699999999999999999875

>2pbr_A DTMP kinase, thymidylate kinase; transferase, nucleotide biosynthesis, TMP-binding, A binding, structural genomics, NPPSFA; 1.96A {Aquifex aeolicus}

Probab=97.26  E-value=0.00023  Score=37.92  Aligned_cols=21  Identities=19%  Similarity=0.344  Sum_probs=19.0

Q ss_pred             EEEEECCCCChHHHHHHHHhc
Q 035301           14 KVVLIGDSGVGKSNLLSRFTR   34 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~   34 (68)
                      .|++.|..|+||||+.+.+..
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            588999999999999998875

>3qf7_A RAD50; ABC-ATPase, ATPase, hydrolase; HET: ANP; 1.90A {Thermotoga maritima} PDB: 3qg5_A 3tho_A*

Probab=97.26  E-value=0.00021  Score=42.47  Aligned_cols=19  Identities=37%  Similarity=0.649  Sum_probs=17.0

Q ss_pred             EEEECCCCChHHHHHHHHh
Q 035301           15 VVLIGDSGVGKSNLLSRFT   33 (68)
Q Consensus        15 i~~iG~~~vGKtsl~~~~~   33 (68)
                      .+++|++|+|||||+..++
T Consensus        26 ~~i~G~NGaGKTTll~ai~   44 (365)
T 3qf7_A           26 TVVEGPNGAGKSSLFEAIS   44 (365)
T ss_dssp             EEEECCTTSSHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHH
Confidence            5689999999999999876

>2bwj_A Adenylate kinase 5; phosphoryl transfer reaction, transferase; HET: AMP; 2.3A {Homo sapiens}

Probab=97.26  E-value=0.00021  Score=38.32  Aligned_cols=22  Identities=23%  Similarity=0.459  Sum_probs=19.7

Q ss_pred             eEEEEECCCCChHHHHHHHHhc
Q 035301           13 FKVVLIGDSGVGKSNLLSRFTR   34 (68)
Q Consensus        13 ~ki~~iG~~~vGKtsl~~~~~~   34 (68)
                      ..|++.|.+|+||||+...++.
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            5799999999999999988874

>3b9p_A CG5977-PA, isoform A; AAA ATPase, ATP-binding, nucleotide-binding, hydrolase; 2.70A {Drosophila melanogaster}

Probab=97.26  E-value=0.00019  Score=40.86  Aligned_cols=23  Identities=26%  Similarity=0.356  Sum_probs=20.3

Q ss_pred             eeEEEEECCCCChHHHHHHHHhc
Q 035301           12 LFKVVLIGDSGVGKSNLLSRFTR   34 (68)
Q Consensus        12 ~~ki~~iG~~~vGKtsl~~~~~~   34 (68)
                      .--+++.|++|+|||++++.++.
T Consensus        54 ~~~vll~Gp~GtGKT~la~~la~   76 (297)
T 3b9p_A           54 AKGLLLFGPPGNGKTLLARAVAT   76 (297)
T ss_dssp             CSEEEEESSSSSCHHHHHHHHHH
T ss_pred             CCeEEEECcCCCCHHHHHHHHHH
Confidence            34789999999999999999875

>2qz4_A Paraplegin; AAA+, SPG7, protease, ADP, structural genomics, structural G consortium, SGC, ATP-binding, nucleotide-binding, hydrolase; HET: ADP; 2.22A {Homo sapiens}

Probab=97.26  E-value=0.00022  Score=39.79  Aligned_cols=22  Identities=27%  Similarity=0.430  Sum_probs=19.5

Q ss_pred             eEEEEECCCCChHHHHHHHHhc
Q 035301           13 FKVVLIGDSGVGKSNLLSRFTR   34 (68)
Q Consensus        13 ~ki~~iG~~~vGKtsl~~~~~~   34 (68)
                      .-+++.|++|+|||++++.++.
T Consensus        40 ~~vll~G~~GtGKT~la~~la~   61 (262)
T 2qz4_A           40 KGALLLGPPGCGKTLLAKAVAT   61 (262)
T ss_dssp             CEEEEESCTTSSHHHHHHHHHH
T ss_pred             ceEEEECCCCCCHHHHHHHHHH
Confidence            4589999999999999998875

>2c95_A Adenylate kinase 1; transferase, AP4A, nucleotide kinase, transferase ATP-bindi; HET: B4P; 1.71A {Homo sapiens} PDB: 1z83_A* 3adk_A

Probab=97.26  E-value=0.00023  Score=38.09  Aligned_cols=22  Identities=18%  Similarity=0.434  Sum_probs=19.6

Q ss_pred             eEEEEECCCCChHHHHHHHHhc
Q 035301           13 FKVVLIGDSGVGKSNLLSRFTR   34 (68)
Q Consensus        13 ~ki~~iG~~~vGKtsl~~~~~~   34 (68)
                      ..|++.|.+|+||||+...++.
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            4799999999999999998864

>2elf_A Protein translation elongation factor 1A; tRNA, pyrrolysine, structural genomics, NPPSFA; HET: CIT; 1.70A {Methanosarcina mazei}

Probab=97.25  E-value=0.00017  Score=43.01  Aligned_cols=20  Identities=25%  Similarity=0.544  Sum_probs=19.5

Q ss_pred             EEEEECCCCChHHHHHHHHh
Q 035301           14 KVVLIGDSGVGKSNLLSRFT   33 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~   33 (68)
                      +++++|..++|||||++++.
T Consensus        23 ~i~iiG~~d~GKSTL~~~L~   42 (370)
T 2elf_A           23 NVAIIGTEKSGRTSLAANLG   42 (370)
T ss_dssp             EEEEEESTTSSHHHHHHTTS
T ss_pred             EEEEECCCCCCHHHHHHHHH
Confidence            99999999999999999998

>1q3t_A Cytidylate kinase; nucleotide monophosphate kinase, CMP kinase, transferase; NMR {Streptococcus pneumoniae} SCOP: c.37.1.1

Probab=97.25  E-value=0.00025  Score=39.45  Aligned_cols=27  Identities=15%  Similarity=0.254  Sum_probs=21.8

Q ss_pred             CCceeeEEEEECCCCChHHHHHHHHhc
Q 035301            8 EYDYLFKVVLIGDSGVGKSNLLSRFTR   34 (68)
Q Consensus         8 ~~~~~~ki~~iG~~~vGKtsl~~~~~~   34 (68)
                      ++.....+.++|.+|+||||+...++.
T Consensus        12 ~~~~~~~i~i~G~~gsGKst~~~~l~~   38 (236)
T 1q3t_A           12 DKMKTIQIAIDGPASSGKSTVAKIIAK   38 (236)
T ss_dssp             --CCCCEEEEECSSCSSHHHHHHHHHH
T ss_pred             cccCCcEEEEECCCCCCHHHHHHHHHH
Confidence            445567899999999999999988774

>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=97.25  E-value=0.00024  Score=37.38  Aligned_cols=22  Identities=18%  Similarity=0.446  Sum_probs=19.4

Q ss_pred             eEEEEECCCCChHHHHHHHHhc
Q 035301           13 FKVVLIGDSGVGKSNLLSRFTR   34 (68)
Q Consensus        13 ~ki~~iG~~~vGKtsl~~~~~~   34 (68)
                      ..|++.|.+|+||||+...+..
T Consensus         3 ~~I~l~G~~GsGKsT~a~~La~   24 (173)
T 1e6c_A            3 EPIFMVGARGCGMTTVGRELAR   24 (173)
T ss_dssp             CCEEEESCTTSSHHHHHHHHHH
T ss_pred             ceEEEECCCCCCHHHHHHHHHH
Confidence            3689999999999999998874

>1qf9_A UMP/CMP kinase, protein (uridylmonophosphate/cytidylmonophosphate kinase); nucleoside monophosphate kinase, NMP kinase; HET: ADP C5P; 1.70A {Dictyostelium discoideum} SCOP: c.37.1.1 PDB: 1uke_A* 2ukd_A* 3ukd_A* 4ukd_A* 5ukd_A*

Probab=97.25  E-value=0.00031  Score=37.37  Aligned_cols=22  Identities=27%  Similarity=0.466  Sum_probs=19.6

Q ss_pred             eEEEEECCCCChHHHHHHHHhc
Q 035301           13 FKVVLIGDSGVGKSNLLSRFTR   34 (68)
Q Consensus        13 ~ki~~iG~~~vGKtsl~~~~~~   34 (68)
                      ..|++.|.+|+||||+...+..
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            5799999999999999988864

>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=97.25  E-value=0.00049  Score=38.43  Aligned_cols=26  Identities=31%  Similarity=0.450  Sum_probs=22.6

Q ss_pred             CCceeeEEEEECCCCChHHHHHHHHh
Q 035301            8 EYDYLFKVVLIGDSGVGKSNLLSRFT   33 (68)
Q Consensus         8 ~~~~~~ki~~iG~~~vGKtsl~~~~~   33 (68)
                      .......+++.|..||||||++..++
T Consensus        10 ~~~~~~i~~~~GkgGvGKTTl~~~La   35 (262)
T 1yrb_A           10 HGMASMIVVFVGTAGSGKTTLTGEFG   35 (262)
T ss_dssp             TTCCCEEEEEECSTTSSHHHHHHHHH
T ss_pred             CCcceEEEEEeCCCCCCHHHHHHHHH
Confidence            34557889999999999999999998

>3ec1_A YQEH GTPase; atnos1, atnoa1, trap, PVHL, hydrolase, signaling protein; HET: GDP; 2.36A {Geobacillus stearothermophilus}

Probab=97.25  E-value=0.00019  Score=42.69  Aligned_cols=23  Identities=30%  Similarity=0.520  Sum_probs=21.1

Q ss_pred             eEEEEECCCCChHHHHHHHHhcC
Q 035301           13 FKVVLIGDSGVGKSNLLSRFTRN   35 (68)
Q Consensus        13 ~ki~~iG~~~vGKtsl~~~~~~~   35 (68)
                      .+++++|.+++|||||++.+.+.
T Consensus       163 ~~i~~vG~~nvGKStliN~L~~~  185 (369)
T 3ec1_A          163 GDVYVVGCTNVGKSTFINRIIEE  185 (369)
T ss_dssp             SCEEEECCTTSSHHHHHHHHHHH
T ss_pred             CcEEEEcCCCCchHHHHHHHHhh
Confidence            47999999999999999999875

>2qby_A CDC6 homolog 1, cell division control protein 6 homolog 1; winged-helix domain, helix-turn-helix, AAA+ ATPase domain, protein-DNA complex; HET: DNA SPD ADP; 3.35A {Sulfolobus solfataricus}

Probab=97.24  E-value=0.00018  Score=41.80  Aligned_cols=23  Identities=17%  Similarity=0.358  Sum_probs=20.1

Q ss_pred             eEEEEECCCCChHHHHHHHHhcC
Q 035301           13 FKVVLIGDSGVGKSNLLSRFTRN   35 (68)
Q Consensus        13 ~ki~~iG~~~vGKtsl~~~~~~~   35 (68)
                      --+++.|++|+|||+|++.++..
T Consensus        46 ~~vli~G~~G~GKTtl~~~l~~~   68 (386)
T 2qby_A           46 NNIFIYGLTGTGKTAVVKFVLSK   68 (386)
T ss_dssp             CCEEEEECTTSSHHHHHHHHHHH
T ss_pred             CeEEEECCCCCCHHHHHHHHHHH
Confidence            36899999999999999988753

>1nlf_A Regulatory protein REPA; replicative DNA helicase structural changes, replication; 1.95A {Escherichia coli} SCOP: c.37.1.11 PDB: 1g8y_A 1olo_A

Probab=97.24  E-value=0.00019  Score=40.85  Aligned_cols=21  Identities=29%  Similarity=0.366  Sum_probs=19.0

Q ss_pred             EEEEECCCCChHHHHHHHHhc
Q 035301           14 KVVLIGDSGVGKSNLLSRFTR   34 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~   34 (68)
                      -++++|++|+|||+|+..++.
T Consensus        32 i~~i~G~~GsGKTtl~~~l~~   52 (279)
T 1nlf_A           32 VGALVSPGGAGKSMLALQLAA   52 (279)
T ss_dssp             EEEEEESTTSSHHHHHHHHHH
T ss_pred             EEEEEcCCCCCHHHHHHHHHH
Confidence            578999999999999998875

>1l8q_A Chromosomal replication initiator protein DNAA; AAA+, helix-turn-helix, nucleotide-binding, DNA binding, REP initiation, DNA binding protein; HET: ADP; 2.70A {Aquifex aeolicus} SCOP: a.4.12.2 c.37.1.20 PDB: 3r8f_A* 2hcb_A*

Probab=97.23  E-value=0.00022  Score=41.26  Aligned_cols=22  Identities=27%  Similarity=0.536  Sum_probs=19.4

Q ss_pred             EEEEECCCCChHHHHHHHHhcC
Q 035301           14 KVVLIGDSGVGKSNLLSRFTRN   35 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~~   35 (68)
                      -+++.|++|+|||++++.++..
T Consensus        39 ~lll~G~~GtGKT~la~~i~~~   60 (324)
T 1l8q_A           39 PIFIYGSVGTGKTHLLQAAGNE   60 (324)
T ss_dssp             SEEEECSSSSSHHHHHHHHHHH
T ss_pred             eEEEECCCCCcHHHHHHHHHHH
Confidence            5889999999999999988753

>1sxj_E Activator 1 40 kDa subunit; clamp loader, processivity clamp, DNA sliding clamp, AAA+ at polymerase, DNA-binding protein; HET: AGS ADP; 2.85A {Saccharomyces cerevisiae} SCOP: a.80.1.1 c.37.1.20

Probab=97.22  E-value=0.00017  Score=41.92  Aligned_cols=20  Identities=25%  Similarity=0.436  Sum_probs=18.8

Q ss_pred             EEEECCCCChHHHHHHHHhc
Q 035301           15 VVLIGDSGVGKSNLLSRFTR   34 (68)
Q Consensus        15 i~~iG~~~vGKtsl~~~~~~   34 (68)
                      +++.|++|+|||++++.+++
T Consensus        39 ~ll~Gp~G~GKTtl~~~la~   58 (354)
T 1sxj_E           39 LLLYGPNGTGKKTRCMALLE   58 (354)
T ss_dssp             EEEECSTTSSHHHHHHTHHH
T ss_pred             EEEECCCCCCHHHHHHHHHH
Confidence            89999999999999998876

>3be4_A Adenylate kinase; malaria, cryptosporidium parvum nonprotein inhibitors, nucleotide-binding, transferase; HET: AP5; 1.60A {Cryptosporidium parvum iowa II}

Probab=97.22  E-value=0.00023  Score=39.13  Aligned_cols=23  Identities=26%  Similarity=0.468  Sum_probs=20.2

Q ss_pred             eeEEEEECCCCChHHHHHHHHhc
Q 035301           12 LFKVVLIGDSGVGKSNLLSRFTR   34 (68)
Q Consensus        12 ~~ki~~iG~~~vGKtsl~~~~~~   34 (68)
                      ...|+++|..|+||||+...++.
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            36799999999999999998864

>1vht_A Dephospho-COA kinase; structural genomics, transferase; HET: BA3; 1.59A {Escherichia coli} SCOP: c.37.1.1 PDB: 1vhl_A* 1viy_A 1t3h_A 1n3b_A

Probab=97.22  E-value=0.00033  Score=38.33  Aligned_cols=22  Identities=36%  Similarity=0.623  Sum_probs=20.1

Q ss_pred             eEEEEECCCCChHHHHHHHHhc
Q 035301           13 FKVVLIGDSGVGKSNLLSRFTR   34 (68)
Q Consensus        13 ~ki~~iG~~~vGKtsl~~~~~~   34 (68)
                      +.|++.|.+|+||||+.+.+..
T Consensus         5 ~~I~i~G~~GSGKST~~~~L~~   26 (218)
T 1vht_A            5 YIVALTGGIGSGKSTVANAFAD   26 (218)
T ss_dssp             EEEEEECCTTSCHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHH
Confidence            5799999999999999999875

>2p5t_B PEZT; postsegregational killing system, phosphoryltransferase, HEL helix motif, transcription regulator; 3.20A {Streptococcus pneumoniae}

Probab=97.21  E-value=0.00018  Score=40.51  Aligned_cols=24  Identities=25%  Similarity=0.375  Sum_probs=20.8

Q ss_pred             eeeEEEEECCCCChHHHHHHHHhc
Q 035301           11 YLFKVVLIGDSGVGKSNLLSRFTR   34 (68)
Q Consensus        11 ~~~ki~~iG~~~vGKtsl~~~~~~   34 (68)
                      ....++++|.+|+||||+...+..
T Consensus        31 ~~~~i~l~G~~GsGKSTla~~L~~   54 (253)
T 2p5t_B           31 QPIAILLGGQSGAGKTTIHRIKQK   54 (253)
T ss_dssp             SCEEEEEESCGGGTTHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHH
Confidence            346899999999999999998875

>3n70_A Transport activator; sigma-54, ntpase, PSI, MCSG, structural genomics, center for structural genomics; 2.80A {Escherichia coli}

Probab=97.20  E-value=0.00048  Score=35.68  Aligned_cols=24  Identities=21%  Similarity=0.253  Sum_probs=20.7

Q ss_pred             eEEEEECCCCChHHHHHHHHhcCc
Q 035301           13 FKVVLIGDSGVGKSNLLSRFTRNE   36 (68)
Q Consensus        13 ~ki~~iG~~~vGKtsl~~~~~~~~   36 (68)
                      ..+++.|++|+|||++.+.+....
T Consensus        25 ~~vll~G~~GtGKt~lA~~i~~~~   48 (145)
T 3n70_A           25 IAVWLYGAPGTGRMTGARYLHQFG   48 (145)
T ss_dssp             SCEEEESSTTSSHHHHHHHHHHSS
T ss_pred             CCEEEECCCCCCHHHHHHHHHHhC
Confidence            468999999999999999987643

>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=97.19  E-value=0.00028  Score=38.28  Aligned_cols=22  Identities=27%  Similarity=0.311  Sum_probs=19.9

Q ss_pred             eEEEEECCCCChHHHHHHHHhc
Q 035301           13 FKVVLIGDSGVGKSNLLSRFTR   34 (68)
Q Consensus        13 ~ki~~iG~~~vGKtsl~~~~~~   34 (68)
                      ..|++.|..|+||||+.+.+..
T Consensus        10 ~~I~l~G~~GsGKsT~~~~L~~   31 (215)
T 1nn5_A           10 ALIVLEGVDRAGKSTQSRKLVE   31 (215)
T ss_dssp             CEEEEEESTTSSHHHHHHHHHH
T ss_pred             cEEEEECCCCCCHHHHHHHHHH
Confidence            5799999999999999998874

>1m7g_A Adenylylsulfate kinase; APS kinase, transferase, sulfate Met nucleotide 2 kinase; HET: AV2 ADX ADP; 1.43A {Penicillium chrysogenum} SCOP: c.37.1.4 PDB: 1d6j_A* 1m7h_A* 3cr7_A*

Probab=97.19  E-value=0.00028  Score=38.61  Aligned_cols=22  Identities=32%  Similarity=0.418  Sum_probs=19.3

Q ss_pred             eEEEEECCCCChHHHHHHHHhc
Q 035301           13 FKVVLIGDSGVGKSNLLSRFTR   34 (68)
Q Consensus        13 ~ki~~iG~~~vGKtsl~~~~~~   34 (68)
                      ..++++|.+|+||||+...+..
T Consensus        26 ~~i~~~G~~GsGKsT~~~~l~~   47 (211)
T 1m7g_A           26 LTIWLTGLSASGKSTLAVELEH   47 (211)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHH
Confidence            4688999999999999998764

>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=97.19  E-value=0.00036  Score=40.02  Aligned_cols=25  Identities=36%  Similarity=0.497  Sum_probs=21.5

Q ss_pred             ceeeEEEEECCCCChHHHHHHHHhc
Q 035301           10 DYLFKVVLIGDSGVGKSNLLSRFTR   34 (68)
Q Consensus        10 ~~~~ki~~iG~~~vGKtsl~~~~~~   34 (68)
                      ...+.|++.|.+|+||||+.+.+..
T Consensus        73 ~~~~iI~I~G~~GSGKSTva~~La~   97 (281)
T 2f6r_A           73 SGLYVLGLTGISGSGKSSVAQRLKN   97 (281)
T ss_dssp             TTCEEEEEEECTTSCHHHHHHHHHH
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHH
Confidence            3467899999999999999998873

>1fnn_A CDC6P, cell division control protein 6; ORC1, AAA protein, DNA replication initation factor, cell cycle control factor; HET: ADP; 2.00A {Pyrobaculum aerophilum} SCOP: a.4.5.11 c.37.1.20

Probab=97.19  E-value=0.00026  Score=41.35  Aligned_cols=22  Identities=27%  Similarity=0.502  Sum_probs=19.8

Q ss_pred             EEEEECCCCChHHHHHHHHhcC
Q 035301           14 KVVLIGDSGVGKSNLLSRFTRN   35 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~~   35 (68)
                      .+++.|++|+|||++++.++..
T Consensus        46 ~~li~G~~G~GKTtl~~~l~~~   67 (389)
T 1fnn_A           46 RATLLGRPGTGKTVTLRKLWEL   67 (389)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHH
T ss_pred             eEEEECCCCCCHHHHHHHHHHH
Confidence            6899999999999999998854

>4f4c_A Multidrug resistance protein PGP-1; ABC transporter, ATPase, multi-drug transporter, exporter, A binding, hydrolase,protein transport; HET: NDG NAG BMA MAN 0SA; 3.40A {Caenorhabditis elegans}

Probab=97.18  E-value=0.00014  Score=49.15  Aligned_cols=29  Identities=31%  Similarity=0.454  Sum_probs=24.2

Q ss_pred             EEEEECCCCChHHHHHHHHhcCcCcCCCc
Q 035301           14 KVVLIGDSGVGKSNLLSRFTRNEFCLESK   42 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~~~~~~~~~   42 (68)
                      ++.++|++|+|||||+..+.+-..+.++.
T Consensus      1107 ~vaIVG~SGsGKSTL~~lL~rl~~p~~G~ 1135 (1321)
T 4f4c_A         1107 TLALVGPSGCGKSTVVALLERFYDTLGGE 1135 (1321)
T ss_dssp             EEEEECSTTSSTTSHHHHHTTSSCCSSSE
T ss_pred             EEEEECCCCChHHHHHHHHhcCccCCCCE
Confidence            88999999999999999998765554443

>2dr3_A UPF0273 protein PH0284; RECA superfamily ATPase, hexamer, structural genomics; HET: ADP; 2.00A {Pyrococcus horikoshii}

Probab=97.18  E-value=0.00026  Score=39.02  Aligned_cols=21  Identities=33%  Similarity=0.534  Sum_probs=17.9

Q ss_pred             EEEEECCCCChHHHHHHHHhc
Q 035301           14 KVVLIGDSGVGKSNLLSRFTR   34 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~   34 (68)
                      -++++|++|+|||+|+.+++.
T Consensus        25 ~~~i~G~~GsGKTtl~~~~~~   45 (247)
T 2dr3_A           25 VVLLSGGPGTGKTIFSQQFLW   45 (247)
T ss_dssp             EEEEEECTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            478899999999999887753

>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=97.18  E-value=0.00038  Score=39.36  Aligned_cols=22  Identities=32%  Similarity=0.610  Sum_probs=19.7

Q ss_pred             eEEEEECCCCChHHHHHHHHhc
Q 035301           13 FKVVLIGDSGVGKSNLLSRFTR   34 (68)
Q Consensus        13 ~ki~~iG~~~vGKtsl~~~~~~   34 (68)
                      ..|++.|.+|+||||+...+..
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            4799999999999999998874

>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=97.18  E-value=0.00028  Score=45.79  Aligned_cols=28  Identities=29%  Similarity=0.544  Sum_probs=25.2

Q ss_pred             ceeeEEEEECCCCChHHHHHHHHhcCcC
Q 035301           10 DYLFKVVLIGDSGVGKSNLLSRFTRNEF   37 (68)
Q Consensus        10 ~~~~ki~~iG~~~vGKtsl~~~~~~~~~   37 (68)
                      ....+|+++|+.++||||+++.+.+..+
T Consensus        49 i~lp~I~vvG~~saGKSSllnaL~g~~~   76 (772)
T 3zvr_A           49 LDLPQIAVVGGQSAGKSSVLENFVGRDF   76 (772)
T ss_dssp             GCCSEEEEEECTTTCHHHHHHHHHSSCC
T ss_pred             CCCCEEEEECCCCCcHHHHHHHHhCCCc
Confidence            3467999999999999999999999876

>1bif_A 6-phosphofructo-2-kinase/ fructose-2,6-bisphospha; transferase (phospho), phosphatase, hydrolase (phosp glycolysis, bifunctional enzyme; HET: AGS; 2.00A {Rattus norvegicus} SCOP: c.37.1.7 c.60.1.4 PDB: 3bif_A* 2bif_A* 1k6m_A* 1c80_A* 1c7z_A* 1c81_A* 1tip_A* 1fbt_A

Probab=97.17  E-value=0.00036  Score=42.57  Aligned_cols=25  Identities=24%  Similarity=0.375  Sum_probs=21.8

Q ss_pred             eeeEEEEECCCCChHHHHHHHHhcC
Q 035301           11 YLFKVVLIGDSGVGKSNLLSRFTRN   35 (68)
Q Consensus        11 ~~~ki~~iG~~~vGKtsl~~~~~~~   35 (68)
                      ...+|+++|.+|+||||+.++++..
T Consensus        38 ~~~~IvlvGlpGsGKSTia~~La~~   62 (469)
T 1bif_A           38 CPTLIVMVGLPARGKTYISKKLTRY   62 (469)
T ss_dssp             CCEEEEEECCTTSSHHHHHHHHHHH
T ss_pred             CcEEEEEECCCCCCHHHHHHHHHHH
Confidence            3578999999999999999998754

>3umf_A Adenylate kinase; rossmann fold, transferase; 2.05A {Schistosoma mansoni}

Probab=97.17  E-value=0.00044  Score=38.59  Aligned_cols=20  Identities=20%  Similarity=0.576  Sum_probs=17.6

Q ss_pred             EEEECCCCChHHHHHHHHhc
Q 035301           15 VVLIGDSGVGKSNLLSRFTR   34 (68)
Q Consensus        15 i~~iG~~~vGKtsl~~~~~~   34 (68)
                      |+++|++|+||+|...+++.
T Consensus        32 I~llGpPGsGKgTqa~~L~~   51 (217)
T 3umf_A           32 IFVLGGPGSGKGTQCEKLVQ   51 (217)
T ss_dssp             EEEECCTTCCHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHH
Confidence            56789999999999998875

>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=97.17  E-value=0.0003  Score=41.71  Aligned_cols=23  Identities=26%  Similarity=0.459  Sum_probs=19.7

Q ss_pred             ceeeEEEEECCCCChHHHHHHHH
Q 035301           10 DYLFKVVLIGDSGVGKSNLLSRF   32 (68)
Q Consensus        10 ~~~~ki~~iG~~~vGKtsl~~~~   32 (68)
                      ...+|++++|..++||||++++.
T Consensus         3 ~~~~klLLLG~geSGKSTi~KQm   25 (340)
T 4fid_A            3 AKPITVMLLGSGESGKSTIAKQL   25 (340)
T ss_dssp             -CCEEEEEEECTTSSHHHHHHHH
T ss_pred             CCcceEEEECCCCCcHHHHHHHH
Confidence            35689999999999999998764

>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=97.17  E-value=0.00033  Score=37.29  Aligned_cols=21  Identities=43%  Similarity=0.684  Sum_probs=18.9

Q ss_pred             EEEEECCCCChHHHHHHHHhc
Q 035301           14 KVVLIGDSGVGKSNLLSRFTR   34 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~   34 (68)
                      .|++.|.+|+||||+...+..
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            589999999999999988864

>3cf0_A Transitional endoplasmic reticulum ATPase; AAA, P97/VCP, ERAD, CDC48, ATP-binding, lipid-binding, nucle binding, nucleus, phosphoprotein, transport; HET: ADP; 3.00A {Mus musculus}

Probab=97.17  E-value=0.00028  Score=40.68  Aligned_cols=22  Identities=27%  Similarity=0.418  Sum_probs=19.7

Q ss_pred             eEEEEECCCCChHHHHHHHHhc
Q 035301           13 FKVVLIGDSGVGKSNLLSRFTR   34 (68)
Q Consensus        13 ~ki~~iG~~~vGKtsl~~~~~~   34 (68)
                      --+++.|++|+|||++++.++.
T Consensus        50 ~~vLL~Gp~GtGKT~la~ala~   71 (301)
T 3cf0_A           50 KGVLFYGPPGCGKTLLAKAIAN   71 (301)
T ss_dssp             SEEEEECSSSSSHHHHHHHHHH
T ss_pred             ceEEEECCCCcCHHHHHHHHHH
Confidence            3589999999999999999885

>3g5u_A MCG1178, multidrug resistance protein 1A; P-glycoprotein, PGP, cyclic peptide, membrane protein; 3.80A {Mus musculus} PDB: 3g61_A* 3g60_A*

Probab=97.16  E-value=0.00022  Score=48.17  Aligned_cols=26  Identities=38%  Similarity=0.466  Sum_probs=22.2

Q ss_pred             EEEEECCCCChHHHHHHHHhcCcCcC
Q 035301           14 KVVLIGDSGVGKSNLLSRFTRNEFCL   39 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~~~~~~   39 (68)
                      ++.++|++|+|||||++.+.+...+.
T Consensus       418 ~~~ivG~sGsGKSTl~~ll~g~~~~~  443 (1284)
T 3g5u_A          418 TVALVGNSGCGKSTTVQLMQRLYDPL  443 (1284)
T ss_dssp             EEEEECCSSSSHHHHHHHTTTSSCCS
T ss_pred             EEEEECCCCCCHHHHHHHHhCCCCCC
Confidence            78999999999999999998755433

>3r20_A Cytidylate kinase; structural genomics, seattle structural genomics center for infectious disease, ssgcid, ADP, DCMP, D transferase; 2.00A {Mycobacterium smegmatis} SCOP: c.37.1.0 PDB: 3r8c_A 4die_A*

Probab=97.16  E-value=0.00037  Score=39.34  Aligned_cols=22  Identities=27%  Similarity=0.415  Sum_probs=20.0

Q ss_pred             eeEEEEECCCCChHHHHHHHHh
Q 035301           12 LFKVVLIGDSGVGKSNLLSRFT   33 (68)
Q Consensus        12 ~~ki~~iG~~~vGKtsl~~~~~   33 (68)
                      .+.+.+.|++|+||||+.+.+.
T Consensus         9 ~~~i~i~G~~GsGKsTla~~la   30 (233)
T 3r20_A            9 SLVVAVDGPAGTGKSSVSRGLA   30 (233)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHH
Confidence            4689999999999999999887

>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=97.15  E-value=0.00031  Score=41.27  Aligned_cols=23  Identities=30%  Similarity=0.567  Sum_probs=20.6

Q ss_pred             eeEEEEECCCCChHHHHHHHHhc
Q 035301           12 LFKVVLIGDSGVGKSNLLSRFTR   34 (68)
Q Consensus        12 ~~ki~~iG~~~vGKtsl~~~~~~   34 (68)
                      ...+.++|.+|+||||+++.+++
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            46889999999999999999874

>4eaq_A DTMP kinase, thymidylate kinase; structural genomics, PSI-biology, midwest center for structu genomics, MCSG, MTBI, transferase; HET: ATM; 1.85A {Staphylococcus aureus subsp} PDB: 4dwj_A* 4f4i_A

Probab=97.15  E-value=0.00031  Score=39.21  Aligned_cols=24  Identities=17%  Similarity=0.324  Sum_probs=20.7

Q ss_pred             eeEEEEECCCCChHHHHHHHHhcC
Q 035301           12 LFKVVLIGDSGVGKSNLLSRFTRN   35 (68)
Q Consensus        12 ~~ki~~iG~~~vGKtsl~~~~~~~   35 (68)
                      ...|++.|.+|+||||++..+...
T Consensus        26 g~~i~i~G~~GsGKsT~~~~l~~~   49 (229)
T 4eaq_A           26 SAFITFEGPEGSGKTTVINEVYHR   49 (229)
T ss_dssp             CEEEEEECCTTSCHHHHHHHHHHH
T ss_pred             CeEEEEEcCCCCCHHHHHHHHHHH
Confidence            457899999999999999998753

>3crm_A TRNA delta(2)-isopentenylpyrophosphate transferase; ATP-binding, nucleotide-binding, nucleotidyltransferase, tRNA processing; 1.90A {Pseudomonas aeruginosa} PDB: 3crq_A 3crr_A

Probab=97.15  E-value=0.00045  Score=40.76  Aligned_cols=22  Identities=23%  Similarity=0.457  Sum_probs=19.5

Q ss_pred             eEEEEECCCCChHHHHHHHHhc
Q 035301           13 FKVVLIGDSGVGKSNLLSRFTR   34 (68)
Q Consensus        13 ~ki~~iG~~~vGKtsl~~~~~~   34 (68)
                      ..++++|++|+|||++...++.
T Consensus         6 ~~i~i~GptGsGKTtla~~La~   27 (323)
T 3crm_A            6 PAIFLMGPTAAGKTDLAMALAD   27 (323)
T ss_dssp             EEEEEECCTTSCHHHHHHHHHH
T ss_pred             cEEEEECCCCCCHHHHHHHHHH
Confidence            3689999999999999998875

>1ofh_A ATP-dependent HSL protease ATP-binding subunit HSLU; chaperone, hydrolase, ATP-binding; HET: ADP; 2.5A {Haemophilus influenzae} SCOP: c.37.1.20 PDB: 1ofi_A*

Probab=97.15  E-value=0.00031  Score=39.93  Aligned_cols=22  Identities=32%  Similarity=0.761  Sum_probs=19.5

Q ss_pred             eEEEEECCCCChHHHHHHHHhc
Q 035301           13 FKVVLIGDSGVGKSNLLSRFTR   34 (68)
Q Consensus        13 ~ki~~iG~~~vGKtsl~~~~~~   34 (68)
                      ..+++.|++|+|||++++.++.
T Consensus        51 ~~vll~G~~GtGKT~la~~la~   72 (310)
T 1ofh_A           51 KNILMIGPTGVGKTEIARRLAK   72 (310)
T ss_dssp             CCEEEECCTTSSHHHHHHHHHH
T ss_pred             ceEEEECCCCCCHHHHHHHHHH
Confidence            4689999999999999998874

>2vli_A Antibiotic resistance protein; transferase, tunicamycin, phosphotransferase; 1.95A {Deinococcus radiodurans}

Probab=97.15  E-value=0.00021  Score=37.89  Aligned_cols=22  Identities=23%  Similarity=0.295  Sum_probs=15.6

Q ss_pred             eEEEEECCCCChHHHHHHHHhc
Q 035301           13 FKVVLIGDSGVGKSNLLSRFTR   34 (68)
Q Consensus        13 ~ki~~iG~~~vGKtsl~~~~~~   34 (68)
                      ..|++.|.+|+||||+.+.+..
T Consensus         6 ~~I~l~G~~GsGKST~a~~La~   27 (183)
T 2vli_A            6 PIIWINGPFGVGKTHTAHTLHE   27 (183)
T ss_dssp             CEEEEECCC----CHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHH
Confidence            5789999999999999998863

>2qen_A Walker-type ATPase; unknown function; HET: ADP; 2.25A {Pyrococcus abyssi}

Probab=97.15  E-value=0.00031  Score=40.40  Aligned_cols=22  Identities=41%  Similarity=0.584  Sum_probs=19.4

Q ss_pred             EEEEECCCCChHHHHHHHHhcC
Q 035301           14 KVVLIGDSGVGKSNLLSRFTRN   35 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~~   35 (68)
                      -+++.|+.|+|||+|+..+...
T Consensus        33 ~v~i~G~~G~GKT~Ll~~~~~~   54 (350)
T 2qen_A           33 LTLLLGIRRVGKSSLLRAFLNE   54 (350)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHH
T ss_pred             eEEEECCCcCCHHHHHHHHHHH
Confidence            5889999999999999998753

>1qhl_A Protein (cell division protein MUKB); SMC, chromosome partitioning; 2.20A {Escherichia coli} SCOP: c.37.1.12

Probab=97.14  E-value=6.9e-05  Score=42.11  Aligned_cols=23  Identities=30%  Similarity=0.518  Sum_probs=19.1

Q ss_pred             EEEECCCCChHHHHHHHHhcCcC
Q 035301           15 VVLIGDSGVGKSNLLSRFTRNEF   37 (68)
Q Consensus        15 i~~iG~~~vGKtsl~~~~~~~~~   37 (68)
                      +.++|++|+|||||+..+++-..
T Consensus        30 ~~i~GpnGsGKSTll~~i~g~~~   52 (227)
T 1qhl_A           30 TTLSGGNGAGKSTTMAAFVTALI   52 (227)
T ss_dssp             HHHHSCCSHHHHHHHHHHHHHHS
T ss_pred             EEEECCCCCCHHHHHHHHhcccc
Confidence            46789999999999999886444

>3ohm_A Guanine nucleotide-binding protein G(Q) subunit A; PH domain, EF hand, TIM barrel, C2 domain, GTPase, lipase, C binding, GTP binding; HET: GDP; 2.70A {Mus musculus} PDB: 2bcj_Q* 2rgn_A* 3ah8_A*

Probab=97.14  E-value=0.00044  Score=40.79  Aligned_cols=24  Identities=25%  Similarity=0.476  Sum_probs=20.4

Q ss_pred             CceeeEEEEECCCCChHHHHHHHH
Q 035301            9 YDYLFKVVLIGDSGVGKSNLLSRF   32 (68)
Q Consensus         9 ~~~~~ki~~iG~~~vGKtsl~~~~   32 (68)
                      ....+|++++|...+||||+++++
T Consensus         4 ~~~~~klLlLG~geSGKSTi~KQm   27 (327)
T 3ohm_A            4 ARRELKLLLLGTGESGKSTFIKQM   27 (327)
T ss_dssp             -CCEEEEEEECSTTSSHHHHHHHH
T ss_pred             hcccceEEEEcCCCccHHHHHHHH
Confidence            345789999999999999999864

>2px0_A Flagellar biosynthesis protein FLHF; SRP GTPase, flagellum, protein transport, biosynthetic protein; HET: GNP; 3.00A {Bacillus subtilis} PDB: 2px3_A* 3syn_A*

Probab=97.14  E-value=0.00027  Score=40.99  Aligned_cols=23  Identities=30%  Similarity=0.564  Sum_probs=19.9

Q ss_pred             eEEEEECCCCChHHHHHHHHhcC
Q 035301           13 FKVVLIGDSGVGKSNLLSRFTRN   35 (68)
Q Consensus        13 ~ki~~iG~~~vGKtsl~~~~~~~   35 (68)
                      -.++++|++|+||||++..++..
T Consensus       106 ~vi~lvG~~GsGKTTl~~~LA~~  128 (296)
T 2px0_A          106 KYIVLFGSTGAGKTTTLAKLAAI  128 (296)
T ss_dssp             SEEEEEESTTSSHHHHHHHHHHH
T ss_pred             cEEEEECCCCCCHHHHHHHHHHH
Confidence            47889999999999999988753

>1sxj_C Activator 1 40 kDa subunit; clamp loader, processivity clamp, DNA sliding clamp, AAA+ at polymerase, DNA-binding protein; HET: AGS ADP; 2.85A {Saccharomyces cerevisiae} SCOP: a.80.1.1 c.37.1.20

Probab=97.13  E-value=0.0003  Score=40.97  Aligned_cols=21  Identities=24%  Similarity=0.605  Sum_probs=18.9

Q ss_pred             EEEECCCCChHHHHHHHHhcC
Q 035301           15 VVLIGDSGVGKSNLLSRFTRN   35 (68)
Q Consensus        15 i~~iG~~~vGKtsl~~~~~~~   35 (68)
                      +++.|++|+|||+++..+++.
T Consensus        49 ~ll~Gp~G~GKTtla~~la~~   69 (340)
T 1sxj_C           49 LLFYGPPGTGKTSTIVALARE   69 (340)
T ss_dssp             EEEECSSSSSHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHH
Confidence            899999999999999988753

>3syl_A Protein CBBX; photosynthesis, rubisco activase, AAA+ protein, calvin cycle chaperone; 3.00A {Rhodobacter sphaeroides} PDB: 3syk_A 3zuh_A*

Probab=97.13  E-value=0.00028  Score=40.30  Aligned_cols=23  Identities=17%  Similarity=0.484  Sum_probs=19.4

Q ss_pred             eeEEEEECCCCChHHHHHHHHhc
Q 035301           12 LFKVVLIGDSGVGKSNLLSRFTR   34 (68)
Q Consensus        12 ~~ki~~iG~~~vGKtsl~~~~~~   34 (68)
                      ...+++.|++|+|||+++..++.
T Consensus        67 ~~~vll~G~~GtGKT~la~~la~   89 (309)
T 3syl_A           67 TLHMSFTGNPGTGKTTVALKMAG   89 (309)
T ss_dssp             CCEEEEEECTTSSHHHHHHHHHH
T ss_pred             CceEEEECCCCCCHHHHHHHHHH
Confidence            44699999999999999986653

>3h2y_A GTPase family protein; GTP-binding protein YQEH, possibly involved in replication initiation, csgid, IDP90222; HET: DGI; 1.80A {Bacillus anthracis str}

Probab=97.13  E-value=0.00022  Score=42.44  Aligned_cols=23  Identities=30%  Similarity=0.589  Sum_probs=21.1

Q ss_pred             eEEEEECCCCChHHHHHHHHhcC
Q 035301           13 FKVVLIGDSGVGKSNLLSRFTRN   35 (68)
Q Consensus        13 ~ki~~iG~~~vGKtsl~~~~~~~   35 (68)
                      .+++++|.+++|||||++.+.+.
T Consensus       161 ~~i~~vG~~nvGKStliN~L~~~  183 (368)
T 3h2y_A          161 KDVYVVGCTNVGKSTFINRMIKE  183 (368)
T ss_dssp             SCEEEEEBTTSSHHHHHHHHHHH
T ss_pred             ceEEEecCCCCChhHHHHHHHhh
Confidence            47999999999999999999875

>4fcw_A Chaperone protein CLPB; AAA domain; HET: ADP; 2.35A {Thermus thermophilus} PDB: 4fcv_A* 4fd2_A* 4fct_A*

Probab=97.13  E-value=0.00033  Score=40.00  Aligned_cols=23  Identities=26%  Similarity=0.528  Sum_probs=20.1

Q ss_pred             eEEEEECCCCChHHHHHHHHhcC
Q 035301           13 FKVVLIGDSGVGKSNLLSRFTRN   35 (68)
Q Consensus        13 ~ki~~iG~~~vGKtsl~~~~~~~   35 (68)
                      --+++.|++|+|||++++.++..
T Consensus        48 ~~~ll~G~~GtGKt~la~~la~~   70 (311)
T 4fcw_A           48 GSFLFLGPTGVGKTELAKTLAAT   70 (311)
T ss_dssp             EEEEEESCSSSSHHHHHHHHHHH
T ss_pred             eEEEEECCCCcCHHHHHHHHHHH
Confidence            36899999999999999988754

>1d2n_A N-ethylmaleimide-sensitive fusion protein; hexamerization domain, ATPase, transport; HET: ANP; 1.75A {Cricetulus griseus} SCOP: c.37.1.20 PDB: 1nsf_A*

Probab=97.13  E-value=0.00033  Score=39.55  Aligned_cols=23  Identities=30%  Similarity=0.497  Sum_probs=20.4

Q ss_pred             eeEEEEECCCCChHHHHHHHHhc
Q 035301           12 LFKVVLIGDSGVGKSNLLSRFTR   34 (68)
Q Consensus        12 ~~ki~~iG~~~vGKtsl~~~~~~   34 (68)
                      ...+++.|++|+|||+++..++.
T Consensus        64 ~~~vLl~G~~GtGKT~la~~ia~   86 (272)
T 1d2n_A           64 LVSVLLEGPPHSGKTALAAKIAE   86 (272)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHH
T ss_pred             CeEEEEECCCCCcHHHHHHHHHH
Confidence            45789999999999999998875

>1svm_A Large T antigen; AAA+ fold, viral protein; HET: ATP; 1.94A {Simian virus 40} SCOP: c.37.1.20 PDB: 1svl_A* 1svo_A 1n25_A 2h1l_A

Probab=97.12  E-value=0.00033  Score=42.03  Aligned_cols=21  Identities=19%  Similarity=0.262  Sum_probs=19.1

Q ss_pred             EEEEECCCCChHHHHHHHHhc
Q 035301           14 KVVLIGDSGVGKSNLLSRFTR   34 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~   34 (68)
                      .++++|++|+|||||++.+++
T Consensus       171 ~i~l~G~~GsGKSTl~~~l~~  191 (377)
T 1svm_A          171 YWLFKGPIDSGKTTLAAALLE  191 (377)
T ss_dssp             EEEEECSTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHh
Confidence            688999999999999998875

>4f4c_A Multidrug resistance protein PGP-1; ABC transporter, ATPase, multi-drug transporter, exporter, A binding, hydrolase,protein transport; HET: NDG NAG BMA MAN 0SA; 3.40A {Caenorhabditis elegans}

Probab=97.11  E-value=0.00026  Score=47.93  Aligned_cols=27  Identities=41%  Similarity=0.577  Sum_probs=22.7

Q ss_pred             EEEEECCCCChHHHHHHHHhcCcCcCC
Q 035301           14 KVVLIGDSGVGKSNLLSRFTRNEFCLE   40 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~~~~~~~   40 (68)
                      ++.++|++|+|||||++.+.+...+.+
T Consensus       446 ~vaivG~sGsGKSTll~ll~~~~~~~~  472 (1321)
T 4f4c_A          446 TVALVGSSGCGKSTIISLLLRYYDVLK  472 (1321)
T ss_dssp             EEEEEECSSSCHHHHHHHHTTSSCCSE
T ss_pred             EEEEEecCCCcHHHHHHHhcccccccc
Confidence            789999999999999999997554433

>2iw3_A Elongation factor 3A; acetylation, ATP-binding, protein biosynthesis, nucleotide-binding, phosphorylation, RNA- binding, rRNA-binding; HET: ADP; 2.4A {Saccharomyces cerevisiae} PDB: 2iwh_A* 2ix3_A 2ix8_A

Probab=97.11  E-value=0.00038  Score=46.21  Aligned_cols=23  Identities=26%  Similarity=0.521  Sum_probs=20.6

Q ss_pred             EEEEECCCCChHHHHHHHHhcCc
Q 035301           14 KVVLIGDSGVGKSNLLSRFTRNE   36 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~~~   36 (68)
                      .+.++|++|+|||||++.++++.
T Consensus       463 ~v~LiGpNGsGKSTLLk~LagG~  485 (986)
T 2iw3_A          463 RYGICGPNGCGKSTLMRAIANGQ  485 (986)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHTC
T ss_pred             EEEEECCCCCCHHHHHHHHhCCC
Confidence            57999999999999999999654

>2fna_A Conserved hypothetical protein; structural genomics, joint center for structural genomics, J protein structure initiative, PSI-2; HET: MSE ADP; 2.00A {Sulfolobus solfataricus} SCOP: a.4.5.11 c.37.1.20

Probab=97.11  E-value=0.0003  Score=40.50  Aligned_cols=21  Identities=19%  Similarity=0.262  Sum_probs=19.0

Q ss_pred             EEEEECCCCChHHHHHHHHhc
Q 035301           14 KVVLIGDSGVGKSNLLSRFTR   34 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~   34 (68)
                      -+++.|+.|+|||+|+..+..
T Consensus        32 ~v~i~G~~G~GKT~L~~~~~~   52 (357)
T 2fna_A           32 ITLVLGLRRTGKSSIIKIGIN   52 (357)
T ss_dssp             EEEEEESTTSSHHHHHHHHHH
T ss_pred             cEEEECCCCCCHHHHHHHHHH
Confidence            588999999999999998875

>1vma_A Cell division protein FTSY; TM0570, structural genomics, JCS protein structure initiative, PSI, joint center for structu genomics; HET: CIT; 1.60A {Thermotoga maritima} SCOP: a.24.13.1 c.37.1.10

Probab=97.10  E-value=0.00036  Score=40.71  Aligned_cols=23  Identities=22%  Similarity=0.587  Sum_probs=19.9

Q ss_pred             eEEEEECCCCChHHHHHHHHhcC
Q 035301           13 FKVVLIGDSGVGKSNLLSRFTRN   35 (68)
Q Consensus        13 ~ki~~iG~~~vGKtsl~~~~~~~   35 (68)
                      --++++|++|+||||++..++..
T Consensus       105 ~vi~ivG~~GsGKTTl~~~LA~~  127 (306)
T 1vma_A          105 FVIMVVGVNGTGKTTSCGKLAKM  127 (306)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHH
T ss_pred             eEEEEEcCCCChHHHHHHHHHHH
Confidence            46889999999999999988853

>3t15_A Ribulose bisphosphate carboxylase/oxygenase activ chloroplastic; photosynthesis, rubisco activase, AAA+ protein; 2.95A {Nicotiana tabacum} PDB: 3zw6_A

Probab=97.09  E-value=0.00033  Score=40.33  Aligned_cols=23  Identities=26%  Similarity=0.225  Sum_probs=19.1

Q ss_pred             eeEEEEECCCCChHHHHHHHHhc
Q 035301           12 LFKVVLIGDSGVGKSNLLSRFTR   34 (68)
Q Consensus        12 ~~ki~~iG~~~vGKtsl~~~~~~   34 (68)
                      ..-+++.|++|+|||++++.++.
T Consensus        36 p~~lLl~GppGtGKT~la~aiA~   58 (293)
T 3t15_A           36 PLILGIWGGKGQGKSFQCELVFR   58 (293)
T ss_dssp             CSEEEEEECTTSCHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHH
Confidence            34567779999999999998874

>2rdo_7 EF-G, elongation factor G; elongation factor G, EF-G, RRF, GDPNP, 50S subunit, cryo-EM, REAL-space refinement, ribonucleoprotein; 9.10A {Escherichia coli} PDB: 3j0e_H

Probab=97.08  E-value=0.00058  Score=43.75  Aligned_cols=27  Identities=11%  Similarity=0.064  Sum_probs=23.7

Q ss_pred             CCceeeEEEEECCCCChHHHHHHHHhc
Q 035301            8 EYDYLFKVVLIGDSGVGKSNLLSRFTR   34 (68)
Q Consensus         8 ~~~~~~ki~~iG~~~vGKtsl~~~~~~   34 (68)
                      ..+...+++++|..++|||||+.+++.
T Consensus         6 ~~~~~~~I~IiG~~~~GKTTL~~~Ll~   32 (704)
T 2rdo_7            6 PIARYRNIGISAHIDAGKTTTTERILF   32 (704)
T ss_pred             CcccccEEEEECCCCCCHHHHHHHHHH
Confidence            345678999999999999999999974

>1ltq_A Polynucleotide kinase; phosphatase, alpha/beta, P-loop, transferase; HET: ADP; 2.33A {Enterobacteria phage T4} SCOP: c.108.1.9 c.37.1.1 PDB: 1rc8_A* 1rpz_A* 1rrc_A* 2ia5_A

Probab=97.08  E-value=0.00043  Score=39.53  Aligned_cols=22  Identities=32%  Similarity=0.428  Sum_probs=19.7

Q ss_pred             eEEEEECCCCChHHHHHHHHhc
Q 035301           13 FKVVLIGDSGVGKSNLLSRFTR   34 (68)
Q Consensus        13 ~ki~~iG~~~vGKtsl~~~~~~   34 (68)
                      ..|++.|.+|+||||+.+.+..
T Consensus         3 ~~I~l~G~~GsGKST~a~~L~~   24 (301)
T 1ltq_A            3 KIILTIGCPGSGKSTWAREFIA   24 (301)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHH
Confidence            3689999999999999999885

>1tf7_A KAIC; homohexamer, hexamer, circadian clock protein; HET: ATP; 2.80A {Synechococcus SP} SCOP: c.37.1.11 c.37.1.11 PDB: 3s1a_A* 1u9i_A* 2gbl_A* 3dvl_A* 3k0a_A* 3k09_A* 3jzm_A* 3k0e_A* 4dug_A* 3ua2_A* 3k0c_A* 3k0f_A*

Probab=97.07  E-value=0.00033  Score=43.24  Aligned_cols=19  Identities=32%  Similarity=0.566  Sum_probs=17.4

Q ss_pred             EEEEECCCCChHHHHHHHH
Q 035301           14 KVVLIGDSGVGKSNLLSRF   32 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~   32 (68)
                      -++++|++|+|||||++.+
T Consensus        41 ~~~l~G~nGsGKSTL~~~~   59 (525)
T 1tf7_A           41 STLVSGTSGTGKTLFSIQF   59 (525)
T ss_dssp             EEEEEESTTSSHHHHHHHH
T ss_pred             EEEEEcCCCCCHHHHHHHH
Confidence            5789999999999999995

>1pzn_A RAD51, DNA repair and recombination protein RAD51, RADA; heptameric ring, heptamer, ring, oligomer, RAD51 polymerizat motif; HET: DNA; 2.85A {Pyrococcus furiosus} SCOP: a.60.4.1 c.37.1.11

Probab=97.06  E-value=0.00034  Score=41.35  Aligned_cols=22  Identities=23%  Similarity=0.360  Sum_probs=19.8

Q ss_pred             EEEEECCCCChHHHHHHHHhcC
Q 035301           14 KVVLIGDSGVGKSNLLSRFTRN   35 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~~   35 (68)
                      -+.++|++|+|||+|+..++..
T Consensus       133 i~~I~G~~GsGKTTL~~~l~~~  154 (349)
T 1pzn_A          133 ITEVFGEFGSGKTQLAHTLAVM  154 (349)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHH
Confidence            5789999999999999999864

>3g5u_A MCG1178, multidrug resistance protein 1A; P-glycoprotein, PGP, cyclic peptide, membrane protein; 3.80A {Mus musculus} PDB: 3g61_A* 3g60_A*

Probab=97.05  E-value=0.00036  Score=47.18  Aligned_cols=26  Identities=31%  Similarity=0.451  Sum_probs=22.5

Q ss_pred             EEEEECCCCChHHHHHHHHhcCcCcC
Q 035301           14 KVVLIGDSGVGKSNLLSRFTRNEFCL   39 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~~~~~~   39 (68)
                      ++.++|++|+|||||++.+.+...+.
T Consensus      1061 ~v~ivG~sGsGKSTl~~~l~g~~~p~ 1086 (1284)
T 3g5u_A         1061 TLALVGSSGCGKSTVVQLLERFYDPM 1086 (1284)
T ss_dssp             EEEEECSSSTTHHHHHHHHTTSSCCS
T ss_pred             EEEEECCCCCCHHHHHHHHhcCcCCC
Confidence            78999999999999999999765443

>3qks_A DNA double-strand break repair RAD50 ATPase; RECA-like fold, coiled-coils, ATPase, exonuclease, endonucle binding, DNA binding; HET: DNA; 2.10A {Pyrococcus furiosus} PDB: 3qkr_A*

Probab=97.04  E-value=0.00051  Score=37.65  Aligned_cols=20  Identities=40%  Similarity=0.647  Sum_probs=16.9

Q ss_pred             EEEEECCCCChHHHHHHHHh
Q 035301           14 KVVLIGDSGVGKSNLLSRFT   33 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~   33 (68)
                      -.+++|++|+|||+++..+.
T Consensus        25 ~~~I~G~NgsGKStil~ai~   44 (203)
T 3qks_A           25 INLIIGQNGSGKSSLLDAIL   44 (203)
T ss_dssp             EEEEECCTTSSHHHHHHHHH
T ss_pred             eEEEEcCCCCCHHHHHHHHH
Confidence            45788999999999998764

>1cip_A Protein (guanine nucleotide-binding protein alpha-1 subunit); GTPase, hydrolase; HET: GNP; 1.50A {Rattus norvegicus} SCOP: a.66.1.1 c.37.1.8 PDB: 1agr_A* 1bof_A* 1gdd_A* 1gfi_A* 1gia_A* 1gp2_A* 3ffa_A* 3ffb_A* 1gg2_A* 1git_A* 1svs_A* 1svk_A* 2zjz_A* 2zjy_A* 3ums_A* 2pz2_A* 2pz3_A* 1as0_A* 1as2_A* 1as3_A* ...

Probab=97.04  E-value=0.00058  Score=40.56  Aligned_cols=24  Identities=25%  Similarity=0.475  Sum_probs=20.6

Q ss_pred             ceeeEEEEECCCCChHHHHHHHHh
Q 035301           10 DYLFKVVLIGDSGVGKSNLLSRFT   33 (68)
Q Consensus        10 ~~~~ki~~iG~~~vGKtsl~~~~~   33 (68)
                      ...+|++++|...+||||+++++.
T Consensus        30 ~~~~klLlLG~geSGKST~~KQmk   53 (353)
T 1cip_A           30 AREVKLLLLGAGESGKSTIVKQMK   53 (353)
T ss_dssp             -CEEEEEEECSTTSSHHHHHHHHH
T ss_pred             cccceEEEEcCCCCCchhHHHHHH
Confidence            457899999999999999988754

>2v1u_A Cell division control protein 6 homolog; DNA replication, nucleotide-binding, replication, archaea; HET: ADP; 3.10A {Aeropyrum pernix}

Probab=97.04  E-value=0.00035  Score=40.71  Aligned_cols=23  Identities=26%  Similarity=0.353  Sum_probs=20.0

Q ss_pred             eeEEEEECCCCChHHHHHHHHhc
Q 035301           12 LFKVVLIGDSGVGKSNLLSRFTR   34 (68)
Q Consensus        12 ~~ki~~iG~~~vGKtsl~~~~~~   34 (68)
                      .-.+++.|++|+|||+++..++.
T Consensus        44 ~~~vll~G~~G~GKT~l~~~~~~   66 (387)
T 2v1u_A           44 PSNALLYGLTGTGKTAVARLVLR   66 (387)
T ss_dssp             CCCEEECBCTTSSHHHHHHHHHH
T ss_pred             CCcEEEECCCCCCHHHHHHHHHH
Confidence            34689999999999999998875

>3cr8_A Sulfate adenylyltranferase, adenylylsulfate kinase; APS kinase, transferase, sulfate metabolism, nucleotide 2 kinase; 2.95A {Thiobacillus denitrificans}

Probab=97.04  E-value=0.00027  Score=44.21  Aligned_cols=23  Identities=39%  Similarity=0.585  Sum_probs=20.4

Q ss_pred             eEEEEECCCCChHHHHHHHHhcC
Q 035301           13 FKVVLIGDSGVGKSNLLSRFTRN   35 (68)
Q Consensus        13 ~ki~~iG~~~vGKtsl~~~~~~~   35 (68)
                      ..++++|.+|+|||||++.+++.
T Consensus       370 ~iI~LiG~sGSGKSTLar~La~~  392 (552)
T 3cr8_A          370 FTVFFTGLSGAGKSTLARALAAR  392 (552)
T ss_dssp             EEEEEEESSCHHHHHHHHHHHHH
T ss_pred             eEEEEECCCCChHHHHHHHHHHh
Confidence            57899999999999999998764

>1sxj_D Activator 1 41 kDa subunit; clamp loader, processivity clamp, DNA sliding clamp, AAA+ at polymerase, DNA-binding protein; HET: AGS ADP; 2.85A {Saccharomyces cerevisiae} SCOP: a.80.1.1 c.37.1.20

Probab=97.03  E-value=0.00046  Score=39.95  Aligned_cols=21  Identities=24%  Similarity=0.583  Sum_probs=18.8

Q ss_pred             EEEECCCCChHHHHHHHHhcC
Q 035301           15 VVLIGDSGVGKSNLLSRFTRN   35 (68)
Q Consensus        15 i~~iG~~~vGKtsl~~~~~~~   35 (68)
                      +++.|++|+|||++++.++..
T Consensus        61 ~ll~G~~G~GKT~la~~la~~   81 (353)
T 1sxj_D           61 MLFYGPPGTGKTSTILALTKE   81 (353)
T ss_dssp             EEEECSTTSSHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHH
Confidence            899999999999999888753

>3pfi_A Holliday junction ATP-dependent DNA helicase RUVB; probable holliday junction DNA helicase; HET: ADP; 2.69A {Campylobacter jejuni subsp}

Probab=97.02  E-value=0.00047  Score=39.94  Aligned_cols=22  Identities=23%  Similarity=0.461  Sum_probs=19.5

Q ss_pred             eEEEEECCCCChHHHHHHHHhc
Q 035301           13 FKVVLIGDSGVGKSNLLSRFTR   34 (68)
Q Consensus        13 ~ki~~iG~~~vGKtsl~~~~~~   34 (68)
                      ..+++.|++|+|||+++..++.
T Consensus        56 ~~vll~G~~GtGKT~la~~ia~   77 (338)
T 3pfi_A           56 DHILFSGPAGLGKTTLANIISY   77 (338)
T ss_dssp             CCEEEECSTTSSHHHHHHHHHH
T ss_pred             CeEEEECcCCCCHHHHHHHHHH
Confidence            3589999999999999999874

>3m6a_A ATP-dependent protease LA 1; alpha, beta, ATP-binding, hydrolase, nucleotide-binding, Pro serine protease, stress response; HET: ADP; 3.40A {Bacillus subtilis} PDB: 1x37_A

Probab=97.02  E-value=0.00043  Score=43.05  Aligned_cols=21  Identities=33%  Similarity=0.610  Sum_probs=19.1

Q ss_pred             EEEEECCCCChHHHHHHHHhc
Q 035301           14 KVVLIGDSGVGKSNLLSRFTR   34 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~   34 (68)
                      -++++|++|+|||++++.+++
T Consensus       110 ~vll~Gp~GtGKTtlar~ia~  130 (543)
T 3m6a_A          110 ILCLAGPPGVGKTSLAKSIAK  130 (543)
T ss_dssp             EEEEESSSSSSHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            588999999999999998875

>1zuh_A Shikimate kinase; alpha-beta protein, transferase; 1.80A {Helicobacter pylori} PDB: 1zui_A* 3hr7_A 3muf_A* 3mrs_A 3n2e_A*

Probab=97.01  E-value=0.00058  Score=35.89  Aligned_cols=23  Identities=39%  Similarity=0.512  Sum_probs=19.7

Q ss_pred             eeEEEEECCCCChHHHHHHHHhc
Q 035301           12 LFKVVLIGDSGVGKSNLLSRFTR   34 (68)
Q Consensus        12 ~~ki~~iG~~~vGKtsl~~~~~~   34 (68)
                      .-.|++.|..|+||||+...+..
T Consensus         7 ~~~i~l~G~~GsGKSTva~~La~   29 (168)
T 1zuh_A            7 MQHLVLIGFMGSGKSSLAQELGL   29 (168)
T ss_dssp             -CEEEEESCTTSSHHHHHHHHHH
T ss_pred             cceEEEECCCCCCHHHHHHHHHH
Confidence            45789999999999999998864

>3uk6_A RUVB-like 2; hexameric AAA+ ATP-ASE, DNA unwinding, hydrolase; HET: ADP; 2.95A {Homo sapiens} PDB: 2xsz_D*

Probab=96.99  E-value=0.00043  Score=40.40  Aligned_cols=21  Identities=24%  Similarity=0.559  Sum_probs=19.3

Q ss_pred             EEEEECCCCChHHHHHHHHhc
Q 035301           14 KVVLIGDSGVGKSNLLSRFTR   34 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~   34 (68)
                      -+++.|++|+|||+++..++.
T Consensus        72 ~vLl~GppGtGKT~la~~la~   92 (368)
T 3uk6_A           72 AVLIAGQPGTGKTAIAMGMAQ   92 (368)
T ss_dssp             EEEEEESTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            689999999999999998875

>3a8t_A Adenylate isopentenyltransferase; rossmann fold protein; HET: ATP; 2.37A {Humulus lupulus}

Probab=96.99  E-value=0.00059  Score=40.53  Aligned_cols=22  Identities=36%  Similarity=0.596  Sum_probs=19.7

Q ss_pred             EEEEECCCCChHHHHHHHHhcC
Q 035301           14 KVVLIGDSGVGKSNLLSRFTRN   35 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~~   35 (68)
                      -|+++|+.|+|||+|...++..
T Consensus        42 lIvI~GPTgsGKTtLa~~LA~~   63 (339)
T 3a8t_A           42 LLVLMGATGTGKSRLSIDLAAH   63 (339)
T ss_dssp             EEEEECSTTSSHHHHHHHHHTT
T ss_pred             eEEEECCCCCCHHHHHHHHHHH
Confidence            5899999999999999999853

>2qmh_A HPR kinase/phosphorylase; V267F mutation, ATP-binding, carbohydrate metabolism, magnesium, metal-binding, multifunctional enzyme; 2.60A {Lactobacillus casei} PDB: 1jb1_A 1kkl_A 1kkm_A*

Probab=96.98  E-value=0.00055  Score=38.13  Aligned_cols=23  Identities=39%  Similarity=0.642  Sum_probs=20.3

Q ss_pred             eEEEEECCCCChHHHHHHHHhcC
Q 035301           13 FKVVLIGDSGVGKSNLLSRFTRN   35 (68)
Q Consensus        13 ~ki~~iG~~~vGKtsl~~~~~~~   35 (68)
                      ..++++|++|+|||+|...++..
T Consensus        35 ~~ilI~GpsGsGKStLA~~La~~   57 (205)
T 2qmh_A           35 LGVLITGDSGVGKSETALELVQR   57 (205)
T ss_dssp             EEEEEECCCTTTTHHHHHHHHTT
T ss_pred             EEEEEECCCCCCHHHHHHHHHHh
Confidence            36899999999999999999854

>3exa_A TRNA delta(2)-isopentenylpyrophosphate transferase; alpha-beta protein, structural genomics, PSI-2, protein structure initiative; 2.30A {Bacillus halodurans} PDB: 2qgn_A

Probab=96.98  E-value=0.00058  Score=40.33  Aligned_cols=22  Identities=23%  Similarity=0.459  Sum_probs=19.3

Q ss_pred             EEEEECCCCChHHHHHHHHhcC
Q 035301           14 KVVLIGDSGVGKSNLLSRFTRN   35 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~~   35 (68)
                      -++++|++|+|||+|...++..
T Consensus         5 ~i~i~GptgsGKt~la~~La~~   26 (322)
T 3exa_A            5 LVAIVGPTAVGKTKTSVMLAKR   26 (322)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHT
T ss_pred             EEEEECCCcCCHHHHHHHHHHh
Confidence            4788999999999999999853

>2bjv_A PSP operon transcriptional activator; AAA, transcription activation, gene regulation, sigma54 activator, enhancer binding protein, PSPF; 1.7A {Escherichia coli} PDB: 2bjw_A 2c96_A* 2c98_A* 2c99_A* 2c9c_A* 2vii_A*

Probab=96.97  E-value=0.00062  Score=38.27  Aligned_cols=24  Identities=33%  Similarity=0.506  Sum_probs=20.7

Q ss_pred             eEEEEECCCCChHHHHHHHHhcCc
Q 035301           13 FKVVLIGDSGVGKSNLLSRFTRNE   36 (68)
Q Consensus        13 ~ki~~iG~~~vGKtsl~~~~~~~~   36 (68)
                      .-+++.|++|+|||++++.+....
T Consensus        30 ~~vll~G~~GtGKt~la~~i~~~~   53 (265)
T 2bjv_A           30 KPVLIIGERGTGKELIASRLHYLS   53 (265)
T ss_dssp             SCEEEECCTTSCHHHHHHHHHHTS
T ss_pred             CCEEEECCCCCcHHHHHHHHHHhc
Confidence            468999999999999999988643

>2qgz_A Helicase loader, putative primosome component; structural genomics, PSI-2, protein structure initiative; 2.40A {Streptococcus pyogenes serotype M3}

Probab=96.96  E-value=0.00057  Score=39.72  Aligned_cols=22  Identities=41%  Similarity=0.623  Sum_probs=19.5

Q ss_pred             eEEEEECCCCChHHHHHHHHhc
Q 035301           13 FKVVLIGDSGVGKSNLLSRFTR   34 (68)
Q Consensus        13 ~ki~~iG~~~vGKtsl~~~~~~   34 (68)
                      ..+++.|++|+|||+|+..++.
T Consensus       153 ~~lll~G~~GtGKT~La~aia~  174 (308)
T 2qgz_A          153 KGLYLYGDMGIGKSYLLAAMAH  174 (308)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHH
T ss_pred             ceEEEECCCCCCHHHHHHHHHH
Confidence            5789999999999999988775

>3zvl_A Bifunctional polynucleotide phosphatase/kinase; hydrolase-transferase complex, base excision repair, BER, non-homologous END-joining, NHEJ; 1.65A {Mus musculus} PDB: 3zvm_A* 3zvn_A* 1yj5_A 3u7e_B* 3u7f_B* 3u7h_B* 3u7g_A*

Probab=96.96  E-value=0.0006  Score=41.10  Aligned_cols=23  Identities=30%  Similarity=0.356  Sum_probs=20.0

Q ss_pred             eeEEEEECCCCChHHHHHHHHhc
Q 035301           12 LFKVVLIGDSGVGKSNLLSRFTR   34 (68)
Q Consensus        12 ~~ki~~iG~~~vGKtsl~~~~~~   34 (68)
                      ..-|+++|.+|+||||+.++++.
T Consensus       258 ~~lIil~G~pGSGKSTla~~L~~  280 (416)
T 3zvl_A          258 PEVVVAVGFPGAGKSTFIQEHLV  280 (416)
T ss_dssp             CCEEEEESCTTSSHHHHHHHHTG
T ss_pred             CEEEEEECCCCCCHHHHHHHHHH
Confidence            34688899999999999999875

>1um8_A ATP-dependent CLP protease ATP-binding subunit CL; CLPP binding loop, chaperone; HET: ADP; 2.60A {Helicobacter pylori} SCOP: c.37.1.20

Probab=96.96  E-value=0.00058  Score=40.28  Aligned_cols=23  Identities=26%  Similarity=0.537  Sum_probs=20.1

Q ss_pred             eeEEEEECCCCChHHHHHHHHhc
Q 035301           12 LFKVVLIGDSGVGKSNLLSRFTR   34 (68)
Q Consensus        12 ~~ki~~iG~~~vGKtsl~~~~~~   34 (68)
                      ...+++.|++|+|||+++..++.
T Consensus        72 ~~~ill~Gp~GtGKT~la~~la~   94 (376)
T 1um8_A           72 KSNILLIGPTGSGKTLMAQTLAK   94 (376)
T ss_dssp             CCCEEEECCTTSSHHHHHHHHHH
T ss_pred             CCCEEEECCCCCCHHHHHHHHHH
Confidence            34699999999999999998875

>1xwi_A SKD1 protein; VPS4B, AAA ATPase, protein transport; 2.80A {Homo sapiens}

Probab=96.95  E-value=0.00056  Score=39.88  Aligned_cols=23  Identities=30%  Similarity=0.476  Sum_probs=20.3

Q ss_pred             eEEEEECCCCChHHHHHHHHhcC
Q 035301           13 FKVVLIGDSGVGKSNLLSRFTRN   35 (68)
Q Consensus        13 ~ki~~iG~~~vGKtsl~~~~~~~   35 (68)
                      --+++.|++|+|||++++.++..
T Consensus        46 ~~iLL~GppGtGKT~la~ala~~   68 (322)
T 1xwi_A           46 RGILLFGPPGTGKSYLAKAVATE   68 (322)
T ss_dssp             SEEEEESSSSSCHHHHHHHHHHH
T ss_pred             ceEEEECCCCccHHHHHHHHHHH
Confidence            46899999999999999998853

>3pxg_A Negative regulator of genetic competence CLPC/MEC; CLPB, proteolysis, CLPX, HSP100/CLP, AAA+ proteins, PR binding; 3.65A {Bacillus subtilis}

Probab=96.95  E-value=0.00051  Score=41.94  Aligned_cols=23  Identities=35%  Similarity=0.632  Sum_probs=19.6

Q ss_pred             eEEEEECCCCChHHHHHHHHhcC
Q 035301           13 FKVVLIGDSGVGKSNLLSRFTRN   35 (68)
Q Consensus        13 ~ki~~iG~~~vGKtsl~~~~~~~   35 (68)
                      -.++++|++|+|||+++..++..
T Consensus       202 ~~~LL~G~pG~GKT~la~~la~~  224 (468)
T 3pxg_A          202 NNPVLIGEPGVGKTAIAEGLAQQ  224 (468)
T ss_dssp             CEEEEESCTTTTTHHHHHHHHHH
T ss_pred             CCeEEECCCCCCHHHHHHHHHHH
Confidence            36799999999999999987753

>2z4s_A Chromosomal replication initiator protein DNAA; AAA+ ATPase, domain III (ATPase domain), ATP-binding, cytoplasm, DNA replication; HET: ADP; 3.00A {Thermotoga maritima} PDB: 2z4r_A*

Probab=96.95  E-value=0.00055  Score=41.55  Aligned_cols=21  Identities=29%  Similarity=0.607  Sum_probs=19.1

Q ss_pred             EEEEECCCCChHHHHHHHHhc
Q 035301           14 KVVLIGDSGVGKSNLLSRFTR   34 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~   34 (68)
                      -+++.|++|+|||+|++.+.+
T Consensus       132 ~lll~Gp~G~GKTtLa~aia~  152 (440)
T 2z4s_A          132 PLFIYGGVGLGKTHLLQSIGN  152 (440)
T ss_dssp             CEEEECSSSSSHHHHHHHHHH
T ss_pred             eEEEECCCCCCHHHHHHHHHH
Confidence            589999999999999998875

>3eie_A Vacuolar protein sorting-associated protein 4; AAA ATPase, ATP-binding cassette, ATP-binding, endosome, MEM nucleotide-binding; 2.70A {Saccharomyces cerevisiae} PDB: 3eih_A* 2rko_A 3mhv_C

Probab=96.95  E-value=0.00057  Score=39.67  Aligned_cols=23  Identities=30%  Similarity=0.426  Sum_probs=20.2

Q ss_pred             eeEEEEECCCCChHHHHHHHHhc
Q 035301           12 LFKVVLIGDSGVGKSNLLSRFTR   34 (68)
Q Consensus        12 ~~ki~~iG~~~vGKtsl~~~~~~   34 (68)
                      ...+++.|++|+|||++++.++.
T Consensus        51 ~~~vLl~GppGtGKT~la~aia~   73 (322)
T 3eie_A           51 TSGILLYGPPGTGKSYLAKAVAT   73 (322)
T ss_dssp             CCEEEEECSSSSCHHHHHHHHHH
T ss_pred             CCeEEEECCCCCcHHHHHHHHHH
Confidence            34699999999999999998875

>1w1w_A Structural maintenance of chromosome 1; cohesin, chromosome segregation, cell adhesion, kleisin, MIT cell cycle; HET: ATG; 2.90A {Saccharomyces cerevisiae} SCOP: c.37.1.12

Probab=96.94  E-value=0.00058  Score=41.15  Aligned_cols=21  Identities=33%  Similarity=0.564  Sum_probs=18.5

Q ss_pred             EEEEECCCCChHHHHHHHHhc
Q 035301           14 KVVLIGDSGVGKSNLLSRFTR   34 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~   34 (68)
                      -.+++|++|+|||+|+..+..
T Consensus        28 ~~~i~G~nG~GKstll~ai~~   48 (430)
T 1w1w_A           28 FTSIIGPNGSGKSNMMDAISF   48 (430)
T ss_dssp             EEEEECSTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHh
Confidence            468999999999999998875

>2qby_B CDC6 homolog 3, cell division control protein 6 homolog 3; winged-helix domain, helix-turn-helix, AAA+ ATPase domain, protein-DNA complex; HET: DNA SPD ADP; 3.35A {Sulfolobus solfataricus}

Probab=96.94  E-value=0.00053  Score=40.09  Aligned_cols=23  Identities=22%  Similarity=0.413  Sum_probs=20.0

Q ss_pred             eEEEEECCCCChHHHHHHHHhcC
Q 035301           13 FKVVLIGDSGVGKSNLLSRFTRN   35 (68)
Q Consensus        13 ~ki~~iG~~~vGKtsl~~~~~~~   35 (68)
                      --+++.|++|+|||+++..++..
T Consensus        46 ~~vll~G~~G~GKT~la~~l~~~   68 (384)
T 2qby_B           46 FSNLFLGLTGTGKTFVSKYIFNE   68 (384)
T ss_dssp             CEEEEEECTTSSHHHHHHHHHHH
T ss_pred             CcEEEECCCCCCHHHHHHHHHHH
Confidence            36899999999999999988753

>2r62_A Cell division protease FTSH homolog; ATPase domain, ATP-binding, cell CELL division, hydrolase, membrane, metal-binding; 3.30A {Helicobacter pylori} PDB: 2r65_A*

Probab=96.93  E-value=0.0002  Score=40.23  Aligned_cols=21  Identities=33%  Similarity=0.547  Sum_probs=18.7

Q ss_pred             EEEEECCCCChHHHHHHHHhc
Q 035301           14 KVVLIGDSGVGKSNLLSRFTR   34 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~   34 (68)
                      -+++.|++|+|||+++..++.
T Consensus        46 ~vll~G~~GtGKT~la~~la~   66 (268)
T 2r62_A           46 GVLLVGPPGTGKTLLAKAVAG   66 (268)
T ss_dssp             CCCCBCSSCSSHHHHHHHHHH
T ss_pred             eEEEECCCCCcHHHHHHHHHH
Confidence            378999999999999998875

>3ake_A Cytidylate kinase; CMP kinase, CMP complex, open conformation, nucleotide metab transferase; HET: C5P; 1.50A {Thermus thermophilus} PDB: 3akc_A* 3akd_A*

Probab=96.93  E-value=0.00069  Score=36.50  Aligned_cols=21  Identities=33%  Similarity=0.414  Sum_probs=18.8

Q ss_pred             EEEEECCCCChHHHHHHHHhc
Q 035301           14 KVVLIGDSGVGKSNLLSRFTR   34 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~   34 (68)
                      .+.+.|.+|+||||+.+.++.
T Consensus         4 ~i~i~G~~GsGKst~~~~la~   24 (208)
T 3ake_A            4 IVTIDGPSASGKSSVARRVAA   24 (208)
T ss_dssp             EEEEECSTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            688999999999999988765

>3lda_A DNA repair protein RAD51; DNA binding protein, ATP-binding, DNA damage, DNA recombinat repair, nucleotide-binding; HET: DNA; 2.50A {Saccharomyces cerevisiae} PDB: 1szp_A*

Probab=96.92  E-value=0.00056  Score=41.28  Aligned_cols=20  Identities=30%  Similarity=0.399  Sum_probs=18.0

Q ss_pred             EEEEECCCCChHHHHHHHHh
Q 035301           14 KVVLIGDSGVGKSNLLSRFT   33 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~   33 (68)
                      -+.++|++|+|||+|+..++
T Consensus       180 i~~I~G~sGsGKTTLl~~la  199 (400)
T 3lda_A          180 ITELFGEFRTGKSQLCHTLA  199 (400)
T ss_dssp             EEEEEESTTSSHHHHHHHHH
T ss_pred             EEEEEcCCCCChHHHHHHHH
Confidence            57899999999999999775

>2o5v_A DNA replication and repair protein RECF; ABC ATPase, walker A motif, P-loop, signature motif, replication/recombination complex; HET: DNA; 1.61A {Deinococcus radiodurans}

Probab=96.91  E-value=0.00072  Score=40.29  Aligned_cols=21  Identities=33%  Similarity=0.482  Sum_probs=18.6

Q ss_pred             EEEEECCCCChHHHHHHHHhc
Q 035301           14 KVVLIGDSGVGKSNLLSRFTR   34 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~   34 (68)
                      -.+++|++|+|||+++..+..
T Consensus        28 ~~~i~G~nG~GKttll~ai~~   48 (359)
T 2o5v_A           28 VTGIYGENGAGKTNLLEAAYL   48 (359)
T ss_dssp             EEEEECCTTSSHHHHHHHHHH
T ss_pred             eEEEECCCCCChhHHHHHHHH
Confidence            578999999999999998764

>4aby_A DNA repair protein RECN; hydrolase, double strand break repair, ATPase, nucleotide binding domain; HET: DNA; 3.00A {Deinococcus radiodurans}

Probab=96.91  E-value=0.00017  Score=42.89  Aligned_cols=20  Identities=25%  Similarity=0.506  Sum_probs=18.1

Q ss_pred             EEEEECCCCChHHHHHHHHh
Q 035301           14 KVVLIGDSGVGKSNLLSRFT   33 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~   33 (68)
                      .++++|++|+|||+|+..+.
T Consensus        62 ~~~lvG~NGaGKStLl~aI~   81 (415)
T 4aby_A           62 FCAFTGETGAGKSIIVDALG   81 (415)
T ss_dssp             EEEEEESHHHHHHHHTHHHH
T ss_pred             cEEEECCCCCCHHHHHHHHH
Confidence            78999999999999998774

>3foz_A TRNA delta(2)-isopentenylpyrophosphate transferas; nucleoside modification, isopentenyl-tRNA transferase, transferase-RNA complex; 2.50A {Escherichia coli k-12} PDB: 2zxu_A* 2zm5_A

Probab=96.90  E-value=0.00096  Score=39.33  Aligned_cols=22  Identities=23%  Similarity=0.452  Sum_probs=19.3

Q ss_pred             eEEEEECCCCChHHHHHHHHhc
Q 035301           13 FKVVLIGDSGVGKSNLLSRFTR   34 (68)
Q Consensus        13 ~ki~~iG~~~vGKtsl~~~~~~   34 (68)
                      .-++++|++|+|||+|...++.
T Consensus        11 ~~i~i~GptgsGKt~la~~La~   32 (316)
T 3foz_A           11 KAIFLMGPTASGKTALAIELRK   32 (316)
T ss_dssp             EEEEEECCTTSCHHHHHHHHHH
T ss_pred             cEEEEECCCccCHHHHHHHHHH
Confidence            3578899999999999999875

>2r44_A Uncharacterized protein; putative ATPase, structural genomics, joint center for struc genomics, JCSG; HET: MSE PG4; 2.00A {Cytophaga hutchinsonii atcc 33406}

Probab=96.90  E-value=0.00057  Score=39.56  Aligned_cols=21  Identities=19%  Similarity=0.433  Sum_probs=19.1

Q ss_pred             EEEEECCCCChHHHHHHHHhc
Q 035301           14 KVVLIGDSGVGKSNLLSRFTR   34 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~   34 (68)
                      .+++.|++|+|||++++.++.
T Consensus        48 ~vll~G~pGtGKT~la~~la~   68 (331)
T 2r44_A           48 HILLEGVPGLAKTLSVNTLAK   68 (331)
T ss_dssp             CEEEESCCCHHHHHHHHHHHH
T ss_pred             eEEEECCCCCcHHHHHHHHHH
Confidence            689999999999999998875

>3d8b_A Fidgetin-like protein 1; AAA+, ATPase, ADP, SGC, structural genomics consortium, ATP- hydrolase, magnesium, metal-binding, nucleotide-binding; HET: ADP; 2.00A {Homo sapiens}

Probab=96.90  E-value=0.0007  Score=39.92  Aligned_cols=23  Identities=22%  Similarity=0.322  Sum_probs=20.3

Q ss_pred             eeEEEEECCCCChHHHHHHHHhc
Q 035301           12 LFKVVLIGDSGVGKSNLLSRFTR   34 (68)
Q Consensus        12 ~~ki~~iG~~~vGKtsl~~~~~~   34 (68)
                      ...+++.|++|+|||++++.++.
T Consensus       117 ~~~vLl~GppGtGKT~la~aia~  139 (357)
T 3d8b_A          117 PKGILLFGPPGTGKTLIGKCIAS  139 (357)
T ss_dssp             CSEEEEESSTTSSHHHHHHHHHH
T ss_pred             CceEEEECCCCCCHHHHHHHHHH
Confidence            34689999999999999999875

>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=96.89  E-value=0.00079  Score=42.60  Aligned_cols=25  Identities=24%  Similarity=0.335  Sum_probs=20.5

Q ss_pred             ceeeEEEEECCCCChHHHHHHHHhc
Q 035301           10 DYLFKVVLIGDSGVGKSNLLSRFTR   34 (68)
Q Consensus        10 ~~~~ki~~iG~~~vGKtsl~~~~~~   34 (68)
                      +...+++++|..++|||||+++++.
T Consensus         4 ~~irnI~IiGh~d~GKTTLi~rLl~   28 (600)
T 2ywe_A            4 KNVRNFCIIAHVDHGKSTLADRLLE   28 (600)
T ss_dssp             GGEEEEEEECC--CCHHHHHHHHHH
T ss_pred             cCceEEEEECCCCCCHHHHHHHHHh
Confidence            4568999999999999999999975

>2dhr_A FTSH; AAA+ protein, hexameric Zn metalloprotease, hydrolase; HET: ADP; 3.90A {Thermus thermophilus}

Probab=96.89  E-value=0.00066  Score=42.07  Aligned_cols=22  Identities=36%  Similarity=0.646  Sum_probs=19.6

Q ss_pred             EEEEECCCCChHHHHHHHHhcC
Q 035301           14 KVVLIGDSGVGKSNLLSRFTRN   35 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~~   35 (68)
                      -++++|++|+|||+|++.+++.
T Consensus        66 GvLL~GppGtGKTtLaraIa~~   87 (499)
T 2dhr_A           66 GVLLVGPPGVGKTHLARAVAGE   87 (499)
T ss_dssp             EEEEECSSSSSHHHHHHHHHHH
T ss_pred             eEEEECCCCCCHHHHHHHHHHH
Confidence            4899999999999999998853

>3qkt_A DNA double-strand break repair RAD50 ATPase; RECA-like fold, coiled-coils, ATP binding, DNA bindi MRE11, replication; HET: DNA ANP; 1.90A {Pyrococcus furiosus} PDB: 3qku_A* 1ii8_A 3qks_B* 3qkr_B* 1ii8_B

Probab=96.88  E-value=0.00079  Score=39.48  Aligned_cols=19  Identities=42%  Similarity=0.718  Sum_probs=16.4

Q ss_pred             EEEECCCCChHHHHHHHHh
Q 035301           15 VVLIGDSGVGKSNLLSRFT   33 (68)
Q Consensus        15 i~~iG~~~vGKtsl~~~~~   33 (68)
                      .+++|++|+|||+++..+.
T Consensus        26 ~~i~G~NGsGKS~lleAi~   44 (339)
T 3qkt_A           26 NLIIGQNGSGKSSLLDAIL   44 (339)
T ss_dssp             EEEECCTTSSHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHH
Confidence            4688999999999999763

>3hws_A ATP-dependent CLP protease ATP-binding subunit CL; CLPXP, AAA+ molecular machine, hexamer, asymmetric,, ATP-BIN chaperone, metal-binding; HET: ADP; 3.25A {Escherichia coli} PDB: 3hte_A

Probab=96.88  E-value=0.00073  Score=39.72  Aligned_cols=23  Identities=35%  Similarity=0.583  Sum_probs=20.3

Q ss_pred             eeEEEEECCCCChHHHHHHHHhc
Q 035301           12 LFKVVLIGDSGVGKSNLLSRFTR   34 (68)
Q Consensus        12 ~~ki~~iG~~~vGKtsl~~~~~~   34 (68)
                      ...+++.|++|+|||++.+.++.
T Consensus        51 ~~~vll~GppGtGKT~la~~ia~   73 (363)
T 3hws_A           51 KSNILLIGPTGSGKTLLAETLAR   73 (363)
T ss_dssp             CCCEEEECCTTSSHHHHHHHHHH
T ss_pred             CCeEEEECCCCCCHHHHHHHHHH
Confidence            45799999999999999998875

>1tf7_A KAIC; homohexamer, hexamer, circadian clock protein; HET: ATP; 2.80A {Synechococcus SP} SCOP: c.37.1.11 c.37.1.11 PDB: 3s1a_A* 1u9i_A* 2gbl_A* 3dvl_A* 3k0a_A* 3k09_A* 3jzm_A* 3k0e_A* 4dug_A* 3ua2_A* 3k0c_A* 3k0f_A*

Probab=96.87  E-value=0.00063  Score=42.03  Aligned_cols=23  Identities=39%  Similarity=0.690  Sum_probs=20.2

Q ss_pred             EEEEECCCCChHHHHHHHHhcCc
Q 035301           14 KVVLIGDSGVGKSNLLSRFTRNE   36 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~~~   36 (68)
                      -++++|++|+|||+|+..+++..
T Consensus       283 i~~i~G~~GsGKSTLl~~l~g~~  305 (525)
T 1tf7_A          283 IILATGATGTGKTLLVSRFVENA  305 (525)
T ss_dssp             EEEEEECTTSSHHHHHHHHHHHH
T ss_pred             EEEEEeCCCCCHHHHHHHHHHHH
Confidence            57899999999999999998643

>1p5z_B DCK, deoxycytidine kinase; nucleoside kinase, P-loop, ARAC, cytarabine, transferase; HET: AR3 ADP; 1.60A {Homo sapiens} SCOP: c.37.1.1 PDB: 1p60_A* 1p61_B* 1p62_B* 2a7q_A* 2qrn_A* 2qro_A* 3exk_A* 3hp1_A* 2no7_A* 2no1_A* 2no6_A* 2no0_A* 2no9_A* 2noa_A* 2zi5_A* 2zi4_A* 2zi6_A* 2zi7_B* 2zia_A* 3kfx_A* ...

Probab=96.86  E-value=0.00054  Score=38.66  Aligned_cols=24  Identities=21%  Similarity=0.405  Sum_probs=20.8

Q ss_pred             eeeEEEEECCCCChHHHHHHHHhc
Q 035301           11 YLFKVVLIGDSGVGKSNLLSRFTR   34 (68)
Q Consensus        11 ~~~ki~~iG~~~vGKtsl~~~~~~   34 (68)
                      ....|++.|..|+||||+++.+..
T Consensus        23 ~~~~I~ieG~~GsGKST~~~~L~~   46 (263)
T 1p5z_B           23 RIKKISIEGNIAAGKSTFVNILKQ   46 (263)
T ss_dssp             CCEEEEEECSTTSSHHHHHTTTGG
T ss_pred             CceEEEEECCCCCCHHHHHHHHHH
Confidence            356899999999999999988875

>1azs_C GS-alpha; complex (lyase/hydrolase), hydrolase, signal transducing protein, cyclase, effector enzyme; HET: GSP FKP; 2.30A {Bos taurus} SCOP: a.66.1.1 c.37.1.8 PDB: 1azt_A* 3c14_C* 3c15_C* 3c16_C* 1cjt_C* 1cjk_C* 1cju_C* 1cjv_C* 1tl7_C* 1cs4_C* 1u0h_C* 2gvd_C* 2gvz_C* 3e8a_C* 3g82_C* 3maa_C* 1cul_C* 3sn6_A*

Probab=96.85  E-value=0.00096  Score=40.40  Aligned_cols=24  Identities=21%  Similarity=0.476  Sum_probs=21.0

Q ss_pred             ceeeEEEEECCCCChHHHHHHHHh
Q 035301           10 DYLFKVVLIGDSGVGKSNLLSRFT   33 (68)
Q Consensus        10 ~~~~ki~~iG~~~vGKtsl~~~~~   33 (68)
                      ...+|++++|...+||||+++++.
T Consensus        38 ~~~~klLLLG~geSGKSTi~KQmk   61 (402)
T 1azs_C           38 RATHRLLLLGAGESGKSTIVKQMR   61 (402)
T ss_dssp             TTEEEEEEEESTTSSHHHHHHHHH
T ss_pred             hccceEEEecCCCCchhhHHHHHH
Confidence            457899999999999999998754

>3ux8_A Excinuclease ABC, A subunit; UVRA, nucleotide excision repair, DNA repair, ABC ATPase, DN binding protein; HET: ADP; 2.10A {Geobacillus}

Probab=96.85  E-value=0.00053  Score=43.47  Aligned_cols=19  Identities=42%  Similarity=0.573  Sum_probs=16.6

Q ss_pred             EEEEECCCCChHHHHHHHH
Q 035301           14 KVVLIGDSGVGKSNLLSRF   32 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~   32 (68)
                      .+.++|++|+|||||++.+
T Consensus       350 ~vaIiGpnGsGKSTLl~~i  368 (670)
T 3ux8_A          350 FVAVTGVSGSGKSTLVNEV  368 (670)
T ss_dssp             EEEEECSTTSSHHHHHTTT
T ss_pred             EEEEEeeCCCCHHHHHHHH
Confidence            5789999999999999643

>2qp9_X Vacuolar protein sorting-associated protein 4; ATPase domain, beta domain, C-terminal helix, ATP-binding, E nucleotide-binding; 2.90A {Saccharomyces cerevisiae} PDB: 2qpa_A*

Probab=96.85  E-value=0.00078  Score=39.75  Aligned_cols=22  Identities=32%  Similarity=0.465  Sum_probs=19.5

Q ss_pred             eEEEEECCCCChHHHHHHHHhc
Q 035301           13 FKVVLIGDSGVGKSNLLSRFTR   34 (68)
Q Consensus        13 ~ki~~iG~~~vGKtsl~~~~~~   34 (68)
                      --+++.|++|+|||++++.++.
T Consensus        85 ~~iLL~GppGtGKT~la~ala~  106 (355)
T 2qp9_X           85 SGILLYGPPGTGKSYLAKAVAT  106 (355)
T ss_dssp             CCEEEECSTTSCHHHHHHHHHH
T ss_pred             ceEEEECCCCCcHHHHHHHHHH
Confidence            3589999999999999998875

>3k1j_A LON protease, ATP-dependent protease LON; ATP-binding, nucleotide-binding, Pro hydrolase; HET: ADP PE8; 2.00A {Thermococcus onnurineus}

Probab=96.84  E-value=0.00077  Score=42.31  Aligned_cols=23  Identities=39%  Similarity=0.521  Sum_probs=20.7

Q ss_pred             EEEEECCCCChHHHHHHHHhcCc
Q 035301           14 KVVLIGDSGVGKSNLLSRFTRNE   36 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~~~   36 (68)
                      .++++|++|+|||++++.+++..
T Consensus        62 ~vll~Gp~GtGKTtlar~ia~~l   84 (604)
T 3k1j_A           62 HVLLIGEPGTGKSMLGQAMAELL   84 (604)
T ss_dssp             CEEEECCTTSSHHHHHHHHHHTS
T ss_pred             EEEEEeCCCCCHHHHHHHHhccC
Confidence            68999999999999999998754

>3co5_A Putative two-component system transcriptional RES regulator; structural genomics, APC89341.1; 2.40A {Neisseria gonorrhoeae}

Probab=96.83  E-value=0.00034  Score=36.23  Aligned_cols=23  Identities=26%  Similarity=0.394  Sum_probs=19.7

Q ss_pred             eEEEEECCCCChHHHHHHHHhcC
Q 035301           13 FKVVLIGDSGVGKSNLLSRFTRN   35 (68)
Q Consensus        13 ~ki~~iG~~~vGKtsl~~~~~~~   35 (68)
                      ..+++.|++|+|||++.+.+...
T Consensus        28 ~~vll~G~~GtGKt~lA~~i~~~   50 (143)
T 3co5_A           28 SPVFLTGEAGSPFETVARYFHKN   50 (143)
T ss_dssp             SCEEEEEETTCCHHHHHGGGCCT
T ss_pred             CcEEEECCCCccHHHHHHHHHHh
Confidence            35899999999999999887754

>1e69_A Chromosome segregation SMC protein; structural maintenance of chromosomes, coiled coil; 3.1A {Thermotoga maritima} SCOP: c.37.1.12

Probab=96.81  E-value=0.00049  Score=40.04  Aligned_cols=20  Identities=30%  Similarity=0.652  Sum_probs=18.2

Q ss_pred             EEEEECCCCChHHHHHHHHh
Q 035301           14 KVVLIGDSGVGKSNLLSRFT   33 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~   33 (68)
                      -.+++|++|+|||+|+..+.
T Consensus        26 ~~~i~G~NGsGKS~ll~ai~   45 (322)
T 1e69_A           26 VTAIVGPNGSGKSNIIDAIK   45 (322)
T ss_dssp             EEEEECCTTTCSTHHHHHHH
T ss_pred             cEEEECCCCCcHHHHHHHHH
Confidence            57899999999999999987

>2ce7_A Cell division protein FTSH; metalloprotease; HET: ADP; 2.44A {Thermotoga maritima} SCOP: a.269.1.1 c.37.1.20 PDB: 2cea_A* 3kds_E*

Probab=96.81  E-value=0.00088  Score=41.31  Aligned_cols=21  Identities=29%  Similarity=0.537  Sum_probs=19.3

Q ss_pred             EEEEECCCCChHHHHHHHHhc
Q 035301           14 KVVLIGDSGVGKSNLLSRFTR   34 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~   34 (68)
                      -+++.|++|+|||++++.+++
T Consensus        51 gvLL~GppGtGKT~Laraia~   71 (476)
T 2ce7_A           51 GILLVGPPGTGKTLLARAVAG   71 (476)
T ss_dssp             EEEEECCTTSSHHHHHHHHHH
T ss_pred             eEEEECCCCCCHHHHHHHHHH
Confidence            489999999999999999885

>3vfd_A Spastin; ATPase, microtubule severing, hydrolase; 3.30A {Homo sapiens}

Probab=96.79  E-value=0.00093  Score=39.70  Aligned_cols=23  Identities=26%  Similarity=0.368  Sum_probs=20.4

Q ss_pred             eeEEEEECCCCChHHHHHHHHhc
Q 035301           12 LFKVVLIGDSGVGKSNLLSRFTR   34 (68)
Q Consensus        12 ~~ki~~iG~~~vGKtsl~~~~~~   34 (68)
                      ...+++.|++|+|||++++.++.
T Consensus       148 ~~~vLL~GppGtGKT~la~aia~  170 (389)
T 3vfd_A          148 ARGLLLFGPPGNGKTMLAKAVAA  170 (389)
T ss_dssp             CSEEEEESSTTSCHHHHHHHHHH
T ss_pred             CceEEEECCCCCCHHHHHHHHHH
Confidence            35799999999999999999875

>1hqc_A RUVB; extended AAA-ATPase domain, complex with nucleotide, hydrolase; HET: ADE; 3.20A {Thermus thermophilus} SCOP: a.4.5.11 c.37.1.20 PDB: 1ixs_B* 1ixr_C*

Probab=96.78  E-value=0.00047  Score=39.57  Aligned_cols=22  Identities=27%  Similarity=0.525  Sum_probs=19.4

Q ss_pred             eEEEEECCCCChHHHHHHHHhc
Q 035301           13 FKVVLIGDSGVGKSNLLSRFTR   34 (68)
Q Consensus        13 ~ki~~iG~~~vGKtsl~~~~~~   34 (68)
                      ..+++.|++|+|||+++..+..
T Consensus        39 ~~vll~G~~GtGKT~la~~i~~   60 (324)
T 1hqc_A           39 EHLLLFGPPGLGKTTLAHVIAH   60 (324)
T ss_dssp             CCCEEECCTTCCCHHHHHHHHH
T ss_pred             CcEEEECCCCCCHHHHHHHHHH
Confidence            4689999999999999998864

>3pvs_A Replication-associated recombination protein A; maintenance of genome stability Pro recombination; 2.50A {Escherichia coli}

Probab=96.78  E-value=0.00093  Score=40.75  Aligned_cols=23  Identities=30%  Similarity=0.544  Sum_probs=20.1

Q ss_pred             eEEEEECCCCChHHHHHHHHhcC
Q 035301           13 FKVVLIGDSGVGKSNLLSRFTRN   35 (68)
Q Consensus        13 ~ki~~iG~~~vGKtsl~~~~~~~   35 (68)
                      ..+++.|++|+|||++++.+...
T Consensus        51 ~~vLL~GppGtGKTtlAr~ia~~   73 (447)
T 3pvs_A           51 HSMILWGPPGTGKTTLAEVIARY   73 (447)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHHH
T ss_pred             cEEEEECCCCCcHHHHHHHHHHH
Confidence            36899999999999999998853

>3tqf_A HPR(Ser) kinase; transferase, hydrolase; 2.80A {Coxiella burnetii}

Probab=96.77  E-value=0.0011  Score=36.25  Aligned_cols=22  Identities=27%  Similarity=0.511  Sum_probs=19.3

Q ss_pred             EEEEECCCCChHHHHHHHHhcC
Q 035301           14 KVVLIGDSGVGKSNLLSRFTRN   35 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~~   35 (68)
                      =+++.|++|+|||++...+...
T Consensus        18 gvli~G~SGaGKStlal~L~~r   39 (181)
T 3tqf_A           18 GVLITGEANIGKSELSLALIDR   39 (181)
T ss_dssp             EEEEEESSSSSHHHHHHHHHHT
T ss_pred             EEEEEcCCCCCHHHHHHHHHHc
Confidence            5889999999999999988753

>1ewq_A DNA mismatch repair protein MUTS; multiple domains of protein, mostly mixed alpha-beta structures, one domain is entirely helical; HET: DNA; 2.20A {Thermus aquaticus} SCOP: a.113.1.1 c.37.1.12 c.55.6.1 d.75.2.1 PDB: 1nne_A* 1fw6_A* 1ewr_A*

Probab=96.75  E-value=0.00095  Score=43.27  Aligned_cols=22  Identities=27%  Similarity=0.333  Sum_probs=19.4

Q ss_pred             EEEEECCCCChHHHHHHHHhcC
Q 035301           14 KVVLIGDSGVGKSNLLSRFTRN   35 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~~   35 (68)
                      .++++|++|+||||+++.+++.
T Consensus       578 i~~I~GpNGsGKSTlLr~iagl  599 (765)
T 1ewq_A          578 LVLITGPNMAGKSTFLRQTALI  599 (765)
T ss_dssp             EEEEESCSSSSHHHHHHHHHHH
T ss_pred             EEEEECCCCCChHHHHHHHHhh
Confidence            5889999999999999987753

>1jr3_A DNA polymerase III subunit gamma; processivity, processivity clamp, clamp loader, AAA+ ATPase, transferase; HET: DNA; 2.70A {Escherichia coli} SCOP: a.80.1.1 c.37.1.20 PDB: 1xxh_B* 3glh_B* 3glf_B* 3gli_B* 3glg_B* 1xxi_B*

Probab=96.74  E-value=0.0011  Score=38.58  Aligned_cols=21  Identities=24%  Similarity=0.534  Sum_probs=18.6

Q ss_pred             EEEEECCCCChHHHHHHHHhc
Q 035301           14 KVVLIGDSGVGKSNLLSRFTR   34 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~   34 (68)
                      -+++.|+.|+|||+++..++.
T Consensus        40 ~~ll~G~~G~GKT~la~~la~   60 (373)
T 1jr3_A           40 AYLFSGTRGVGKTSIARLLAK   60 (373)
T ss_dssp             EEEEESCTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            478999999999999998874

>2ga8_A Hypothetical 39.9 kDa protein; YFR007W, YFH7, unknown function; HET: CME; 1.77A {Saccharomyces cerevisiae} PDB: 2gaa_A*

Probab=96.73  E-value=0.0014  Score=39.24  Aligned_cols=23  Identities=30%  Similarity=0.573  Sum_probs=19.5

Q ss_pred             eeEEEEECCCCChHHHHHHHHhc
Q 035301           12 LFKVVLIGDSGVGKSNLLSRFTR   34 (68)
Q Consensus        12 ~~ki~~iG~~~vGKtsl~~~~~~   34 (68)
                      ...++++|.+|+|||++...++.
T Consensus        24 ~~~i~l~G~~G~GKTTl~~~la~   46 (359)
T 2ga8_A           24 RVCVILVGSPGSGKSTIAEELCQ   46 (359)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHH
T ss_pred             eeEEEEECCCCCcHHHHHHHHHH
Confidence            45799999999999999986653

>1wb9_A DNA mismatch repair protein MUTS; DNA-binding, ATP-binding, DNA binding, DNA repair, mismatch recognition; HET: DNA ADP; 2.10A {Escherichia coli} SCOP: a.113.1.1 c.37.1.12 c.55.6.1 d.75.2.1 PDB: 1wbb_A* 1e3m_A* 1oh5_A* 1oh6_A* 1oh7_A* 1oh8_A* 1w7a_A* 2wtu_A* 1wbd_A* 1ng9_A* 3k0s_A*

Probab=96.72  E-value=0.001  Score=43.26  Aligned_cols=21  Identities=19%  Similarity=0.295  Sum_probs=18.8

Q ss_pred             EEEEECCCCChHHHHHHHHhc
Q 035301           14 KVVLIGDSGVGKSNLLSRFTR   34 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~   34 (68)
                      -++++|++|+||||+++.+++
T Consensus       609 i~~ItGpNGsGKSTlLr~iag  629 (800)
T 1wb9_A          609 MLIITGPNMGGKSTYMRQTAL  629 (800)
T ss_dssp             EEEEECCTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCCChHHHHHHHHH
Confidence            588999999999999998765

>4b4t_K 26S protease regulatory subunit 6B homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=96.72  E-value=0.0012  Score=40.27  Aligned_cols=22  Identities=32%  Similarity=0.493  Sum_probs=19.8

Q ss_pred             eEEEEECCCCChHHHHHHHHhc
Q 035301           13 FKVVLIGDSGVGKSNLLSRFTR   34 (68)
Q Consensus        13 ~ki~~iG~~~vGKtsl~~~~~~   34 (68)
                      --+++.|++|+|||++++.+++
T Consensus       207 rGiLL~GPPGtGKT~lakAiA~  228 (428)
T 4b4t_K          207 RGVLLYGPPGTGKTMLVKAVAN  228 (428)
T ss_dssp             CEEEEESCTTTTHHHHHHHHHH
T ss_pred             ceEEEECCCCCCHHHHHHHHHH
Confidence            3599999999999999999885

>3ux8_A Excinuclease ABC, A subunit; UVRA, nucleotide excision repair, DNA repair, ABC ATPase, DN binding protein; HET: ADP; 2.10A {Geobacillus}

Probab=96.71  E-value=0.00093  Score=42.39  Aligned_cols=16  Identities=63%  Similarity=0.713  Sum_probs=14.9

Q ss_pred             EEEEECCCCChHHHHH
Q 035301           14 KVVLIGDSGVGKSNLL   29 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~   29 (68)
                      .+.++|++|+|||||+
T Consensus        46 ~~~liGpNGaGKSTLl   61 (670)
T 3ux8_A           46 LVVLTGLSGSGKSSLA   61 (670)
T ss_dssp             EEEEECSTTSSHHHHH
T ss_pred             EEEEECCCCCCHHHHh
Confidence            6899999999999996

>1zu4_A FTSY; GTPase, signal recognition particle, SRP, receptor, protein transport; 1.95A {Mycoplasma mycoides} PDB: 1zu5_A

Probab=96.71  E-value=0.0012  Score=38.73  Aligned_cols=22  Identities=27%  Similarity=0.528  Sum_probs=19.1

Q ss_pred             eEEEEECCCCChHHHHHHHHhc
Q 035301           13 FKVVLIGDSGVGKSNLLSRFTR   34 (68)
Q Consensus        13 ~ki~~iG~~~vGKtsl~~~~~~   34 (68)
                      --++++|.+|+||||++..++.
T Consensus       106 ~vI~ivG~~G~GKTT~~~~LA~  127 (320)
T 1zu4_A          106 NIFMLVGVNGTGKTTSLAKMAN  127 (320)
T ss_dssp             EEEEEESSTTSSHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHH
Confidence            4688899999999999988775

>2j37_W Signal recognition particle 54 kDa protein (SRP54); ribosome, SRP, translation/RNA; 8.00A {Canis SP} PDB: 1wgw_A

Probab=96.71  E-value=0.0017  Score=40.40  Aligned_cols=23  Identities=22%  Similarity=0.381  Sum_probs=19.7

Q ss_pred             eeeEEEEECCCCChHHHHHHHHh
Q 035301           11 YLFKVVLIGDSGVGKSNLLSRFT   33 (68)
Q Consensus        11 ~~~ki~~iG~~~vGKtsl~~~~~   33 (68)
                      ....|+++|..||||||++.+++
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            35689999999999999999988

>1iqp_A RFCS; clamp loader, extended AAA-ATPase domain, complex with ADP, replication; HET: ADP; 2.80A {Pyrococcus furiosus} SCOP: a.80.1.1 c.37.1.20

Probab=96.70  E-value=0.0013  Score=37.57  Aligned_cols=22  Identities=27%  Similarity=0.555  Sum_probs=19.2

Q ss_pred             EEEEECCCCChHHHHHHHHhcC
Q 035301           14 KVVLIGDSGVGKSNLLSRFTRN   35 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~~   35 (68)
                      .+++.|++|+|||+++..++..
T Consensus        48 ~~ll~G~~G~GKT~la~~l~~~   69 (327)
T 1iqp_A           48 HLLFAGPPGVGKTTAALALARE   69 (327)
T ss_dssp             EEEEESCTTSSHHHHHHHHHHH
T ss_pred             eEEEECcCCCCHHHHHHHHHHH
Confidence            4899999999999999988753

---

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	68
d2bcgy1	194	c.37.1.8 (Y:3-196) GTPase Ytp1 {Baker's yeast (Sac	1e-18
d2fu5c1	173	c.37.1.8 (C:3-175) Rab8a {Mouse (Mus musculus) [Ta	2e-17
d2ew1a1	171	c.37.1.8 (A:4-174) Rab30 {Human (Homo sapiens) [Ta	2e-17
d2f7sa1	186	c.37.1.8 (A:5-190) Rab27b {Human (Homo sapiens) [T	4e-17
d2f9la1	175	c.37.1.8 (A:8-182) Rab11b {Human (Homo sapiens) [T	5e-16
d1z0fa1	166	c.37.1.8 (A:8-173) Rab14 {Human (Homo sapiens) [Ta	1e-14
d2g6ba1	170	c.37.1.8 (A:58-227) Rab26 {Human (Homo sapiens) [T	2e-14
d3raba_	169	c.37.1.8 (A:) Rab3a {Rat (Rattus norvegicus) [TaxI	3e-14
d1vg8a_	184	c.37.1.8 (A:) Rab7 {Rat (Rattus norvegicus) [TaxId	5e-14
d2atxa1	185	c.37.1.8 (A:9-193) RhoQ {Human (Homo sapiens) [Tax	5e-14
d2bmea1	174	c.37.1.8 (A:6-179) Rab4a {Human (Homo sapiens) [Ta	8e-14
d1g16a_	166	c.37.1.8 (A:) Rab-related protein Sec4 {Baker's ye	8e-14
d1x3sa1	177	c.37.1.8 (A:2-178) Rab18 {Human (Homo sapiens) [Ta	6e-13
d2a5ja1	173	c.37.1.8 (A:9-181) Rab2b {Human (Homo sapiens) [Ta	1e-12
d2ngra_	191	c.37.1.8 (A:) CDC42 {Human (Homo sapiens) [TaxId:	1e-12
d1wmsa_	174	c.37.1.8 (A:) Rab9a {Human (Homo sapiens) [TaxId:	1e-12
d2fn4a1	173	c.37.1.8 (A:24-196) r-Ras {Human (Homo sapiens) [T	6e-12
d1u8za_	168	c.37.1.8 (A:) Ras-related protein RalA {Cotton-top	7e-12
d1c1ya_	167	c.37.1.8 (A:) Rap1A {Human (Homo sapiens) [TaxId:	7e-12
d1ctqa_	166	c.37.1.8 (A:) cH-p21 Ras protein {Human (Homo sapi	8e-12
d1ky3a_	175	c.37.1.8 (A:) Rab-related protein ypt7p {Baker's y	1e-11
d1i2ma_	170	c.37.1.8 (A:) Ran {Human (Homo sapiens) [TaxId: 96	2e-11
d1kaoa_	167	c.37.1.8 (A:) Rap2a {Human (Homo sapiens) [TaxId:	2e-11
d1kmqa_	177	c.37.1.8 (A:) RhoA {Human (Homo sapiens) [TaxId: 9	2e-11
d1z06a1	165	c.37.1.8 (A:32-196) Rab-33b {Mouse (Mus musculus)	2e-11
d2erxa1	171	c.37.1.8 (A:6-176) di-Ras2 {Human (Homo sapiens) [	2e-11
d2g3ya1	172	c.37.1.8 (A:73-244) GTP-binding protein GEM {Human	3e-11
d1azta2	221	c.37.1.8 (A:35-65,A:202-391) Transducin (alpha sub	3e-11
d2erya1	171	c.37.1.8 (A:10-180) r-Ras2 {Human (Homo sapiens) [	4e-11
d1x1ra1	169	c.37.1.8 (A:10-178) Ras-related protein M-Ras (XRa	5e-11
d1mh1a_	183	c.37.1.8 (A:) Rac {Human (Homo sapiens) [TaxId: 96	6e-11
d1yzqa1	164	c.37.1.8 (A:14-177) Rab6 {Human (Homo sapiens) [Ta	7e-11
d1z08a1	167	c.37.1.8 (A:17-183) Rab21 {Human (Homo sapiens) [T	8e-11
d2atva1	168	c.37.1.8 (A:5-172) Ras-like estrogen-regulated gro	1e-10
d1m7ba_	179	c.37.1.8 (A:) RhoE (RND3) {Mouse (Mus musculus) [T	1e-10
d2gjsa1	168	c.37.1.8 (A:91-258) Rad {Human (Homo sapiens) [Tax	1e-10
d1r2qa_	170	c.37.1.8 (A:) Rab5a {Human (Homo sapiens) [TaxId:	2e-10
d2bcjq2	200	c.37.1.8 (Q:38-66,Q:184-354) Transducin (alpha sub	3e-10
d1xtqa1	167	c.37.1.8 (A:3-169) GTP-binding protein RheB {Human	5e-10
d1z0ja1	167	c.37.1.8 (A:2-168) Rab-22a {Mouse (Mus musculus) [	7e-10
d1ek0a_	170	c.37.1.8 (A:) Ypt51 {Baker's yeast (Saccharomyces	1e-09
d1z2aa1	164	c.37.1.8 (A:8-171) Rab23 {Mouse (Mus musculus) [Ta	2e-09
d1zd9a1	164	c.37.1.8 (A:18-181) ADP-ribosylation factor {Human	3e-09
d2fh5b1	207	c.37.1.8 (B:63-269) Signal recognition particle re	3e-09
d2bmja1	175	c.37.1.8 (A:66-240) Centaurin gamma 1, G domain {H	5e-09
d1ksha_	165	c.37.1.8 (A:) ADP-ribosylation factor {Mouse (Mus	5e-09
d1upta_	169	c.37.1.8 (A:) ADP-ribosylation factor {Human (Homo	9e-09
d1r8sa_	160	c.37.1.8 (A:) ADP-ribosylation factor {Human (Homo	1e-08
d2qtvb1	166	c.37.1.8 (B:24-189) SAR1 {Baker's yeast (Saccharom	2e-08
d1zcba2	200	c.37.1.8 (A:47-75,A:202-372) Transducin (alpha sub	8e-08
d1moza_	182	c.37.1.8 (A:) ADP-ribosylation factor {Baker's yea	1e-07
d1e0sa_	173	c.37.1.8 (A:) ADP-ribosylation factor {Human (Homo	1e-07
d1fzqa_	176	c.37.1.8 (A:) ADP-ribosylation factor {Mouse (Mus	1e-07
d1f6ba_	186	c.37.1.8 (A:) SAR1 {Chinese hamster (Cricetulus gr	2e-07
d2gj8a1	161	c.37.1.8 (A:216-376) Probable tRNA modification GT	3e-07
d1zj6a1	177	c.37.1.8 (A:2-178) ADP-ribosylation factor {Human	4e-07
d1svsa1	195	c.37.1.8 (A:32-60,A:182-347) Transducin (alpha sub	6e-07
d1nrjb_	209	c.37.1.8 (B:) Signal recognition particle receptor	2e-05
d1puia_	188	c.37.1.8 (A:) Probable GTPase EngB {Escherichia co	3e-05
d1wf3a1	178	c.37.1.8 (A:3-180) GTPase Era, N-terminal domain {	5e-05
d1mkya2	186	c.37.1.8 (A:173-358) Probable GTPase Der, N-termin	9e-05
d1tq4a_	400	c.37.1.8 (A:) Interferon-inducible GTPase {Mouse (	1e-04
d1mkya1	171	c.37.1.8 (A:2-172) Probable GTPase Der, N-terminal	2e-04
d1xzpa2	160	c.37.1.8 (A:212-371) TrmE GTPase domain {Thermotog	2e-04
d1udxa2	180	c.37.1.8 (A:157-336) Obg GTP-binding protein middl	2e-04
d2cxxa1	184	c.37.1.8 (A:2-185) GTP-binding protein engB {Pyroc	0.001
d1egaa1	179	c.37.1.8 (A:4-182) GTPase Era, N-terminal domain {	0.002
d1lnza2	185	c.37.1.8 (A:158-342) Obg GTP-binding protein middl	0.002
d1svia_	195	c.37.1.8 (A:) Probable GTPase EngB {Bacillus subti	0.002
d1ye8a1	178	c.37.1.11 (A:1-178) Hypothetical kinase-like prote	0.003

>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 = 73.0 bits (178), Expect = 1e-18
 Identities = 27/49 (55%), Positives = 39/49 (79%)

Query: 8  EYDYLFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQV 56
          EYDYLFK++LIG+SGVGKS LL RF+ + +  +  STIGV+F  +T+++
Sbjct: 2  EYDYLFKLLLIGNSGVGKSCLLLRFSDDTYTNDYISTIGVDFKIKTVEL 50

>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 = 69.4 bits (169), Expect = 2e-17
 Identities = 26/52 (50%), Positives = 38/52 (73%)

Query: 7  EEYDYLFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQVTN 58
          + YDYLFK++LIGDSGVGK+ +L RF+ + F     STIG++F  RT+++  
Sbjct: 1  KTYDYLFKLLLIGDSGVGKTCVLFRFSEDAFNSTFISTIGIDFKIRTIELDG 52

>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 = 69.1 bits (168), Expect = 2e-17
 Identities = 24/51 (47%), Positives = 38/51 (74%)

Query: 8  EYDYLFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQVTN 58
          +YD+LFK+VLIG++GVGK+ L+ RFT+  F     +TIGV+F  +T+++  
Sbjct: 1  DYDFLFKIVLIGNAGVGKTCLVRRFTQGLFPPGQGATIGVDFMIKTVEING 51

>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 = 68.8 bits (167), Expect = 4e-17
 Identities = 20/51 (39%), Positives = 34/51 (66%)

Query: 8  EYDYLFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQVTN 58
          +YDYL K++ +GDSGVGK+  L R+T N+F  +  +T+G++F  + +    
Sbjct: 1  DYDYLIKLLALGDSGVGKTTFLYRYTDNKFNPKFITTVGIDFREKRVVYNA 51

>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 = 65.7 bits (159), Expect = 5e-16
 Identities = 45/60 (75%), Positives = 49/60 (81%)

Query: 9  YDYLFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQVTNFSSFTSLHFY 68
          YDYLFKVVLIGDSGVGKSNLLSRFTRNEF LESKSTIGVEFATR++QV   +    +   
Sbjct: 1  YDYLFKVVLIGDSGVGKSNLLSRFTRNEFNLESKSTIGVEFATRSIQVDGKTIKAQIWDT 60

>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 = 61.8 bits (149), Expect = 1e-14
 Identities = 26/50 (52%), Positives = 35/50 (70%)

Query: 9  YDYLFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQVTN 58
          Y Y+FK ++IGD GVGKS LL +FT  +F  +   TIGVEF TR ++V+ 
Sbjct: 1  YSYIFKYIIIGDMGVGKSCLLHQFTEKKFMADCPHTIGVEFGTRIIEVSG 50

>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 = 61.4 bits (148), Expect = 2e-14
 Identities = 24/54 (44%), Positives = 33/54 (61%), Gaps = 1/54 (1%)

Query: 7  EEYDYLFKVVLIGDSGVGKSNLLSRFTRNEFCLES-KSTIGVEFATRTLQVTNF 59
          + YD  FKV+L+GDSGVGK+ LL RF    F   +  ST+G++F  + L V   
Sbjct: 1  DFYDVAFKVMLVGDSGVGKTCLLVRFKDGAFLAGTFISTVGIDFRNKVLDVDGV 54

>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 = 61.0 bits (147), Expect = 3e-14
 Identities = 18/48 (37%), Positives = 33/48 (68%)

Query: 9  YDYLFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQV 56
          +DY+FK+++IG+S VGK++ L R+  + F     ST+G++F  +T+  
Sbjct: 2  FDYMFKILIIGNSSVGKTSFLFRYADDSFTPAFVSTVGIDFKVKTIYR 49

>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 = 60.9 bits (146), Expect = 5e-14
 Identities = 17/38 (44%), Positives = 30/38 (78%)

Query: 12 LFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEF 49
          L KV+++GDSGVGK++L++++   +F  + K+TIG +F
Sbjct: 2  LLKVIILGDSGVGKTSLMNQYVNKKFSNQYKATIGADF 39

>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 = 60.8 bits (146), Expect = 5e-14
 Identities = 13/41 (31%), Positives = 20/41 (48%)

Query: 5  ADEEYDYLFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTI 45
          A      + K V++GD  VGK+ LL  +  + F  E   T+
Sbjct: 2  AHGPGALMLKCVVVGDGAVGKTCLLMSYANDAFPEEYVPTV 42

>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 = 59.9 bits (144), Expect = 8e-14
 Identities = 22/47 (46%), Positives = 33/47 (70%)

Query: 9  YDYLFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQ 55
          YD+LFK ++IG++G GKS LL +F   +F  +S  TIGVEF ++ + 
Sbjct: 2  YDFLFKFLVIGNAGTGKSCLLHQFIEKKFKDDSNHTIGVEFGSKIIN 48

>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 = 59.8 bits (144), Expect = 8e-14
 Identities = 21/47 (44%), Positives = 32/47 (68%)

Query: 12 LFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQVTN 58
          + K++LIGDSGVGKS LL RF  ++F     +TIG++F  +T+ +  
Sbjct: 2  IMKILLIGDSGVGKSCLLVRFVEDKFNPSFITTIGIDFKIKTVDING 48

>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 = 57.5 bits (138), Expect = 6e-13
 Identities = 25/54 (46%), Positives = 36/54 (66%)

Query: 6  DEEYDYLFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQVTNF 59
          DE+     K+++IG+SGVGKS+LL RFT + F  E  +TIGV+F  +T+ V   
Sbjct: 1  DEDVLTTLKILIIGESGVGKSSLLLRFTDDTFDPELAATIGVDFKVKTISVDGN 54

>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 = 57.2 bits (137), Expect = 1e-12
 Identities = 24/46 (52%), Positives = 30/46 (65%)

Query: 11 YLFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQV 56
          YLFK ++IGD+GVGKS LL +FT   F      TIGVEF  R + +
Sbjct: 2  YLFKYIIIGDTGVGKSCLLLQFTDKRFQPVHDLTIGVEFGARMVNI 47

>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 = 57.3 bits (137), Expect = 1e-12
 Identities = 14/37 (37%), Positives = 21/37 (56%)

Query: 13 FKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEF 49
           K V++GD  VGK+ LL  +T N+F  E   T+   +
Sbjct: 4  IKCVVVGDGAVGKTCLLISYTTNKFPSEYVPTVFDNY 40

>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 = 56.9 bits (136), Expect = 1e-12
 Identities = 24/49 (48%), Positives = 34/49 (69%)

Query: 10 DYLFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQVTN 58
            LFKV+L+GD GVGKS+L++R+  N+F  +   TIGVEF  + L+V  
Sbjct: 4  SSLFKVILLGDGGVGKSSLMNRYVTNKFDTQLFHTIGVEFLNKDLEVDG 52

>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 = 55.1 bits (131), Expect = 6e-12
 Identities = 11/28 (39%), Positives = 17/28 (60%)

Query: 10 DYLFKVVLIGDSGVGKSNLLSRFTRNEF 37
              K+V++G  GVGKS L  +F ++ F
Sbjct: 4  SETHKLVVVGGGGVGKSALTIQFIQSYF 31

>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 = 54.9 bits (131), Expect = 7e-12
 Identities = 14/38 (36%), Positives = 22/38 (57%)

Query: 12 LFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEF 49
          L KV+++G  GVGKS L  +F  +EF  + + T    +
Sbjct: 4  LHKVIMVGSGGVGKSALTLQFMYDEFVEDYEPTKADSY 41

>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-12
 Identities = 13/37 (35%), Positives = 21/37 (56%)

Query: 13 FKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEF 49
          +K+V++G  GVGKS L  +F +  F  +   TI   +
Sbjct: 4  YKLVVLGSGGVGKSALTVQFVQGIFVEKYDPTIEDSY 40

>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 = 54.6 bits (130), Expect = 8e-12
 Identities = 14/37 (37%), Positives = 21/37 (56%)

Query: 13 FKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEF 49
          +K+V++G  GVGKS L  +  +N F  E   TI   +
Sbjct: 4  YKLVVVGAGGVGKSALTIQLIQNHFVDEYDPTIEDSY 40

>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 = 54.3 bits (129), Expect = 1e-11
 Identities = 15/35 (42%), Positives = 28/35 (80%)

Query: 12 LFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIG 46
          + KV+++GDSGVGK++L+ R+  +++  + K+TIG
Sbjct: 2  ILKVIILGDSGVGKTSLMHRYVNDKYSQQYKATIG 36

>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 = 53.9 bits (128), Expect = 2e-11
 Identities = 16/56 (28%), Positives = 25/56 (44%)

Query: 13 FKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQVTNFSSFTSLHFY 68
          FK+VL+GD G GK+  + R    EF  +  +T+GVE               ++   
Sbjct: 4  FKLVLVGDGGTGKTTFVKRHLTGEFEKKYVATLGVEVHPLVFHTNRGPIKFNVWDT 59

>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 = 53.8 bits (128), Expect = 2e-11
 Identities = 14/34 (41%), Positives = 19/34 (55%)

Query: 13 FKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIG 46
          +KVV++G  GVGKS L  +F    F  +   TI 
Sbjct: 4  YKVVVLGSGGVGKSALTVQFVTGTFIEKYDPTIE 37

>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 = 53.9 bits (128), Expect = 2e-11
 Identities = 10/37 (27%), Positives = 20/37 (54%)

Query: 13 FKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEF 49
           K+V++GD   GK+ LL   ++++F      T+   +
Sbjct: 3  KKLVIVGDGACGKTCLLIVNSKDQFPEVYVPTVFENY 39

>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 = 53.5 bits (127), Expect = 2e-11
 Identities = 19/45 (42%), Positives = 30/45 (66%)

Query: 12 LFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQV 56
          +FK+++IGDS VGK+ L  RF    F   +++TIGV+F  R + +
Sbjct: 2  IFKIIVIGDSNVGKTCLTYRFCAGRFPDRTEATIGVDFRERAVDI 46

>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 = 53.4 bits (127), Expect = 2e-11
 Identities = 12/33 (36%), Positives = 19/33 (57%)

Query: 13 FKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTI 45
          ++V + G  GVGKS+L+ RF +  F      T+
Sbjct: 3  YRVAVFGAGGVGKSSLVLRFVKGTFRESYIPTV 35

>d2g3ya1 c.37.1.8 (A:73-244) GTP-binding protein GEM {Human (Homo sapiens) [TaxId: 9606]} Length = 172

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: GTP-binding protein GEM
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 53.2 bits (126), Expect = 3e-11
 Identities = 13/36 (36%), Positives = 21/36 (58%)

Query: 10 DYLFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTI 45
          +  ++VVLIG+ GVGKS L + F      ++S   +
Sbjct: 1  NTYYRVVLIGEQGVGKSTLANIFAGVHDSMDSDCEV 36

>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 = 53.6 bits (128), Expect = 3e-11
 Identities = 10/53 (18%), Positives = 20/53 (37%), Gaps = 4/53 (7%)

Query: 7  EEYDYLFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQVTNF 59
          + Y    +++L+G    GKS ++ +            T G+      +   NF
Sbjct: 1  QVYRATHRLLLLGAGESGKSTIVKQMRILHV----VLTSGIFETKFQVDKVNF 49

>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 = 53.1 bits (126), Expect = 4e-11
 Identities = 12/35 (34%), Positives = 21/35 (60%)

Query: 13 FKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGV 47
          +++V++G  GVGKS L  +F ++ F  +   TI  
Sbjct: 6  YRLVVVGGGGVGKSALTIQFIQSYFVTDYDPTIED 40

>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 = 52.7 bits (125), Expect = 5e-11
 Identities = 14/33 (42%), Positives = 21/33 (63%)

Query: 13 FKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTI 45
          +K+V++GD GVGKS L  +F +  F  +   TI
Sbjct: 5  YKLVVVGDGGVGKSALTIQFFQKIFVPDYDPTI 37

>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 = 52.7 bits (125), Expect = 6e-11
 Identities = 14/33 (42%), Positives = 19/33 (57%)

Query: 13 FKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTI 45
           K V++GD  VGK+ LL  +T N F  E   T+
Sbjct: 6  IKCVVVGDGAVGKTCLLISYTTNAFPGEYIPTV 38

>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 = 52.3 bits (124), Expect = 7e-11
 Identities = 13/33 (39%), Positives = 23/33 (69%)

Query: 13 FKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTI 45
          FK+V +G+  VGK++L++RF  + F    ++TI
Sbjct: 1  FKLVFLGEQSVGKTSLITRFMYDSFDNTYQATI 33

>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 = 51.9 bits (123), Expect = 8e-11
 Identities = 14/27 (51%), Positives = 21/27 (77%)

Query: 11 YLFKVVLIGDSGVGKSNLLSRFTRNEF 37
          Y FKVVL+G+  VGK++L+ R+  N+F
Sbjct: 2  YSFKVVLLGEGCVGKTSLVLRYCENKF 28

>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 = 51.9 bits (123), Expect = 1e-10
 Identities = 13/33 (39%), Positives = 18/33 (54%)

Query: 13 FKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTI 45
           K+ + G +GVGKS L+ RF    F  E   T+
Sbjct: 3  VKLAIFGRAGVGKSALVVRFLTKRFIWEYDPTL 35

>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 = 51.6 bits (122), Expect = 1e-10
 Identities = 12/32 (37%), Positives = 19/32 (59%)

Query: 14 KVVLIGDSGVGKSNLLSRFTRNEFCLESKSTI 45
          K+V++GDS  GK+ LL  F ++ F      T+
Sbjct: 4  KIVVVGDSQCGKTALLHVFAKDCFPENYVPTV 35

>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 = 51.3 bits (121), Expect = 1e-10
 Identities = 14/56 (25%), Positives = 24/56 (42%), Gaps = 2/56 (3%)

Query: 13 FKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQVTNFSSFTSLHFY 68
          +KV+L+G  GVGKS L   F   E     ++        R++ V    +   ++  
Sbjct: 2  YKVLLLGAPGVGKSALARIFGGVED--GPEAEAAGHTYDRSIVVDGEEASLMVYDI 55

>d1r2qa_ c.37.1.8 (A:) Rab5a {Human (Homo sapiens) [TaxId: 9606]} Length = 170

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab5a
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 50.8 bits (120), Expect = 2e-10
 Identities = 18/34 (52%), Positives = 26/34 (76%)

Query: 13 FKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIG 46
          FK+VL+G+S VGKS+L+ RF + +F    +STIG
Sbjct: 7  FKLVLLGESAVGKSSLVLRFVKGQFHEFQESTIG 40

>d2bcjq2 c.37.1.8 (Q:38-66,Q:184-354) Transducin (alpha subunit) {Mouse (Mus musculus) [TaxId: 10090]} Length = 200

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Transducin (alpha subunit)
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 51.1 bits (121), Expect = 3e-10
 Identities = 8/39 (20%), Positives = 14/39 (35%), Gaps = 2/39 (5%)

Query: 13 FKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFAT 51
           K++L+G    GKS  + +            T G+    
Sbjct: 3  LKLLLLGTGESGKSTFIKQMRIIHG--SGVPTTGIIEYP 39

>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 = 49.7 bits (117), Expect = 5e-10
 Identities = 11/33 (33%), Positives = 17/33 (51%)

Query: 13 FKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTI 45
           K+ ++G   VGKS+L  +F   +F      TI
Sbjct: 5  RKIAILGYRSVGKSSLTIQFVEGQFVDSYDPTI 37

>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 = 49.6 bits (117), Expect = 7e-10
 Identities = 15/33 (45%), Positives = 21/33 (63%)

Query: 13 FKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTI 45
           KV L+GD+GVGKS+++ RF  + F      TI
Sbjct: 5  LKVCLLGDTGVGKSSIMWRFVEDSFDPNINPTI 37

>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 = 48.9 bits (115), Expect = 1e-09
 Identities = 15/33 (45%), Positives = 24/33 (72%)

Query: 14 KVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIG 46
          K+VL+G++ VGKS+++ RF  N+F    + TIG
Sbjct: 5  KLVLLGEAAVGKSSIVLRFVSNDFAENKEPTIG 37

>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 = 48.2 bits (113), Expect = 2e-09
 Identities = 18/45 (40%), Positives = 31/45 (68%)

Query: 14 KVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQVTN 58
          K+V++G+  VGKS+++ R+ +  F  + K TIGV+F  R +QV +
Sbjct: 4  KMVVVGNGAVGKSSMIQRYCKGIFTKDYKKTIGVDFLERQIQVND 48

>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 = 47.8 bits (112), Expect = 3e-09
 Identities = 7/37 (18%), Positives = 16/37 (43%)

Query: 13 FKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEF 49
           ++ L+G    GK+  ++     +F  +   T+G   
Sbjct: 3  MELTLVGLQYSGKTTFVNVIASGQFNEDMIPTVGFNM 39

>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 = 48.5 bits (114), Expect = 3e-09
 Identities = 8/42 (19%), Positives = 19/42 (45%), Gaps = 1/42 (2%)

Query: 14 KVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQ 55
           V+ +G    GK+ L  R    ++  +++++I    A   + 
Sbjct: 2  AVLFVGLCDSGKTLLFVRLLTGQY-RDTQTSITDSSAIYKVN 42

>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 = 5e-09
 Identities = 9/32 (28%), Positives = 19/32 (59%)

Query: 13 FKVVLIGDSGVGKSNLLSRFTRNEFCLESKST 44
           ++ ++GD+  GKS+L+ RF    + +  K+ 
Sbjct: 6  LRLGVLGDARSGKSSLIHRFLTGSYQVLEKTE 37

>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 = 47.0 bits (110), Expect = 5e-09
 Identities = 7/37 (18%), Positives = 16/37 (43%), Gaps = 5/37 (13%)

Query: 13 FKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEF 49
           +++++G    GK+ +L +F   +       TI    
Sbjct: 3  LRLLMLGLDNAGKTTILKKFNGEDV-----DTISPTL 34

>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 = 46.6 bits (109), Expect = 9e-09
 Identities = 7/25 (28%), Positives = 14/25 (56%)

Query: 13 FKVVLIGDSGVGKSNLLSRFTRNEF 37
           +++++G  G GK+ +L R    E 
Sbjct: 6  MRILILGLDGAGKTTILYRLQVGEV 30

>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 = 46.2 bits (108), Expect = 1e-08
 Identities = 7/43 (16%), Positives = 15/43 (34%), Gaps = 5/43 (11%)

Query: 14 KVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQV 56
          +++++G    GK+ +L +    E       T           V
Sbjct: 2  RILMVGLDAAGKTTILYKLKLGEI-----VTTIPTIGFNVETV 39

>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 = 45.8 bits (107), Expect = 2e-08
 Identities = 7/39 (17%), Positives = 15/39 (38%), Gaps = 5/39 (12%)

Query: 14 KVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATR 52
          K++ +G    GK+ LL     +       +T+   +   
Sbjct: 2  KLLFLGLDNAGKTTLLHMLKNDRL-----ATLQPTWHPT 35

>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 = 44.5 bits (104), Expect = 8e-08
 Identities = 10/40 (25%), Positives = 15/40 (37%), Gaps = 3/40 (7%)

Query: 12 LFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFAT 51
          L K++L+G    GKS  L +            T G+    
Sbjct: 2  LVKILLLGAGESGKSTFLKQM---RIIHGQDPTKGIHEYD 38

>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 = 43.8 bits (102), Expect = 1e-07
 Identities = 12/47 (25%), Positives = 22/47 (46%), Gaps = 1/47 (2%)

Query: 13 FKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQVTNF 59
           +++++G  G GK+ +L R    E    +K TIG    T + +    
Sbjct: 18 LRILILGLDGAGKTTILYRLQIGEVV-TTKPTIGFNVETLSYKNLKL 63

>d1e0sa_ c.37.1.8 (A:) ADP-ribosylation factor {Human (Homo sapiens), ARF6 [TaxId: 9606]} Length = 173

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Human (Homo sapiens), ARF6 [TaxId: 9606]

 Score = 43.8 bits (102), Expect = 1e-07
 Identities = 4/25 (16%), Positives = 13/25 (52%)

Query: 13 FKVVLIGDSGVGKSNLLSRFTRNEF 37
           +++++G    GK+ +L +    + 
Sbjct: 13 MRILMLGLDAAGKTTILYKLKLGQS 37

>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 = 43.8 bits (102), Expect = 1e-07
 Identities = 8/36 (22%), Positives = 16/36 (44%)

Query: 3  RRADEEYDYLFKVVLIGDSGVGKSNLLSRFTRNEFC 38
          R+     D   +++L+G    GK+ LL +    +  
Sbjct: 7  RKLKSAPDQEVRILLLGLDNAGKTTLLKQLASEDIS 42

>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 = 43.1 bits (100), Expect = 2e-07
 Identities = 8/30 (26%), Positives = 12/30 (40%)

Query: 9  YDYLFKVVLIGDSGVGKSNLLSRFTRNEFC 38
          Y    K+V +G    GK+ LL     +   
Sbjct: 10 YKKTGKLVFLGLDNAGKTTLLHMLKDDRLG 39

>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 = 42.4 bits (98), Expect = 3e-07
 Identities = 10/30 (33%), Positives = 15/30 (50%)

Query: 13 FKVVLIGDSGVGKSNLLSRFTRNEFCLESK 42
           KVV+ G    GKS+LL+     E  + + 
Sbjct: 2  MKVVIAGRPNAGKSSLLNALAGREAAIVTD 31

>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 = 42.3 bits (98), Expect = 4e-07
 Identities = 9/25 (36%), Positives = 16/25 (64%)

Query: 13 FKVVLIGDSGVGKSNLLSRFTRNEF 37
           KV+++G    GK+ +L +F+ NE 
Sbjct: 16 HKVIIVGLDNAGKTTILYQFSMNEV 40

>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 = 41.9 bits (97), Expect = 6e-07
 Identities = 7/39 (17%), Positives = 15/39 (38%), Gaps = 5/39 (12%)

Query: 13 FKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFAT 51
           K++L+G    GKS ++ +           +  G+    
Sbjct: 3  VKLLLLGAGESGKSTIVKQMKIIHE-----AGTGIVETH 36

>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 = 38.1 bits (87), Expect = 2e-05
 Identities = 8/49 (16%), Positives = 18/49 (36%), Gaps = 4/49 (8%)

Query: 11 YLFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQVTNF 59
          Y   +++ G    GK++LL+  T +      + T+  +           
Sbjct: 2  YQPSIIIAGPQNSGKTSLLTLLTTDSV----RPTVVSQEPLSAADYDGS 46

>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 = 37.5 bits (85), Expect = 3e-05
 Identities = 14/59 (23%), Positives = 21/59 (35%)

Query: 10 DYLFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQVTNFSSFTSLHFY 68
          D   +V   G S  GKS+ L+  T  +    +  T G        +V +      L  Y
Sbjct: 14 DTGIEVAFAGRSNAGKSSALNTLTNQKSLARTSKTPGRTQLINLFEVADGKRLVDLPGY 72

>d1wf3a1 c.37.1.8 (A:3-180) GTPase Era, N-terminal domain {Thermus thermophilus [TaxId: 274]} Length = 178

class: 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]

 Score = 36.6 bits (83), Expect = 5e-05
 Identities = 9/28 (32%), Positives = 13/28 (46%)

Query: 15 VVLIGDSGVGKSNLLSRFTRNEFCLESK 42
          V ++G   VGKS LL+     +    S 
Sbjct: 8  VAIVGKPNVGKSTLLNNLLGVKVAPISP 35

>d1mkya2 c.37.1.8 (A:173-358) Probable GTPase Der, N-terminal and middle domains {Thermotoga maritima [TaxId: 2336]} 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: Probable GTPase Der, N-terminal and middle domains
species: Thermotoga maritima [TaxId: 2336]

 Score = 35.8 bits (81), Expect = 9e-05
 Identities = 11/30 (36%), Positives = 14/30 (46%)

Query: 13 FKVVLIGDSGVGKSNLLSRFTRNEFCLESK 42
           KV ++G   VGKS L +     E  L S 
Sbjct: 9  IKVAIVGRPNVGKSTLFNAILNKERALVSP 38

>d1tq4a_ c.37.1.8 (A:) Interferon-inducible GTPase {Mouse (Mus musculus) [TaxId: 10090]} Length = 400

class: 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]

 Score = 35.9 bits (82), Expect = 1e-04
 Identities = 11/56 (19%), Positives = 22/56 (39%)

Query: 13  FKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQVTNFSSFTSLHFY 68
             V + G++G GKS+ ++         E  +  GV   T         +  ++ F+
Sbjct: 57  LNVAVTGETGSGKSSFINTLRGIGNEEEGAAKTGVVEVTMERHPYKHPNIPNVVFW 112

>d1mkya1 c.37.1.8 (A:2-172) Probable GTPase Der, N-terminal and middle domains {Thermotoga maritima [TaxId: 2336]} 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: Probable GTPase Der, N-terminal and middle domains
species: Thermotoga maritima [TaxId: 2336]

 Score = 35.1 bits (79), Expect = 2e-04
 Identities = 7/28 (25%), Positives = 15/28 (53%)

Query: 15 VVLIGDSGVGKSNLLSRFTRNEFCLESK 42
          V+++G   VGKS L ++  + +  +   
Sbjct: 3  VLIVGRPNVGKSTLFNKLVKKKKAIVED 30

>d1xzpa2 c.37.1.8 (A:212-371) TrmE GTPase domain {Thermotoga maritima [TaxId: 2336]} 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: TrmE GTPase domain
species: Thermotoga maritima [TaxId: 2336]

 Score = 34.6 bits (78), Expect = 2e-04
 Identities = 9/28 (32%), Positives = 17/28 (60%)

Query: 14 KVVLIGDSGVGKSNLLSRFTRNEFCLES 41
          ++V++G   VGKS LL+R    +  + +
Sbjct: 2  RMVIVGKPNVGKSTLLNRLLNEDRAIVT 29

>d1udxa2 c.37.1.8 (A:157-336) Obg GTP-binding protein middle domain {Thermus thermophilus [TaxId: 274]} Length = 180

class: 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]

 Score = 34.6 bits (78), Expect = 2e-04
 Identities = 13/49 (26%), Positives = 21/49 (42%)

Query: 15 VVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQVTNFSSFT 63
          V L+G    GKS+LL+  TR    +       +      ++V+    FT
Sbjct: 4  VGLVGYPNAGKSSLLAAMTRAHPKIAPYPFTTLSPNLGVVEVSEEERFT 52

>d2cxxa1 c.37.1.8 (A:2-185) GTP-binding protein engB {Pyrococcus horikoshii [TaxId: 53953]} 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: GTP-binding protein engB
species: Pyrococcus horikoshii [TaxId: 53953]

 Score = 32.7 bits (73), Expect = 0.001
 Identities = 9/31 (29%), Positives = 15/31 (48%)

Query: 15 VVLIGDSGVGKSNLLSRFTRNEFCLESKSTI 45
          ++  G S VGKS L+ R T  +     +  +
Sbjct: 3  IIFAGRSNVGKSTLIYRLTGKKVRRGKRPGV 33

>d1egaa1 c.37.1.8 (A:4-182) GTPase Era, N-terminal domain {Escherichia coli [TaxId: 562]} 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: GTPase Era, N-terminal domain
species: Escherichia coli [TaxId: 562]

 Score = 32.4 bits (72), Expect = 0.002
 Identities = 8/28 (28%), Positives = 16/28 (57%)

Query: 15 VVLIGDSGVGKSNLLSRFTRNEFCLESK 42
          + ++G   VGKS LL++    +  + S+
Sbjct: 8  IAIVGRPNVGKSTLLNKLLGQKISITSR 35

>d1lnza2 c.37.1.8 (A:158-342) Obg GTP-binding protein middle domain {Bacillus subtilis [TaxId: 1423]} 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: Obg GTP-binding protein middle domain
species: Bacillus subtilis [TaxId: 1423]

 Score = 32.2 bits (72), Expect = 0.002
 Identities = 12/49 (24%), Positives = 20/49 (40%)

Query: 15 VVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQVTNFSSFT 63
          V L+G   VGKS LLS  +  +  +       +      ++  +  SF 
Sbjct: 4  VGLVGFPSVGKSTLLSVVSSAKPKIADYHFTTLVPNLGMVETDDGRSFV 52

>d1svia_ c.37.1.8 (A:) Probable GTPase EngB {Bacillus subtilis [TaxId: 1423]} 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: Probable GTPase EngB
species: Bacillus subtilis [TaxId: 1423]

 Score = 32.0 bits (71), Expect = 0.002
 Identities = 8/25 (32%), Positives = 14/25 (56%)

Query: 12 LFKVVLIGDSGVGKSNLLSRFTRNE 36
          L ++ L G S VGKS+ ++     +
Sbjct: 23 LPEIALAGRSNVGKSSFINSLINRK 47

>d1ye8a1 c.37.1.11 (A:1-178) Hypothetical kinase-like protein Aq_1292 {Aquifex aeolicus [TaxId: 63363]} Length = 178

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]

 Score = 31.9 bits (71), Expect = 0.003
 Identities = 7/16 (43%), Positives = 13/16 (81%)

Query: 14 KVVLIGDSGVGKSNLL 29
          K+++ G+ GVGK+ L+
Sbjct: 2  KIIITGEPGVGKTTLV 17

Homologous Domains Detected by HHsearch

Original result of HHsearch against SCOP70(version1.75) database

ID	Length	Definition	Probability
Query	68
d2ew1a1	171	Rab30 {Human (Homo sapiens) [TaxId: 9606]}	99.69
d3raba_	169	Rab3a {Rat (Rattus norvegicus) [TaxId: 10116]}	99.68
d1z08a1	167	Rab21 {Human (Homo sapiens) [TaxId: 9606]}	99.67
d1z0fa1	166	Rab14 {Human (Homo sapiens) [TaxId: 9606]}	99.67
d2atva1	168	Ras-like estrogen-regulated growth inhibitor, RERG	99.66
d1ek0a_	170	Ypt51 {Baker's yeast (Saccharomyces cerevisiae) [T	99.66
d2atxa1	185	RhoQ {Human (Homo sapiens) [TaxId: 9606]}	99.65
d1xtqa1	167	GTP-binding protein RheB {Human (Homo sapiens) [Ta	99.65
d1i2ma_	170	Ran {Human (Homo sapiens) [TaxId: 9606]}	99.65
d1u8za_	168	Ras-related protein RalA {Cotton-top tamarin (Sagu	99.65
d2bcgy1	194	GTPase Ytp1 {Baker's yeast (Saccharomyces cerevisi	99.64
d2bmea1	174	Rab4a {Human (Homo sapiens) [TaxId: 9606]}	99.64
d2fn4a1	173	r-Ras {Human (Homo sapiens) [TaxId: 9606]}	99.63
d2fu5c1	173	Rab8a {Mouse (Mus musculus) [TaxId: 10090]}	99.63
d2erxa1	171	di-Ras2 {Human (Homo sapiens) [TaxId: 9606]}	99.63
d1c1ya_	167	Rap1A {Human (Homo sapiens) [TaxId: 9606]}	99.62
d1g16a_	166	Rab-related protein Sec4 {Baker's yeast (Saccharom	99.62
d2f9la1	175	Rab11b {Human (Homo sapiens) [TaxId: 9606]}	99.62
d1mh1a_	183	Rac {Human (Homo sapiens) [TaxId: 9606]}	99.61
d1z2aa1	164	Rab23 {Mouse (Mus musculus) [TaxId: 10090]}	99.61
d1x1ra1	169	Ras-related protein M-Ras (XRas) {Mouse (Mus muscu	99.6
d1yzqa1	164	Rab6 {Human (Homo sapiens) [TaxId: 9606]}	99.6
d2g6ba1	170	Rab26 {Human (Homo sapiens) [TaxId: 9606]}	99.6
d1kaoa_	167	Rap2a {Human (Homo sapiens) [TaxId: 9606]}	99.6
d2erya1	171	r-Ras2 {Human (Homo sapiens) [TaxId: 9606]}	99.6
d1ctqa_	166	cH-p21 Ras protein {Human (Homo sapiens) [TaxId: 9	99.59
d2ngra_	191	CDC42 {Human (Homo sapiens) [TaxId: 9606]}	99.58
d1kmqa_	177	RhoA {Human (Homo sapiens) [TaxId: 9606]}	99.58
d1r2qa_	170	Rab5a {Human (Homo sapiens) [TaxId: 9606]}	99.57
d1z0ja1	167	Rab-22a {Mouse (Mus musculus) [TaxId: 10090]}	99.57
d1m7ba_	179	RhoE (RND3) {Mouse (Mus musculus) [TaxId: 10090]}	99.57
d1wmsa_	174	Rab9a {Human (Homo sapiens) [TaxId: 9606]}	99.57
d2f7sa1	186	Rab27b {Human (Homo sapiens) [TaxId: 9606]}	99.57
d1vg8a_	184	Rab7 {Rat (Rattus norvegicus) [TaxId: 10116]}	99.56
d1x3sa1	177	Rab18 {Human (Homo sapiens) [TaxId: 9606]}	99.56
d2a5ja1	173	Rab2b {Human (Homo sapiens) [TaxId: 9606]}	99.55
d1z06a1	165	Rab-33b {Mouse (Mus musculus) [TaxId: 10090]}	99.53
d2g3ya1	172	GTP-binding protein GEM {Human (Homo sapiens) [Tax	99.48
d2bmja1	175	Centaurin gamma 1, G domain {Human (Homo sapiens)	99.47
d1ky3a_	175	Rab-related protein ypt7p {Baker's yeast (Saccharo	99.44
d2gjsa1	168	Rad {Human (Homo sapiens) [TaxId: 9606]}	99.44
d1zd9a1	164	ADP-ribosylation factor {Human (Homo sapiens), ARL	99.4
d2bcjq2	200	Transducin (alpha subunit) {Mouse (Mus musculus) [	99.38
d1zcba2	200	Transducin (alpha subunit) {Mouse (Mus musculus) [	99.34
d1ksha_	165	ADP-ribosylation factor {Mouse (Mus musculus), ARL	99.21
d1fzqa_	176	ADP-ribosylation factor {Mouse (Mus musculus), ARL	99.19
d1svsa1	195	Transducin (alpha subunit) {Rat (Rattus norvegicus	99.18
d1azta2	221	Transducin (alpha subunit) {Cow (Bos taurus) [TaxI	99.13
d1upta_	169	ADP-ribosylation factor {Human (Homo sapiens), ARL	99.06
d1r8sa_	160	ADP-ribosylation factor {Human (Homo sapiens), ARF	99.04
d2qtvb1	166	SAR1 {Baker's yeast (Saccharomyces cerevisiae) [Ta	99.02
d1moza_	182	ADP-ribosylation factor {Baker's yeast (Saccharomy	99.0
d1f6ba_	186	SAR1 {Chinese hamster (Cricetulus griseus) [TaxId:	98.98
d1e0sa_	173	ADP-ribosylation factor {Human (Homo sapiens), ARF	98.97
d2fh5b1	207	Signal recognition particle receptor beta-subunit	98.89
d2gj8a1	161	Probable tRNA modification GTPase TrmE (MnmE), G d	98.84
d1nrjb_	209	Signal recognition particle receptor beta-subunit	98.79
d1zj6a1	177	ADP-ribosylation factor {Human (Homo sapiens), ARL	98.79
d1puia_	188	Probable GTPase EngB {Escherichia coli [TaxId: 562	98.71
d1mkya2	186	Probable GTPase Der, N-terminal and middle domains	98.67
d1wf3a1	178	GTPase Era, N-terminal domain {Thermus thermophilu	98.65
d1xzpa2	160	TrmE GTPase domain {Thermotoga maritima [TaxId: 23	98.6
d1udxa2	180	Obg GTP-binding protein middle domain {Thermus the	98.6
d1lnza2	185	Obg GTP-binding protein middle domain {Bacillus su	98.57
d1egaa1	179	GTPase Era, N-terminal domain {Escherichia coli [T	98.53
d1svia_	195	Probable GTPase EngB {Bacillus subtilis [TaxId: 14	98.5
d1ye8a1	178	Hypothetical kinase-like protein Aq_1292 {Aquifex	98.5
d1mkya1	171	Probable GTPase Der, N-terminal and middle domains	98.37
d2cxxa1	184	GTP-binding protein engB {Pyrococcus horikoshii [T	98.34
d1h65a_	257	Chloroplast protein translocon GTPase Toc34 {Garde	98.31
d1lw7a2	192	Transcriptional regulator NadR, ribosylnicotinamid	98.3
d1rkba_	173	Adenylate kinase {Human (Homo sapiens), isoenzyme	98.2
d1mv5a_	242	Multidrug resistance ABC transporter LmrA, C-termi	98.16
d2awna2	232	Maltose transport protein MalK, N-terminal domain	98.16
d1sgwa_	200	Putative ABC transporter PF0895 {Pyrococcus furios	98.14
d1l2ta_	230	MJ0796 {Archaeon Methanococcus jannaschii [TaxId:	98.14
d1y63a_	174	Probable kinase LmjF30.1890 {Leishmania major [Tax	98.14
d1tq4a_	400	Interferon-inducible GTPase {Mouse (Mus musculus)	98.13
d1u0la2	225	Probable GTPase EngC (YjeQ), C-terminal domain {Th	98.11
d2pmka1	241	Haemolysin B ATP-binding protein {Escherichia coli	98.11
d1v43a3	239	Hypothetical protein PH0022, N-terminal domain {Py	98.1
d2onka1	240	Molybdate/tungstate import ATP-binding protein Wtp	98.09
d1jj7a_	251	Peptide transporter Tap1, C-terminal ABC domain {H	98.09
d3d31a2	229	Sulfate/molybdate ABC transporter, ATP-binding pro	98.08
d3b60a1	253	Multidrug resistance ABC transporter MsbA, C-termi	98.07
d1g2912	240	Maltose transport protein MalK, N-terminal domain	98.04
d1np6a_	170	Molybdopterin-guanine dinucleotide biosynthesis pr	98.04
d1kaga_	169	Shikimate kinase (AroK) {Escherichia coli [TaxId:	98.03
d3dhwc1	240	Methionine import ATP-binding protein MetN {Escher	98.02
d1kgda_	178	Guanylate kinase-like domain of Cask {Human (Homo	98.02
d1vpla_	238	Putative ABC transporter TM0544 {Thermotoga mariti	98.02
d1r0wa_	281	Cystic fibrosis transmembrane conductance regulato	98.01
d1ji0a_	240	Branched chain aminoacid ABC transporter {Thermoto	97.99
d2ak3a1	189	Adenylate kinase {Cow (Bos taurus), mitochondrial	97.99
d1zina1	182	Adenylate kinase {Bacillus stearothermophilus [Tax	97.99
d1wb1a4	179	Elongation factor SelB, N-terminal domain {Methano	97.97
d1t9ha2	231	Probable GTPase EngC (YjeQ), C-terminal domain {Ba	97.97
d1gkya_	186	Guanylate kinase {Baker's yeast (Saccharomyces cer	97.96
d2akab1	299	Dynamin G domain {Rat (Rattus norvegicus) [TaxId:	97.95
d2cdna1	181	Adenylate kinase {Mycobacterium tuberculosis [TaxI	97.94
d1oxxk2	242	Glucose transport protein GlcV, N-terminal domain	97.93
d1zaka1	189	Adenylate kinase {Maize (Zea mays) [TaxId: 4577]}	97.92
d2hyda1	255	Putative multidrug export ATP-binding/permease pro	97.92
d1s3ga1	182	Adenylate kinase {Bacillus globisporus [TaxId: 145	97.92
d2bdta1	176	Hypothetical protein BH3686 {Bacillus halodurans [	97.92
d1ly1a_	152	Polynucleotide kinase, kinase domain {Bacteriophag	97.92
d1akya1	180	Adenylate kinase {Baker's yeast (Saccharomyces cer	97.92
d2i3ba1	189	Cancer-related NTPase, C1orf57 {Human (Homo sapien	97.91
d1znwa1	182	Guanylate kinase {Mycobacterium tuberculosis [TaxI	97.91
d1ak2a1	190	Adenylate kinase {Cow (Bos taurus), mitochondrial	97.89
d1g6ha_	254	MJ1267 {Archaeon Methanococcus jannaschii [TaxId:	97.89
d1lvga_	190	Guanylate kinase {Mouse (Mus musculus) [TaxId: 100	97.89
d1b0ua_	258	ATP-binding subunit of the histidine permease {Sal	97.88
d1s96a_	205	Guanylate kinase {Escherichia coli [TaxId: 562]}	97.87
d2iyva1	165	Shikimate kinase (AroK) {Mycobacterium tuberculosi	97.85
d1jwyb_	306	Dynamin G domain {Dictyostelium discoideum [TaxId:	97.85
d1e4va1	179	Adenylate kinase {Escherichia coli [TaxId: 562]}	97.85
d1qf9a_	194	UMP/CMP kinase {Dictyostelium discoideum [TaxId: 4	97.83
d1puja_	273	Probable GTPase YlqF {Bacillus subtilis [TaxId: 14	97.8
d1teva_	194	UMP/CMP kinase {Human (Homo sapiens) [TaxId: 9606]	97.79
d1l7vc_	231	ABC transporter involved in vitamin B12 uptake, Bt	97.77
d1xjca_	165	Molybdopterin-guanine dinucleotide biosynthesis pr	97.75
d1knqa_	171	Gluconate kinase {Escherichia coli [TaxId: 562]}	97.74
d1wxqa1	319	GTP-binding protein PH0525 {Pyrococcus horikoshii	97.73
d1jbka_	195	ClpB, AAA+ modules {Escherichia coli [TaxId: 562]}	97.72
d1zp6a1	176	Hypothetical protein Atu3015 {Agrobacterium tumefa	97.72
d1bifa1	213	6-phosphofructo-2-kinase/fructose-2,6-bisphosphata	97.71
d1jala1	278	YchF GTP-binding protein N-terminal domain {Haemop	97.71
d1nksa_	194	Adenylate kinase {Archaeon Sulfolobus acidocaldari	97.7
d1r6bx2	268	ClpA, an Hsp100 chaperone, AAA+ modules {Escherich	97.7
d1yrba1	244	ATP(GTP)-binding protein PAB0955 {Pyrococcus abyss	97.69
d1viaa_	161	Shikimate kinase (AroK) {Campylobacter jejuni [Tax	97.68
d1m8pa3	183	ATP sulfurylase C-terminal domain {Fungus (Penicil	97.68
d1yj5a2	172	5' polynucleotide kinase-3' phosphatase, C-termina	97.67
d1qhxa_	178	Chloramphenicol phosphotransferase {Streptomyces v	97.67
d1khta_	190	Adenylate kinase {Archaeon Methanococcus voltae [T	97.65
d1gvnb_	273	Plasmid maintenance system epsilon/zeta, toxin zet	97.65
d2fnaa2	283	Archaeal ATPase SSO1545 {Sulfolobus solfataricus [	97.61
d1ukza_	196	Uridylate kinase {Baker's yeast (Saccharomyces cer	97.61
d1ixsb2	239	Holliday junction helicase RuvB {Thermus thermophi	97.61
d1ni3a1	296	YchF GTP-binding protein N-terminal domain {Fissio	97.59
d1e6ca_	170	Shikimate kinase (AroK) {Erwinia chrysanthemi [Tax	97.58
d1in4a2	238	Holliday junction helicase RuvB {Thermotoga mariti	97.57
d1ofha_	309	HslU {Haemophilus influenzae [TaxId: 727]}	97.55
d1rz3a_	198	Hypothetical protein rbstp0775 {Bacillus stearothe	97.51
d1fnna2	276	CDC6, N-domain {Archaeon Pyrobaculum aerophilum [T	97.5
d1x6va3	195	Adenosine-5'phosphosulfate kinase (APS kinase) {Hu	97.5
d3adka_	194	Adenylate kinase {Pig (Sus scrofa) [TaxId: 9823]}	97.49
g1f2t.1	292	Rad50 {Archaeon Pyrococcus furiosus [TaxId: 2261]}	97.48
d2p67a1	327	LAO/AO transport system kinase ArgK {Escherichia c	97.47
d1sxja2	253	Replication factor C1 {Baker's yeast (Saccharomyce	97.47
d2vp4a1	197	Deoxyribonucleoside kinase {Fruit fly (Drosophila	97.46
d1g41a_	443	HslU {Haemophilus influenzae [TaxId: 727]}	97.45
d1vmaa2	213	GTPase domain of the signal recognition particle r	97.42
d1q3ta_	223	CMP kinase {Streptococcus pneumoniae [TaxId: 1313]	97.41
d1iqpa2	231	Replication factor C {Archaeon Pyrococcus furiosus	97.41
d1d2na_	246	Hexamerization domain of N-ethylmalemide-sensitive	97.41
d2qm8a1	323	Metallochaperone MeaB {Methylobacterium extorquens	97.37
d1qvra2	387	ClpB, AAA+ modules {Thermus thermophilus [TaxId: 2	97.33
d1w5sa2	287	CDC6-like protein APE0152, N-terminal domain {Aero	97.33
d1sxjd2	237	Replication factor C2 {Baker's yeast (Saccharomyce	97.3
d1uj2a_	213	Uridine-cytidine kinase 2 {Human (Homo sapiens) [T	97.29
d1okkd2	207	GTPase domain of the signal recognition particle r	97.28
g1ii8.1	369	Rad50 {Archaeon Pyrococcus furiosus [TaxId: 2261]}	97.28
d1kk1a3	195	Initiation factor eIF2 gamma subunit, N-terminal (	97.26
d1j8yf2	211	GTPase domain of the signal sequence recognition p	97.26
d1ls1a2	207	GTPase domain of the signal sequence recognition p	97.25
d2qy9a2	211	GTPase domain of the signal recognition particle r	97.25
d1g6oa_	323	Hexameric traffic ATPase, HP0525 {Helicobacter pyl	97.23
d1sxjb2	224	Replication factor C4 {Baker's yeast (Saccharomyce	97.23
d1ixza_	247	AAA domain of cell division protein FtsH {Thermus	97.22
d1qhla_	222	Cell division protein MukB {Escherichia coli [TaxI	97.21
d1sxje2	252	Replication factor C5 {Baker's yeast (Saccharomyce	97.19
d1um8a_	364	ClpX {Helicobacter pylori [TaxId: 210]}	97.19
d1n0wa_	242	DNA repair protein Rad51, catalytic domain {Human	97.18
d1ckea_	225	CMP kinase {Escherichia coli [TaxId: 562]}	97.17
d1g7sa4	227	Initiation factor IF2/eIF5b, N-terminal (G) domain	97.15
d1sxjc2	227	Replication factor C3 {Baker's yeast (Saccharomyce	97.15
d1lv7a_	256	AAA domain of cell division protein FtsH {Escheric	97.14
g1xew.1	329	Smc head domain {Pyrococcus furiosus [TaxId: 2261]	97.11
d1uf9a_	191	Dephospho-CoA kinase {Thermus thermophilus [TaxId:	97.1
d1e32a2	258	Membrane fusion ATPase VCP/p97 {Mouse (Mus musculu	97.09
d1e69a_	308	Smc head domain {Thermotoga maritima [TaxId: 2336]	97.06
d1r6bx3	315	ClpA, an Hsp100 chaperone, AAA+ modules {Escherich	97.04
d1pzna2	254	DNA repair protein Rad51, catalytic domain {Archae	97.03
d1kkma_	176	HPr kinase HprK C-terminal domain {Lactobacillus c	97.02
d1sq5a_	308	Pantothenate kinase PanK {Escherichia coli [TaxId:	97.01
d1gsia_	208	Thymidylate kinase {Mycobacterium tuberculosis [Ta	97.0
d1l8qa2	213	Chromosomal replication initiation factor DnaA {Aq	96.99
d1szpa2	251	DNA repair protein Rad51, catalytic domain {Baker'	96.98
d2qn6a3	205	Initiation factor eIF2 gamma subunit, N-terminal (	96.96
d1r7ra3	265	Membrane fusion ATPase VCP/p97 {Mouse (Mus musculu	96.94
d1w1wa_	427	Smc head domain {Baker's yeast (Saccharomyces cere	96.93
d1knxa2	177	HPr kinase HprK C-terminal domain {Mycoplasma pneu	96.9
d2c78a3	204	Elongation factor Tu (EF-Tu), N-terminal (G) domai	96.9
d1m7ga_	208	Adenosine-5'phosphosulfate kinase (APS kinase) {Fu	96.89
d1tf7a2	242	Circadian clock protein KaiC {Synechococcus sp. st	96.85
d2i1qa2	258	DNA repair protein Rad51, catalytic domain {Archae	96.85
d1htwa_	158	Hypothetical protein HI0065 {Haemophilus influenza	96.85
d2a5yb3	277	CED-4, NB-ARC domain {Caenorhabditis elegans [TaxI	96.85
d1v5wa_	258	Meiotic recombination protein DMC1/LIM15 homolog {	96.83
d1p5zb_	241	Deoxycytidine kinase {Human (Homo sapiens) [TaxId:	96.81
d1g8pa_	333	ATPase subunit of magnesium chelatase, BchI {Rhodo	96.8
d1ko7a2	169	HPr kinase HprK C-terminal domain {Staphylococcus	96.79
d1f5na2	277	Interferon-induced guanylate-binding protein 1 (GB	96.76
d4tmka_	210	Thymidylate kinase {Escherichia coli [TaxId: 562]}	96.58
d1jjva_	205	Dephospho-CoA kinase {Haemophilus influenzae [TaxI	96.58
d1tf7a1	242	Circadian clock protein KaiC {Synechococcus sp. st	96.56
d1vhta_	208	Dephospho-CoA kinase {Escherichia coli [TaxId: 562	96.55
d1w44a_	321	NTPase P4 {Bacteriophage phi-12 [TaxId: 161736]}	96.54
d1d2ea3	196	Elongation factor Tu (EF-Tu), N-terminal (G) domai	96.5
d1nija1	222	Hypothetical protein YjiA, N-terminal domain {Esch	96.48
d1odfa_	286	Hypothetical protein Ygr205W {Baker's yeast (Sacch	96.46
d1zunb3	222	Sulfate adenylate transferase subunit cysN/C, EF-T	96.46
d1svma_	362	Papillomavirus large T antigen helicase domain {Si	96.43
d1a5ta2	207	delta prime subunit of DNA polymerase III, N-domai	96.43
d1nn5a_	209	Thymidylate kinase {Human (Homo sapiens) [TaxId: 9	96.43
d1a7ja_	288	Phosphoribulokinase {Rhodobacter sphaeroides [TaxI	96.41
d1p6xa_	333	Thymidine kinase {Equine herpesvirus type 4 [TaxId	96.37
d1njfa_	239	delta prime subunit of DNA polymerase III, N-domai	96.34
d2ocpa1	241	Deoxyguanosine kinase {Human (Homo sapiens) [TaxId	96.32
d1cr2a_	277	Gene 4 protein (g4p, DNA primase), helicase domain	96.32
d1xpua3	289	Transcription termination factor Rho, ATPase domai	96.31
d1nlfa_	274	Hexameric replicative helicase repA {Escherichia c	96.29
d1e2ka_	329	Thymidine kinase {Herpes simplex virus type 1, dif	96.27
d1qvra3	315	ClpB, AAA+ modules {Thermus thermophilus [TaxId: 2	96.25
d2dy1a2	267	Elongation factor G (EF-G), N-terminal (G) domain	96.1
d1tmka_	214	Thymidylate kinase {Baker's yeast (Saccharomyces c	96.04
d1e9ra_	433	Bacterial conjugative coupling protein TrwB {Esche	96.01
d1osna_	331	Thymidine kinase {Varicella-zoster virus [TaxId: 1	95.89
d2bv3a2	276	Elongation factor G (EF-G), N-terminal (G) domain	95.82
d1p9ra_	401	Extracellular secretion NTPase EpsE {Vibrio choler	95.77
d1pjra1	318	DEXX box DNA helicase {Bacillus stearothermophilus	95.74
d1uaaa1	306	DEXX box DNA helicase {Escherichia coli, RepD [Tax	95.65
d2jdid3	276	Central domain of beta subunit of F1 ATP synthase	95.57
d1jnya3	224	Elongation factor eEF-1alpha, N-terminal (G) domai	95.44
d1f60a3	239	Elongation factor eEF-1alpha, N-terminal (G) domai	95.36
d1byia_	224	Dethiobiotin synthetase {Escherichia coli [TaxId:	95.34
d1cp2a_	269	Nitrogenase iron protein {Clostridium pasteurianum	95.21
d1deka_	241	Deoxynucleoside monophosphate kinase {Bacteriophag	95.08
d1n0ua2	341	Elongation factor 2 (eEF-2), N-terminal (G) domain	95.07
d1u94a1	263	RecA protein, ATPase-domain {Escherichia coli [Tax	94.97
d1ihua1	296	Arsenite-translocating ATPase ArsA {Escherichia co	94.84
d1r5ba3	245	Eukaryotic peptide chain release factor ERF2, G do	94.73
d1ny5a2	247	Transcriptional activator sigm54 (NtrC1), C-termin	94.72
d1tuea_	205	Replication protein E1 helicase domain {Human papi	94.66
d1wb9a2	234	DNA repair protein MutS, the C-terminal domain {Es	94.47
d2afhe1	289	Nitrogenase iron protein {Azotobacter vinelandii [	94.47
d1ihua2	279	Arsenite-translocating ATPase ArsA {Escherichia co	94.46
d1ewqa2	224	DNA repair protein MutS, the C-terminal domain {Th	94.21
d2jdia3	285	Central domain of alpha subunit of F1 ATP synthase	94.14
d1w36d1	359	Exodeoxyribonuclease V alpha chain (RecD) {Escheri	94.11
d1u0ja_	267	Rep 40 protein helicase domain {Adeno-associated v	94.05
d1c9ka_	180	Adenosylcobinamide kinase/adenosylcobinamide phosp	93.78
d1fx0a3	276	Central domain of alpha subunit of F1 ATP synthase	93.25
d1mo6a1	269	RecA protein, ATPase-domain {Mycobacterium tubercu	93.19
d2olra1	313	Phosphoenolpyruvate (PEP) carboxykinase (ATP-oxalo	92.91
d1g8fa3	122	ATP sulfurylase C-terminal domain {Baker's yeast (	92.79
d1xp8a1	268	RecA protein, ATPase-domain {Deinococcus radiodura	92.78
d1lkxa_	684	Myosin S1, motor domain {Dictyostelium discoideum,	92.73
d1j3ba1	318	Phosphoenolpyruvate (PEP) carboxykinase (ATP-oxalo	92.56
d1d0xa2	712	Myosin S1, motor domain {Dictyostelium discoideum	92.5
g1qhh.1	623	DEXX box DNA helicase {Bacillus stearothermophilus	92.33
d1ii2a1	323	Phosphoenolpyruvate (PEP) carboxykinase (ATP-oxalo	92.29
d1br2a2	710	Myosin S1, motor domain {Chicken (Gallus gallus),	92.26
d1a1va1	136	HCV helicase domain {Human hepatitis C virus (HCV)	92.12
d2mysa2	794	Myosin S1, motor domain {Chicken (Gallus gallus),	91.81
d1kk8a2	789	Myosin S1, motor domain {Bay scallop (Aequipecten	91.64
d1w7ja2	730	Myosin S1, motor domain {Chicken (Gallus gallus),	91.13
d2gnoa2	198	gamma subunit of DNA polymerase III, N-domain {The	91.09
d1hyqa_	232	Cell division regulator MinD {Archaeon Archaeoglob	90.05
d1g3qa_	237	Cell division regulator MinD {Archaeon Pyrococcus	89.84
d1wp9a1	200	putative ATP-dependent RNA helicase PF2015 {Pyroco	89.62
d1xbta1	133	Thymidine kinase, TK1, N-terminal domain {Human (H	89.61
d1xx6a1	141	Thymidine kinase, TK1, N-terminal domain {Clostrid	88.28
d2p6ra3	202	Hel308 helicase {Archaeoglobus fulgidus [TaxId: 22	87.36
d2b8ta1	139	Thymidine kinase, TK1, N-terminal domain {Ureaplas	86.67
d2eyqa3	233	Transcription-repair coupling factor, TRCF {Escher	85.9
d1gm5a3	264	RecG helicase domain {Thermotoga maritima [TaxId:	85.0
d1yksa1	140	YFV helicase domain {Yellow fever virus [TaxId: 11	84.39
d1p3da1	96	UDP-N-acetylmuramate-alanine ligase MurC {Haemophi	84.12
d1w36b1	485	Exodeoxyribonuclease V beta chain (RecB), N-termin	82.93
d2fz4a1	206	DNA repair protein RAD25 {Archaeoglobus fulgidus [	82.73

>d2ew1a1 c.37.1.8 (A:4-174) Rab30 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab30
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.69  E-value=8e-17  Score=85.25  Aligned_cols=59  Identities=42%  Similarity=0.799  Sum_probs=53.5

Q ss_pred             CCceeeEEEEECCCCChHHHHHHHHhcCcCcCCCccceeeEeEEEEEEECCeEEEEEEEeC
Q 035301            8 EYDYLFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQVTNFSSFTSLHFY   68 (68)
Q Consensus         8 ~~~~~~ki~~iG~~~vGKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~~w   68 (68)
                      ++++.+|++++|+++||||||+++++++.|...+.++.+.++..+.+.+++..+  ++.+|
T Consensus         1 ~~~~~~Ki~lvG~~~vGKTsLi~~l~~~~f~~~~~~~~~~~~~~~~~~~~~~~~--~l~i~   59 (171)
T d2ew1a1           1 DYDFLFKIVLIGNAGVGKTCLVRRFTQGLFPPGQGATIGVDFMIKTVEINGEKV--KLQIW   59 (171)
T ss_dssp             CCSEEEEEEEEESTTSSHHHHHHHHHHSSCCTTCCCCCSEEEEEEEEEETTEEE--EEEEE
T ss_pred             CCCEEEEEEEECCCCcCHHHHHHHHHhCCCCCcccccccceEEEEEEEECCEEE--EEEEE
Confidence            468899999999999999999999999999999999999999999999999885  56666

>d3raba_ c.37.1.8 (A:) Rab3a {Rat (Rattus norvegicus) [TaxId: 10116]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab3a
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=99.68  E-value=1.9e-16  Score=83.68  Aligned_cols=59  Identities=32%  Similarity=0.703  Sum_probs=52.9

Q ss_pred             CCceeeEEEEECCCCChHHHHHHHHhcCcCcCCCccceeeEeEEEEEEECCeEEEEEEEeC
Q 035301            8 EYDYLFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQVTNFSSFTSLHFY   68 (68)
Q Consensus         8 ~~~~~~ki~~iG~~~vGKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~~w   68 (68)
                      ++++.+||+++|++|||||||++++.++.|...+.++.+.++..+.+..++..+  ++++|
T Consensus         1 ~~~~~~Ki~vvG~~~vGKTsLi~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~l~~w   59 (169)
T d3raba_           1 NFDYMFKILIIGNSSVGKTSFLFRYADDSFTPAFVSTVGIDFKVKTIYRNDKRI--KLQIW   59 (169)
T ss_dssp             CCSEEEEEEEECSTTSSHHHHHHHHHHSCCCSSCCCCCSEEEEEEEEEETTEEE--EEEEE
T ss_pred             CCCeEEEEEEECCCCcCHHHHHHHHHcCCCCcccccccccceeeEEEEeecceE--EEEEE
Confidence            367899999999999999999999999999999999999998888888888875  67777

>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=99.67  E-value=1.1e-16  Score=84.39  Aligned_cols=57  Identities=35%  Similarity=0.630  Sum_probs=51.2

Q ss_pred             ceeeEEEEECCCCChHHHHHHHHhcCcCcCCCccceeeEeEEEEEEECCeEEEEEEEeC
Q 035301           10 DYLFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQVTNFSSFTSLHFY   68 (68)
Q Consensus        10 ~~~~ki~~iG~~~vGKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~~w   68 (68)
                      .+.|||+++|++|||||||++++.++.|.+.+.||.+.++..+.+..++...  .+++|
T Consensus         1 ~y~fKivlvG~~~vGKTsLi~r~~~~~f~~~~~~t~~~~~~~~~~~~~~~~~--~~~~~   57 (167)
T d1z08a1           1 AYSFKVVLLGEGCVGKTSLVLRYCENKFNDKHITTLGASFLTKKLNIGGKRV--NLAIW   57 (167)
T ss_dssp             CEEEEEEEECCTTSCHHHHHHHHHHCCCCSSCCCCCSCEEEEEEEESSSCEE--EEEEE
T ss_pred             CceEEEEEECCCCcCHHHHHHHHHhCCCCcccccccccchheeeeccCCccc--eeeee
Confidence            3689999999999999999999999999999999999999888888888875  56666

>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=99.67  E-value=1.7e-16  Score=83.67  Aligned_cols=58  Identities=47%  Similarity=0.840  Sum_probs=52.3

Q ss_pred             CceeeEEEEECCCCChHHHHHHHHhcCcCcCCCccceeeEeEEEEEEECCeEEEEEEEeC
Q 035301            9 YDYLFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQVTNFSSFTSLHFY   68 (68)
Q Consensus         9 ~~~~~ki~~iG~~~vGKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~~w   68 (68)
                      +++.+||+++|+++||||||++++.++.|...+.++.+.++..+.+.+++..+  .+++|
T Consensus         1 ~~y~~KivlvG~~~vGKTsli~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~l~i~   58 (166)
T d1z0fa1           1 YSYIFKYIIIGDMGVGKSCLLHQFTEKKFMADCPHTIGVEFGTRIIEVSGQKI--KLQIW   58 (166)
T ss_dssp             CSEEEEEEEECSTTSSHHHHHHHHHHSCCCSSCTTSCCCCEEEEEEEETTEEE--EEEEE
T ss_pred             CcEEEEEEEECCCCcCHHHHHHHHHhCCCCCcccccccccceeEEEEECCEEE--EEEEe
Confidence            46889999999999999999999999999999999999999889999999886  56665

>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=99.66  E-value=2.3e-16  Score=83.36  Aligned_cols=54  Identities=26%  Similarity=0.450  Sum_probs=47.2

Q ss_pred             eeEEEEECCCCChHHHHHHHHhcCcCcCCCccceeeEeEEEEEEECCeEEEEEEEeC
Q 035301           12 LFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQVTNFSSFTSLHFY   68 (68)
Q Consensus        12 ~~ki~~iG~~~vGKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~~w   68 (68)
                      .+||+++|++|||||||+++++++.|.+.+.||++.+| .+.+..++..+  .+++|
T Consensus         2 eiKi~lvG~~~vGKTsli~r~~~~~f~~~~~pTi~~~~-~~~~~~~~~~~--~l~i~   55 (168)
T d2atva1           2 EVKLAIFGRAGVGKSALVVRFLTKRFIWEYDPTLESTY-RHQATIDDEVV--SMEIL   55 (168)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHHSCCCSCCCTTCCEEE-EEEEEETTEEE--EEEEE
T ss_pred             cEEEEEECCCCCCHHHHHHHHHhCCCCCccCCceeccc-cccccccccce--EEEEe
Confidence            47999999999999999999999999999999999988 45566788775  67777

>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=99.66  E-value=3e-16  Score=82.86  Aligned_cols=56  Identities=30%  Similarity=0.621  Sum_probs=50.8

Q ss_pred             eeeEEEEECCCCChHHHHHHHHhcCcCcCCCccceeeEeEEEEEEECCeEEEEEEEeC
Q 035301           11 YLFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQVTNFSSFTSLHFY   68 (68)
Q Consensus        11 ~~~ki~~iG~~~vGKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~~w   68 (68)
                      ..+||+++|+++||||||++++.+++|.+.+.+|.+.++..+.+..++..+  .+++|
T Consensus         2 ~~iKi~vvG~~~vGKTsLi~~~~~~~f~~~~~~t~~~~~~~~~i~~~~~~~--~l~i~   57 (170)
T d1ek0a_           2 TSIKLVLLGEAAVGKSSIVLRFVSNDFAENKEPTIGAAFLTQRVTINEHTV--KFEIW   57 (170)
T ss_dssp             EEEEEEEECSTTSSHHHHHHHHHHSCCCTTCCCCSSEEEEEEEEEETTEEE--EEEEE
T ss_pred             cEEEEEEECCCCcCHHHHHHHHHhCCCCccccccccceeeccccccccccc--ccccc
Confidence            368999999999999999999999999999999999999889999998886  56666

>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=99.65  E-value=2e-16  Score=84.77  Aligned_cols=58  Identities=26%  Similarity=0.333  Sum_probs=50.1

Q ss_pred             CCceeeEEEEECCCCChHHHHHHHHhcCcCcCCCccceeeEeEEEEEEECCeEEEEEEEeC
Q 035301            8 EYDYLFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQVTNFSSFTSLHFY   68 (68)
Q Consensus         8 ~~~~~~ki~~iG~~~vGKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~~w   68 (68)
                      .....+||+++|+++||||||+++++.+.|.+.+.||++. +..+.+.+++..+  ++++|
T Consensus         5 ~~~~~~Ki~lvG~~~vGKTsLi~r~~~~~f~~~~~~Ti~~-~~~~~~~~~~~~~--~l~i~   62 (185)
T d2atxa1           5 PGALMLKCVVVGDGAVGKTCLLMSYANDAFPEEYVPTVFD-HYAVSVTVGGKQY--LLGLY   62 (185)
T ss_dssp             CEEEEEEEEEEECTTSSHHHHHHHHHHSSCCCSCCCSSCC-CEEEEEESSSCEE--EEEEE
T ss_pred             CCCcEEEEEEECCCCCCHHHHHHHHhhCCCCCcCCCceee-eeeEEEeeCCceE--Eeecc
Confidence            4567899999999999999999999999999999999974 4578888888875  67776

>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=99.65  E-value=4.1e-16  Score=82.13  Aligned_cols=56  Identities=27%  Similarity=0.373  Sum_probs=49.4

Q ss_pred             ceeeEEEEECCCCChHHHHHHHHhcCcCcCCCccceeeEeEEEEEEECCeEEEEEEEeC
Q 035301           10 DYLFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQVTNFSSFTSLHFY   68 (68)
Q Consensus        10 ~~~~ki~~iG~~~vGKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~~w   68 (68)
                      ...+||+++|+++||||||++++.++.|.+.+.||++.++ .+.+.+++..+  .+++|
T Consensus         2 ~k~~Kv~liG~~~vGKTsLl~~~~~~~f~~~~~~t~~~~~-~~~~~~~~~~~--~l~i~   57 (167)
T d1xtqa1           2 SKSRKIAILGYRSVGKSSLTIQFVEGQFVDSYDPTIENTF-TKLITVNGQEY--HLQLV   57 (167)
T ss_dssp             CEEEEEEEEESTTSSHHHHHHHHHHSCCCSCCCSSCCEEE-EEEEEETTEEE--EEEEE
T ss_pred             CcceEEEEECCCCcCHHHHHHHHHhCCCCcccCcceeccc-ceEEecCcEEE--Eeeec
Confidence            3468999999999999999999999999999999999887 68889999886  56665

>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=99.65  E-value=4.9e-17  Score=86.21  Aligned_cols=56  Identities=29%  Similarity=0.492  Sum_probs=46.1

Q ss_pred             eeeEEEEECCCCChHHHHHHHHhcCcCcCCCccceeeEeEEEEEEECCeEEEEEEEeC
Q 035301           11 YLFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQVTNFSSFTSLHFY   68 (68)
Q Consensus        11 ~~~ki~~iG~~~vGKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~~w   68 (68)
                      .+||++++|+++||||||+++++++.|...+.||++.++..+.+..++..+  .+.+|
T Consensus         2 ~~~Ki~vvG~~~vGKTsli~~~~~~~f~~~~~~Ti~~~~~~~~~~~~~~~~--~l~i~   57 (170)
T d1i2ma_           2 VQFKLVLVGDGGTGKTTFVKRHLTGEFEKKYVATLGVEVHPLVFHTNRGPI--KFNVW   57 (170)
T ss_dssp             EEEEEEEEECTTSSHHHHHHTTC-----CCEEEETTEEEEEEEECBTTCCE--EEEEE
T ss_pred             eeEEEEEECCCCcCHHHHHHHHHhCCCCcccccceeccccccccccccccc--ccccc
Confidence            478999999999999999999999999999999999999888888888875  66776

>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=99.65  E-value=4.4e-16  Score=82.33  Aligned_cols=55  Identities=25%  Similarity=0.448  Sum_probs=48.5

Q ss_pred             eeeEEEEECCCCChHHHHHHHHhcCcCcCCCccceeeEeEEEEEEECCeEEEEEEEeC
Q 035301           11 YLFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQVTNFSSFTSLHFY   68 (68)
Q Consensus        11 ~~~ki~~iG~~~vGKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~~w   68 (68)
                      ..+||+++|+++||||||+++++.+.|.+.+.||++.++ .+.+.+++..+  .+++|
T Consensus         3 ~~~KivlvG~~~vGKTsli~~~~~~~f~~~~~~T~~~~~-~~~~~~~~~~~--~l~i~   57 (168)
T d1u8za_           3 ALHKVIMVGSGGVGKSALTLQFMYDEFVEDYEPTKADSY-RKKVVLDGEEV--QIDIL   57 (168)
T ss_dssp             CEEEEEEECSTTSSHHHHHHHHHHSCCCSCCCTTCCEEE-EEEEEETTEEE--EEEEE
T ss_pred             ceeEEEEECCCCcCHHHHHHHHHhCCCCcccCCcccccc-ccccccccccc--ccccc
Confidence            368999999999999999999999999999999999887 57788899885  66666

>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=99.64  E-value=5e-16  Score=83.68  Aligned_cols=59  Identities=47%  Similarity=0.836  Sum_probs=53.5

Q ss_pred             CCceeeEEEEECCCCChHHHHHHHHhcCcCcCCCccceeeEeEEEEEEECCeEEEEEEEeC
Q 035301            8 EYDYLFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQVTNFSSFTSLHFY   68 (68)
Q Consensus         8 ~~~~~~ki~~iG~~~vGKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~~w   68 (68)
                      ++++.+||+++|+.+||||||++++..+.|...+.+|.+..+....+.+++..+  .+++|
T Consensus         2 ~~~~~~KivvvG~~~vGKTsli~~l~~~~~~~~~~~t~~~~~~~~~i~~~~~~~--~l~i~   60 (194)
T d2bcgy1           2 EYDYLFKLLLIGNSGVGKSCLLLRFSDDTYTNDYISTIGVDFKIKTVELDGKTV--KLQIW   60 (194)
T ss_dssp             CCSEEEEEEEEESTTSSHHHHHHHHHHCCCCTTCCCSSCCCEEEEEEEETTEEE--EEEEE
T ss_pred             CCCEEEEEEEECCCCcCHHHHHHHHhhCCCCCCcCCccceeEEEEEEEEeeEEE--EEEEE
Confidence            578899999999999999999999999999999999999988888899998885  66766

>d2bmea1 c.37.1.8 (A:6-179) Rab4a {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab4a
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.64  E-value=9.3e-16  Score=81.18  Aligned_cols=58  Identities=41%  Similarity=0.756  Sum_probs=51.7

Q ss_pred             CceeeEEEEECCCCChHHHHHHHHhcCcCcCCCccceeeEeEEEEEEECCeEEEEEEEeC
Q 035301            9 YDYLFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQVTNFSSFTSLHFY   68 (68)
Q Consensus         9 ~~~~~ki~~iG~~~vGKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~~w   68 (68)
                      +++.+||+++|+.+||||||++++..+.|.+.+.++.+.......+..++...  .+++|
T Consensus         2 ~~~~~KI~lvG~~~vGKTsll~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~--~~~i~   59 (174)
T d2bmea1           2 YDFLFKFLVIGNAGTGKSCLLHQFIEKKFKDDSNHTIGVEFGSKIINVGGKYV--KLQIW   59 (174)
T ss_dssp             CSEEEEEEEEESTTSSHHHHHHHHHHSSCCTTCCCCSEEEEEEEEEEETTEEE--EEEEE
T ss_pred             ccEEEEEEEECCCCcCHHHHHHHHHhCCCCcccccccccceeeEEEEecCcce--eEEEE
Confidence            67899999999999999999999999999999999999888778888887775  67776

>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=99.63  E-value=9.9e-16  Score=81.22  Aligned_cols=58  Identities=28%  Similarity=0.393  Sum_probs=49.6

Q ss_pred             CCceeeEEEEECCCCChHHHHHHHHhcCcCcCCCccceeeEeEEEEEEECCeEEEEEEEeC
Q 035301            8 EYDYLFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQVTNFSSFTSLHFY   68 (68)
Q Consensus         8 ~~~~~~ki~~iG~~~vGKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~~w   68 (68)
                      .+...+||+++|+++||||||++++.++.|.+.+.++.. ++..+.+.+++..+  .+++|
T Consensus         2 ~~~~~~Kv~lvG~~~vGKTsLi~r~~~~~f~~~~~~t~~-~~~~~~~~~~~~~~--~l~~~   59 (173)
T d2fn4a1           2 PPSETHKLVVVGGGGVGKSALTIQFIQSYFVSDYDPTIE-DSYTKICSVDGIPA--RLDIL   59 (173)
T ss_dssp             CSSCEEEEEEEECTTSSHHHHHHHHHHSSCCSSCCTTCC-EEEEEEEEETTEEE--EEEEE
T ss_pred             CCCCeEEEEEECCCCcCHHHHHHHHHhCCCCcccccccc-cceeeEeccCCeee--eeecc
Confidence            356689999999999999999999999999998988865 45578899999886  66766

>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=99.63  E-value=2.2e-16  Score=83.72  Aligned_cols=59  Identities=46%  Similarity=0.802  Sum_probs=37.7

Q ss_pred             CCceeeEEEEECCCCChHHHHHHHHhcCcCcCCCccceeeEeEEEEEEECCeEEEEEEEeC
Q 035301            8 EYDYLFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQVTNFSSFTSLHFY   68 (68)
Q Consensus         8 ~~~~~~ki~~iG~~~vGKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~~w   68 (68)
                      .+++.+||+++|+++||||||+++++++.+...+.++++.++..+.+.+++..+  .+++|
T Consensus         2 ~~~~~~Ki~vvG~~~vGKTsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~--~l~i~   60 (173)
T d2fu5c1           2 TYDYLFKLLLIGDSGVGKTCVLFRFSEDAFNSTFISTIGIDFKIRTIELDGKRI--KLQIW   60 (173)
T ss_dssp             CCSEEEEEEEECCCCC----------------CHHHHHCEEEEEEEEEETTEEE--EEEEE
T ss_pred             cccEEEEEEEECCCCcCHHHHHHHHHhCCCCCccCccccceEEEEEEEECCEEE--EEEEE
Confidence            467899999999999999999999999999999999999999899999999885  56666

>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=99.63  E-value=1.2e-15  Score=80.53  Aligned_cols=54  Identities=24%  Similarity=0.433  Sum_probs=47.1

Q ss_pred             eeEEEEECCCCChHHHHHHHHhcCcCcCCCccceeeEeEEEEEEECCeEEEEEEEeC
Q 035301           12 LFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQVTNFSSFTSLHFY   68 (68)
Q Consensus        12 ~~ki~~iG~~~vGKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~~w   68 (68)
                      .|||+++|+++||||||+++++++.|.+.+.||++..+ .....+++..+  .+++|
T Consensus         2 ~~Ki~viG~~~vGKTsLi~r~~~~~f~~~~~~T~~~~~-~~~~~~~~~~~--~l~~~   55 (171)
T d2erxa1           2 DYRVAVFGAGGVGKSSLVLRFVKGTFRESYIPTVEDTY-RQVISCDKSIC--TLQIT   55 (171)
T ss_dssp             EEEEEEECCTTSSHHHHHHHHHTCCCCSSCCCCSCEEE-EEEEEETTEEE--EEEEE
T ss_pred             CeEEEEECCCCCCHHHHHHHHHhCCCCCccCcceeecc-ccceeeccccc--eeccc
Confidence            58999999999999999999999999999999999776 56778888875  56666

>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=99.62  E-value=8.9e-16  Score=80.87  Aligned_cols=54  Identities=28%  Similarity=0.468  Sum_probs=47.2

Q ss_pred             eeEEEEECCCCChHHHHHHHHhcCcCcCCCccceeeEeEEEEEEECCeEEEEEEEeC
Q 035301           12 LFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQVTNFSSFTSLHFY   68 (68)
Q Consensus        12 ~~ki~~iG~~~vGKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~~w   68 (68)
                      .+||+++|+++||||||++++..+.|.+.+.++++..+ .+.+.+++..+  .+++|
T Consensus         3 ~~KivvvG~~~vGKTsli~r~~~~~f~~~~~~t~~~~~-~~~~~~~~~~~--~~~~~   56 (167)
T d1c1ya_           3 EYKLVVLGSGGVGKSALTVQFVQGIFVEKYDPTIEDSY-RKQVEVDCQQC--MLEIL   56 (167)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHCCCCCSCCCCSEEEE-EEEEESSSCEE--EEEEE
T ss_pred             eeEEEEECCCCCCHHHHHHHHHcCCCCCccCCcccccc-ceeEEeeeeEE--Eeccc
Confidence            58999999999999999999999999999999999777 57777788775  56666

>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=99.62  E-value=4.9e-16  Score=81.78  Aligned_cols=55  Identities=40%  Similarity=0.724  Sum_probs=43.5

Q ss_pred             eeEEEEECCCCChHHHHHHHHhcCcCcCCCccceeeEeEEEEEEECCeEEEEEEEeC
Q 035301           12 LFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQVTNFSSFTSLHFY   68 (68)
Q Consensus        12 ~~ki~~iG~~~vGKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~~w   68 (68)
                      .+||+++|+++||||||+++++++.+...+.+|++.++..+.+.+++..+  ++.+|
T Consensus         2 ~~Ki~vvG~~~vGKTSli~~l~~~~~~~~~~~t~~~~~~~~~i~~~~~~~--~~~i~   56 (166)
T d1g16a_           2 IMKILLIGDSGVGKSCLLVRFVEDKFNPSFITTIGIDFKIKTVDINGKKV--KLQIW   56 (166)
T ss_dssp             EEEEEEEESTTSSHHHHHHHHHHCCCCC-------CCEEEEEEESSSCEE--EEEEE
T ss_pred             EEEEEEECCCCcCHHHHHHHHHhCCCCCccCCccceeEEEEEEEECCEEE--EEEEE
Confidence            58999999999999999999999999999999999999889999998886  56666

>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=99.62  E-value=1.5e-15  Score=80.59  Aligned_cols=58  Identities=78%  Similarity=1.117  Sum_probs=48.5

Q ss_pred             CceeeEEEEECCCCChHHHHHHHHhcCcCcCCCccceeeEeEEEEEEECCeEEEEEEEeC
Q 035301            9 YDYLFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQVTNFSSFTSLHFY   68 (68)
Q Consensus         9 ~~~~~ki~~iG~~~vGKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~~w   68 (68)
                      +++.+||+++|+.+||||||++++.++.+...+.++.+.+.....+.+++..+  .+.+|
T Consensus         1 ~~~~~Ki~vvG~~~vGKTsLi~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~i~   58 (175)
T d2f9la1           1 YDYLFKVVLIGDSGVGKSNLLSRFTRNEFNLESKSTIGVEFATRSIQVDGKTI--KAQIW   58 (175)
T ss_dssp             CSEEEEEEEESSTTSSHHHHHHHHHHSCCCC---CCCSCEEEEEEEEETTEEE--EEEEE
T ss_pred             CCEEEEEEEECCCCcCHHHHHHHHHhCCCCCcccccccceeeeEEEEECCEEE--EEEec
Confidence            47889999999999999999999999999999999888888788889998886  45555

>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=99.61  E-value=1.8e-15  Score=80.77  Aligned_cols=56  Identities=29%  Similarity=0.393  Sum_probs=48.3

Q ss_pred             ceeeEEEEECCCCChHHHHHHHHhcCcCcCCCccceeeEeEEEEEEECCeEEEEEEEeC
Q 035301           10 DYLFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQVTNFSSFTSLHFY   68 (68)
Q Consensus        10 ~~~~ki~~iG~~~vGKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~~w   68 (68)
                      +..+||+++|++|||||||+++|+++.|.+.+.+|++..+ .+.+..++...  .+++|
T Consensus         3 p~~iKivviG~~~vGKTsli~~~~~~~f~~~~~~ti~~~~-~~~~~~~~~~~--~~~~~   58 (183)
T d1mh1a_           3 PQAIKCVVVGDGAVGKTCLLISYTTNAFPGEYIPTVFDNY-SANVMVDGKPV--NLGLW   58 (183)
T ss_dssp             CEEEEEEEECSTTSSHHHHHHHHHHSSCCSSCCCCSCCEE-EEEEEETTEEE--EEEEE
T ss_pred             ceeEEEEEECCCCCCHHHHHHHHHhCCCCcccccceeece-eeeeeccCcce--EEEee
Confidence            4579999999999999999999999999999999998544 67788888875  66676

>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=99.61  E-value=1.6e-15  Score=79.70  Aligned_cols=55  Identities=35%  Similarity=0.657  Sum_probs=49.2

Q ss_pred             eeEEEEECCCCChHHHHHHHHhcCcCcCCCccceeeEeEEEEEEECCeEEEEEEEeC
Q 035301           12 LFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQVTNFSSFTSLHFY   68 (68)
Q Consensus        12 ~~ki~~iG~~~vGKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~~w   68 (68)
                      .+||+++|+++||||||++++.++.|.+.+.||++.++.......++..+  .+++|
T Consensus         2 ~iKv~liG~~~vGKSsLi~rl~~~~~~~~~~~ti~~~~~~~~~~~~~~~~--~~~i~   56 (164)
T d1z2aa1           2 AIKMVVVGNGAVGKSSMIQRYCKGIFTKDYKKTIGVDFLERQIQVNDEDV--RLMLW   56 (164)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHCCCCCCSSCCCSSSEEEEEEEETTEEE--EEEEE
T ss_pred             eEEEEEECCCCcCHHHHHHHHHhCCCCcccccccccccceeeeeecCcee--eeeee
Confidence            58999999999999999999999999999999999888888888888875  56665

>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=99.60  E-value=2.7e-15  Score=79.30  Aligned_cols=54  Identities=30%  Similarity=0.483  Sum_probs=47.7

Q ss_pred             eeEEEEECCCCChHHHHHHHHhcCcCcCCCccceeeEeEEEEEEECCeEEEEEEEeC
Q 035301           12 LFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQVTNFSSFTSLHFY   68 (68)
Q Consensus        12 ~~ki~~iG~~~vGKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~~w   68 (68)
                      .+||+++|+++||||||+++++++.|.+.+.||++..+ .+.+.+++..+  .+++|
T Consensus         4 t~Ki~lvG~~~vGKTsll~~~~~~~~~~~~~~t~~~~~-~~~~~~~~~~~--~~~i~   57 (169)
T d1x1ra1           4 TYKLVVVGDGGVGKSALTIQFFQKIFVPDYDPTIEDSY-LKHTEIDNQWA--ILDVL   57 (169)
T ss_dssp             EEEEEEECCTTSSHHHHHHHHHHSSCCTTCCTTCCEEE-EEEEEETTEEE--EEEEE
T ss_pred             cEEEEEECCCCcCHHHHHHHHHhCCCCcccCcceeecc-ccccccccccc--ccccc
Confidence            68999999999999999999999999999999998766 67788888875  66666

>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=99.60  E-value=1.6e-15  Score=79.60  Aligned_cols=54  Identities=31%  Similarity=0.686  Sum_probs=48.2

Q ss_pred             eEEEEECCCCChHHHHHHHHhcCcCcCCCccceeeEeEEEEEEECCeEEEEEEEeC
Q 035301           13 FKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQVTNFSSFTSLHFY   68 (68)
Q Consensus        13 ~ki~~iG~~~vGKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~~w   68 (68)
                      |||+++|+.+||||||++++.+++|.+.+.++++.+........++..+  .+.+|
T Consensus         1 fKv~vvG~~~vGKTsLi~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~i~   54 (164)
T d1yzqa1           1 FKLVFLGEQSVGKTSLITRFMYDSFDNTYQATIGIDFLSKTMYLEDRTI--RLQLW   54 (164)
T ss_dssp             CEEEEEESTTSSHHHHHHHHHHSCCCSSCCCCCSEEEEEEEEECSSCEE--EEEEE
T ss_pred             CEEEEECCCCcCHHHHHHHHHhCCCCCccccceeeeccceeeccCCCce--eeeec
Confidence            6999999999999999999999999999999999888888888888775  56666

>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=99.60  E-value=3.4e-15  Score=78.81  Aligned_cols=58  Identities=43%  Similarity=0.761  Sum_probs=49.3

Q ss_pred             CceeeEEEEECCCCChHHHHHHHHhcCcCcC-CCccceeeEeEEEEEEECCeEEEEEEEeC
Q 035301            9 YDYLFKVVLIGDSGVGKSNLLSRFTRNEFCL-ESKSTIGVEFATRTLQVTNFSSFTSLHFY   68 (68)
Q Consensus         9 ~~~~~ki~~iG~~~vGKtsl~~~~~~~~~~~-~~~~t~~~~~~~~~~~~~~~~~~~~l~~w   68 (68)
                      ++..|||+++|+++||||||++++.+++|.. .+.++++.++....+..++..+  .++||
T Consensus         3 ~d~~fKi~vvG~~~vGKTsli~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~l~i~   61 (170)
T d2g6ba1           3 YDVAFKVMLVGDSGVGKTCLLVRFKDGAFLAGTFISTVGIDFRNKVLDVDGVKV--KLQMW   61 (170)
T ss_dssp             CSEEEEEEEECSTTSSHHHHHHHHHHSCCCCCCCCCCCSCEEEEEEEEETTEEE--EEEEE
T ss_pred             CceEEEEEEECCCCcCHHHHHHHHHhCCCCcccccceeeeeeEEEEEEecCcEE--EEEEE
Confidence            6789999999999999999999999988764 4566788888888888898885  66776

>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=99.60  E-value=3.4e-15  Score=78.55  Aligned_cols=54  Identities=33%  Similarity=0.511  Sum_probs=47.2

Q ss_pred             eeEEEEECCCCChHHHHHHHHhcCcCcCCCccceeeEeEEEEEEECCeEEEEEEEeC
Q 035301           12 LFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQVTNFSSFTSLHFY   68 (68)
Q Consensus        12 ~~ki~~iG~~~vGKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~~w   68 (68)
                      .+||+++|+++||||||+++++++.|.+.+.++++. +..+...+++..+  .+++|
T Consensus         3 ~~Ki~lvG~~~vGKTsLi~r~~~~~f~~~~~~t~~~-~~~~~~~~~~~~~--~l~~~   56 (167)
T d1kaoa_           3 EYKVVVLGSGGVGKSALTVQFVTGTFIEKYDPTIED-FYRKEIEVDSSPS--VLEIL   56 (167)
T ss_dssp             EEEEEEECCTTSSHHHHHHHHHHSCCCSCCCTTCCE-EEEEEEEETTEEE--EEEEE
T ss_pred             eeEEEEECCCCcCHHHHHHHHHhCCCCCccCCceee-eeeeeeecCcceE--eeccc
Confidence            589999999999999999999999999999999985 4467888888885  66766

>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=99.60  E-value=3.2e-15  Score=78.94  Aligned_cols=54  Identities=26%  Similarity=0.433  Sum_probs=47.0

Q ss_pred             eeEEEEECCCCChHHHHHHHHhcCcCcCCCccceeeEeEEEEEEECCeEEEEEEEeC
Q 035301           12 LFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQVTNFSSFTSLHFY   68 (68)
Q Consensus        12 ~~ki~~iG~~~vGKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~~w   68 (68)
                      .|||+++|+++||||||+++++++.|.+.+.||.+. +..+.+.+++..+  .+++|
T Consensus         5 ~~Ki~lvG~~~vGKTsLi~r~~~~~f~~~~~~t~~~-~~~~~~~~~~~~~--~~~~~   58 (171)
T d2erya1           5 KYRLVVVGGGGVGKSALTIQFIQSYFVTDYDPTIED-SYTKQCVIDDRAA--RLDIL   58 (171)
T ss_dssp             EEEEEEEECTTSSHHHHHHHHHHSCCCSSCCTTCCE-EEEEEEEETTEEE--EEEEE
T ss_pred             ceEEEEECCCCCCHHHHHHHHHhCCCCcccCccccc-ceeeeeeeccccc--ccccc
Confidence            489999999999999999999999999999999885 4478888998885  56666

>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=99.59  E-value=4.8e-15  Score=77.97  Aligned_cols=54  Identities=28%  Similarity=0.458  Sum_probs=46.4

Q ss_pred             eeEEEEECCCCChHHHHHHHHhcCcCcCCCccceeeEeEEEEEEECCeEEEEEEEeC
Q 035301           12 LFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQVTNFSSFTSLHFY   68 (68)
Q Consensus        12 ~~ki~~iG~~~vGKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~~w   68 (68)
                      .|||+++|+++||||||+++++++.|++.+.++++.++. ..+..++..+  .+.+|
T Consensus         3 e~Ki~viG~~~vGKTsli~~l~~~~~~~~~~~~~~~~~~-~~~~~~~~~~--~l~~~   56 (166)
T d1ctqa_           3 EYKLVVVGAGGVGKSALTIQLIQNHFVDEYDPTIEDSYR-KQVVIDGETC--LLDIL   56 (166)
T ss_dssp             EEEEEEEESTTSSHHHHHHHHHHCCCCCSCCCCSEEEEE-EEEEETTEEE--EEEEE
T ss_pred             eeEEEEECCCCCCHHHHHHHHHhCCCCCccCCccceeec-cceeeeceee--eeeee
Confidence            489999999999999999999999999999999998874 5566777775  56665

>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=99.58  E-value=5.2e-15  Score=79.41  Aligned_cols=54  Identities=30%  Similarity=0.436  Sum_probs=47.1

Q ss_pred             eeEEEEECCCCChHHHHHHHHhcCcCcCCCccceeeEeEEEEEEECCeEEEEEEEeC
Q 035301           12 LFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQVTNFSSFTSLHFY   68 (68)
Q Consensus        12 ~~ki~~iG~~~vGKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~~w   68 (68)
                      .+||+++|++|||||||+++++++.|...+.||++..+ .+...+++...  .+++|
T Consensus         3 ~iKvvllG~~~vGKTSli~r~~~~~f~~~~~~t~~~~~-~~~~~~~~~~~--~l~i~   56 (191)
T d2ngra_           3 TIKCVVVGDGAVGKTCLLISYTTNKFPSEYVPTVFDNY-AVTVMIGGEPY--TLGLF   56 (191)
T ss_dssp             EEEEEEEESTTSSHHHHHHHHHHSCCCSSCCCCSEEEE-EEEEEETTEEE--EEEEE
T ss_pred             ceEEEEECCCCcCHHHHHHHHHhCCCCCCcCCceeeec-ceeEeeCCcee--eeecc
Confidence            58999999999999999999999999999999998655 67777888875  66776

>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=99.58  E-value=5.7e-15  Score=78.35  Aligned_cols=54  Identities=22%  Similarity=0.330  Sum_probs=47.0

Q ss_pred             eeEEEEECCCCChHHHHHHHHhcCcCcCCCccceeeEeEEEEEEECCeEEEEEEEeC
Q 035301           12 LFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQVTNFSSFTSLHFY   68 (68)
Q Consensus        12 ~~ki~~iG~~~vGKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~~w   68 (68)
                      ..||+++|++|||||||++++.++.|++.+.||++..+ .+...++++.+  .+++|
T Consensus         2 r~KivvvG~~~vGKTsLi~~~~~~~f~~~~~~t~~~~~-~~~~~~~~~~~--~l~i~   55 (177)
T d1kmqa_           2 RKKLVIVGDGACGKTCLLIVNSKDQFPEVYVPTVFENY-VADIEVDGKQV--ELALW   55 (177)
T ss_dssp             EEEEEEEESTTSSHHHHHHHHHHSCCCSSCCCCSEEEE-EEEEEETTEEE--EEEEE
T ss_pred             cEEEEEECCCCcCHHHHHHHHHhCCCCCCcCCceeeec-cccccccccce--eeecc
Confidence            57999999999999999999999999999999998554 67788888875  66776

>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=99.57  E-value=8.5e-15  Score=77.23  Aligned_cols=57  Identities=37%  Similarity=0.598  Sum_probs=49.6

Q ss_pred             ceeeEEEEECCCCChHHHHHHHHhcCcCcCCCccceeeEeEEEEEEECCeEEEEEEEeC
Q 035301           10 DYLFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQVTNFSSFTSLHFY   68 (68)
Q Consensus        10 ~~~~ki~~iG~~~vGKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~~w   68 (68)
                      -..|||+++|+++||||||++++.++.|.+.+.++.+.++.......++..+  .+.+|
T Consensus         4 ~~~~Ki~vvG~~~vGKTsLi~~l~~~~f~~~~~~t~~~~~~~~~~~~~~~~~--~~~~~   60 (170)
T d1r2qa_           4 ICQFKLVLLGESAVGKSSLVLRFVKGQFHEFQESTIGAAFLTQTVCLDDTTV--KFEIW   60 (170)
T ss_dssp             EEEEEEEEECSTTSSHHHHHHHHHHSCCCTTCCCCSSEEEEEEEEEETTEEE--EEEEE
T ss_pred             eeEEEEEEECCCCcCHHHHHHHHHhCCCCcccccccccccccceeeccceEE--EEEec
Confidence            3578999999999999999999999999999999999998777888777775  56665

>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=99.57  E-value=9.4e-15  Score=76.87  Aligned_cols=56  Identities=38%  Similarity=0.589  Sum_probs=48.6

Q ss_pred             eeeEEEEECCCCChHHHHHHHHhcCcCcCCCccceeeEeEEEEEEECCeEEEEEEEeC
Q 035301           11 YLFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQVTNFSSFTSLHFY   68 (68)
Q Consensus        11 ~~~ki~~iG~~~vGKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~~w   68 (68)
                      ..+||+++|+++||||||++++..+.|.+.+.+|.+..+.......++...  .+++|
T Consensus         3 k~~Ki~lvG~~~vGKTsli~rl~~~~f~~~~~~t~~~~~~~~~~~~~~~~~--~~~i~   58 (167)
T d1z0ja1           3 RELKVCLLGDTGVGKSSIMWRFVEDSFDPNINPTIGASFMTKTVQYQNELH--KFLIW   58 (167)
T ss_dssp             EEEEEEEECCTTSSHHHHHHHHHHSCCCTTCCCCCSEEEEEEEEEETTEEE--EEEEE
T ss_pred             ceeEEEEECCCCcCHHHHHHHHHhCCCCccccccccccccccccccccccc--ceeee
Confidence            368999999999999999999999999999999999988878888777765  45555

>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=99.57  E-value=4.8e-15  Score=79.05  Aligned_cols=54  Identities=26%  Similarity=0.433  Sum_probs=46.8

Q ss_pred             eeEEEEECCCCChHHHHHHHHhcCcCcCCCccceeeEeEEEEEEECCeEEEEEEEeC
Q 035301           12 LFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQVTNFSSFTSLHFY   68 (68)
Q Consensus        12 ~~ki~~iG~~~vGKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~~w   68 (68)
                      .+||+++|++|||||||+++++.+.|++.+.||++..+ .+.+.++++.+  .+++|
T Consensus         2 ~~KivliG~~~vGKTsli~r~~~~~f~~~~~~t~~~~~-~~~~~~~~~~~--~~~i~   55 (179)
T d1m7ba_           2 KCKIVVVGDSQCGKTALLHVFAKDCFPENYVPTVFENY-TASFEIDTQRI--ELSLW   55 (179)
T ss_dssp             EEEEEEEESTTSSHHHHHHHHHHSCCCSSCCCCSEEEE-EEEEECSSCEE--EEEEE
T ss_pred             ceEEEEECCCCcCHHHHHHHHHhCCCCCccCCceeecc-cccccccceEE--eeccc
Confidence            57999999999999999999999999999999987554 67788888875  66776

>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=99.57  E-value=8.3e-15  Score=77.51  Aligned_cols=58  Identities=41%  Similarity=0.717  Sum_probs=46.9

Q ss_pred             CceeeEEEEECCCCChHHHHHHHHhcCcCcCCCccceeeEeEEEEEEECCeEEEEEEEeC
Q 035301            9 YDYLFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQVTNFSSFTSLHFY   68 (68)
Q Consensus         9 ~~~~~ki~~iG~~~vGKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~~w   68 (68)
                      .+..+||+++|+++||||||++++..+.|.+.+.+|++..+..+....++...  .+++|
T Consensus         3 ~~~~~KI~vvG~~~vGKSSli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~--~~~i~   60 (174)
T d1wmsa_           3 KSSLFKVILLGDGGVGKSSLMNRYVTNKFDTQLFHTIGVEFLNKDLEVDGHFV--TMQIW   60 (174)
T ss_dssp             CEEEEEEEEECCTTSSHHHHHHHHHHSCCCC----CCSEEEEEEEEEETTEEE--EEEEE
T ss_pred             CCceEEEEEECCCCCCHHHHHHHHHhCCCCCccccceeeeeeeeeeeecCcee--eEeee
Confidence            35679999999999999999999999999999999999988888888888875  45554

>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=99.57  E-value=9.4e-15  Score=77.93  Aligned_cols=52  Identities=38%  Similarity=0.751  Sum_probs=46.1

Q ss_pred             CCceeeEEEEECCCCChHHHHHHHHhcCcCcCCCccceeeEeEEEEEEECCe
Q 035301            8 EYDYLFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQVTNF   59 (68)
Q Consensus         8 ~~~~~~ki~~iG~~~vGKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~   59 (68)
                      ++++.+||+++|+++||||||+++++++.|...+.++.+.++..+.+.+++.
T Consensus         1 ~~d~~~Ki~ivG~~~vGKTsLi~~l~~~~~~~~~~~~~~~~~~~~~i~~~~~   52 (186)
T d2f7sa1           1 DYDYLIKLLALGDSGVGKTTFLYRYTDNKFNPKFITTVGIDFREKRVVYNAQ   52 (186)
T ss_dssp             CCSEEEEEEEESCTTSSHHHHHHHHHCSCCCCEEEEEEEEEEEEEEEEEEC-
T ss_pred             CCCEEEEEEEECCCCcCHHHHHHHHhcCCCCCccCCcccceeeEEEEEEecc
Confidence            4788999999999999999999999999999999999999888888777653

>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=99.56  E-value=9e-15  Score=77.95  Aligned_cols=55  Identities=35%  Similarity=0.723  Sum_probs=48.3

Q ss_pred             eeEEEEECCCCChHHHHHHHHhcCcCcCCCccceeeEeEEEEEEECCeEEEEEEEeC
Q 035301           12 LFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQVTNFSSFTSLHFY   68 (68)
Q Consensus        12 ~~ki~~iG~~~vGKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~~w   68 (68)
                      .+||+++|+++||||||+++++++.|...+.+|++.++..+.....+...  .+++|
T Consensus         2 ~~Kv~vvG~~~vGKSSLi~~l~~~~f~~~~~~t~~~~~~~~~~~~~~~~~--~~~~~   56 (184)
T d1vg8a_           2 LLKVIILGDSGVGKTSLMNQYVNKKFSNQYKATIGADFLTKEVMVDDRLV--TMQIW   56 (184)
T ss_dssp             EEEEEEECCTTSSHHHHHHHHHHSCCCSSCCCCCSEEEEEEEEESSSCEE--EEEEE
T ss_pred             EEEEEEECCCCcCHHHHHHHHHhCCCCCCcCCccceeeeeeeeeeCCceE--EEEee
Confidence            58999999999999999999999999999999999998888888877775  44444

>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=99.56  E-value=1.6e-14  Score=76.60  Aligned_cols=57  Identities=42%  Similarity=0.667  Sum_probs=50.3

Q ss_pred             ceeeEEEEECCCCChHHHHHHHHhcCcCcCCCccceeeEeEEEEEEECCeEEEEEEEeC
Q 035301           10 DYLFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQVTNFSSFTSLHFY   68 (68)
Q Consensus        10 ~~~~ki~~iG~~~vGKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~~w   68 (68)
                      -..+||+++|+.+||||||++++.+++|...+.++.+..+..+.+.+++...  ++.+|
T Consensus         5 ~~~iKi~vvG~~~vGKTsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~i~   61 (177)
T d1x3sa1           5 LTTLKILIIGESGVGKSSLLLRFTDDTFDPELAATIGVDFKVKTISVDGNKA--KLAIW   61 (177)
T ss_dssp             EEEEEEEEECSTTSSHHHHHHHHHHSCCCTTCCCCCSEEEEEEEEEETTEEE--EEEEE
T ss_pred             cceeEEEEECCCCcCHHHHHHHHHhCCCCCccccceeecceeEEEEEecccc--EEEEE
Confidence            4578999999999999999999999999999999998888888889988885  55665

>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=99.55  E-value=9.9e-15  Score=77.21  Aligned_cols=57  Identities=44%  Similarity=0.728  Sum_probs=44.0

Q ss_pred             ceeeEEEEECCCCChHHHHHHHHhcCcCcCCCccceeeEeEEEEEEECCeEEEEEEEeC
Q 035301           10 DYLFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQVTNFSSFTSLHFY   68 (68)
Q Consensus        10 ~~~~ki~~iG~~~vGKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~~w   68 (68)
                      ++.+||+++|+++||||||++++.+++|...+.++............++...  .+.+|
T Consensus         1 ~y~~KivvvG~~~vGKTsli~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~i~   57 (173)
T d2a5ja1           1 SYLFKYIIIGDTGVGKSCLLLQFTDKRFQPVHDLTIGVEFGARMVNIDGKQI--KLQIW   57 (173)
T ss_dssp             CEEEEEEEESSTTSSHHHHHHHHHHSCCCC-----CCSSEEEEEEEETTEEE--EEEEE
T ss_pred             CeeEEEEEECCCCcCHHHHHHHHhcCCCCCCcccceeeccceeeeeeeeeEE--EEEee
Confidence            3679999999999999999999999999999988888777777777887775  45554

>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=99.53  E-value=2.8e-14  Score=74.72  Aligned_cols=51  Identities=37%  Similarity=0.627  Sum_probs=46.2

Q ss_pred             eeEEEEECCCCChHHHHHHHHhcCcCcCCCccceeeEeEEEEEEECCeEEE
Q 035301           12 LFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQVTNFSSF   62 (68)
Q Consensus        12 ~~ki~~iG~~~vGKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~   62 (68)
                      .+||+++|+++||||||++++..+.|...+.++.+..+..+...+......
T Consensus         2 ~~Kv~liG~~~vGKTsLl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   52 (165)
T d1z06a1           2 IFKIIVIGDSNVGKTCLTYRFCAGRFPDRTEATIGVDFRERAVDIDGERIK   52 (165)
T ss_dssp             EEEEEEECCTTSSHHHHHHHHHHSSCCSSCCCCCSCCEEEEEEEETTEEEE
T ss_pred             EEEEEEECCCCcCHHHHHHHHHhCCCCCccCcccccccceeeeeeeccceE
Confidence            689999999999999999999999999999999998887888888887753

>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=99.48  E-value=7.2e-14  Score=73.90  Aligned_cols=56  Identities=32%  Similarity=0.428  Sum_probs=43.3

Q ss_pred             eeeEEEEECCCCChHHHHHHHHhcCcCc-CCCccceeeEeEEEEEEECCeEEEEEEEeC
Q 035301           11 YLFKVVLIGDSGVGKSNLLSRFTRNEFC-LESKSTIGVEFATRTLQVTNFSSFTSLHFY   68 (68)
Q Consensus        11 ~~~ki~~iG~~~vGKtsl~~~~~~~~~~-~~~~~t~~~~~~~~~~~~~~~~~~~~l~~w   68 (68)
                      .-|||+++|+++||||||++++.+..+. ....++.+.++..+.+.++++..  .+.+|
T Consensus         2 ~~~Kv~lvG~~~vGKTsLi~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~--~~~~~   58 (172)
T d2g3ya1           2 TYYRVVLIGEQGVGKSTLANIFAGVHDSMDSDCEVLGEDTYERTLMVDGESA--TIILL   58 (172)
T ss_dssp             CEEEEEEECCTTSSHHHHHHHHHCCCCTTCCC---CCTTEEEEEEEETTEEE--EEEEE
T ss_pred             CEEEEEEECCCCcCHHHHHHHHHhCcCCccccccceeeecceeeeccCCcee--eeeee
Confidence            3589999999999999999999987765 34557788888889999999886  44444

>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=99.47  E-value=1.5e-13  Score=73.13  Aligned_cols=53  Identities=19%  Similarity=0.365  Sum_probs=44.9

Q ss_pred             eeEEEEECCCCChHHHHHHHHhcCcCcCCCccceeeEeEEEEEEECCeEEEEEEEeC
Q 035301           12 LFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQVTNFSSFTSLHFY   68 (68)
Q Consensus        12 ~~ki~~iG~~~vGKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~~w   68 (68)
                      .+|++++|+++||||||+++++++.|.. +.++.+..+ .+.+.++++.+  .+++|
T Consensus         5 ~~ki~vlG~~~vGKTsLi~~~~~~~f~~-~~~t~~~~~-~~~i~v~~~~~--~l~i~   57 (175)
T d2bmja1           5 ELRLGVLGDARSGKSSLIHRFLTGSYQV-LEKTESEQY-KKEMLVDGQTH--LVLIR   57 (175)
T ss_dssp             EEEEEEECCTTTTHHHHHHHHHHSCCCC-CCCSSCEEE-EEEEEETTEEE--EEEEE
T ss_pred             cEEEEEECCCCCCHHHHHHHHHhCCCCC-cCCccceeE-EEEeecCceEE--EEEEe
Confidence            6999999999999999999999999854 567777666 68889999886  66776

>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=99.44  E-value=7.1e-14  Score=73.70  Aligned_cols=56  Identities=32%  Similarity=0.720  Sum_probs=41.0

Q ss_pred             eeEEEEECCCCChHHHHHHHHhcCcCcCCCccceeeEeEEEEEEECCeEEEEEEEeC
Q 035301           12 LFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQVTNFSSFTSLHFY   68 (68)
Q Consensus        12 ~~ki~~iG~~~vGKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~~w   68 (68)
                      .+||+++|+++||||||++++.+++|.+.+.++.+...........+... ..+.+|
T Consensus         2 ~~Ki~~vG~~~vGKSsLi~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~-~~~~~~   57 (175)
T d1ky3a_           2 ILKVIILGDSGVGKTSLMHRYVNDKYSQQYKATIGADFLTKEVTVDGDKV-ATMQVW   57 (175)
T ss_dssp             EEEEEEECCTTSSHHHHHHHHHHSCCCTTC---CCCSCEEEEECCSSSCC-EEEEEE
T ss_pred             eEEEEEECCCCcCHHHHHHHHHcCCCCCccCcccccceeeeeeeecCccc-ccceee
Confidence            58999999999999999999999999999999888776555555444332 245554

>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=99.44  E-value=2.2e-13  Score=71.67  Aligned_cols=52  Identities=35%  Similarity=0.508  Sum_probs=37.1

Q ss_pred             eEEEEECCCCChHHHHHHHHhcCcCcCCCccceeeEeEEEEEEECCeEEEEEEEeC
Q 035301           13 FKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQVTNFSSFTSLHFY   68 (68)
Q Consensus        13 ~ki~~iG~~~vGKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~~w   68 (68)
                      |||+++|+++||||||++++.+..+. .+.++.+..+ .+.+.++++.+  .+.+|
T Consensus         2 fKi~lvG~~~vGKTsLi~~~~~~~~~-~~~~~~~~~~-~~~i~~~~~~~--~l~i~   53 (168)
T d2gjsa1           2 YKVLLLGAPGVGKSALARIFGGVEDG-PEAEAAGHTY-DRSIVVDGEEA--SLMVY   53 (168)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHTC----------CEEE-EEEEEETTEEE--EEEEE
T ss_pred             eEEEEECCCCcCHHHHHHHHhCCccC-CcCCeeeeee-cceeecccccc--ceeee
Confidence            89999999999999999999988764 3446666555 67889999885  66776

>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=99.40  E-value=7.1e-13  Score=69.37  Aligned_cols=47  Identities=17%  Similarity=0.331  Sum_probs=39.5

Q ss_pred             eeEEEEECCCCChHHHHHHHHhcCcCcCCCccceeeEeEEEEEEECCeE
Q 035301           12 LFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQVTNFS   60 (68)
Q Consensus        12 ~~ki~~iG~~~vGKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~   60 (68)
                      .+||+++|+++||||||++++..+.+.+.+.||++.++.  .+..++..
T Consensus         2 e~ki~i~G~~~~GKTsLl~~l~~~~~~~~~~~T~~~~~~--~~~~~~~~   48 (164)
T d1zd9a1           2 EMELTLVGLQYSGKTTFVNVIASGQFNEDMIPTVGFNMR--KITKGNVT   48 (164)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHSCCCCSCCCCCSEEEE--EEEETTEE
T ss_pred             eEEEEEECCCCCCHHHHHHHHHcCCCCCcccccceeeee--eeeeeeEE
Confidence            479999999999999999999999999999999997663  45555433

>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=99.38  E-value=3.4e-13  Score=71.77  Aligned_cols=37  Identities=22%  Similarity=0.275  Sum_probs=32.8

Q ss_pred             eeEEEEECCCCChHHHHHHHHhcCcCcCCCccceeeEeE
Q 035301           12 LFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFA   50 (68)
Q Consensus        12 ~~ki~~iG~~~vGKtsl~~~~~~~~~~~~~~~t~~~~~~   50 (68)
                      .+||+++|+++||||||++++..+.|  .+.||+|.++.
T Consensus         2 e~Kiv~lG~~~vGKTsll~r~~~~~~--~~~pTiG~~~~   38 (200)
T d2bcjq2           2 ELKLLLLGTGESGKSTFIKQMRIIHG--SGVPTTGIIEY   38 (200)
T ss_dssp             EEEEEEEESTTSSHHHHHHHHHHHTS--SCCCCCSCEEE
T ss_pred             eeEEEEECCCCCCHHHHHHHHhCCCC--CCCceeeEEEE
Confidence            58999999999999999999998887  47799997763

>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=99.34  E-value=7.4e-13  Score=70.67  Aligned_cols=44  Identities=25%  Similarity=0.453  Sum_probs=34.7

Q ss_pred             eeEEEEECCCCChHHHHHHHHhcCcCcCCCccceeeEeEEEEEEECCeE
Q 035301           12 LFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQVTNFS   60 (68)
Q Consensus        12 ~~ki~~iG~~~vGKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~   60 (68)
                      .+||+++|+++||||||++++.   |.+.+.||+|..+  .++...+..
T Consensus         2 ~iKivllG~~~vGKTsll~r~~---f~~~~~pTiG~~~--~~~~~~~~~   45 (200)
T d1zcba2           2 LVKILLLGAGESGKSTFLKQMR---IIHGQDPTKGIHE--YDFEIKNVP   45 (200)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHH---HHHSCCCCSSEEE--EEEEETTEE
T ss_pred             eEEEEEECCCCCCHHHHHHHHh---cCCCCCCeeeeEE--EEEeeeeee
Confidence            5899999999999999999993   6677889999654  344444433

>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=99.21  E-value=2.9e-11  Score=62.94  Aligned_cols=46  Identities=22%  Similarity=0.515  Sum_probs=35.8

Q ss_pred             eeEEEEECCCCChHHHHHHHHhcCcCcCCCccceeeEeEEEEEEECCeE
Q 035301           12 LFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQVTNFS   60 (68)
Q Consensus        12 ~~ki~~iG~~~vGKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~   60 (68)
                      .+||+++|+++||||||++++.+..+ ..+.||++...  ..+..++..
T Consensus         2 ~~ki~ivG~~~~GKTsLi~~l~~~~~-~~~~~t~~~~~--~~~~~~~~~   47 (165)
T d1ksha_           2 ELRLLMLGLDNAGKTTILKKFNGEDV-DTISPTLGFNI--KTLEHRGFK   47 (165)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHTTCCC-SSCCCCSSEEE--EEEEETTEE
T ss_pred             cEEEEEECCCCCCHHHHHHHHcCCCC-CcccceEeeee--eeccccccc
Confidence            58999999999999999999998876 45778887554  345555433

>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=99.19  E-value=1.7e-11  Score=64.34  Aligned_cols=49  Identities=22%  Similarity=0.442  Sum_probs=36.7

Q ss_pred             CCceeeEEEEECCCCChHHHHHHHHhcCcCcCCCccceeeEeEEEEEEECCe
Q 035301            8 EYDYLFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQVTNF   59 (68)
Q Consensus         8 ~~~~~~ki~~iG~~~vGKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~   59 (68)
                      .++..+||+++|+++||||||++++.++.+.. ..++.+.++  +.+..++.
T Consensus        12 ~~~~~~kI~vvG~~~vGKSsLi~~l~~~~~~~-~~~~~~~~~--~~i~~~~~   60 (176)
T d1fzqa_          12 APDQEVRILLLGLDNAGKTTLLKQLASEDISH-ITPTQGFNI--KSVQSQGF   60 (176)
T ss_dssp             CCSSCEEEEEEESTTSSHHHHHHHHCCSCCEE-EEEETTEEE--EEEEETTE
T ss_pred             CCCCEEEEEEECCCCCCHHHHHHHHhcCCCCc-ceeeeeeeE--EEeccCCe
Confidence            45567999999999999999999999988854 335555443  45555553

>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=99.18  E-value=1.2e-11  Score=65.47  Aligned_cols=34  Identities=18%  Similarity=0.199  Sum_probs=28.3

Q ss_pred             eeEEEEECCCCChHHHHHHHHhcCcCcCCCccce
Q 035301           12 LFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTI   45 (68)
Q Consensus        12 ~~ki~~iG~~~vGKtsl~~~~~~~~~~~~~~~t~   45 (68)
                      .+|++++|+.|||||||++++..+.++..+.++.
T Consensus         2 e~KivllG~~~vGKTsl~~r~~~~~~~t~~~~~~   35 (195)
T d1svsa1           2 EVKLLLLGAGESGKSTIVKQMKIIHEAGTGIVET   35 (195)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHHHSCCCSEEEE
T ss_pred             ceEEEEECCCCCCHHHHHHHHhhCCCCCccEEEE
Confidence            5899999999999999999999888765554433

>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=99.13  E-value=2.8e-11  Score=66.13  Aligned_cols=45  Identities=20%  Similarity=0.274  Sum_probs=35.0

Q ss_pred             ceeeEEEEECCCCChHHHHHHHHhcCcCcCCCccceeeEeEEEEEEECCeE
Q 035301           10 DYLFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQVTNFS   60 (68)
Q Consensus        10 ~~~~ki~~iG~~~vGKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~   60 (68)
                      +..+||+++|++|||||||++++..+.    ..||+|.+.  ..+.+++..
T Consensus         4 k~~~KilllG~~~vGKTsll~~~~~~~----~~pTiG~~~--~~~~~~~~~   48 (221)
T d1azta2           4 RATHRLLLLGAGESGKSTIVKQMRILH----VVLTSGIFE--TKFQVDKVN   48 (221)
T ss_dssp             HHSEEEEEECSTTSSHHHHHHHHHHHH----CCCCCSCEE--EEEEETTEE
T ss_pred             hhcCEEEEECCCCCCHHHHHHHHhcCC----cCCCCCeEE--EEEEECcEE
Confidence            457899999999999999999997654    458999544  456666544

>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=99.06  E-value=3.6e-10  Score=58.20  Aligned_cols=36  Identities=28%  Similarity=0.541  Sum_probs=29.7

Q ss_pred             eeEEEEECCCCChHHHHHHHHhcCcCcCCCccceeeE
Q 035301           12 LFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVE   48 (68)
Q Consensus        12 ~~ki~~iG~~~vGKtsl~~~~~~~~~~~~~~~t~~~~   48 (68)
                      .+|++++|+++||||||++++.++.|... .++.+..
T Consensus         5 e~kI~ivG~~~vGKSSLi~~~~~~~~~~~-~~~~~~~   40 (169)
T d1upta_           5 EMRILILGLDGAGKTTILYRLQVGEVVTT-IPTIGFN   40 (169)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHHSSCCCC-CCCSSEE
T ss_pred             ceEEEEECCCCCCHHHHHHHHhCCCCcce-eccccee
Confidence            48999999999999999999999988653 3565543

>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=99.04  E-value=1.3e-10  Score=59.61  Aligned_cols=32  Identities=16%  Similarity=0.420  Sum_probs=27.3

Q ss_pred             eEEEEECCCCChHHHHHHHHhcCcCcCCCccc
Q 035301           13 FKVVLIGDSGVGKSNLLSRFTRNEFCLESKST   44 (68)
Q Consensus        13 ~ki~~iG~~~vGKtsl~~~~~~~~~~~~~~~t   44 (68)
                      +||+++|+++||||||++++.++++...+..+
T Consensus         1 ikivlvG~~~vGKSsLi~~l~~~~~~~~~~~~   32 (160)
T d1r8sa_           1 MRILMVGLDAAGKTTILYKLKLGEIVTTIPTI   32 (160)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHHHCSSCCCCCS
T ss_pred             CEEEEECCCCCCHHHHHHHHhcCCCCccccce
Confidence            58999999999999999999988886655433

>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=99.02  E-value=2e-10  Score=58.75  Aligned_cols=35  Identities=20%  Similarity=0.334  Sum_probs=29.7

Q ss_pred             EEEEECCCCChHHHHHHHHhcCcCcCCCccceeeEe
Q 035301           14 KVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEF   49 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~~~~~~~~~~t~~~~~   49 (68)
                      ||+++|+++||||||++++.++.+. .+.||.+...
T Consensus         2 KI~liG~~nvGKSSLln~l~~~~~~-~~~~t~~~~~   36 (166)
T d2qtvb1           2 KLLFLGLDNAGKTTLLHMLKNDRLA-TLQPTWHPTS   36 (166)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHSCCC-CCCCCCSCEE
T ss_pred             EEEEECCCCCCHHHHHHHHhCCCCC-eeeceeeEeE
Confidence            8999999999999999999998875 4667776444

>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=99.00  E-value=1.3e-10  Score=61.37  Aligned_cols=40  Identities=28%  Similarity=0.530  Sum_probs=32.3

Q ss_pred             CceeeEEEEECCCCChHHHHHHHHhcCcCcCCCccceeeEe
Q 035301            9 YDYLFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEF   49 (68)
Q Consensus         9 ~~~~~ki~~iG~~~vGKtsl~~~~~~~~~~~~~~~t~~~~~   49 (68)
                      ....+||+++|+++||||||++++.++.+.. ..||.+...
T Consensus        14 ~~k~~KI~lvG~~~vGKTsLi~~l~~~~~~~-~~~t~~~~~   53 (182)
T d1moza_          14 SNKELRILILGLDGAGKTTILYRLQIGEVVT-TKPTIGFNV   53 (182)
T ss_dssp             CSSCEEEEEEEETTSSHHHHHHHTCCSEEEE-ECSSTTCCE
T ss_pred             CCceEEEEEECCCCCCHHHHHHHHhcCCCCc-cccccceEE
Confidence            3457999999999999999999999888754 446776444

>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=98.98  E-value=7.1e-10  Score=57.80  Aligned_cols=48  Identities=19%  Similarity=0.274  Sum_probs=31.4

Q ss_pred             ceeeEEEEECCCCChHHHHHHHHhcCcCcCCCccceeeEeEEEEEEECCeE
Q 035301           10 DYLFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQVTNFS   60 (68)
Q Consensus        10 ~~~~ki~~iG~~~vGKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~   60 (68)
                      ....||+++|++|||||||++++.+..+... .++.+...  ..+..++..
T Consensus        11 ~k~~kI~lvG~~~vGKTsLl~~l~~~~~~~~-~~~~~~~~--~~~~~~~~~   58 (186)
T d1f6ba_          11 KKTGKLVFLGLDNAGKTTLLHMLKDDRLGQH-VPTLHPTS--EELTIAGMT   58 (186)
T ss_dssp             TCCEEEEEEEETTSSHHHHHHHHSCC-------CCCCCSC--EEEEETTEE
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHhCCCCcce-ecccccce--eEEEecccc
Confidence            4468999999999999999999999887643 35555433  344455443

>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=98.97  E-value=2.9e-10  Score=59.63  Aligned_cols=38  Identities=16%  Similarity=0.387  Sum_probs=30.6

Q ss_pred             eeeEEEEECCCCChHHHHHHHHhcCcCcCCCccceeeEe
Q 035301           11 YLFKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEF   49 (68)
Q Consensus        11 ~~~ki~~iG~~~vGKtsl~~~~~~~~~~~~~~~t~~~~~   49 (68)
                      ..+||+++|+++||||||++++.++.+.. ..+|.+..+
T Consensus        11 k~~kIvlvG~~~vGKTSli~rl~~~~~~~-~~~t~~~~~   48 (173)
T d1e0sa_          11 KEMRILMLGLDAAGKTTILYKLKLGQSVT-TIPTVGFNV   48 (173)
T ss_dssp             CCEEEEEEEETTSSHHHHHHHTTCCCCEE-EEEETTEEE
T ss_pred             CeEEEEEECCCCCCHHHHHHHHhcCCCCC-ccceeeeeE
Confidence            46899999999999999999999887754 335665444

>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=98.89  E-value=1e-09  Score=58.78  Aligned_cols=36  Identities=22%  Similarity=0.329  Sum_probs=30.1

Q ss_pred             EEEEECCCCChHHHHHHHHhcCcCcCCCccceeeEeE
Q 035301           14 KVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFA   50 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~~~~~~~~~~t~~~~~~   50 (68)
                      +|+++|+++||||||++++.++.+... .++++.++.
T Consensus         2 ~V~ivG~~~~GKTsLl~~l~~~~~~~~-~~t~~~~~~   37 (207)
T d2fh5b1           2 AVLFVGLCDSGKTLLFVRLLTGQYRDT-QTSITDSSA   37 (207)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHSCCCCB-CCCCSCEEE
T ss_pred             EEEEECCCCCCHHHHHHHHHcCCCCcc-cCCeeEEEE
Confidence            689999999999999999999887654 477776653

>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=98.84  E-value=8.5e-09  Score=53.00  Aligned_cols=48  Identities=21%  Similarity=0.370  Sum_probs=31.3

Q ss_pred             eEEEEECCCCChHHHHHHHHhcCcCc-CCCccceeeEeEEEEEEECCeE
Q 035301           13 FKVVLIGDSGVGKSNLLSRFTRNEFC-LESKSTIGVEFATRTLQVTNFS   60 (68)
Q Consensus        13 ~ki~~iG~~~vGKtsl~~~~~~~~~~-~~~~~t~~~~~~~~~~~~~~~~   60 (68)
                      +||+++|+++||||||++++.+.... ..+.+....+.....+...+..
T Consensus         2 ~kI~lvG~~nvGKSsLin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   50 (161)
T d2gj8a1           2 MKVVIAGRPNAGKSSLLNALAGREAAIVTDIAGTTRDVLREHIHIDGMP   50 (161)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHTSCCSCCCSSTTCCCSCEEEEEEETTEE
T ss_pred             CEEEEECCCCCCHHHHHHHHhCCCceEeecccccccceEeeeeeccCce
Confidence            79999999999999999999976643 2222332222323344455544

>d1nrjb_ c.37.1.8 (B:) Signal recognition particle receptor beta-subunit {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Signal recognition particle receptor beta-subunit
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=98.79  E-value=5.2e-10  Score=59.69  Aligned_cols=28  Identities=25%  Similarity=0.481  Sum_probs=24.7

Q ss_pred             eeeEEEEECCCCChHHHHHHHHhcCcCc
Q 035301           11 YLFKVVLIGDSGVGKSNLLSRFTRNEFC   38 (68)
Q Consensus        11 ~~~ki~~iG~~~vGKtsl~~~~~~~~~~   38 (68)
                      +...|+++|+++||||||++++.+.++.
T Consensus         2 ~~p~V~lvG~~n~GKTSLln~l~~~~~~   29 (209)
T d1nrjb_           2 YQPSIIIAGPQNSGKTSLLTLLTTDSVR   29 (209)
T ss_dssp             CCCEEEEECSTTSSHHHHHHHHHHSSCC
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCCCC
Confidence            4568999999999999999999987654

>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=98.79  E-value=2.2e-09  Score=55.93  Aligned_cols=29  Identities=31%  Similarity=0.520  Sum_probs=26.1

Q ss_pred             eeeEEEEECCCCChHHHHHHHHhcCcCcC
Q 035301           11 YLFKVVLIGDSGVGKSNLLSRFTRNEFCL   39 (68)
Q Consensus        11 ~~~ki~~iG~~~vGKtsl~~~~~~~~~~~   39 (68)
                      ..+||+++|++|||||||++++.++++..
T Consensus        14 k~~kI~vvG~~~~GKSsLi~rl~~~~~~~   42 (177)
T d1zj6a1          14 QEHKVIIVGLDNAGKTTILYQFSMNEVVH   42 (177)
T ss_dssp             SCEEEEEEESTTSSHHHHHHHHHTTSCEE
T ss_pred             CeEEEEEECCCCCCHHHHHHHHhcCCCCc
Confidence            45899999999999999999999988753

>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=98.71  E-value=9.3e-09  Score=53.57  Aligned_cols=32  Identities=28%  Similarity=0.292  Sum_probs=25.7

Q ss_pred             cCCceeeEEEEECCCCChHHHHHHHHhcCcCc
Q 035301            7 EEYDYLFKVVLIGDSGVGKSNLLSRFTRNEFC   38 (68)
Q Consensus         7 ~~~~~~~ki~~iG~~~vGKtsl~~~~~~~~~~   38 (68)
                      ...+..++|+++|.++||||||++++.+....
T Consensus        11 ~p~~~~~~I~lvG~~NvGKSSL~n~L~~~~~~   42 (188)
T d1puia_          11 LPSDTGIEVAFAGRSNAGKSSALNTLTNQKSL   42 (188)
T ss_dssp             SSCSCSEEEEEEECTTSSHHHHHTTTCCC---
T ss_pred             CCCccCCEEEEECCCCCCHHHHHHHHhCCCce
Confidence            34567899999999999999999999876643

>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=98.67  E-value=4.9e-08  Score=51.17  Aligned_cols=27  Identities=33%  Similarity=0.496  Sum_probs=23.9

Q ss_pred             eeeEEEEECCCCChHHHHHHHHhcCcC
Q 035301           11 YLFKVVLIGDSGVGKSNLLSRFTRNEF   37 (68)
Q Consensus        11 ~~~ki~~iG~~~vGKtsl~~~~~~~~~   37 (68)
                      ..+||+++|..+||||||++++++...
T Consensus         7 ~~~kV~iiG~~~~GKSTLin~l~~~~~   33 (186)
T d1mkya2           7 DAIKVAIVGRPNVGKSTLFNAILNKER   33 (186)
T ss_dssp             SCEEEEEECSTTSSHHHHHHHHHTSTT
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHCCCc
Confidence            368999999999999999999997553

>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=98.65  E-value=9.4e-08  Score=49.95  Aligned_cols=28  Identities=32%  Similarity=0.458  Sum_probs=24.4

Q ss_pred             ceeeEEEEECCCCChHHHHHHHHhcCcC
Q 035301           10 DYLFKVVLIGDSGVGKSNLLSRFTRNEF   37 (68)
Q Consensus        10 ~~~~ki~~iG~~~vGKtsl~~~~~~~~~   37 (68)
                      .+.-+|+++|.++||||||++++++...
T Consensus         3 ~~~~~I~lvG~~~~GKSSLin~l~~~~~   30 (178)
T d1wf3a1           3 TYSGFVAIVGKPNVGKSTLLNNLLGVKV   30 (178)
T ss_dssp             CEEEEEEEECSTTSSHHHHHHHHHTSCC
T ss_pred             ccCcEEEEECCCCCCHHHHHHHHhCCCc
Confidence            4566899999999999999999998653

>d1xzpa2 c.37.1.8 (A:212-371) TrmE GTPase domain {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: TrmE GTPase domain
species: Thermotoga maritima [TaxId: 2336]

Probab=98.60  E-value=6e-09  Score=53.55  Aligned_cols=25  Identities=36%  Similarity=0.725  Sum_probs=22.4

Q ss_pred             eEEEEECCCCChHHHHHHHHhcCcC
Q 035301           13 FKVVLIGDSGVGKSNLLSRFTRNEF   37 (68)
Q Consensus        13 ~ki~~iG~~~vGKtsl~~~~~~~~~   37 (68)
                      +||+++|.++||||||++++.+...
T Consensus         1 ikI~liG~~n~GKSSLin~l~g~~~   25 (160)
T d1xzpa2           1 LRMVIVGKPNVGKSTLLNRLLNEDR   25 (160)
T ss_dssp             EEEEEECCHHHHTCHHHHHHHHHTB
T ss_pred             CEEEEECCCCCCHHHHHHHHhCCCc
Confidence            5899999999999999999987553

>d1udxa2 c.37.1.8 (A:157-336) Obg GTP-binding protein middle domain {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Obg GTP-binding protein middle domain
species: Thermus thermophilus [TaxId: 274]

Probab=98.60  E-value=2.2e-08  Score=52.49  Aligned_cols=24  Identities=42%  Similarity=0.541  Sum_probs=21.4

Q ss_pred             EEEEECCCCChHHHHHHHHhcCcC
Q 035301           14 KVVLIGDSGVGKSNLLSRFTRNEF   37 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~~~~   37 (68)
                      .|.++|.++||||||++++.+...
T Consensus         3 ~VaivG~~nvGKSTLin~L~~~~~   26 (180)
T d1udxa2           3 DVGLVGYPNAGKSSLLAAMTRAHP   26 (180)
T ss_dssp             SEEEECCGGGCHHHHHHHHCSSCC
T ss_pred             EEEEECCCCCCHHHHHHHHhCCCC
Confidence            589999999999999999987654

>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=98.57  E-value=2.1e-08  Score=52.72  Aligned_cols=24  Identities=42%  Similarity=0.483  Sum_probs=21.3

Q ss_pred             eEEEEECCCCChHHHHHHHHhcCc
Q 035301           13 FKVVLIGDSGVGKSNLLSRFTRNE   36 (68)
Q Consensus        13 ~ki~~iG~~~vGKtsl~~~~~~~~   36 (68)
                      .+|.++|.++||||||++++.+..
T Consensus         2 ~~VaiiG~~nvGKSSLin~L~~~~   25 (185)
T d1lnza2           2 ADVGLVGFPSVGKSTLLSVVSSAK   25 (185)
T ss_dssp             CCEEEESSTTSSHHHHHHHSEEEC
T ss_pred             CeEEEECCCCCCHHHHHHHHhCCC
Confidence            368999999999999999998654

>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=98.53  E-value=1.6e-07  Score=48.75  Aligned_cols=28  Identities=29%  Similarity=0.532  Sum_probs=23.6

Q ss_pred             ceeeEEEEECCCCChHHHHHHHHhcCcC
Q 035301           10 DYLFKVVLIGDSGVGKSNLLSRFTRNEF   37 (68)
Q Consensus        10 ~~~~ki~~iG~~~vGKtsl~~~~~~~~~   37 (68)
                      .+.-.|+++|.++||||||++++.+...
T Consensus         3 ~~~~~I~iiG~~nvGKSSLin~L~~~~~   30 (179)
T d1egaa1           3 SYCGFIAIVGRPNVGKSTLLNKLLGQKI   30 (179)
T ss_dssp             CEEEEEEEECSSSSSHHHHHHHHHTCSE
T ss_pred             ccccEEEEECCCCCCHHHHHHHHhCCCc
Confidence            3455689999999999999999997653

>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=98.50  E-value=1.8e-07  Score=49.37  Aligned_cols=25  Identities=32%  Similarity=0.557  Sum_probs=22.1

Q ss_pred             eeEEEEECCCCChHHHHHHHHhcCc
Q 035301           12 LFKVVLIGDSGVGKSNLLSRFTRNE   36 (68)
Q Consensus        12 ~~ki~~iG~~~vGKtsl~~~~~~~~   36 (68)
                      ..+|+++|.++||||||++++.+..
T Consensus        23 ~~~I~lvG~~n~GKSTLin~L~g~~   47 (195)
T d1svia_          23 LPEIALAGRSNVGKSSFINSLINRK   47 (195)
T ss_dssp             CCEEEEEEBTTSSHHHHHHHHHTC-
T ss_pred             CCEEEEECCCCCCHHHHHHHhcCCC
Confidence            4589999999999999999999754

>d1ye8a1 c.37.1.11 (A:1-178) Hypothetical kinase-like protein Aq_1292 {Aquifex aeolicus [TaxId: 63363]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Hypothetical kinase-like protein Aq 1292
species: Aquifex aeolicus [TaxId: 63363]

Probab=98.50  E-value=3.9e-08  Score=51.04  Aligned_cols=23  Identities=30%  Similarity=0.797  Sum_probs=21.0

Q ss_pred             eEEEEECCCCChHHHHHHHHhcC
Q 035301           13 FKVVLIGDSGVGKSNLLSRFTRN   35 (68)
Q Consensus        13 ~ki~~iG~~~vGKtsl~~~~~~~   35 (68)
                      +||+++|++|+|||||++.+++.
T Consensus         1 ~ki~I~G~~G~GKSTLl~~i~~~   23 (178)
T d1ye8a1           1 MKIIITGEPGVGKTTLVKKIVER   23 (178)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHH
T ss_pred             CEEEEECCCCcHHHHHHHHHHhc
Confidence            48999999999999999999863

>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=98.37  E-value=6.7e-07  Score=46.26  Aligned_cols=24  Identities=29%  Similarity=0.656  Sum_probs=20.0

Q ss_pred             EEEEECCCCChHHHHHHHHhcCcC
Q 035301           14 KVVLIGDSGVGKSNLLSRFTRNEF   37 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~~~~   37 (68)
                      .|+++|+++||||||++++++...
T Consensus         2 ~V~liG~~n~GKSsLi~~L~~~~~   25 (171)
T d1mkya1           2 TVLIVGRPNVGKSTLFNKLVKKKK   25 (171)
T ss_dssp             EEEEECCTTSSHHHHHHHHHC---
T ss_pred             EEEEECCCCCCHHHHHHHHhCCCc
Confidence            689999999999999999997654

>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=98.34  E-value=2.5e-07  Score=48.18  Aligned_cols=25  Identities=36%  Similarity=0.604  Sum_probs=22.2

Q ss_pred             EEEEECCCCChHHHHHHHHhcCcCc
Q 035301           14 KVVLIGDSGVGKSNLLSRFTRNEFC   38 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~~~~~   38 (68)
                      .|+++|.++||||||++++.+....
T Consensus         2 ~I~lvG~~nvGKSsLin~l~~~~~~   26 (184)
T d2cxxa1           2 TIIFAGRSNVGKSTLIYRLTGKKVR   26 (184)
T ss_dssp             EEEEEEBTTSSHHHHHHHHHSCCCS
T ss_pred             EEEEECCCCCCHHHHHHHHhCCCce
Confidence            5899999999999999999986654

>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=98.31  E-value=1.5e-06  Score=48.04  Aligned_cols=28  Identities=21%  Similarity=0.445  Sum_probs=24.6

Q ss_pred             ceeeEEEEECCCCChHHHHHHHHhcCcC
Q 035301           10 DYLFKVVLIGDSGVGKSNLLSRFTRNEF   37 (68)
Q Consensus        10 ~~~~ki~~iG~~~vGKtsl~~~~~~~~~   37 (68)
                      ...++|+++|.+|+|||||++.+.+...
T Consensus        30 ~~~l~I~LvG~tg~GKSSliN~ilg~~~   57 (257)
T d1h65a_          30 VNSLTILVMGKGGVGKSSTVNSIIGERV   57 (257)
T ss_dssp             CCEEEEEEEESTTSSHHHHHHHHHTSCC
T ss_pred             CCCcEEEEECCCCCcHHHHHHHHhCCCc
Confidence            3468999999999999999999997653

>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=98.30  E-value=2.5e-07  Score=47.64  Aligned_cols=24  Identities=25%  Similarity=0.519  Sum_probs=21.6

Q ss_pred             eeeEEEEECCCCChHHHHHHHHhc
Q 035301           11 YLFKVVLIGDSGVGKSNLLSRFTR   34 (68)
Q Consensus        11 ~~~ki~~iG~~~vGKtsl~~~~~~   34 (68)
                      ..-+|++.|++|+|||||+++++.
T Consensus         6 ~~K~I~i~G~~GsGKTTla~~La~   29 (192)
T d1lw7a2           6 FAKTVAILGGESSGKSVLVNKLAA   29 (192)
T ss_dssp             TCEEEEEECCTTSHHHHHHHHHHH
T ss_pred             cceEEEEECCCCCCHHHHHHHHHH
Confidence            456899999999999999999885

>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=98.20  E-value=4.3e-07  Score=46.52  Aligned_cols=23  Identities=35%  Similarity=0.589  Sum_probs=20.6

Q ss_pred             eeEEEEECCCCChHHHHHHHHhc
Q 035301           12 LFKVVLIGDSGVGKSNLLSRFTR   34 (68)
Q Consensus        12 ~~ki~~iG~~~vGKtsl~~~~~~   34 (68)
                      ..+|+++|++|+||||+.+.++.
T Consensus         4 ~~~I~i~G~pGsGKTTia~~La~   26 (173)
T d1rkba_           4 LPNILLTGTPGVGKTTLGKELAS   26 (173)
T ss_dssp             CCCEEEECSTTSSHHHHHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHHH
Confidence            46899999999999999998874

>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=98.16  E-value=1e-06  Score=48.70  Aligned_cols=30  Identities=27%  Similarity=0.275  Sum_probs=25.0

Q ss_pred             EEEEECCCCChHHHHHHHHhcCcCcCCCcc
Q 035301           14 KVVLIGDSGVGKSNLLSRFTRNEFCLESKS   43 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~~~~~~~~~~   43 (68)
                      ++.++|++|+|||||++.+++-..+.++..
T Consensus        30 ~vaivG~sGsGKSTLl~ll~gl~~p~~G~I   59 (242)
T d1mv5a_          30 IIAFAGPSGGGKSTIFSLLERFYQPTAGEI   59 (242)
T ss_dssp             EEEEECCTTSSHHHHHHHHTTSSCCSBSCE
T ss_pred             EEEEECCCCCCHHHHHHHHHHhhCCCCCEE
Confidence            789999999999999999998765555443

>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=98.16  E-value=6.7e-07  Score=49.23  Aligned_cols=28  Identities=39%  Similarity=0.466  Sum_probs=23.2

Q ss_pred             EEEEECCCCChHHHHHHHHhcCcCcCCC
Q 035301           14 KVVLIGDSGVGKSNLLSRFTRNEFCLES   41 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~~~~~~~~   41 (68)
                      .+.++|++|+|||||++.+.+...+.++
T Consensus        28 i~~liGpsGsGKSTLl~~i~Gl~~p~sG   55 (232)
T d2awna2          28 FVVFVGPSGCGKSTLLRMIAGLETITSG   55 (232)
T ss_dssp             EEEEECCTTSSHHHHHHHHHTSSCCSEE
T ss_pred             EEEEECCCCChHHHHHHHHhcCCCCCCC
Confidence            5789999999999999999986554443

>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=98.14  E-value=7.3e-07  Score=47.95  Aligned_cols=28  Identities=29%  Similarity=0.392  Sum_probs=23.2

Q ss_pred             EEEEECCCCChHHHHHHHHhcCcCcCCC
Q 035301           14 KVVLIGDSGVGKSNLLSRFTRNEFCLES   41 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~~~~~~~~   41 (68)
                      .+.++|++|+|||||++.+++...+.++
T Consensus        29 i~~l~G~NGsGKSTLl~~i~gl~~p~~G   56 (200)
T d1sgwa_          29 VVNFHGPNGIGKTTLLKTISTYLKPLKG   56 (200)
T ss_dssp             CEEEECCTTSSHHHHHHHHTTSSCCSEE
T ss_pred             EEEEECCCCChHHHHHHHHhcccccCCC
Confidence            5789999999999999999986654443

>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=98.14  E-value=7e-07  Score=49.09  Aligned_cols=26  Identities=31%  Similarity=0.330  Sum_probs=22.2

Q ss_pred             EEEEECCCCChHHHHHHHHhcCcCcC
Q 035301           14 KVVLIGDSGVGKSNLLSRFTRNEFCL   39 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~~~~~~   39 (68)
                      .+.++|++|+|||||++.+.+...+.
T Consensus        33 ~~~iiG~sGsGKSTLl~~i~gl~~p~   58 (230)
T d1l2ta_          33 FVSIMGPSGSGKSTMLNIIGCLDKPT   58 (230)
T ss_dssp             EEEEECSTTSSHHHHHHHHTTSSCCS
T ss_pred             EEEEECCCCCCcchhhHhccCCCCCC
Confidence            57899999999999999999865443

>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=98.14  E-value=8.8e-07  Score=45.48  Aligned_cols=25  Identities=16%  Similarity=0.383  Sum_probs=22.0

Q ss_pred             ceeeEEEEECCCCChHHHHHHHHhc
Q 035301           10 DYLFKVVLIGDSGVGKSNLLSRFTR   34 (68)
Q Consensus        10 ~~~~ki~~iG~~~vGKtsl~~~~~~   34 (68)
                      +...+|++.|++|+||||+...++.
T Consensus         3 pk~~~I~i~G~~GsGKTT~~~~La~   27 (174)
T d1y63a_           3 PKGINILITGTPGTGKTSMAEMIAA   27 (174)
T ss_dssp             CSSCEEEEECSTTSSHHHHHHHHHH
T ss_pred             CCCCEEEEEeCCCCCHHHHHHHHHH
Confidence            3457999999999999999999875

>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=98.13  E-value=1.3e-06  Score=51.12  Aligned_cols=28  Identities=21%  Similarity=0.398  Sum_probs=24.3

Q ss_pred             eeeEEEEECCCCChHHHHHHHHhcCcCc
Q 035301           11 YLFKVVLIGDSGVGKSNLLSRFTRNEFC   38 (68)
Q Consensus        11 ~~~ki~~iG~~~vGKtsl~~~~~~~~~~   38 (68)
                      ..++|+++|.+|+|||||+|.+.+....
T Consensus        55 ~~l~Iai~G~~n~GKSSLiNaL~G~~~~   82 (400)
T d1tq4a_          55 SVLNVAVTGETGSGKSSFINTLRGIGNE   82 (400)
T ss_dssp             CCEEEEEEECTTSSHHHHHHHHHTCCTT
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhCCCcC
Confidence            3589999999999999999999985543

>d1u0la2 c.37.1.8 (A:69-293) Probable GTPase EngC (YjeQ), C-terminal domain {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Probable GTPase EngC (YjeQ), C-terminal domain
species: Thermotoga maritima [TaxId: 2336]

Probab=98.11  E-value=9e-07  Score=48.54  Aligned_cols=23  Identities=39%  Similarity=0.481  Sum_probs=20.4

Q ss_pred             EEEEECCCCChHHHHHHHHhcCc
Q 035301           14 KVVLIGDSGVGKSNLLSRFTRNE   36 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~~~   36 (68)
                      ..+++|.+|||||||++.+.++.
T Consensus        97 t~~~~G~SGVGKSTLiN~L~~~~  119 (225)
T d1u0la2          97 ISTMAGLSGVGKSSLLNAINPGL  119 (225)
T ss_dssp             EEEEECSTTSSHHHHHHHHSTTC
T ss_pred             eEEEECCCCCCHHHHHHhhcchh
Confidence            56899999999999999998754

>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=98.11  E-value=1e-06  Score=48.70  Aligned_cols=26  Identities=31%  Similarity=0.337  Sum_probs=22.7

Q ss_pred             EEEEECCCCChHHHHHHHHhcCcCcC
Q 035301           14 KVVLIGDSGVGKSNLLSRFTRNEFCL   39 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~~~~~~   39 (68)
                      ++.++|++|+|||||++.+.+...+.
T Consensus        31 ~vaIvG~sGsGKSTLl~ll~gl~~p~   56 (241)
T d2pmka1          31 VIGIVGRSGSGKSTLTKLIQRFYIPE   56 (241)
T ss_dssp             EEEEECSTTSSHHHHHHHHTTSSCCS
T ss_pred             EEEEECCCCCCHHHHHHHHHhcCCCC
Confidence            79999999999999999999865443

>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=98.10  E-value=1e-06  Score=48.64  Aligned_cols=27  Identities=37%  Similarity=0.402  Sum_probs=23.0

Q ss_pred             EEEEECCCCChHHHHHHHHhcCcCcCC
Q 035301           14 KVVLIGDSGVGKSNLLSRFTRNEFCLE   40 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~~~~~~~   40 (68)
                      .+.++|++|+|||||++.+.+...+.+
T Consensus        34 ~~~liGpsGaGKSTLl~~i~Gl~~p~s   60 (239)
T d1v43a3          34 FLVLLGPSGCGKTTTLRMIAGLEEPTE   60 (239)
T ss_dssp             EEEEECCTTSSHHHHHHHHHTSSCCSE
T ss_pred             EEEEECCCCChHHHHHHHHHcCCCCCC
Confidence            578999999999999999998765443

>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=98.09  E-value=1.1e-06  Score=48.56  Aligned_cols=26  Identities=31%  Similarity=0.277  Sum_probs=21.9

Q ss_pred             EEEEECCCCChHHHHHHHHhcCcCcC
Q 035301           14 KVVLIGDSGVGKSNLLSRFTRNEFCL   39 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~~~~~~   39 (68)
                      .++++|++|+|||||++.+++...+.
T Consensus        26 ~~~liGpnGaGKSTll~~i~Gl~~p~   51 (240)
T d2onka1          26 YCVLLGPTGAGKSVFLELIAGIVKPD   51 (240)
T ss_dssp             EEEEECCTTSSHHHHHHHHHTSSCCS
T ss_pred             EEEEECCCCChHHHHHHHHHcCCCCC
Confidence            36789999999999999999865443

>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=98.09  E-value=1.1e-06  Score=48.67  Aligned_cols=26  Identities=23%  Similarity=0.252  Sum_probs=22.7

Q ss_pred             EEEEECCCCChHHHHHHHHhcCcCcC
Q 035301           14 KVVLIGDSGVGKSNLLSRFTRNEFCL   39 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~~~~~~   39 (68)
                      ++.++|++|+|||||++.+.+...+.
T Consensus        42 ~vaivG~sGsGKSTLl~li~gl~~p~   67 (251)
T d1jj7a_          42 VTALVGPNGSGKSTVAALLQNLYQPT   67 (251)
T ss_dssp             EEEEECSTTSSHHHHHHHHTTSSCCS
T ss_pred             EEEEECCCCCcHHHHHHHHhcccCCC
Confidence            78999999999999999999865543

>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=98.08  E-value=9.6e-07  Score=48.52  Aligned_cols=28  Identities=21%  Similarity=0.298  Sum_probs=23.6

Q ss_pred             EEEEECCCCChHHHHHHHHhcCcCcCCC
Q 035301           14 KVVLIGDSGVGKSNLLSRFTRNEFCLES   41 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~~~~~~~~   41 (68)
                      -+.++|++|+|||||++.+.+-..+.++
T Consensus        28 ~~~liGpsGaGKSTll~~l~Gl~~p~sG   55 (229)
T d3d31a2          28 YFVILGPTGAGKTLFLELIAGFHVPDSG   55 (229)
T ss_dssp             EEEEECCCTHHHHHHHHHHHTSSCCSEE
T ss_pred             EEEEECCCCCcHHHHHHHHhcCcCCCCC
Confidence            4789999999999999999987655443

>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=98.07  E-value=1e-06  Score=48.92  Aligned_cols=26  Identities=42%  Similarity=0.408  Sum_probs=22.6

Q ss_pred             EEEEECCCCChHHHHHHHHhcCcCcC
Q 035301           14 KVVLIGDSGVGKSNLLSRFTRNEFCL   39 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~~~~~~   39 (68)
                      ++.++|++|+|||||++.+++..-+.
T Consensus        43 ~iaivG~sGsGKSTLl~ll~gl~~p~   68 (253)
T d3b60a1          43 TVALVGRSGSGKSTIASLITRFYDID   68 (253)
T ss_dssp             EEEEEECTTSSHHHHHHHHTTTTCCS
T ss_pred             EEEEECCCCChHHHHHHHHhcccCCC
Confidence            79999999999999999999765443

>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=98.04  E-value=1.6e-06  Score=47.94  Aligned_cols=28  Identities=29%  Similarity=0.339  Sum_probs=23.5

Q ss_pred             EEEEECCCCChHHHHHHHHhcCcCcCCC
Q 035301           14 KVVLIGDSGVGKSNLLSRFTRNEFCLES   41 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~~~~~~~~   41 (68)
                      .+.++|++|+|||||++.+++...+.++
T Consensus        31 ~~~liG~sGaGKSTll~~i~gl~~p~sG   58 (240)
T d1g2912          31 FMILLGPSGCGKTTTLRMIAGLEEPSRG   58 (240)
T ss_dssp             EEEEECSTTSSHHHHHHHHHTSSCCSEE
T ss_pred             EEEEECCCCChHHHHHHHHhcCCCCCCC
Confidence            6789999999999999999987654443

>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=98.04  E-value=1.7e-06  Score=44.17  Aligned_cols=21  Identities=29%  Similarity=0.449  Sum_probs=19.0

Q ss_pred             EEEEECCCCChHHHHHHHHhc
Q 035301           14 KVVLIGDSGVGKSNLLSRFTR   34 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~   34 (68)
                      =+.++|.+|+|||||+++++.
T Consensus         4 vi~itG~~GSGKTTL~~~L~~   24 (170)
T d1np6a_           4 LLAFAAWSGTGKTTLLKKLIP   24 (170)
T ss_dssp             EEEEECCTTSCHHHHHHHHHH
T ss_pred             EEEEEcCCCCCHHHHHHHHHH
Confidence            478999999999999999974

>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=98.03  E-value=1.7e-06  Score=43.56  Aligned_cols=21  Identities=29%  Similarity=0.613  Sum_probs=19.1

Q ss_pred             EEEEECCCCChHHHHHHHHhc
Q 035301           14 KVVLIGDSGVGKSNLLSRFTR   34 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~   34 (68)
                      .|+++|++|+||||+.+.++.
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            589999999999999998875

>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=98.02  E-value=1.4e-06  Score=48.16  Aligned_cols=25  Identities=36%  Similarity=0.323  Sum_probs=21.9

Q ss_pred             EEEEECCCCChHHHHHHHHhcCcCc
Q 035301           14 KVVLIGDSGVGKSNLLSRFTRNEFC   38 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~~~~~   38 (68)
                      -+.++|++|+|||||++.+.+..-+
T Consensus        33 ~~~iiG~sGsGKSTLl~~i~Gl~~p   57 (240)
T d3dhwc1          33 IYGVIGASGAGKSTLIRCVNLLERP   57 (240)
T ss_dssp             EEEEEESTTSSHHHHHHHHTTSSCC
T ss_pred             EEEEECCCCCCHHHHHHHHcCCccc
Confidence            5789999999999999999986543

>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=98.02  E-value=8.2e-07  Score=46.81  Aligned_cols=20  Identities=30%  Similarity=0.684  Sum_probs=18.5

Q ss_pred             EEEECCCCChHHHHHHHHhc
Q 035301           15 VVLIGDSGVGKSNLLSRFTR   34 (68)
Q Consensus        15 i~~iG~~~vGKtsl~~~~~~   34 (68)
                      ++++|++|+||++|+++++.
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            78899999999999999885

>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=98.02  E-value=1.8e-06  Score=47.59  Aligned_cols=28  Identities=25%  Similarity=0.202  Sum_probs=23.4

Q ss_pred             EEEEECCCCChHHHHHHHHhcCcCcCCC
Q 035301           14 KVVLIGDSGVGKSNLLSRFTRNEFCLES   41 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~~~~~~~~   41 (68)
                      -+.++|++|+|||||++.+++...+.++
T Consensus        30 i~glvG~nGaGKSTLl~~l~G~~~p~~G   57 (238)
T d1vpla_          30 IFGLIGPNGAGKTTTLRIISTLIKPSSG   57 (238)
T ss_dssp             EEEEECCTTSSHHHHHHHHTTSSCCSEE
T ss_pred             EEEEECCCCCCHHHHHHHHhcCCCCCCC
Confidence            4679999999999999999987655444

>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=98.01  E-value=1.6e-06  Score=48.73  Aligned_cols=26  Identities=23%  Similarity=0.319  Sum_probs=22.5

Q ss_pred             EEEEECCCCChHHHHHHHHhcCcCcC
Q 035301           14 KVVLIGDSGVGKSNLLSRFTRNEFCL   39 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~~~~~~   39 (68)
                      ++.++|++|+|||||++.+++...+.
T Consensus        64 ~vaivG~nGsGKSTLl~~i~Gl~~p~   89 (281)
T d1r0wa_          64 MLAITGSTGSGKTSLLMLILGELEAS   89 (281)
T ss_dssp             EEEEEESTTSSHHHHHHHHHTSSCCS
T ss_pred             EEEEECCCCChHHHHHHHHhCCCcCC
Confidence            68999999999999999999865443

>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=97.99  E-value=2.1e-06  Score=47.36  Aligned_cols=28  Identities=32%  Similarity=0.386  Sum_probs=23.4

Q ss_pred             EEEEECCCCChHHHHHHHHhcCcCcCCC
Q 035301           14 KVVLIGDSGVGKSNLLSRFTRNEFCLES   41 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~~~~~~~~   41 (68)
                      -+.++|++|+|||||++.+.+...+.++
T Consensus        34 i~~liGpnGaGKSTl~~~i~Gl~~p~~G   61 (240)
T d1ji0a_          34 IVTLIGANGAGKTTTLSAIAGLVRAQKG   61 (240)
T ss_dssp             EEEEECSTTSSHHHHHHHHTTSSCCSEE
T ss_pred             EEEEECCCCCcHHHHHHHHhCCCCCCcc
Confidence            5789999999999999999987654443

>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=97.99  E-value=3.1e-06  Score=44.78  Aligned_cols=27  Identities=30%  Similarity=0.583  Sum_probs=23.5

Q ss_pred             CceeeEEEEECCCCChHHHHHHHHhcC
Q 035301            9 YDYLFKVVLIGDSGVGKSNLLSRFTRN   35 (68)
Q Consensus         9 ~~~~~ki~~iG~~~vGKtsl~~~~~~~   35 (68)
                      +...++|+++|++|+||||+...++..
T Consensus         3 ~~r~mrIiliG~PGSGKtT~a~~La~~   29 (189)
T d2ak3a1           3 SARLLRAAIMGAPGSGKGTVSSRITKH   29 (189)
T ss_dssp             SSCCCEEEEECCTTSSHHHHHHHHHHH
T ss_pred             CCcceeEEEECCCCCCHHHHHHHHHHH
Confidence            456789999999999999999999853

>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=97.99  E-value=2.4e-06  Score=44.28  Aligned_cols=22  Identities=27%  Similarity=0.531  Sum_probs=19.8

Q ss_pred             eEEEEECCCCChHHHHHHHHhc
Q 035301           13 FKVVLIGDSGVGKSNLLSRFTR   34 (68)
Q Consensus        13 ~ki~~iG~~~vGKtsl~~~~~~   34 (68)
                      ++|+++|++|+||||+...++.
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            4799999999999999998875

>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=97.97  E-value=3.5e-06  Score=44.00  Aligned_cols=24  Identities=21%  Similarity=0.256  Sum_probs=21.9

Q ss_pred             eeEEEEECCCCChHHHHHHHHhcC
Q 035301           12 LFKVVLIGDSGVGKSNLLSRFTRN   35 (68)
Q Consensus        12 ~~ki~~iG~~~vGKtsl~~~~~~~   35 (68)
                      .++|.++|..++|||||++++.+.
T Consensus         5 ~inIaiiG~~naGKSTL~n~L~~~   28 (179)
T d1wb1a4           5 NINLGIFGHIDHGKTTLSKVLTEI   28 (179)
T ss_dssp             EEEEEEEECTTSSHHHHHHHHHTT
T ss_pred             CEEEEEEeCCCCcHHHHHHHHHHh
Confidence            568999999999999999999864

>d1t9ha2 c.37.1.8 (A:68-298) Probable GTPase EngC (YjeQ), C-terminal domain {Bacillus subtilis [TaxId: 1423]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Probable GTPase EngC (YjeQ), C-terminal domain
species: Bacillus subtilis [TaxId: 1423]

Probab=97.97  E-value=7.2e-07  Score=49.09  Aligned_cols=23  Identities=43%  Similarity=0.657  Sum_probs=19.3

Q ss_pred             EEEEECCCCChHHHHHHHHhcCc
Q 035301           14 KVVLIGDSGVGKSNLLSRFTRNE   36 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~~~   36 (68)
                      ..+++|.+|||||||++.+.+..
T Consensus        99 ~~vl~G~SGVGKSSLiN~L~~~~  121 (231)
T d1t9ha2          99 TTVFAGQSGVGKSSLLNAISPEL  121 (231)
T ss_dssp             EEEEEESHHHHHHHHHHHHCC--
T ss_pred             eEEEECCCCccHHHHHHhhccHh
Confidence            56799999999999999999754

>d1gkya_ c.37.1.1 (A:) Guanylate kinase {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Guanylate kinase
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=97.96  E-value=2.6e-06  Score=44.88  Aligned_cols=21  Identities=43%  Similarity=0.724  Sum_probs=18.9

Q ss_pred             EEEECCCCChHHHHHHHHhcC
Q 035301           15 VVLIGDSGVGKSNLLSRFTRN   35 (68)
Q Consensus        15 i~~iG~~~vGKtsl~~~~~~~   35 (68)
                      |+++|++|+||++|+++++..
T Consensus         4 Ivl~GpsG~GK~tl~~~L~~~   24 (186)
T d1gkya_           4 IVISGPSGTGKSTLLKKLFAE   24 (186)
T ss_dssp             EEEECCTTSSHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHh
Confidence            789999999999999998753

>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=97.95  E-value=1.3e-05  Score=44.66  Aligned_cols=34  Identities=26%  Similarity=0.442  Sum_probs=27.7

Q ss_pred             eeEEEEECCCCChHHHHHHHHhcCcC-cCCCccce
Q 035301           12 LFKVVLIGDSGVGKSNLLSRFTRNEF-CLESKSTI   45 (68)
Q Consensus        12 ~~ki~~iG~~~vGKtsl~~~~~~~~~-~~~~~~t~   45 (68)
                      ..+++|+|+.++|||||++.+++..+ +....++.
T Consensus        26 ~P~ivvvG~~SsGKSsliNaLlg~~~lP~~~~~~T   60 (299)
T d2akab1          26 LPQIAVVGGQSAGKSSVLENFVGRDFLPRGSGIVT   60 (299)
T ss_dssp             CCEEEEEEBTTSCHHHHHHHHHTSCCSCCCSSCSC
T ss_pred             CCeEEEEcCCCCCHHHHHHHHhCCCcCCCCCCccc
Confidence            56899999999999999999999886 44444443

>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=97.94  E-value=3.4e-06  Score=43.92  Aligned_cols=22  Identities=27%  Similarity=0.635  Sum_probs=20.0

Q ss_pred             eEEEEECCCCChHHHHHHHHhc
Q 035301           13 FKVVLIGDSGVGKSNLLSRFTR   34 (68)
Q Consensus        13 ~ki~~iG~~~vGKtsl~~~~~~   34 (68)
                      ++|+++|++|+||||+...++.
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            4899999999999999999874

>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=97.93  E-value=1.7e-06  Score=47.84  Aligned_cols=29  Identities=17%  Similarity=0.353  Sum_probs=24.1

Q ss_pred             EEEEECCCCChHHHHHHHHhcCcCcCCCc
Q 035301           14 KVVLIGDSGVGKSNLLSRFTRNEFCLESK   42 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~~~~~~~~~   42 (68)
                      .+.++|++|+|||||++.+.+-.-+.++.
T Consensus        33 ~~~iiG~sGsGKSTll~~i~gl~~p~~G~   61 (242)
T d1oxxk2          33 RFGILGPSGAGKTTFMRIIAGLDVPSTGE   61 (242)
T ss_dssp             EEEEECSCHHHHHHHHHHHHTSSCCSEEE
T ss_pred             EEEEECCCCCcHHHHHHHHHcCcCCCCce
Confidence            68899999999999999999876554443

>d1zaka1 c.37.1.1 (A:3-127,A:159-222) Adenylate kinase {Maize (Zea mays) [TaxId: 4577]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Maize (Zea mays) [TaxId: 4577]

Probab=97.92  E-value=2.4e-06  Score=44.85  Aligned_cols=24  Identities=21%  Similarity=0.313  Sum_probs=20.8

Q ss_pred             eeEEEEECCCCChHHHHHHHHhcC
Q 035301           12 LFKVVLIGDSGVGKSNLLSRFTRN   35 (68)
Q Consensus        12 ~~ki~~iG~~~vGKtsl~~~~~~~   35 (68)
                      .++|+++|++|+||||++..++..
T Consensus         3 Pm~I~i~GppGsGKsT~a~~La~~   26 (189)
T d1zaka1           3 PLKVMISGAPASGKGTQCELIKTK   26 (189)
T ss_dssp             SCCEEEEESTTSSHHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHH
Confidence            358999999999999999988753

>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=97.92  E-value=1.5e-06  Score=48.31  Aligned_cols=26  Identities=35%  Similarity=0.386  Sum_probs=22.3

Q ss_pred             EEEEECCCCChHHHHHHHHhcCcCcC
Q 035301           14 KVVLIGDSGVGKSNLLSRFTRNEFCL   39 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~~~~~~   39 (68)
                      ++.++|++|+|||||++.+.+...+.
T Consensus        46 ~vaivG~sGsGKSTLl~ll~gl~~p~   71 (255)
T d2hyda1          46 TVAFVGMSGGGKSTLINLIPRFYDVT   71 (255)
T ss_dssp             EEEEECSTTSSHHHHHTTTTTSSCCS
T ss_pred             EEEEECCCCCcHHHHHHHHHhcCCcc
Confidence            89999999999999999988755443

>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=97.92  E-value=3.7e-06  Score=43.85  Aligned_cols=23  Identities=30%  Similarity=0.586  Sum_probs=20.4

Q ss_pred             eEEEEECCCCChHHHHHHHHhcC
Q 035301           13 FKVVLIGDSGVGKSNLLSRFTRN   35 (68)
Q Consensus        13 ~ki~~iG~~~vGKtsl~~~~~~~   35 (68)
                      ++|+++|++|+||||+...++..
T Consensus         1 M~I~i~G~pGSGKsT~a~~La~~   23 (182)
T d1s3ga1           1 MNIVLMGLPGAGKGTQADRIVEK   23 (182)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHHH
Confidence            47999999999999999988853

>d2bdta1 c.37.1.25 (A:1-176) Hypothetical protein BH3686 {Bacillus halodurans [TaxId: 86665]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Atu3015-like
domain: Hypothetical protein BH3686
species: Bacillus halodurans [TaxId: 86665]

Probab=97.92  E-value=3.6e-06  Score=42.76  Aligned_cols=21  Identities=33%  Similarity=0.566  Sum_probs=18.8

Q ss_pred             EEEEECCCCChHHHHHHHHhc
Q 035301           14 KVVLIGDSGVGKSNLLSRFTR   34 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~   34 (68)
                      -|++.|++|+||||+.++++.
T Consensus         4 lI~i~G~~GsGKTTva~~L~~   24 (176)
T d2bdta1           4 LYIITGPAGVGKSTTCKRLAA   24 (176)
T ss_dssp             EEEEECSTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            478999999999999998874

>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=97.92  E-value=3.9e-06  Score=42.25  Aligned_cols=20  Identities=35%  Similarity=0.561  Sum_probs=17.8

Q ss_pred             EEEECCCCChHHHHHHHHhc
Q 035301           15 VVLIGDSGVGKSNLLSRFTR   34 (68)
Q Consensus        15 i~~iG~~~vGKtsl~~~~~~   34 (68)
                      |++.|.+|+||||++++++.
T Consensus         5 Iii~G~pGsGKTTla~~L~~   24 (152)
T d1ly1a_           5 ILTIGCPGSGKSTWAREFIA   24 (152)
T ss_dssp             EEEECCTTSSHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHH
Confidence            67899999999999998864

>d1akya1 c.37.1.1 (A:3-130,A:169-220) Adenylate kinase {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=97.92  E-value=3.9e-06  Score=43.79  Aligned_cols=23  Identities=30%  Similarity=0.560  Sum_probs=20.8

Q ss_pred             eeEEEEECCCCChHHHHHHHHhc
Q 035301           12 LFKVVLIGDSGVGKSNLLSRFTR   34 (68)
Q Consensus        12 ~~ki~~iG~~~vGKtsl~~~~~~   34 (68)
                      +++|+++|++|+||||+...++.
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            46899999999999999999875

>d2i3ba1 c.37.1.11 (A:1-189) Cancer-related NTPase, C1orf57 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Cancer-related NTPase, C1orf57
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.91  E-value=3.9e-06  Score=42.94  Aligned_cols=21  Identities=38%  Similarity=0.706  Sum_probs=18.9

Q ss_pred             EEEEECCCCChHHHHHHHHhc
Q 035301           14 KVVLIGDSGVGKSNLLSRFTR   34 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~   34 (68)
                      .|++.|++|+|||+|+..++.
T Consensus         3 ~v~ItG~~GtGKTtl~~~i~~   23 (189)
T d2i3ba1           3 HVFLTGPPGVGKTTLIHKASE   23 (189)
T ss_dssp             CEEEESCCSSCHHHHHHHHHH
T ss_pred             EEEEECCCCCcHHHHHHHHHH
Confidence            478999999999999999874

>d1znwa1 c.37.1.1 (A:20-201) Guanylate kinase {Mycobacterium tuberculosis [TaxId: 1773]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Guanylate kinase
species: Mycobacterium tuberculosis [TaxId: 1773]

Probab=97.91  E-value=3.6e-06  Score=44.00  Aligned_cols=21  Identities=43%  Similarity=0.591  Sum_probs=18.4

Q ss_pred             EEEECCCCChHHHHHHHHhcC
Q 035301           15 VVLIGDSGVGKSNLLSRFTRN   35 (68)
Q Consensus        15 i~~iG~~~vGKtsl~~~~~~~   35 (68)
                      ++++|++|+||||+++.+...
T Consensus         5 ivl~GpsG~GK~tl~~~L~~~   25 (182)
T d1znwa1           5 VVLSGPSAVGKSTVVRCLRER   25 (182)
T ss_dssp             EEEECSTTSSHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHhh
Confidence            678899999999999998753

>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=97.89  E-value=4.7e-06  Score=43.66  Aligned_cols=23  Identities=26%  Similarity=0.551  Sum_probs=20.8

Q ss_pred             eeEEEEECCCCChHHHHHHHHhc
Q 035301           12 LFKVVLIGDSGVGKSNLLSRFTR   34 (68)
Q Consensus        12 ~~ki~~iG~~~vGKtsl~~~~~~   34 (68)
                      -++|+++|++|+||||+...++.
T Consensus         3 ~~riil~G~pGSGKsT~a~~La~   25 (190)
T d1ak2a1           3 GVRAVLLGPPGAGKGTQAPKLAK   25 (190)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHH
T ss_pred             ccEEEEECCCCCCHHHHHHHHHH
Confidence            46899999999999999999884

>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=97.89  E-value=3.9e-06  Score=46.54  Aligned_cols=27  Identities=33%  Similarity=0.383  Sum_probs=22.7

Q ss_pred             EEEEECCCCChHHHHHHHHhcCcCcCC
Q 035301           14 KVVLIGDSGVGKSNLLSRFTRNEFCLE   40 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~~~~~~~   40 (68)
                      -+.++|++|+|||||++.+.+...+.+
T Consensus        32 i~~liG~nGaGKSTLl~~i~Gl~~p~~   58 (254)
T d1g6ha_          32 VTLIIGPNGSGKSTLINVITGFLKADE   58 (254)
T ss_dssp             EEEEECSTTSSHHHHHHHHTTSSCCSE
T ss_pred             EEEEECCCCCcHHHHHHHHHCCCcCCC
Confidence            478999999999999999998755443

>d1lvga_ c.37.1.1 (A:) Guanylate kinase {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Guanylate kinase
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=97.89  E-value=4.2e-06  Score=44.25  Aligned_cols=20  Identities=55%  Similarity=0.806  Sum_probs=18.2

Q ss_pred             EEEECCCCChHHHHHHHHhc
Q 035301           15 VVLIGDSGVGKSNLLSRFTR   34 (68)
Q Consensus        15 i~~iG~~~vGKtsl~~~~~~   34 (68)
                      |+++|++|+|||+|+.+++.
T Consensus         3 Ivl~GPsGsGK~tl~~~L~~   22 (190)
T d1lvga_           3 VVLSGPSGAGKSTLLKKLFQ   22 (190)
T ss_dssp             EEEECCTTSSHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHH
Confidence            78999999999999998864

>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=97.88  E-value=4.4e-06  Score=46.46  Aligned_cols=26  Identities=35%  Similarity=0.368  Sum_probs=22.2

Q ss_pred             EEEEECCCCChHHHHHHHHhcCcCcC
Q 035301           14 KVVLIGDSGVGKSNLLSRFTRNEFCL   39 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~~~~~~   39 (68)
                      .+.++|++|+|||||++.+.+-.-+.
T Consensus        30 i~~iiG~sGsGKSTLl~~i~Gl~~p~   55 (258)
T d1b0ua_          30 VISIIGSSGSGKSTFLRCINFLEKPS   55 (258)
T ss_dssp             EEEEECCTTSSHHHHHHHHTTSSCCS
T ss_pred             EEEEECCCCCcHHHHHHHHHcCccCC
Confidence            57899999999999999999865433

>d1s96a_ c.37.1.1 (A:) Guanylate kinase {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Guanylate kinase
species: Escherichia coli [TaxId: 562]

Probab=97.87  E-value=4.9e-06  Score=44.68  Aligned_cols=21  Identities=29%  Similarity=0.539  Sum_probs=18.6

Q ss_pred             EEEECCCCChHHHHHHHHhcC
Q 035301           15 VVLIGDSGVGKSNLLSRFTRN   35 (68)
Q Consensus        15 i~~iG~~~vGKtsl~~~~~~~   35 (68)
                      ++++|++||||++|+++++..
T Consensus         5 ivi~GPSG~GK~tl~~~L~~~   25 (205)
T d1s96a_           5 YIVSAPSGAGKSSLIQALLKT   25 (205)
T ss_dssp             EEEECCTTSCHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHhh
Confidence            678899999999999998853

>d2iyva1 c.37.1.2 (A:2-166) Shikimate kinase (AroK) {Mycobacterium tuberculosis [TaxId: 1773]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Shikimate kinase (AroK)
domain: Shikimate kinase (AroK)
species: Mycobacterium tuberculosis [TaxId: 1773]

Probab=97.85  E-value=4.4e-06  Score=43.01  Aligned_cols=22  Identities=41%  Similarity=0.596  Sum_probs=19.1

Q ss_pred             eEEEEECCCCChHHHHHHHHhc
Q 035301           13 FKVVLIGDSGVGKSNLLSRFTR   34 (68)
Q Consensus        13 ~ki~~iG~~~vGKtsl~~~~~~   34 (68)
                      .+|+++|.+||||||+.+.++.
T Consensus         2 p~IvliG~~G~GKSTig~~La~   23 (165)
T d2iyva1           2 PKAVLVGLPGSGKSTIGRRLAK   23 (165)
T ss_dssp             CSEEEECSTTSSHHHHHHHHHH
T ss_pred             CcEEEECCCCCCHHHHHHHHHH
Confidence            4789999999999999888763

>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=97.85  E-value=6.4e-06  Score=46.11  Aligned_cols=26  Identities=31%  Similarity=0.629  Sum_probs=23.9

Q ss_pred             eeEEEEECCCCChHHHHHHHHhcCcC
Q 035301           12 LFKVVLIGDSGVGKSNLLSRFTRNEF   37 (68)
Q Consensus        12 ~~ki~~iG~~~vGKtsl~~~~~~~~~   37 (68)
                      ..+++|+|+.++|||||++.+++..+
T Consensus        24 lP~ivVvG~~ssGKSSliNaLlG~~~   49 (306)
T d1jwyb_          24 LPQIVVVGSQSSGKSSVLENIVGRDF   49 (306)
T ss_dssp             CCEEEEEECSSSSHHHHHHHHHTSCC
T ss_pred             CCeEEEEeCCCCCHHHHHHHHhCCCC
Confidence            45899999999999999999999886

>d1e4va1 c.37.1.1 (A:1-121,A:157-214) Adenylate kinase {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Escherichia coli [TaxId: 562]

Probab=97.85  E-value=5.3e-06  Score=43.09  Aligned_cols=22  Identities=18%  Similarity=0.403  Sum_probs=19.7

Q ss_pred             eEEEEECCCCChHHHHHHHHhc
Q 035301           13 FKVVLIGDSGVGKSNLLSRFTR   34 (68)
Q Consensus        13 ~ki~~iG~~~vGKtsl~~~~~~   34 (68)
                      +||+++|++|+||||....++.
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            4899999999999999988874

>d1qf9a_ c.37.1.1 (A:) UMP/CMP kinase {Dictyostelium discoideum [TaxId: 44689]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: UMP/CMP kinase
species: Dictyostelium discoideum [TaxId: 44689]

Probab=97.83  E-value=7.6e-06  Score=42.91  Aligned_cols=22  Identities=27%  Similarity=0.466  Sum_probs=19.8

Q ss_pred             eEEEEECCCCChHHHHHHHHhc
Q 035301           13 FKVVLIGDSGVGKSNLLSRFTR   34 (68)
Q Consensus        13 ~ki~~iG~~~vGKtsl~~~~~~   34 (68)
                      ..|+++|++|+||||+..+++.
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            5779999999999999999885

>d1puja_ c.37.1.8 (A:) Probable GTPase YlqF {Bacillus subtilis [TaxId: 1423]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Probable GTPase YlqF
species: Bacillus subtilis [TaxId: 1423]

Probab=97.80  E-value=2.6e-05  Score=43.29  Aligned_cols=28  Identities=29%  Similarity=0.579  Sum_probs=24.7

Q ss_pred             ceeeEEEEECCCCChHHHHHHHHhcCcC
Q 035301           10 DYLFKVVLIGDSGVGKSNLLSRFTRNEF   37 (68)
Q Consensus        10 ~~~~ki~~iG~~~vGKtsl~~~~~~~~~   37 (68)
                      ...++++++|-++||||||++++.+..-
T Consensus       110 ~~~~~v~vvG~PNvGKSsliN~L~~~~~  137 (273)
T d1puja_         110 PRAIRALIIGIPNVGKSTLINRLAKKNI  137 (273)
T ss_dssp             CCCEEEEEEESTTSSHHHHHHHHHTSCC
T ss_pred             CCceEEEEEecCccchhhhhhhhhccce
Confidence            4568999999999999999999998654

>d1teva_ c.37.1.1 (A:) UMP/CMP kinase {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: UMP/CMP kinase
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.79  E-value=9.7e-06  Score=42.43  Aligned_cols=22  Identities=27%  Similarity=0.561  Sum_probs=20.1

Q ss_pred             eEEEEECCCCChHHHHHHHHhc
Q 035301           13 FKVVLIGDSGVGKSNLLSRFTR   34 (68)
Q Consensus        13 ~ki~~iG~~~vGKtsl~~~~~~   34 (68)
                      +.|+++|++|+||||...+++.
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            6899999999999999998875

>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=97.77  E-value=5.2e-06  Score=45.41  Aligned_cols=22  Identities=41%  Similarity=0.661  Sum_probs=20.1

Q ss_pred             EEEEECCCCChHHHHHHHHhcC
Q 035301           14 KVVLIGDSGVGKSNLLSRFTRN   35 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~~   35 (68)
                      -+.++|++|+|||||++.+.+.
T Consensus        27 i~~iiG~nGaGKSTLl~~l~Gl   48 (231)
T d1l7vc_          27 ILHLVGPNGAGKSTLLARMAGM   48 (231)
T ss_dssp             EEECBCCTTSSHHHHHHHHHTS
T ss_pred             EEEEECCCCCcHHHHHHHHhCC
Confidence            5789999999999999999984

>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=97.75  E-value=1e-05  Score=41.50  Aligned_cols=20  Identities=20%  Similarity=0.448  Sum_probs=17.5

Q ss_pred             EEEECCCCChHHHHHHHHhc
Q 035301           15 VVLIGDSGVGKSNLLSRFTR   34 (68)
Q Consensus        15 i~~iG~~~vGKtsl~~~~~~   34 (68)
                      +.++|.+|+|||||+.+++.
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            35999999999999998864

>d1knqa_ c.37.1.17 (A:) Gluconate kinase {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Gluconate kinase
domain: Gluconate kinase
species: Escherichia coli [TaxId: 562]

Probab=97.74  E-value=1.1e-05  Score=41.14  Aligned_cols=21  Identities=43%  Similarity=0.547  Sum_probs=18.0

Q ss_pred             EEEEECCCCChHHHHHHHHhc
Q 035301           14 KVVLIGDSGVGKSNLLSRFTR   34 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~   34 (68)
                      -+++.|.+|+||||+.+.++.
T Consensus         8 iivl~G~~GsGKsT~a~~La~   28 (171)
T d1knqa_           8 IYVLMGVSGSGKSAVASEVAH   28 (171)
T ss_dssp             EEEEECSTTSCHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            456789999999999999875

>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=97.73  E-value=1e-05  Score=45.50  Aligned_cols=24  Identities=29%  Similarity=0.493  Sum_probs=20.6

Q ss_pred             eEEEEECCCCChHHHHHHHHhcCc
Q 035301           13 FKVVLIGDSGVGKSNLLSRFTRNE   36 (68)
Q Consensus        13 ~ki~~iG~~~vGKtsl~~~~~~~~   36 (68)
                      +||.++|.++||||||++.+.+..
T Consensus         1 ~~v~lvG~pn~GKStlfn~lt~~~   24 (319)
T d1wxqa1           1 MEIGVVGKPNVGKSTFFSAATLVD   24 (319)
T ss_dssp             CEEEEEECTTSSHHHHHHHHHC--
T ss_pred             CcEeEECCCCCCHHHHHHHHHCCC
Confidence            489999999999999999998754

>d1jbka_ c.37.1.20 (A:) ClpB, AAA+ modules {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: ClpB, AAA+ modules
species: Escherichia coli [TaxId: 562]

Probab=97.72  E-value=1.3e-05  Score=42.93  Aligned_cols=22  Identities=36%  Similarity=0.696  Sum_probs=19.1

Q ss_pred             eEEEEECCCCChHHHHHHHHhc
Q 035301           13 FKVVLIGDSGVGKSNLLSRFTR   34 (68)
Q Consensus        13 ~ki~~iG~~~vGKtsl~~~~~~   34 (68)
                      -.++++|++|||||+++..++.
T Consensus        44 ~n~lLvG~pGVGKTalv~~LA~   65 (195)
T d1jbka_          44 NNPVLIGEPGVGKTAIVEGLAQ   65 (195)
T ss_dssp             CEEEEECCTTSCHHHHHHHHHH
T ss_pred             CCeEEEecCCcccHHHHHHHHH
Confidence            3689999999999999887764

>d1zp6a1 c.37.1.25 (A:6-181) Hypothetical protein Atu3015 {Agrobacterium tumefaciens [TaxId: 358]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Atu3015-like
domain: Hypothetical protein Atu3015
species: Agrobacterium tumefaciens [TaxId: 358]

Probab=97.72  E-value=1.2e-05  Score=41.11  Aligned_cols=21  Identities=29%  Similarity=0.515  Sum_probs=18.3

Q ss_pred             EEEECCCCChHHHHHHHHhcC
Q 035301           15 VVLIGDSGVGKSNLLSRFTRN   35 (68)
Q Consensus        15 i~~iG~~~vGKtsl~~~~~~~   35 (68)
                      |++.|++|+||||+.+.++..
T Consensus         7 I~l~G~~GsGKSTia~~La~~   27 (176)
T d1zp6a1           7 LLLSGHPGSGKSTIAEALANL   27 (176)
T ss_dssp             EEEEECTTSCHHHHHHHHHTC
T ss_pred             EEEECCCCCCHHHHHHHHHHH
Confidence            678899999999999888753

>d1bifa1 c.37.1.7 (A:37-249) 6-phosphofructo-2-kinase/fructose-2,6-bisphosphatase, kinase domain {Rat (Rattus norvegicus) [TaxId: 10116]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: 6-phosphofructo-2-kinase/fructose-2,6-bisphosphatase, kinase domain
domain: 6-phosphofructo-2-kinase/fructose-2,6-bisphosphatase, kinase domain
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=97.71  E-value=1.3e-05  Score=42.08  Aligned_cols=22  Identities=27%  Similarity=0.489  Sum_probs=19.3

Q ss_pred             eEEEEECCCCChHHHHHHHHhc
Q 035301           13 FKVVLIGDSGVGKSNLLSRFTR   34 (68)
Q Consensus        13 ~ki~~iG~~~vGKtsl~~~~~~   34 (68)
                      .-|+++|.+|+||||+.++++.
T Consensus         3 ~li~l~GlpgsGKSTla~~L~~   24 (213)
T d1bifa1           3 TLIVMVGLPARGKTYISKKLTR   24 (213)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHH
T ss_pred             EEEEEECCCCCCHHHHHHHHHH
Confidence            4588999999999999998874

>d1jala1 c.37.1.8 (A:1-278) YchF GTP-binding protein N-terminal domain {Haemophilus influenzae [TaxId: 727]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: YchF GTP-binding protein N-terminal domain
species: Haemophilus influenzae [TaxId: 727]

Probab=97.71  E-value=1.5e-05  Score=44.29  Aligned_cols=25  Identities=36%  Similarity=0.535  Sum_probs=22.4

Q ss_pred             eeEEEEECCCCChHHHHHHHHhcCc
Q 035301           12 LFKVVLIGDSGVGKSNLLSRFTRNE   36 (68)
Q Consensus        12 ~~ki~~iG~~~vGKtsl~~~~~~~~   36 (68)
                      .+||.+||-++||||||++++....
T Consensus         2 ~~~~GivG~Pn~GKSTlf~~lt~~~   26 (278)
T d1jala1           2 GFKCGIVGLPNVGKSTLFNALTKAG   26 (278)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHHTC
T ss_pred             CceEEEECCCCCCHHHHHHHHHCCC
Confidence            4799999999999999999998654

>d1nksa_ c.37.1.1 (A:) Adenylate kinase {Archaeon Sulfolobus acidocaldarius [TaxId: 2285]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Archaeon Sulfolobus acidocaldarius [TaxId: 2285]

Probab=97.70  E-value=1.2e-05  Score=41.41  Aligned_cols=21  Identities=38%  Similarity=0.637  Sum_probs=17.4

Q ss_pred             EEE-EECCCCChHHHHHHHHhc
Q 035301           14 KVV-LIGDSGVGKSNLLSRFTR   34 (68)
Q Consensus        14 ki~-~iG~~~vGKtsl~~~~~~   34 (68)
                      |++ +.|.+|+||||+++.++.
T Consensus         2 kiivi~G~~GsGKTT~~~~La~   23 (194)
T d1nksa_           2 KIGIVTGIPGVGKSTVLAKVKE   23 (194)
T ss_dssp             EEEEEEECTTSCHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHH
Confidence            554 569999999999988864

>d1r6bx2 c.37.1.20 (X:169-436) ClpA, an Hsp100 chaperone, AAA+ modules {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: ClpA, an Hsp100 chaperone, AAA+ modules
species: Escherichia coli [TaxId: 562]

Probab=97.70  E-value=1.5e-05  Score=44.60  Aligned_cols=22  Identities=32%  Similarity=0.593  Sum_probs=19.2

Q ss_pred             eEEEEECCCCChHHHHHHHHhc
Q 035301           13 FKVVLIGDSGVGKSNLLSRFTR   34 (68)
Q Consensus        13 ~ki~~iG~~~vGKtsl~~~~~~   34 (68)
                      -.++++|++|||||+++..++.
T Consensus        40 ~n~lLVG~~GvGKTalv~~la~   61 (268)
T d1r6bx2          40 NNPLLVGESGVGKTAIAEGLAW   61 (268)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHH
T ss_pred             CCcEEECCCCCcHHHHHHHHHH
Confidence            3789999999999999887774

>d1yrba1 c.37.1.10 (A:1-244) ATP(GTP)-binding protein PAB0955 {Pyrococcus abyssi [TaxId: 29292]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: ATP(GTP)-binding protein PAB0955
species: Pyrococcus abyssi [TaxId: 29292]

Probab=97.69  E-value=1.3e-05  Score=42.87  Aligned_cols=20  Identities=45%  Similarity=0.851  Sum_probs=18.5

Q ss_pred             EEEECCCCChHHHHHHHHhc
Q 035301           15 VVLIGDSGVGKSNLLSRFTR   34 (68)
Q Consensus        15 i~~iG~~~vGKtsl~~~~~~   34 (68)
                      ++++|..|+|||||++++..
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            78999999999999999974

>d1viaa_ c.37.1.2 (A:) Shikimate kinase (AroK) {Campylobacter jejuni [TaxId: 197]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Shikimate kinase (AroK)
domain: Shikimate kinase (AroK)
species: Campylobacter jejuni [TaxId: 197]

Probab=97.68  E-value=1.3e-05  Score=41.17  Aligned_cols=21  Identities=38%  Similarity=0.626  Sum_probs=18.5

Q ss_pred             EEEEECCCCChHHHHHHHHhc
Q 035301           14 KVVLIGDSGVGKSNLLSRFTR   34 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~   34 (68)
                      +|+++|.+|+||||+.+.++.
T Consensus         2 ~I~liG~~GsGKsTi~k~La~   22 (161)
T d1viaa_           2 NIVFIGFMGSGKSTLARALAK   22 (161)
T ss_dssp             CEEEECCTTSCHHHHHHHHHH
T ss_pred             cEEEECCCCCCHHHHHHHHHH
Confidence            488999999999999888864

>d1m8pa3 c.37.1.15 (A:391-573) ATP sulfurylase C-terminal domain {Fungus (Penicillium chrysogenum) [TaxId: 5076]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ATP sulfurylase C-terminal domain
domain: ATP sulfurylase C-terminal domain
species: Fungus (Penicillium chrysogenum) [TaxId: 5076]

Probab=97.68  E-value=2.4e-05  Score=39.80  Aligned_cols=23  Identities=22%  Similarity=0.319  Sum_probs=19.4

Q ss_pred             eeEEEEECCCCChHHHHHHHHhc
Q 035301           12 LFKVVLIGDSGVGKSNLLSRFTR   34 (68)
Q Consensus        12 ~~ki~~iG~~~vGKtsl~~~~~~   34 (68)
                      -+-|.++|.+|+||||+...++.
T Consensus         6 g~~I~l~G~~GsGKTTia~~La~   28 (183)
T d1m8pa3           6 GFTIFLTGYMNSGKDAIARALQV   28 (183)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHH
Confidence            36688999999999999887763

>d1yj5a2 c.37.1.1 (A:351-522) 5' polynucleotide kinase-3' phosphatase, C-terminal domain {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: 5' polynucleotide kinase-3' phosphatase, C-terminal domain
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=97.67  E-value=1.6e-05  Score=41.47  Aligned_cols=23  Identities=30%  Similarity=0.356  Sum_probs=20.1

Q ss_pred             eeEEEEECCCCChHHHHHHHHhc
Q 035301           12 LFKVVLIGDSGVGKSNLLSRFTR   34 (68)
Q Consensus        12 ~~ki~~iG~~~vGKtsl~~~~~~   34 (68)
                      ..-|+++|.+|+||||+..+++.
T Consensus        14 p~liil~G~pGsGKST~a~~l~~   36 (172)
T d1yj5a2          14 PEVVVAVGFPGAGKSTFIQEHLV   36 (172)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHTG
T ss_pred             CEEEEEECCCCCCHHHHHHHHHH
Confidence            45788999999999999998864

>d1qhxa_ c.37.1.3 (A:) Chloramphenicol phosphotransferase {Streptomyces venezuelae [TaxId: 54571]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Chloramphenicol phosphotransferase
domain: Chloramphenicol phosphotransferase
species: Streptomyces venezuelae [TaxId: 54571]

Probab=97.67  E-value=1.5e-05  Score=40.52  Aligned_cols=20  Identities=30%  Similarity=0.554  Sum_probs=17.0

Q ss_pred             EEEECCCCChHHHHHHHHhc
Q 035301           15 VVLIGDSGVGKSNLLSRFTR   34 (68)
Q Consensus        15 i~~iG~~~vGKtsl~~~~~~   34 (68)
                      |++.|.+|+||||+.+.++.
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            45559999999999998875

>d1khta_ c.37.1.1 (A:) Adenylate kinase {Archaeon Methanococcus voltae [TaxId: 2188]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Archaeon Methanococcus voltae [TaxId: 2188]

Probab=97.65  E-value=1.8e-05  Score=40.55  Aligned_cols=20  Identities=30%  Similarity=0.358  Sum_probs=17.4

Q ss_pred             EEEECCCCChHHHHHHHHhc
Q 035301           15 VVLIGDSGVGKSNLLSRFTR   34 (68)
Q Consensus        15 i~~iG~~~vGKtsl~~~~~~   34 (68)
                      |++.|.+|+||||++..+..
T Consensus         4 I~i~G~~GsGKsT~~~~L~~   23 (190)
T d1khta_           4 VVVTGVPGVGSTTSSQLAMD   23 (190)
T ss_dssp             EEEECCTTSCHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHH
Confidence            67789999999999998763

>d1gvnb_ c.37.1.21 (B:) Plasmid maintenance system epsilon/zeta, toxin zeta subunit {Streptococcus pyogenes [TaxId: 1314]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Plasmid maintenance system epsilon/zeta, toxin zeta subunit
domain: Plasmid maintenance system epsilon/zeta, toxin zeta subunit
species: Streptococcus pyogenes [TaxId: 1314]

Probab=97.65  E-value=1.2e-05  Score=43.71  Aligned_cols=22  Identities=32%  Similarity=0.459  Sum_probs=19.7

Q ss_pred             EEEEECCCCChHHHHHHHHhcC
Q 035301           14 KVVLIGDSGVGKSNLLSRFTRN   35 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~~   35 (68)
                      -+++.|++|+|||++...+++.
T Consensus        34 ~ilL~GpPGtGKT~la~~la~~   55 (273)
T d1gvnb_          34 AFLLGGQPGSGKTSLRSAIFEE   55 (273)
T ss_dssp             EEEEECCTTSCTHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHH
Confidence            4889999999999999998863

>d2fnaa2 c.37.1.20 (A:1-283) Archaeal ATPase SSO1545 {Sulfolobus solfataricus [TaxId: 2287]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Archaeal ATPase SSO1545
species: Sulfolobus solfataricus [TaxId: 2287]

Probab=97.61  E-value=1.7e-05  Score=42.80  Aligned_cols=21  Identities=19%  Similarity=0.262  Sum_probs=18.5

Q ss_pred             EEEEECCCCChHHHHHHHHhc
Q 035301           14 KVVLIGDSGVGKSNLLSRFTR   34 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~   34 (68)
                      -+++.|++|+|||+|+.+++.
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            577889999999999998874

>d1ukza_ c.37.1.1 (A:) Uridylate kinase {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Uridylate kinase
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=97.61  E-value=3.2e-05  Score=40.54  Aligned_cols=23  Identities=17%  Similarity=0.495  Sum_probs=20.2

Q ss_pred             eeEEEEECCCCChHHHHHHHHhc
Q 035301           12 LFKVVLIGDSGVGKSNLLSRFTR   34 (68)
Q Consensus        12 ~~ki~~iG~~~vGKtsl~~~~~~   34 (68)
                      ..-|+++|++|+||||+...++.
T Consensus         8 ~~iI~i~GppGSGKsT~a~~La~   30 (196)
T d1ukza_           8 VSVIFVLGGPGAGKGTQCEKLVK   30 (196)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHH
T ss_pred             CcEEEEECCCCCCHHHHHHHHHH
Confidence            44688899999999999999885

>d1ixsb2 c.37.1.20 (B:4-242) Holliday junction helicase RuvB {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Holliday junction helicase RuvB
species: Thermus thermophilus [TaxId: 274]

Probab=97.61  E-value=2e-05  Score=42.49  Aligned_cols=23  Identities=30%  Similarity=0.560  Sum_probs=20.2

Q ss_pred             eeEEEEECCCCChHHHHHHHHhc
Q 035301           12 LFKVVLIGDSGVGKSNLLSRFTR   34 (68)
Q Consensus        12 ~~ki~~iG~~~vGKtsl~~~~~~   34 (68)
                      ...+++.|++|+|||++++.++.
T Consensus        35 ~~~~Ll~GPpG~GKTtla~~la~   57 (239)
T d1ixsb2          35 LEHLLLFGPPGLGKTTLAHVIAH   57 (239)
T ss_dssp             CCCEEEECCTTSCHHHHHHHHHH
T ss_pred             CCeEEEECCCCCCHHHHHHHHHH
Confidence            34688999999999999999885

>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=97.59  E-value=3.7e-05  Score=43.05  Aligned_cols=26  Identities=27%  Similarity=0.413  Sum_probs=23.2

Q ss_pred             eeeEEEEECCCCChHHHHHHHHhcCc
Q 035301           11 YLFKVVLIGDSGVGKSNLLSRFTRNE   36 (68)
Q Consensus        11 ~~~ki~~iG~~~vGKtsl~~~~~~~~   36 (68)
                      ..+|+.++|-++||||||++.+.+..
T Consensus         9 ~~~kiGivG~Pn~GKSTlfnalT~~~   34 (296)
T d1ni3a1           9 NNLKTGIVGMPNVGKSTFFRAITKSV   34 (296)
T ss_dssp             SCCEEEEEECSSSSHHHHHHHHHHST
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHCCC
Confidence            45899999999999999999999654

>d1e6ca_ c.37.1.2 (A:) Shikimate kinase (AroK) {Erwinia chrysanthemi [TaxId: 556]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Shikimate kinase (AroK)
domain: Shikimate kinase (AroK)
species: Erwinia chrysanthemi [TaxId: 556]

Probab=97.58  E-value=2.7e-05  Score=40.10  Aligned_cols=20  Identities=20%  Similarity=0.566  Sum_probs=17.7

Q ss_pred             EEEECCCCChHHHHHHHHhc
Q 035301           15 VVLIGDSGVGKSNLLSRFTR   34 (68)
Q Consensus        15 i~~iG~~~vGKtsl~~~~~~   34 (68)
                      |+++|.+|+||||+.+.++.
T Consensus         5 Iil~G~~GsGKSTia~~LA~   24 (170)
T d1e6ca_           5 IFMVGARGCGMTTVGRELAR   24 (170)
T ss_dssp             EEEESCTTSSHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHH
Confidence            67899999999999988863

>d1in4a2 c.37.1.20 (A:17-254) Holliday junction helicase RuvB {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Holliday junction helicase RuvB
species: Thermotoga maritima [TaxId: 2336]

Probab=97.57  E-value=2.4e-05  Score=42.08  Aligned_cols=22  Identities=32%  Similarity=0.495  Sum_probs=19.7

Q ss_pred             eEEEEECCCCChHHHHHHHHhc
Q 035301           13 FKVVLIGDSGVGKSNLLSRFTR   34 (68)
Q Consensus        13 ~ki~~iG~~~vGKtsl~~~~~~   34 (68)
                      ..+++.|++|+|||++++.++.
T Consensus        36 ~~~L~~GPpGtGKT~lA~~la~   57 (238)
T d1in4a2          36 DHVLLAGPPGLGKTTLAHIIAS   57 (238)
T ss_dssp             CCEEEESSTTSSHHHHHHHHHH
T ss_pred             CeEEEECCCCCcHHHHHHHHHh
Confidence            3689999999999999998885

>d1ofha_ c.37.1.20 (A:) HslU {Haemophilus influenzae [TaxId: 727]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: HslU
species: Haemophilus influenzae [TaxId: 727]

Probab=97.55  E-value=2.6e-05  Score=43.99  Aligned_cols=23  Identities=30%  Similarity=0.684  Sum_probs=20.0

Q ss_pred             eEEEEECCCCChHHHHHHHHhcC
Q 035301           13 FKVVLIGDSGVGKSNLLSRFTRN   35 (68)
Q Consensus        13 ~ki~~iG~~~vGKtsl~~~~~~~   35 (68)
                      --++++||+|||||.|.+.++..
T Consensus        50 ~~iLl~GPpG~GKT~lAkalA~~   72 (309)
T d1ofha_          50 KNILMIGPTGVGKTEIARRLAKL   72 (309)
T ss_dssp             CCEEEECCTTSSHHHHHHHHHHH
T ss_pred             ceEEEECCCCCCHHHHHHHHhhc
Confidence            46889999999999999998753

>d1rz3a_ c.37.1.6 (A:) Hypothetical protein rbstp0775 {Bacillus stearothermophilus [TaxId: 1422]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Phosphoribulokinase/pantothenate kinase
domain: Hypothetical protein rbstp0775
species: Bacillus stearothermophilus [TaxId: 1422]

Probab=97.51  E-value=4.3e-05  Score=39.51  Aligned_cols=24  Identities=21%  Similarity=0.230  Sum_probs=20.5

Q ss_pred             eeeEEEEECCCCChHHHHHHHHhc
Q 035301           11 YLFKVVLIGDSGVGKSNLLSRFTR   34 (68)
Q Consensus        11 ~~~ki~~iG~~~vGKtsl~~~~~~   34 (68)
                      ..+-|.+-|++|+|||||.+++..
T Consensus        21 ~~~iIgI~G~~GSGKSTla~~L~~   44 (198)
T d1rz3a_          21 GRLVLGIDGLSRSGKTTLANQLSQ   44 (198)
T ss_dssp             SSEEEEEEECTTSSHHHHHHHHHH
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHH
Confidence            356688999999999999998864

>d1fnna2 c.37.1.20 (A:1-276) CDC6, N-domain {Archaeon Pyrobaculum aerophilum [TaxId: 13773]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: CDC6, N-domain
species: Archaeon Pyrobaculum aerophilum [TaxId: 13773]

Probab=97.50  E-value=4.5e-05  Score=41.09  Aligned_cols=23  Identities=26%  Similarity=0.426  Sum_probs=20.2

Q ss_pred             eEEEEECCCCChHHHHHHHHhcC
Q 035301           13 FKVVLIGDSGVGKSNLLSRFTRN   35 (68)
Q Consensus        13 ~ki~~iG~~~vGKtsl~~~~~~~   35 (68)
                      -.+++.|++|+|||++++.++..
T Consensus        44 ~~lll~GppGtGKT~l~~~l~~~   66 (276)
T d1fnna2          44 PRATLLGRPGTGKTVTLRKLWEL   66 (276)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHH
T ss_pred             CceEEECCCCCCHHHHHHHHHHH
Confidence            46899999999999999988754

>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=97.50  E-value=1.9e-05  Score=40.92  Aligned_cols=23  Identities=30%  Similarity=0.326  Sum_probs=19.4

Q ss_pred             eeEEEEECCCCChHHHHHHHHhc
Q 035301           12 LFKVVLIGDSGVGKSNLLSRFTR   34 (68)
Q Consensus        12 ~~ki~~iG~~~vGKtsl~~~~~~   34 (68)
                      -.-|++.|.+|+||||+.+.++.
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            34677889999999999998864

>d3adka_ c.37.1.1 (A:) Adenylate kinase {Pig (Sus scrofa) [TaxId: 9823]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Pig (Sus scrofa) [TaxId: 9823]

Probab=97.49  E-value=3.1e-05  Score=40.59  Aligned_cols=21  Identities=19%  Similarity=0.504  Sum_probs=19.0

Q ss_pred             EEEEECCCCChHHHHHHHHhc
Q 035301           14 KVVLIGDSGVGKSNLLSRFTR   34 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~   34 (68)
                      -|+++|++|+||||+..+++.
T Consensus        10 iI~l~G~pGSGKsT~a~~La~   30 (194)
T d3adka_          10 IIFVVGGPGSGKGTQCEKIVQ   30 (194)
T ss_dssp             EEEEEECTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            478899999999999999985

>d2p67a1 c.37.1.10 (A:1-327) LAO/AO transport system kinase ArgK {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: LAO/AO transport system kinase ArgK
species: Escherichia coli [TaxId: 562]

Probab=97.47  E-value=4.2e-05  Score=43.69  Aligned_cols=24  Identities=29%  Similarity=0.524  Sum_probs=21.8

Q ss_pred             eeeEEEEECCCCChHHHHHHHHhc
Q 035301           11 YLFKVVLIGDSGVGKSNLLSRFTR   34 (68)
Q Consensus        11 ~~~ki~~iG~~~vGKtsl~~~~~~   34 (68)
                      ..+.|.+.|++|+|||||++++..
T Consensus        53 ~~~~IgitG~pGaGKSTLi~~l~~   76 (327)
T d2p67a1          53 NTLRLGVTGTPGAGKSTFLEAFGM   76 (327)
T ss_dssp             CSEEEEEEECTTSCHHHHHHHHHH
T ss_pred             CceEEEeeCCCCCCHHHHHHHHHH
Confidence            478999999999999999999874

>d1sxja2 c.37.1.20 (A:295-547) Replication factor C1 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Replication factor C1
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=97.47  E-value=3.9e-05  Score=41.39  Aligned_cols=23  Identities=22%  Similarity=0.400  Sum_probs=20.3

Q ss_pred             eEEEEECCCCChHHHHHHHHhcC
Q 035301           13 FKVVLIGDSGVGKSNLLSRFTRN   35 (68)
Q Consensus        13 ~ki~~iG~~~vGKtsl~~~~~~~   35 (68)
                      ..+++.|++|+|||+++..++..
T Consensus        53 ~~lll~GPpG~GKTt~a~~la~~   75 (253)
T d1sxja2          53 RAAMLYGPPGIGKTTAAHLVAQE   75 (253)
T ss_dssp             SEEEEECSTTSSHHHHHHHHHHH
T ss_pred             ceEEEECCCCCCHHHHHHHHHHH
Confidence            46899999999999999998863

>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=97.46  E-value=5.1e-05  Score=39.61  Aligned_cols=25  Identities=32%  Similarity=0.639  Sum_probs=21.7

Q ss_pred             ceeeEEEEECCCCChHHHHHHHHhc
Q 035301           10 DYLFKVVLIGDSGVGKSNLLSRFTR   34 (68)
Q Consensus        10 ~~~~ki~~iG~~~vGKtsl~~~~~~   34 (68)
                      ...+-|++-|..|+||||+++.+..
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            4457899999999999999999875

>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=97.45  E-value=3.7e-05  Score=45.51  Aligned_cols=23  Identities=30%  Similarity=0.694  Sum_probs=20.5

Q ss_pred             eeEEEEECCCCChHHHHHHHHhc
Q 035301           12 LFKVVLIGDSGVGKSNLLSRFTR   34 (68)
Q Consensus        12 ~~ki~~iG~~~vGKtsl~~~~~~   34 (68)
                      .-+|+++||+|||||-|+++++.
T Consensus        49 ksNILliGPTGvGKTlLAr~LAk   71 (443)
T d1g41a_          49 PKNILMIGPTGVGKTEIARRLAK   71 (443)
T ss_dssp             CCCEEEECCTTSSHHHHHHHHHH
T ss_pred             cccEEEECCCCCCHHHHHHHHHH
Confidence            34799999999999999999885

>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=97.42  E-value=9.1e-05  Score=40.06  Aligned_cols=25  Identities=20%  Similarity=0.534  Sum_probs=20.6

Q ss_pred             ceeeEEEEECCCCChHHHHHHHHhc
Q 035301           10 DYLFKVVLIGDSGVGKSNLLSRFTR   34 (68)
Q Consensus        10 ~~~~ki~~iG~~~vGKtsl~~~~~~   34 (68)
                      ....-++++|+.||||||.+-+++.
T Consensus         9 ~~p~vi~lvGptGvGKTTTiAKLAa   33 (213)
T d1vmaa2           9 EPPFVIMVVGVNGTGKTTSCGKLAK   33 (213)
T ss_dssp             SSCEEEEEECCTTSSHHHHHHHHHH
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHH
Confidence            4456789999999999999887774

>d1q3ta_ c.37.1.1 (A:) CMP kinase {Streptococcus pneumoniae [TaxId: 1313]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: CMP kinase
species: Streptococcus pneumoniae [TaxId: 1313]

Probab=97.41  E-value=6.1e-05  Score=39.90  Aligned_cols=22  Identities=18%  Similarity=0.398  Sum_probs=19.3

Q ss_pred             eEEEEECCCCChHHHHHHHHhc
Q 035301           13 FKVVLIGDSGVGKSNLLSRFTR   34 (68)
Q Consensus        13 ~ki~~iG~~~vGKtsl~~~~~~   34 (68)
                      +.|.+-|++|+||||....++.
T Consensus         4 i~IaIdGp~GsGKgT~ak~La~   25 (223)
T d1q3ta_           4 IQIAIDGPASSGKSTVAKIIAK   25 (223)
T ss_dssp             CEEEEECSSCSSHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHH
Confidence            5677889999999999998875

>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=97.41  E-value=5.8e-05  Score=40.40  Aligned_cols=21  Identities=29%  Similarity=0.567  Sum_probs=19.1

Q ss_pred             EEEEECCCCChHHHHHHHHhc
Q 035301           14 KVVLIGDSGVGKSNLLSRFTR   34 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~   34 (68)
                      .+++.|++|+|||++++.++.
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            589999999999999998875

>d1d2na_ c.37.1.20 (A:) Hexamerization domain of N-ethylmalemide-sensitive fusion (NSF) protein {Chinese hamster (Cricetulus griseus) [TaxId: 10029]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Hexamerization domain of N-ethylmalemide-sensitive fusion (NSF) protein
species: Chinese hamster (Cricetulus griseus) [TaxId: 10029]

Probab=97.41  E-value=8.7e-05  Score=40.65  Aligned_cols=23  Identities=30%  Similarity=0.497  Sum_probs=20.6

Q ss_pred             eeEEEEECCCCChHHHHHHHHhc
Q 035301           12 LFKVVLIGDSGVGKSNLLSRFTR   34 (68)
Q Consensus        12 ~~ki~~iG~~~vGKtsl~~~~~~   34 (68)
                      ...+++.|++|+|||++++.++.
T Consensus        40 ~~~vLL~GppGtGKT~la~alA~   62 (246)
T d1d2na_          40 LVSVLLEGPPHSGKTALAAKIAE   62 (246)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHH
T ss_pred             CeEEEEECcCCCCHHHHHHHHhh
Confidence            45799999999999999999885

>d2qm8a1 c.37.1.10 (A:5-327) Metallochaperone MeaB {Methylobacterium extorquens [TaxId: 408]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Metallochaperone MeaB
species: Methylobacterium extorquens [TaxId: 408]

Probab=97.37  E-value=8.2e-05  Score=42.38  Aligned_cols=25  Identities=28%  Similarity=0.425  Sum_probs=22.3

Q ss_pred             ceeeEEEEECCCCChHHHHHHHHhc
Q 035301           10 DYLFKVVLIGDSGVGKSNLLSRFTR   34 (68)
Q Consensus        10 ~~~~ki~~iG~~~vGKtsl~~~~~~   34 (68)
                      ...+.|.+.|++|+|||||+.++..
T Consensus        49 ~~~~~igitG~pGaGKSTli~~l~~   73 (323)
T d2qm8a1          49 GRAIRVGITGVPGVGKSTTIDALGS   73 (323)
T ss_dssp             CCSEEEEEECCTTSCHHHHHHHHHH
T ss_pred             CCceEEeeeCCCCCCHHHHHHHHHH
Confidence            3568999999999999999999875

>d1qvra2 c.37.1.20 (A:149-535) ClpB, AAA+ modules {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: ClpB, AAA+ modules
species: Thermus thermophilus [TaxId: 274]

Probab=97.33  E-value=4.2e-05  Score=44.62  Aligned_cols=20  Identities=40%  Similarity=0.792  Sum_probs=16.8

Q ss_pred             EEEEECCCCChHHHHHHHHh
Q 035301           14 KVVLIGDSGVGKSNLLSRFT   33 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~   33 (68)
                      .++++|++|||||+++..++
T Consensus        45 n~llvG~~GvGKtaiv~~la   64 (387)
T d1qvra2          45 NPVLIGEPGVGKTAIVEGLA   64 (387)
T ss_dssp             CCEEEECTTSCHHHHHHHHH
T ss_pred             CCeEECCCCCCHHHHHHHHH
Confidence            57999999999999886544

>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=97.33  E-value=7.5e-05  Score=40.38  Aligned_cols=21  Identities=29%  Similarity=0.395  Sum_probs=17.3

Q ss_pred             EEEECCCCChHHHHHHHHhcC
Q 035301           15 VVLIGDSGVGKSNLLSRFTRN   35 (68)
Q Consensus        15 i~~iG~~~vGKtsl~~~~~~~   35 (68)
                      +++.|++|+|||++++.++..
T Consensus        49 l~l~GppGtGKT~l~~~l~~~   69 (287)
T d1w5sa2          49 YGSIGRVGIGKTTLAKFTVKR   69 (287)
T ss_dssp             EECTTCCSSSHHHHHHHHHHH
T ss_pred             EEeECCCCCCHHHHHHHHHHH
Confidence            445699999999999988753

>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=97.30  E-value=8.3e-05  Score=39.65  Aligned_cols=21  Identities=24%  Similarity=0.578  Sum_probs=18.7

Q ss_pred             EEEEECCCCChHHHHHHHHhc
Q 035301           14 KVVLIGDSGVGKSNLLSRFTR   34 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~   34 (68)
                      .+++-|++|+|||++++.++.
T Consensus        35 ~lll~Gp~G~GKTtl~~~i~~   55 (237)
T d1sxjd2          35 HMLFYGPPGTGKTSTILALTK   55 (237)
T ss_dssp             CEEEECSTTSSHHHHHHHHHH
T ss_pred             eEEEECCCCCChHHHHHHHHH
Confidence            488999999999999998875

>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=97.29  E-value=0.00011  Score=38.90  Aligned_cols=23  Identities=22%  Similarity=0.430  Sum_probs=19.6

Q ss_pred             eeEEEEECCCCChHHHHHHHHhc
Q 035301           12 LFKVVLIGDSGVGKSNLLSRFTR   34 (68)
Q Consensus        12 ~~ki~~iG~~~vGKtsl~~~~~~   34 (68)
                      .+-|.+-|.+|+||||+.+.+..
T Consensus         2 P~iIgI~G~~gSGKSTla~~L~~   24 (213)
T d1uj2a_           2 PFLIGVSGGTASGKSSVCAKIVQ   24 (213)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHH
T ss_pred             CEEEEEECCCCCCHHHHHHHHHH
Confidence            36688999999999999988754

>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=97.28  E-value=9.6e-05  Score=39.77  Aligned_cols=22  Identities=32%  Similarity=0.644  Sum_probs=18.5

Q ss_pred             eEEEEECCCCChHHHHHHHHhc
Q 035301           13 FKVVLIGDSGVGKSNLLSRFTR   34 (68)
Q Consensus        13 ~ki~~iG~~~vGKtsl~~~~~~   34 (68)
                      .-++++|+.||||||.+-+++.
T Consensus         7 ~vi~lvGptGvGKTTTiaKLA~   28 (207)
T d1okkd2           7 RVVLVVGVNGVGKTTTIAKLGR   28 (207)
T ss_dssp             SEEEEECSTTSSHHHHHHHHHH
T ss_pred             EEEEEECCCCCCHHHHHHHHHH
Confidence            3568899999999999888764

>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=97.26  E-value=0.0002  Score=37.56  Aligned_cols=26  Identities=19%  Similarity=0.282  Sum_probs=22.4

Q ss_pred             ceeeEEEEECCCCChHHHHHHHHhcC
Q 035301           10 DYLFKVVLIGDSGVGKSNLLSRFTRN   35 (68)
Q Consensus        10 ~~~~ki~~iG~~~vGKtsl~~~~~~~   35 (68)
                      +..++|.++|.-.+|||||++++.+.
T Consensus         3 ~~~inIaiiGhvd~GKSTL~~~L~g~   28 (195)
T d1kk1a3           3 QAEVNIGMVGHVDHGKTTLTKALTGV   28 (195)
T ss_dssp             SEEEEEEEECSTTSSHHHHHHHHHTC
T ss_pred             CCcEEEEEEeccCCcHHHHHHHHHhh
Confidence            34679999999899999999999863

>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=97.26  E-value=8.2e-05  Score=40.18  Aligned_cols=23  Identities=22%  Similarity=0.525  Sum_probs=15.0

Q ss_pred             eeEEEEECCCCChHHHHHHHHhc
Q 035301           12 LFKVVLIGDSGVGKSNLLSRFTR   34 (68)
Q Consensus        12 ~~ki~~iG~~~vGKtsl~~~~~~   34 (68)
                      ..-++++|+.||||||.+-+++.
T Consensus        12 p~vi~lvGptGvGKTTTiAKLA~   34 (211)
T d1j8yf2          12 PYVIMLVGVQGTGKATTAGKLAY   34 (211)
T ss_dssp             SEEEEEECSCCC----HHHHHHH
T ss_pred             CEEEEEECCCCCCHHHHHHHHHH
Confidence            34577899999999999888774

>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=97.25  E-value=0.00012  Score=39.40  Aligned_cols=20  Identities=25%  Similarity=0.443  Sum_probs=17.3

Q ss_pred             EEEECCCCChHHHHHHHHhc
Q 035301           15 VVLIGDSGVGKSNLLSRFTR   34 (68)
Q Consensus        15 i~~iG~~~vGKtsl~~~~~~   34 (68)
                      ++++|+.||||||.+-+++.
T Consensus        13 i~lvGp~GvGKTTTiaKLA~   32 (207)
T d1ls1a2          13 WFLVGLQGSGKTTTAAKLAL   32 (207)
T ss_dssp             EEEECCTTTTHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHH
Confidence            57799999999999888764

>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=97.25  E-value=0.00011  Score=39.70  Aligned_cols=22  Identities=32%  Similarity=0.824  Sum_probs=19.0

Q ss_pred             eEEEEECCCCChHHHHHHHHhc
Q 035301           13 FKVVLIGDSGVGKSNLLSRFTR   34 (68)
Q Consensus        13 ~ki~~iG~~~vGKtsl~~~~~~   34 (68)
                      .-++++|+.||||||.+-+++.
T Consensus        10 ~vi~lvGptGvGKTTTiAKLA~   31 (211)
T d2qy9a2          10 FVILMVGVNGVGKTTTIGKLAR   31 (211)
T ss_dssp             EEEEEECCTTSCHHHHHHHHHH
T ss_pred             EEEEEECCCCCCHHHHHHHHHH
Confidence            4578899999999999988874

>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=97.23  E-value=0.00012  Score=41.60  Aligned_cols=33  Identities=21%  Similarity=0.240  Sum_probs=24.5

Q ss_pred             eEEEEECCCCChHHHHHHHHhcCcCcCCCccce
Q 035301           13 FKVVLIGDSGVGKSNLLSRFTRNEFCLESKSTI   45 (68)
Q Consensus        13 ~ki~~iG~~~vGKtsl~~~~~~~~~~~~~~~t~   45 (68)
                      ..+++.|+.|+|||++++.++..-.++....++
T Consensus       167 ~nili~G~tgSGKTT~l~al~~~i~~~~rivti  199 (323)
T d1g6oa_         167 KNVIVCGGTGSGKTTYIKSIMEFIPKEERIISI  199 (323)
T ss_dssp             CCEEEEESTTSSHHHHHHHHGGGSCTTCCEEEE
T ss_pred             CCEEEEeeccccchHHHHHHhhhcccccceeec
Confidence            358999999999999999998654333333344

>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=97.23  E-value=0.00011  Score=39.15  Aligned_cols=21  Identities=19%  Similarity=0.513  Sum_probs=18.4

Q ss_pred             EEEEECCCCChHHHHHHHHhc
Q 035301           14 KVVLIGDSGVGKSNLLSRFTR   34 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~   34 (68)
                      .+++-|++|+|||++++.++.
T Consensus        38 ~~ll~Gp~G~GKTt~a~~la~   58 (224)
T d1sxjb2          38 HMIISGMPGIGKTTSVHCLAH   58 (224)
T ss_dssp             CEEEECSTTSSHHHHHHHHHH
T ss_pred             eEEEECCCCCCchhhHHHHHH
Confidence            489999999999999987764

>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=97.22  E-value=0.00011  Score=40.24  Aligned_cols=21  Identities=38%  Similarity=0.662  Sum_probs=19.5

Q ss_pred             EEEEECCCCChHHHHHHHHhc
Q 035301           14 KVVLIGDSGVGKSNLLSRFTR   34 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~   34 (68)
                      -+++.|++|+|||++++.++.
T Consensus        44 giLl~GppGtGKT~la~aia~   64 (247)
T d1ixza_          44 GVLLVGPPGVGKTHLARAVAG   64 (247)
T ss_dssp             EEEEECCTTSSHHHHHHHHHH
T ss_pred             eEEEecCCCCChhHHHHHHHH
Confidence            589999999999999999985

>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=97.21  E-value=1.9e-05  Score=40.70  Aligned_cols=18  Identities=39%  Similarity=0.704  Sum_probs=15.7

Q ss_pred             EEECCCCChHHHHHHHHh
Q 035301           16 VLIGDSGVGKSNLLSRFT   33 (68)
Q Consensus        16 ~~iG~~~vGKtsl~~~~~   33 (68)
                      +++|++|+|||+++..+.
T Consensus        28 vi~G~NGsGKStil~Ai~   45 (222)
T d1qhla_          28 TLSGGNGAGKSTTMAAFV   45 (222)
T ss_dssp             HHHSCCSHHHHHHHHHHH
T ss_pred             EEECCCCCCHHHHHHHHH
Confidence            567999999999999875

>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=97.19  E-value=0.0001  Score=39.67  Aligned_cols=23  Identities=22%  Similarity=0.346  Sum_probs=20.0

Q ss_pred             eEEEEECCCCChHHHHHHHHhcC
Q 035301           13 FKVVLIGDSGVGKSNLLSRFTRN   35 (68)
Q Consensus        13 ~ki~~iG~~~vGKtsl~~~~~~~   35 (68)
                      ..+++.|++|+|||+++..++..
T Consensus        34 ~~lll~Gp~G~GKTt~~~~la~~   56 (252)
T d1sxje2          34 PHLLLYGPNGTGKKTRCMALLES   56 (252)
T ss_dssp             CCEEEECSTTSSHHHHHHTHHHH
T ss_pred             CeEEEECCCCCCHHHHHHHHHHh
Confidence            36899999999999999988753

>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=97.19  E-value=0.00012  Score=42.27  Aligned_cols=23  Identities=26%  Similarity=0.537  Sum_probs=20.2

Q ss_pred             eeEEEEECCCCChHHHHHHHHhc
Q 035301           12 LFKVVLIGDSGVGKSNLLSRFTR   34 (68)
Q Consensus        12 ~~ki~~iG~~~vGKtsl~~~~~~   34 (68)
                      .-.++++|++|||||-|.++++.
T Consensus        68 ~~niLfiGPTGvGKTElAk~LA~   90 (364)
T d1um8a_          68 KSNILLIGPTGSGKTLMAQTLAK   90 (364)
T ss_dssp             CCCEEEECCTTSSHHHHHHHHHH
T ss_pred             CcceeeeCCCCccHHHHHHHHHh
Confidence            45699999999999999998874

>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=97.18  E-value=0.00015  Score=37.43  Aligned_cols=21  Identities=14%  Similarity=0.300  Sum_probs=18.4

Q ss_pred             EEEEECCCCChHHHHHHHHhc
Q 035301           14 KVVLIGDSGVGKSNLLSRFTR   34 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~   34 (68)
                      =+.+.|++|+|||+|+..++.
T Consensus        25 v~~i~G~~GsGKT~l~l~la~   45 (242)
T d1n0wa_          25 ITEMFGEFRTGKTQICHTLAV   45 (242)
T ss_dssp             EEEEECCTTSSHHHHHHHHHH
T ss_pred             EEEEEeCCCCCHHHHHHHHHH
Confidence            467899999999999998874

>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=97.17  E-value=0.00014  Score=38.22  Aligned_cols=21  Identities=29%  Similarity=0.485  Sum_probs=17.9

Q ss_pred             EEEEECCCCChHHHHHHHHhc
Q 035301           14 KVVLIGDSGVGKSNLLSRFTR   34 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~   34 (68)
                      =|++.|++|+||+|+...++.
T Consensus         5 iI~I~GppGSGKgT~ak~La~   25 (225)
T d1ckea_           5 VITIDGPSGAGKGTLCKAMAE   25 (225)
T ss_dssp             EEEEECCTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            466779999999999998875

>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=97.15  E-value=0.00015  Score=39.05  Aligned_cols=22  Identities=27%  Similarity=0.465  Sum_probs=19.7

Q ss_pred             EEEEECCCCChHHHHHHHHhcC
Q 035301           14 KVVLIGDSGVGKSNLLSRFTRN   35 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~~   35 (68)
                      -|.++|-.++|||||++++.+.
T Consensus         7 ~IaIiGh~d~GKSTL~~~L~~~   28 (227)
T d1g7sa4           7 IVSVLGHVDHGKTTLLDHIRGS   28 (227)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHH
T ss_pred             EEEEEeCCCccHHHHHHHHHhh
Confidence            3999999999999999999764

>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=97.15  E-value=0.00014  Score=38.64  Aligned_cols=22  Identities=23%  Similarity=0.587  Sum_probs=19.4

Q ss_pred             EEEEECCCCChHHHHHHHHhcC
Q 035301           14 KVVLIGDSGVGKSNLLSRFTRN   35 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~~   35 (68)
                      .+++-|++|+|||+++..++..
T Consensus        37 ~lLl~Gp~G~GKttl~~~la~~   58 (227)
T d1sxjc2          37 HLLFYGPPGTGKTSTIVALARE   58 (227)
T ss_dssp             CEEEECSSSSSHHHHHHHHHHH
T ss_pred             eEEEECCCCCChhHHHHHHHHH
Confidence            4889999999999999998753

>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=97.14  E-value=0.00015  Score=39.96  Aligned_cols=22  Identities=27%  Similarity=0.468  Sum_probs=19.7

Q ss_pred             eEEEEECCCCChHHHHHHHHhc
Q 035301           13 FKVVLIGDSGVGKSNLLSRFTR   34 (68)
Q Consensus        13 ~ki~~iG~~~vGKtsl~~~~~~   34 (68)
                      -.+++.|++|+|||++++.++.
T Consensus        46 ~~iLL~GppGtGKT~la~~iA~   67 (256)
T d1lv7a_          46 KGVLMVGPPGTGKTLLAKAIAG   67 (256)
T ss_dssp             CEEEEECCTTSCHHHHHHHHHH
T ss_pred             CeEEeeCCCCCCccHHHHHHHH
Confidence            4589999999999999999885

>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=97.10  E-value=0.00026  Score=36.73  Aligned_cols=25  Identities=20%  Similarity=0.255  Sum_probs=20.9

Q ss_pred             eeeEEEEECCCCChHHHHHHHHhcC
Q 035301           11 YLFKVVLIGDSGVGKSNLLSRFTRN   35 (68)
Q Consensus        11 ~~~ki~~iG~~~vGKtsl~~~~~~~   35 (68)
                      +.+-|.+.|..|+||||+++.+...
T Consensus         2 ~p~IIgitG~~gSGKstva~~l~~~   26 (191)
T d1uf9a_           2 HPIIIGITGNIGSGKSTVAALLRSW   26 (191)
T ss_dssp             CCEEEEEEECTTSCHHHHHHHHHHT
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHHC
Confidence            3567889999999999999887654

>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=97.09  E-value=0.00018  Score=39.46  Aligned_cols=22  Identities=23%  Similarity=0.409  Sum_probs=19.9

Q ss_pred             eEEEEECCCCChHHHHHHHHhc
Q 035301           13 FKVVLIGDSGVGKSNLLSRFTR   34 (68)
Q Consensus        13 ~ki~~iG~~~vGKtsl~~~~~~   34 (68)
                      -.+++.|++|+|||++++.++.
T Consensus        39 ~giLL~GppGtGKT~l~~ala~   60 (258)
T d1e32a2          39 RGILLYGPPGTGKTLIARAVAN   60 (258)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHH
T ss_pred             ceeEEecCCCCCchHHHHHHHH
Confidence            4699999999999999999885

>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=97.06  E-value=9.3e-05  Score=40.87  Aligned_cols=19  Identities=32%  Similarity=0.716  Sum_probs=16.2

Q ss_pred             EEEECCCCChHHHHHHHHh
Q 035301           15 VVLIGDSGVGKSNLLSRFT   33 (68)
Q Consensus        15 i~~iG~~~vGKtsl~~~~~   33 (68)
                      -+++|++|+|||+++..+.
T Consensus        27 nvlvG~NgsGKS~iL~Ai~   45 (308)
T d1e69a_          27 TAIVGPNGSGKSNIIDAIK   45 (308)
T ss_dssp             EEEECCTTTCSTHHHHHHH
T ss_pred             EEEECCCCCcHHHHHHHHH
Confidence            4788999999999998763

>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=97.04  E-value=0.00022  Score=40.28  Aligned_cols=21  Identities=24%  Similarity=0.635  Sum_probs=18.9

Q ss_pred             EEEEECCCCChHHHHHHHHhc
Q 035301           14 KVVLIGDSGVGKSNLLSRFTR   34 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~   34 (68)
                      .++++|++|||||.|...++.
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            588999999999999998875

>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=97.03  E-value=0.00021  Score=38.22  Aligned_cols=21  Identities=24%  Similarity=0.412  Sum_probs=18.5

Q ss_pred             EEEEECCCCChHHHHHHHHhc
Q 035301           14 KVVLIGDSGVGKSNLLSRFTR   34 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~   34 (68)
                      =+++.|++|+|||+|..+++.
T Consensus        38 ~~li~G~pGsGKT~~~lq~~~   58 (254)
T d1pzna2          38 ITEVFGEFGSGKTQLAHTLAV   58 (254)
T ss_dssp             EEEEEESTTSSHHHHHHHHHH
T ss_pred             EEEEEcCCCCCHHHHHHHHHH
Confidence            468899999999999998874

>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=97.02  E-value=0.0003  Score=37.00  Aligned_cols=31  Identities=32%  Similarity=0.442  Sum_probs=23.3

Q ss_pred             EEEEECCCCChHHHHHHHHhcCcCcCCCccceeeEe
Q 035301           14 KVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEF   49 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~~~~~~~~~~t~~~~~   49 (68)
                      =+++.|++|+|||++.-.+....+     ..+..|.
T Consensus        16 gvl~~G~sG~GKStlal~l~~~g~-----~lv~DD~   46 (176)
T d1kkma_          16 GVLITGDSGVGKSETALELVQRGH-----RLIADDR   46 (176)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHTTC-----EEEEEEE
T ss_pred             EEEEEeCCCCCHHHHHHHHHHcCC-----eEEecCe
Confidence            478999999999999988875433     3455554

>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=97.01  E-value=0.00035  Score=39.58  Aligned_cols=26  Identities=19%  Similarity=0.275  Sum_probs=21.8

Q ss_pred             CceeeEEEEECCCCChHHHHHHHHhc
Q 035301            9 YDYLFKVVLIGDSGVGKSNLLSRFTR   34 (68)
Q Consensus         9 ~~~~~ki~~iG~~~vGKtsl~~~~~~   34 (68)
                      ....+-|.+.|.+|+||||+.+.+..
T Consensus        77 ~k~P~iIGIaG~sgSGKSTla~~L~~  102 (308)
T d1sq5a_          77 QRIPYIISIAGSVAVGKSTTARVLQA  102 (308)
T ss_dssp             CCCCEEEEEEECTTSSHHHHHHHHHH
T ss_pred             CCCCEEEEEeCCCCCCCcHHHHHHHH
Confidence            34568899999999999999887763

>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=97.00  E-value=0.00029  Score=36.86  Aligned_cols=21  Identities=24%  Similarity=0.531  Sum_probs=18.2

Q ss_pred             EEEEECCCCChHHHHHHHHhc
Q 035301           14 KVVLIGDSGVGKSNLLSRFTR   34 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~   34 (68)
                      .|++-|..|+||||++..+..
T Consensus         2 lI~ieG~dGsGKST~~~~L~~   22 (208)
T d1gsia_           2 LIAIEGVDGAGKRTLVEKLSG   22 (208)
T ss_dssp             EEEEECSTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            488899999999999887763

>d1l8qa2 c.37.1.20 (A:77-289) Chromosomal replication initiation factor DnaA {Aquifex aeolicus [TaxId: 63363]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Chromosomal replication initiation factor DnaA
species: Aquifex aeolicus [TaxId: 63363]

Probab=96.99  E-value=0.00025  Score=37.97  Aligned_cols=21  Identities=29%  Similarity=0.570  Sum_probs=18.7

Q ss_pred             EEEECCCCChHHHHHHHHhcC
Q 035301           15 VVLIGDSGVGKSNLLSRFTRN   35 (68)
Q Consensus        15 i~~iG~~~vGKtsl~~~~~~~   35 (68)
                      +++-|++|+|||.|++.++..
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            788999999999999988754

>d1szpa2 c.37.1.11 (A:145-395) DNA repair protein Rad51, catalytic domain {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: DNA repair protein Rad51, catalytic domain
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=96.98  E-value=0.00023  Score=37.70  Aligned_cols=22  Identities=27%  Similarity=0.341  Sum_probs=18.8

Q ss_pred             EEEEECCCCChHHHHHHHHhcC
Q 035301           14 KVVLIGDSGVGKSNLLSRFTRN   35 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~~   35 (68)
                      -+++.|++|+|||+|+..++-.
T Consensus        36 ~~li~G~pGsGKT~l~lq~~~~   57 (251)
T d1szpa2          36 ITELFGEFRTGKSQLCHTLAVT   57 (251)
T ss_dssp             EEEEEESTTSSHHHHHHHHTTT
T ss_pred             EEEEEcCCCCCHHHHHHHHHHH
Confidence            4678899999999999998743

>d2qn6a3 c.37.1.8 (A:2-206) Initiation factor eIF2 gamma subunit, N-terminal (G) domain {Sulfolobus solfataricus [TaxId: 2287]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Initiation factor eIF2 gamma subunit, N-terminal (G) domain
species: Sulfolobus solfataricus [TaxId: 2287]

Probab=96.96  E-value=0.0005  Score=36.30  Aligned_cols=24  Identities=21%  Similarity=0.328  Sum_probs=21.3

Q ss_pred             eeeEEEEECCCCChHHHHHHHHhc
Q 035301           11 YLFKVVLIGDSGVGKSNLLSRFTR   34 (68)
Q Consensus        11 ~~~ki~~iG~~~vGKtsl~~~~~~   34 (68)
                      ..+++.++|.-..|||||++++.+
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            357999999888899999999986

>d1r7ra3 c.37.1.20 (A:471-735) Membrane fusion ATPase VCP/p97 {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Membrane fusion ATPase VCP/p97
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=96.94  E-value=0.00025  Score=39.11  Aligned_cols=22  Identities=27%  Similarity=0.418  Sum_probs=19.9

Q ss_pred             eEEEEECCCCChHHHHHHHHhc
Q 035301           13 FKVVLIGDSGVGKSNLLSRFTR   34 (68)
Q Consensus        13 ~ki~~iG~~~vGKtsl~~~~~~   34 (68)
                      .-+++.|++|+|||++++.++.
T Consensus        42 ~giLL~Gp~GtGKT~l~~ala~   63 (265)
T d1r7ra3          42 KGVLFYGPPGCGKTLLAKAIAN   63 (265)
T ss_dssp             CEEEEBCCTTSSHHHHHHHHHH
T ss_pred             CeEEEECCCCCcchhHHHHHHH
Confidence            4699999999999999999885

>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=96.93  E-value=0.00027  Score=40.22  Aligned_cols=19  Identities=37%  Similarity=0.737  Sum_probs=16.4

Q ss_pred             EEEECCCCChHHHHHHHHh
Q 035301           15 VVLIGDSGVGKSNLLSRFT   33 (68)
Q Consensus        15 i~~iG~~~vGKtsl~~~~~   33 (68)
                      -+++|++|+|||+++..+.
T Consensus        28 ~~i~G~NGsGKS~ileAi~   46 (427)
T d1w1wa_          28 TSIIGPNGSGKSNMMDAIS   46 (427)
T ss_dssp             EEEECSTTSSHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHH
Confidence            4688999999999999874

>d1knxa2 c.91.1.2 (A:133-309) HPr kinase HprK C-terminal domain {Mycoplasma pneumoniae [TaxId: 2104]}

class: Alpha and beta proteins (a/b)
fold: PEP carboxykinase-like
superfamily: PEP carboxykinase-like
family: HPr kinase HprK C-terminal domain
domain: HPr kinase HprK C-terminal domain
species: Mycoplasma pneumoniae [TaxId: 2104]

Probab=96.90  E-value=0.00039  Score=36.59  Aligned_cols=31  Identities=29%  Similarity=0.428  Sum_probs=23.7

Q ss_pred             EEEEECCCCChHHHHHHHHhcCcCcCCCccceeeEe
Q 035301           14 KVVLIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEF   49 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~~~~~~~~~~t~~~~~   49 (68)
                      =+++.|++|+|||++...+....+     ..+.+|.
T Consensus        17 gvli~G~sG~GKS~lal~l~~~G~-----~lvaDD~   47 (177)
T d1knxa2          17 GVLLTGRSGIGKSECALDLINKNH-----LFVGDDA   47 (177)
T ss_dssp             EEEEEESSSSSHHHHHHHHHTTTC-----EEEEEEE
T ss_pred             EEEEEcCCCCCHHHHHHHHHHcCC-----ceecCCe
Confidence            478999999999999988875432     4555554

>d2c78a3 c.37.1.8 (A:9-212) Elongation factor Tu (EF-Tu), N-terminal (G) domain {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Elongation factor Tu (EF-Tu), N-terminal (G) domain
species: Thermus thermophilus [TaxId: 274]

Probab=96.90  E-value=0.00055  Score=36.36  Aligned_cols=22  Identities=32%  Similarity=0.386  Sum_probs=20.3

Q ss_pred             eeEEEEECCCCChHHHHHHHHh
Q 035301           12 LFKVVLIGDSGVGKSNLLSRFT   33 (68)
Q Consensus        12 ~~ki~~iG~~~vGKtsl~~~~~   33 (68)
                      .++|+++|-.++|||||+.++.
T Consensus         3 ~ini~iiGhvd~GKSTL~~~Ll   24 (204)
T d2c78a3           3 HVNVGTIGHVDHGKTTLTAALT   24 (204)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHH
T ss_pred             CeEEEEEeCCCCcHHHHHHHHH
Confidence            4799999999999999999985

>d1m7ga_ c.37.1.4 (A:) Adenosine-5'phosphosulfate kinase (APS kinase) {Fungus (Penicillium chrysogenum) [TaxId: 5076]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Adenosine-5'phosphosulfate kinase (APS kinase)
domain: Adenosine-5'phosphosulfate kinase (APS kinase)
species: Fungus (Penicillium chrysogenum) [TaxId: 5076]

Probab=96.89  E-value=0.00038  Score=37.12  Aligned_cols=23  Identities=30%  Similarity=0.336  Sum_probs=19.6

Q ss_pred             eeEEEEECCCCChHHHHHHHHhc
Q 035301           12 LFKVVLIGDSGVGKSNLLSRFTR   34 (68)
Q Consensus        12 ~~ki~~iG~~~vGKtsl~~~~~~   34 (68)
                      .+-|.+.|.+|+||||+.+.+..
T Consensus        24 g~vIwltGlsGsGKTTia~~L~~   46 (208)
T d1m7ga_          24 GLTIWLTGLSASGKSTLAVELEH   46 (208)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHH
Confidence            45699999999999999888763

>d1tf7a2 c.37.1.11 (A:256-497) Circadian clock protein KaiC {Synechococcus sp. strain PCC 7942 (Anacystis nidulans R2) [TaxId: 1140]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Circadian clock protein KaiC
species: Synechococcus sp. strain PCC 7942 (Anacystis nidulans R2) [TaxId: 1140]

Probab=96.85  E-value=0.00037  Score=37.17  Aligned_cols=22  Identities=41%  Similarity=0.721  Sum_probs=19.2

Q ss_pred             EEEEECCCCChHHHHHHHHhcC
Q 035301           14 KVVLIGDSGVGKSNLLSRFTRN   35 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~~   35 (68)
                      -+++.|++|+|||+|+.+++.+
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            5788899999999999998854

>d2i1qa2 c.37.1.11 (A:65-322) DNA repair protein Rad51, catalytic domain {Archaeon Methanococcus voltae [TaxId: 2188]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: DNA repair protein Rad51, catalytic domain
species: Archaeon Methanococcus voltae [TaxId: 2188]

Probab=96.85  E-value=0.00036  Score=36.82  Aligned_cols=21  Identities=19%  Similarity=0.283  Sum_probs=18.5

Q ss_pred             EEEEECCCCChHHHHHHHHhc
Q 035301           14 KVVLIGDSGVGKSNLLSRFTR   34 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~   34 (68)
                      =+++.|++|+|||+|+..++-
T Consensus        36 l~~i~G~~G~GKT~~~l~~a~   56 (258)
T d2i1qa2          36 VTEFAGVFGSGKTQIMHQSCV   56 (258)
T ss_dssp             EEEEEESTTSSHHHHHHHHHH
T ss_pred             EEEEEeCCCCCHHHHHHHHHH
Confidence            467889999999999999874

>d1htwa_ c.37.1.18 (A:) Hypothetical protein HI0065 {Haemophilus influenzae [TaxId: 727]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: YjeE-like
domain: Hypothetical protein HI0065
species: Haemophilus influenzae [TaxId: 727]

Probab=96.85  E-value=0.00046  Score=35.70  Aligned_cols=22  Identities=36%  Similarity=0.517  Sum_probs=19.1

Q ss_pred             eEEEEECCCCChHHHHHHHHhc
Q 035301           13 FKVVLIGDSGVGKSNLLSRFTR   34 (68)
Q Consensus        13 ~ki~~iG~~~vGKtsl~~~~~~   34 (68)
                      .-+++-|+-|+|||+|++.++.
T Consensus        34 ~ii~L~G~LGaGKTtfvr~~~~   55 (158)
T d1htwa_          34 IMVYLNGDLGAGKTTLTRGMLQ   55 (158)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHH
T ss_pred             eEEEEecCCCccHHHHHHHHHh
Confidence            3478889999999999999884

>d2a5yb3 c.37.1.20 (B:109-385) CED-4, NB-ARC domain {Caenorhabditis elegans [TaxId: 6239]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: CED-4, NB-ARC domain
species: Caenorhabditis elegans [TaxId: 6239]

Probab=96.85  E-value=0.00039  Score=38.44  Aligned_cols=22  Identities=36%  Similarity=0.481  Sum_probs=18.8

Q ss_pred             eEEEEECCCCChHHHHHHHHhc
Q 035301           13 FKVVLIGDSGVGKSNLLSRFTR   34 (68)
Q Consensus        13 ~ki~~iG~~~vGKtsl~~~~~~   34 (68)
                      .-+.+.|..|+|||+|+..+.+
T Consensus        45 ~~v~I~GmgGiGKTtLA~~v~~   66 (277)
T d2a5yb3          45 FFLFLHGRAGSGKSVIASQALS   66 (277)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHH
Confidence            3578999999999999988754

>d1v5wa_ c.37.1.11 (A:) Meiotic recombination protein DMC1/LIM15 homolog {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Meiotic recombination protein DMC1/LIM15 homolog
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.83  E-value=0.00048  Score=36.63  Aligned_cols=21  Identities=19%  Similarity=0.229  Sum_probs=18.7

Q ss_pred             EEEEECCCCChHHHHHHHHhc
Q 035301           14 KVVLIGDSGVGKSNLLSRFTR   34 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~   34 (68)
                      =+++.|++|+|||+|...++.
T Consensus        39 ~~~i~G~~GsGKT~lalq~~~   59 (258)
T d1v5wa_          39 ITEAFGEFRTGKTQLSHTLCV   59 (258)
T ss_dssp             EEEEECCTTCTHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            478899999999999999974

>d1p5zb_ c.37.1.1 (B:) Deoxycytidine kinase {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Deoxycytidine kinase
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.81  E-value=0.00026  Score=37.66  Aligned_cols=22  Identities=23%  Similarity=0.427  Sum_probs=19.5

Q ss_pred             eEEEEECCCCChHHHHHHHHhc
Q 035301           13 FKVVLIGDSGVGKSNLLSRFTR   34 (68)
Q Consensus        13 ~ki~~iG~~~vGKtsl~~~~~~   34 (68)
                      -.|++-|..|+||||++..+..
T Consensus         3 k~I~ieG~dGsGKST~~~~L~~   24 (241)
T d1p5zb_           3 KKISIEGNIAAGKSTFVNILKQ   24 (241)
T ss_dssp             EEEEEECSTTSSHHHHHTTTGG
T ss_pred             CEEEEECCCCCCHHHHHHHHHH
Confidence            3688999999999999998875

>d1g8pa_ c.37.1.20 (A:) ATPase subunit of magnesium chelatase, BchI {Rhodobacter capsulatus [TaxId: 1061]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: ATPase subunit of magnesium chelatase, BchI
species: Rhodobacter capsulatus [TaxId: 1061]

Probab=96.80  E-value=0.00016  Score=40.76  Aligned_cols=21  Identities=33%  Similarity=0.618  Sum_probs=19.0

Q ss_pred             EEEEECCCCChHHHHHHHHhc
Q 035301           14 KVVLIGDSGVGKSNLLSRFTR   34 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~   34 (68)
                      .+++.|+.|+|||++++++..
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            589999999999999998863

>d1ko7a2 c.91.1.2 (A:130-298) HPr kinase HprK C-terminal domain {Staphylococcus xylosus [TaxId: 1288]}

class: Alpha and beta proteins (a/b)
fold: PEP carboxykinase-like
superfamily: PEP carboxykinase-like
family: HPr kinase HprK C-terminal domain
domain: HPr kinase HprK C-terminal domain
species: Staphylococcus xylosus [TaxId: 1288]

Probab=96.79  E-value=0.00052  Score=35.83  Aligned_cols=23  Identities=35%  Similarity=0.619  Sum_probs=19.3

Q ss_pred             eEEEEECCCCChHHHHHHHHhcC
Q 035301           13 FKVVLIGDSGVGKSNLLSRFTRN   35 (68)
Q Consensus        13 ~ki~~iG~~~vGKtsl~~~~~~~   35 (68)
                      .-+++.|++|+|||++.-.+...
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            35899999999999998877754

>d1f5na2 c.37.1.8 (A:7-283) Interferon-induced guanylate-binding protein 1 (GBP1), N-terminal domain {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Interferon-induced guanylate-binding protein 1 (GBP1), N-terminal domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.76  E-value=0.00047  Score=38.39  Aligned_cols=27  Identities=22%  Similarity=0.353  Sum_probs=23.0

Q ss_pred             eeeEEEEECCCCChHHHHHHHHhcCcC
Q 035301           11 YLFKVVLIGDSGVGKSNLLSRFTRNEF   37 (68)
Q Consensus        11 ~~~ki~~iG~~~vGKtsl~~~~~~~~~   37 (68)
                      ...=|.++|+.++|||+|++++.+..+
T Consensus        31 ~v~vvsi~G~~~sGKS~llN~l~~~~~   57 (277)
T d1f5na2          31 PMVVVAIVGLYRTGKSYLMNKLAGKKK   57 (277)
T ss_dssp             BEEEEEEEEBTTSSHHHHHHHHTTCSS
T ss_pred             CEEEEEEECCCCCCHHHHHHHHcCCCC
Confidence            355788999999999999999997663

>d4tmka_ c.37.1.1 (A:) Thymidylate kinase {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Thymidylate kinase
species: Escherichia coli [TaxId: 562]

Probab=96.58  E-value=0.00071  Score=35.60  Aligned_cols=20  Identities=25%  Similarity=0.400  Sum_probs=17.3

Q ss_pred             EEEECCCCChHHHHHHHHhc
Q 035301           15 VVLIGDSGVGKSNLLSRFTR   34 (68)
Q Consensus        15 i~~iG~~~vGKtsl~~~~~~   34 (68)
                      |++-|..|+||||++..+..
T Consensus         5 IviEG~dGsGKsT~~~~L~~   24 (210)
T d4tmka_           5 IVIEGLEGAGKTTARNVVVE   24 (210)
T ss_dssp             EEEEECTTSCHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHH
Confidence            67779999999999988764

>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=96.58  E-value=0.0014  Score=34.46  Aligned_cols=22  Identities=36%  Similarity=0.581  Sum_probs=19.3

Q ss_pred             eEEEEECCCCChHHHHHHHHhc
Q 035301           13 FKVVLIGDSGVGKSNLLSRFTR   34 (68)
Q Consensus        13 ~ki~~iG~~~vGKtsl~~~~~~   34 (68)
                      +-|.+.|..|+||||+++.+..
T Consensus         3 ~iIgITG~igSGKStv~~~l~~   24 (205)
T d1jjva_           3 YIVGLTGGIGSGKTTIANLFTD   24 (205)
T ss_dssp             EEEEEECSTTSCHHHHHHHHHT
T ss_pred             EEEEEECCCCCCHHHHHHHHHH
Confidence            6688999999999999988764

>d1tf7a1 c.37.1.11 (A:14-255) Circadian clock protein KaiC {Synechococcus sp. strain PCC 7942 (Anacystis nidulans R2) [TaxId: 1140]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Circadian clock protein KaiC
species: Synechococcus sp. strain PCC 7942 (Anacystis nidulans R2) [TaxId: 1140]

Probab=96.56  E-value=0.00079  Score=35.32  Aligned_cols=20  Identities=30%  Similarity=0.516  Sum_probs=17.1

Q ss_pred             EEEEECCCCChHHHHHHHHh
Q 035301           14 KVVLIGDSGVGKSNLLSRFT   33 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~   33 (68)
                      -+++.|++|+|||+|+..++
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            46788999999999987765

>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=96.55  E-value=0.0013  Score=34.70  Aligned_cols=25  Identities=32%  Similarity=0.511  Sum_probs=20.5

Q ss_pred             eEEEEECCCCChHHHHHHHHhcCcC
Q 035301           13 FKVVLIGDSGVGKSNLLSRFTRNEF   37 (68)
Q Consensus        13 ~ki~~iG~~~vGKtsl~~~~~~~~~   37 (68)
                      |-|.+.|..|+|||+.++.+....+
T Consensus         4 ~iIgitG~igSGKStv~~~l~~~G~   28 (208)
T d1vhta_           4 YIVALTGGIGSGKSTVANAFADLGI   28 (208)
T ss_dssp             EEEEEECCTTSCHHHHHHHHHHTTC
T ss_pred             EEEEEECCCcCCHHHHHHHHHHCCC
Confidence            5678999999999999998765443

>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=96.54  E-value=0.00081  Score=38.29  Aligned_cols=20  Identities=25%  Similarity=0.522  Sum_probs=17.1

Q ss_pred             EEEECCCCChHHHHHHHHhc
Q 035301           15 VVLIGDSGVGKSNLLSRFTR   34 (68)
Q Consensus        15 i~~iG~~~vGKtsl~~~~~~   34 (68)
                      +++.|++|+|||.|.+.+++
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            44569999999999999885

>d1d2ea3 c.37.1.8 (A:55-250) Elongation factor Tu (EF-Tu), N-terminal (G) domain {Cow (Bos taurus), mitochondrial [TaxId: 9913]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Elongation factor Tu (EF-Tu), N-terminal (G) domain
species: Cow (Bos taurus), mitochondrial [TaxId: 9913]

Probab=96.50  E-value=0.0054  Score=32.30  Aligned_cols=23  Identities=30%  Similarity=0.394  Sum_probs=20.6

Q ss_pred             eeEEEEECCCCChHHHHHHHHhc
Q 035301           12 LFKVVLIGDSGVGKSNLLSRFTR   34 (68)
Q Consensus        12 ~~ki~~iG~~~vGKtsl~~~~~~   34 (68)
                      .++|+++|--..|||||++++.+
T Consensus         3 ~ini~iiGHvd~GKSTL~~~l~~   25 (196)
T d1d2ea3           3 HVNVGTIGHVDHGKTTLTAAITK   25 (196)
T ss_dssp             EEEEEEESSTTSSHHHHHHHHHH
T ss_pred             CcEEEEEeCCCCcHHHHHHHHHH
Confidence            47899999999999999998864

>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=96.48  E-value=0.00062  Score=36.60  Aligned_cols=22  Identities=32%  Similarity=0.475  Sum_probs=19.3

Q ss_pred             EEEEECCCCChHHHHHHHHhcC
Q 035301           14 KVVLIGDSGVGKSNLLSRFTRN   35 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~~   35 (68)
                      =.++-|--|+|||||+++++..
T Consensus         5 v~iitGFLGaGKTTll~~lL~~   26 (222)
T d1nija1           5 VTLLTGFLGAGKTTLLRHILNE   26 (222)
T ss_dssp             EEEEEESSSSSCHHHHHHHHHS
T ss_pred             EEEEeeCCCCCHHHHHHHHHhc
Confidence            4678899999999999999875

>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=96.46  E-value=0.0018  Score=36.29  Aligned_cols=24  Identities=21%  Similarity=0.221  Sum_probs=19.8

Q ss_pred             ceeeEEEEECCCCChHHHHHHHHh
Q 035301           10 DYLFKVVLIGDSGVGKSNLLSRFT   33 (68)
Q Consensus        10 ~~~~ki~~iG~~~vGKtsl~~~~~   33 (68)
                      ...+-|.+-|..|+|||||...+.
T Consensus        25 ~~P~iIGi~G~qGSGKSTl~~~l~   48 (286)
T d1odfa_          25 KCPLFIFFSGPQGSGKSFTSIQIY   48 (286)
T ss_dssp             CSCEEEEEECCTTSSHHHHHHHHH
T ss_pred             CCCEEEEeECCCCCCHHHHHHHHH
Confidence            346788999999999999887654

>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=96.46  E-value=0.0027  Score=34.14  Aligned_cols=25  Identities=24%  Similarity=0.442  Sum_probs=22.1

Q ss_pred             CceeeEEEEECCCCChHHHHHHHHh
Q 035301            9 YDYLFKVVLIGDSGVGKSNLLSRFT   33 (68)
Q Consensus         9 ~~~~~ki~~iG~~~vGKtsl~~~~~   33 (68)
                      ....++++++|--.+|||||+.+++
T Consensus         6 ~~~~~~i~viGHVd~GKSTL~~~Ll   30 (222)
T d1zunb3           6 RKEMLRFLTCGNVDDGKSTLIGRLL   30 (222)
T ss_dssp             SCEEEEEEEECCTTSSHHHHHHHHH
T ss_pred             cCCcceEEEEcCCCCCHHHHHHHHH
Confidence            3457899999999999999999986

>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=96.43  E-value=0.0011  Score=38.22  Aligned_cols=22  Identities=18%  Similarity=0.202  Sum_probs=19.1

Q ss_pred             eEEEEECCCCChHHHHHHHHhc
Q 035301           13 FKVVLIGDSGVGKSNLLSRFTR   34 (68)
Q Consensus        13 ~ki~~iG~~~vGKtsl~~~~~~   34 (68)
                      -.+++.|++|+|||++...++.
T Consensus       155 ~~~~~~g~~~~gk~~~~~~~~~  176 (362)
T d1svma_         155 RYWLFKGPIDSGKTTLAAALLE  176 (362)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHH
T ss_pred             CeEEEECCCCCCHHHHHHHHHH
Confidence            3689999999999999988763

>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=96.43  E-value=0.0013  Score=34.88  Aligned_cols=21  Identities=19%  Similarity=0.461  Sum_probs=18.8

Q ss_pred             EEEEECCCCChHHHHHHHHhc
Q 035301           14 KVVLIGDSGVGKSNLLSRFTR   34 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~   34 (68)
                      -+++.|+.|+|||+++..++.
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            489999999999999998765

>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=96.43  E-value=0.001  Score=35.38  Aligned_cols=20  Identities=30%  Similarity=0.414  Sum_probs=16.4

Q ss_pred             EEEECCCCChHHHHHHHHhc
Q 035301           15 VVLIGDSGVGKSNLLSRFTR   34 (68)
Q Consensus        15 i~~iG~~~vGKtsl~~~~~~   34 (68)
                      |++-|..|+||||++..+..
T Consensus         6 I~ieG~dGsGKsT~~~~L~~   25 (209)
T d1nn5a_           6 IVLEGVDRAGKSTQSRKLVE   25 (209)
T ss_dssp             EEEEESTTSSHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHH
Confidence            66779999999998777654

>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=96.41  E-value=0.00035  Score=39.32  Aligned_cols=21  Identities=29%  Similarity=0.547  Sum_probs=15.3

Q ss_pred             EEEEECCCCChHHHHHHHHhc
Q 035301           14 KVVLIGDSGVGKSNLLSRFTR   34 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~   34 (68)
                      =|.+.|.+|+||||+.+.+..
T Consensus         6 IIgIaG~SGSGKTTva~~l~~   26 (288)
T d1a7ja_           6 IISVTGSSGAGTSTVKHTFDQ   26 (288)
T ss_dssp             EEEEESCC---CCTHHHHHHH
T ss_pred             EEEEECCCCCcHHHHHHHHHH
Confidence            489999999999999987754

>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=96.37  E-value=0.002  Score=36.72  Aligned_cols=25  Identities=24%  Similarity=0.317  Sum_probs=22.1

Q ss_pred             eeeEEEEECCCCChHHHHHHHHhcC
Q 035301           11 YLFKVVLIGDSGVGKSNLLSRFTRN   35 (68)
Q Consensus        11 ~~~ki~~iG~~~vGKtsl~~~~~~~   35 (68)
                      ...+|.+=|.-|+||||+++.+...
T Consensus         5 ~~~rI~iEG~iGsGKSTl~~~L~~~   29 (333)
T d1p6xa_           5 TIVRIYLDGVYGIGKSTTGRVMASA   29 (333)
T ss_dssp             EEEEEEEECSTTSSHHHHHHHHHSG
T ss_pred             ceEEEEEECCccCCHHHHHHHHHHH
Confidence            4689999999999999999988753

>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=96.34  E-value=0.0014  Score=35.25  Aligned_cols=21  Identities=24%  Similarity=0.534  Sum_probs=17.9

Q ss_pred             EEEEECCCCChHHHHHHHHhc
Q 035301           14 KVVLIGDSGVGKSNLLSRFTR   34 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~   34 (68)
                      -+++-|++|+|||+++..++.
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            378889999999999888763

>d2ocpa1 c.37.1.1 (A:37-277) Deoxyguanosine kinase {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Deoxyguanosine kinase
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.32  E-value=0.0013  Score=35.09  Aligned_cols=21  Identities=29%  Similarity=0.570  Sum_probs=18.5

Q ss_pred             EEEEECCCCChHHHHHHHHhc
Q 035301           14 KVVLIGDSGVGKSNLLSRFTR   34 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~   34 (68)
                      -|++=|.-|+||||+++.+..
T Consensus         4 ~IviEG~~GsGKST~~~~L~~   24 (241)
T d2ocpa1           4 RLSIEGNIAVGKSTFVKLLTK   24 (241)
T ss_dssp             EEEEEECTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCCcHHHHHHHHHH
Confidence            577889999999999998874

>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=96.32  E-value=0.0015  Score=35.50  Aligned_cols=20  Identities=25%  Similarity=0.504  Sum_probs=17.2

Q ss_pred             EEEECCCCChHHHHHHHHhc
Q 035301           15 VVLIGDSGVGKSNLLSRFTR   34 (68)
Q Consensus        15 i~~iG~~~vGKtsl~~~~~~   34 (68)
                      +++.|.+|+|||+|+..++-
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            67889999999999887764

>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=96.31  E-value=0.0015  Score=36.73  Aligned_cols=22  Identities=18%  Similarity=0.424  Sum_probs=19.8

Q ss_pred             EEEEECCCCChHHHHHHHHhcC
Q 035301           14 KVVLIGDSGVGKSNLLSRFTRN   35 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~~   35 (68)
                      |+.++|++|+|||+|+..++.+
T Consensus        45 r~~I~g~~g~GKT~l~~~i~~~   66 (289)
T d1xpua3          45 RGLIVAPPKAGKTMLLQNIAQS   66 (289)
T ss_dssp             EEEEEECSSSSHHHHHHHHHHH
T ss_pred             eeeEeCCCCCCHHHHHHHHHHH
Confidence            8999999999999999888753

>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=96.29  E-value=0.0014  Score=35.50  Aligned_cols=20  Identities=30%  Similarity=0.395  Sum_probs=16.9

Q ss_pred             EEEEECCCCChHHHHHHHHh
Q 035301           14 KVVLIGDSGVGKSNLLSRFT   33 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~   33 (68)
                      -.++.|++|+|||+|+..++
T Consensus        31 ~~~i~G~~G~GKS~l~l~la   50 (274)
T d1nlfa_          31 VGALVSPGGAGKSMLALQLA   50 (274)
T ss_dssp             EEEEEESTTSSHHHHHHHHH
T ss_pred             EEEEEeCCCCCHHHHHHHHH
Confidence            35689999999999987765

>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=96.27  E-value=0.002  Score=36.71  Aligned_cols=24  Identities=25%  Similarity=0.426  Sum_probs=21.2

Q ss_pred             eeeEEEEECCCCChHHHHHHHHhc
Q 035301           11 YLFKVVLIGDSGVGKSNLLSRFTR   34 (68)
Q Consensus        11 ~~~ki~~iG~~~vGKtsl~~~~~~   34 (68)
                      ...+|.|=|.-|+||||+++.+..
T Consensus         3 ~~lrI~IEG~iGsGKTTl~~~La~   26 (329)
T d1e2ka_           3 TLLRVYIDGPHGMGKTTTTQLLVA   26 (329)
T ss_dssp             EEEEEEECSCTTSSHHHHHHHHTC
T ss_pred             CceEEEEECCcCCCHHHHHHHHHH
Confidence            357899999999999999998874

>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=96.25  E-value=0.0013  Score=37.05  Aligned_cols=21  Identities=29%  Similarity=0.653  Sum_probs=18.1

Q ss_pred             EEEEECCCCChHHHHHHHHhc
Q 035301           14 KVVLIGDSGVGKSNLLSRFTR   34 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~   34 (68)
                      -++++|++|+|||.+...++.
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            468889999999999888765

>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=96.10  E-value=0.0022  Score=35.51  Aligned_cols=21  Identities=33%  Similarity=0.572  Sum_probs=19.0

Q ss_pred             eEEEEECCCCChHHHHHHHHh
Q 035301           13 FKVVLIGDSGVGKSNLLSRFT   33 (68)
Q Consensus        13 ~ki~~iG~~~vGKtsl~~~~~   33 (68)
                      -++.++|..++|||||+.+++
T Consensus         3 RNv~iiGh~~~GKTtL~e~ll   23 (267)
T d2dy1a2           3 RTVALVGHAGSGKTTLTEALL   23 (267)
T ss_dssp             EEEEEEESTTSSHHHHHHHHH
T ss_pred             eEEEEEcCCCCcHHHHHHHHH
Confidence            368999999999999999885

>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=96.04  E-value=0.0021  Score=34.13  Aligned_cols=21  Identities=14%  Similarity=0.240  Sum_probs=18.0

Q ss_pred             EEEEECCCCChHHHHHHHHhc
Q 035301           14 KVVLIGDSGVGKSNLLSRFTR   34 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~   34 (68)
                      -|++-|..|+||||++..+..
T Consensus         5 ~I~iEG~DGsGKST~~~~L~~   25 (214)
T d1tmka_           5 LILIEGLDRTGKTTQCNILYK   25 (214)
T ss_dssp             EEEEEESTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCCcHHHHHHHHHH
Confidence            378889999999999888763

>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=96.01  E-value=0.0022  Score=36.81  Aligned_cols=23  Identities=30%  Similarity=0.489  Sum_probs=19.1

Q ss_pred             eEEEEECCCCChHHHHHHHHhcC
Q 035301           13 FKVVLIGDSGVGKSNLLSRFTRN   35 (68)
Q Consensus        13 ~ki~~iG~~~vGKtsl~~~~~~~   35 (68)
                      -.++|+|.+|+|||+++..++.+
T Consensus        51 ~H~~I~G~tGsGKT~~l~~li~~   73 (433)
T d1e9ra_          51 RHLLVNGATGTGKSVLLRELAYT   73 (433)
T ss_dssp             GCEEEEECTTSSHHHHHHHHHHH
T ss_pred             ceEEEEeCCCCcHHHHHHHHHHH
Confidence            35899999999999998776643

>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=95.89  E-value=0.0019  Score=36.85  Aligned_cols=24  Identities=25%  Similarity=0.560  Sum_probs=21.3

Q ss_pred             eeEEEEECCCCChHHHHHHHHhcC
Q 035301           12 LFKVVLIGDSGVGKSNLLSRFTRN   35 (68)
Q Consensus        12 ~~ki~~iG~~~vGKtsl~~~~~~~   35 (68)
                      .++|.+=|.-|+||||+++.+...
T Consensus         5 ~lrI~IEG~iGsGKSTl~~~L~~~   28 (331)
T d1osna_           5 VLRIYLDGAYGIGKTTAAEEFLHH   28 (331)
T ss_dssp             EEEEEEEESSSSCTTHHHHHHHHT
T ss_pred             ceEEEEECCCCCCHHHHHHHHHHH
Confidence            578999999999999999998753

>d2bv3a2 c.37.1.8 (A:7-282) Elongation factor G (EF-G), N-terminal (G) domain {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Elongation factor G (EF-G), N-terminal (G) domain
species: Thermus thermophilus [TaxId: 274]

Probab=95.82  E-value=0.0047  Score=34.36  Aligned_cols=22  Identities=18%  Similarity=0.252  Sum_probs=19.8

Q ss_pred             eeEEEEECCCCChHHHHHHHHh
Q 035301           12 LFKVVLIGDSGVGKSNLLSRFT   33 (68)
Q Consensus        12 ~~ki~~iG~~~vGKtsl~~~~~   33 (68)
                      .-++.++|-.++|||||+.+++
T Consensus         6 iRni~i~gh~~~GKTtL~e~ll   27 (276)
T d2bv3a2           6 LRNIGIAAHIDAGKTTTTERIL   27 (276)
T ss_dssp             EEEEEEEECTTSCHHHHHHHHH
T ss_pred             ceEEEEEeCCCCCHHHHHHHHH
Confidence            4479999999999999999986

>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=95.77  E-value=0.0034  Score=36.39  Aligned_cols=21  Identities=29%  Similarity=0.393  Sum_probs=18.9

Q ss_pred             EEEEECCCCChHHHHHHHHhc
Q 035301           14 KVVLIGDSGVGKSNLLSRFTR   34 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~   34 (68)
                      -+++.|+.|+||||.+..++.
T Consensus       160 liLvtGpTGSGKSTTl~~~l~  180 (401)
T d1p9ra_         160 IILVTGPTGSGKSTTLYAGLQ  180 (401)
T ss_dssp             EEEEECSTTSCHHHHHHHHHH
T ss_pred             eEEEEcCCCCCccHHHHHHhh
Confidence            389999999999999998875

>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=95.74  E-value=0.0025  Score=35.12  Aligned_cols=16  Identities=25%  Similarity=0.731  Sum_probs=13.5

Q ss_pred             EEEECCCCChHHHHHH
Q 035301           15 VVLIGDSGVGKSNLLS   30 (68)
Q Consensus        15 i~~iG~~~vGKtsl~~   30 (68)
                      ++|.|.+|+|||+.+-
T Consensus        27 ~lV~g~aGSGKTt~l~   42 (318)
T d1pjra1          27 LLIMAGAGSGKTRVLT   42 (318)
T ss_dssp             EEEEECTTSCHHHHHH
T ss_pred             EEEEecCCccHHHHHH
Confidence            7899999999997543

>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=95.65  E-value=0.0026  Score=34.65  Aligned_cols=15  Identities=20%  Similarity=0.665  Sum_probs=13.0

Q ss_pred             EEEECCCCChHHHHH
Q 035301           15 VVLIGDSGVGKSNLL   29 (68)
Q Consensus        15 i~~iG~~~vGKtsl~   29 (68)
                      ++|+|.+|+|||+.+
T Consensus        17 ~lI~g~aGTGKTt~l   31 (306)
T d1uaaa1          17 CLVLAGAGSGKTRVI   31 (306)
T ss_dssp             EEECCCTTSCHHHHH
T ss_pred             EEEEeeCCccHHHHH
Confidence            678899999999764

>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=95.57  E-value=0.0051  Score=34.27  Aligned_cols=22  Identities=41%  Similarity=0.700  Sum_probs=19.8

Q ss_pred             EEEEECCCCChHHHHHHHHhcC
Q 035301           14 KVVLIGDSGVGKSNLLSRFTRN   35 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~~   35 (68)
                      |+.++|++|+|||+|+..++.+
T Consensus        70 r~~If~~~g~GKt~l~~~i~~~   91 (276)
T d2jdid3          70 KIGLFGGAGVGKTVLIMELINN   91 (276)
T ss_dssp             EEEEEECTTSSHHHHHHHHHHH
T ss_pred             EEEeeCCCCCCHHHHHHHHHHH
Confidence            8999999999999999888754

>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=95.44  E-value=0.0078  Score=32.04  Aligned_cols=22  Identities=32%  Similarity=0.603  Sum_probs=19.8

Q ss_pred             eeEEEEECCCCChHHHHHHHHh
Q 035301           12 LFKVVLIGDSGVGKSNLLSRFT   33 (68)
Q Consensus        12 ~~ki~~iG~~~vGKtsl~~~~~   33 (68)
                      .++|+++|--+.|||||+.++.
T Consensus         3 ~iNi~viGHVd~GKTTL~~~Ll   24 (224)
T d1jnya3           3 HLNLIVIGHVDHGKSTLVGRLL   24 (224)
T ss_dssp             EEEEEEEESTTSSHHHHHHHHH
T ss_pred             ccEEEEEecCCCCHHHHHHHHH
Confidence            4799999999999999998874

>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=95.36  E-value=0.011  Score=32.02  Aligned_cols=24  Identities=29%  Similarity=0.397  Sum_probs=21.1

Q ss_pred             ceeeEEEEECCCCChHHHHHHHHh
Q 035301           10 DYLFKVVLIGDSGVGKSNLLSRFT   33 (68)
Q Consensus        10 ~~~~ki~~iG~~~vGKtsl~~~~~   33 (68)
                      ...++|+++|--..|||||+.+++
T Consensus         4 k~~iNi~iiGHvD~GKsTl~~~ll   27 (239)
T d1f60a3           4 KSHINVVVIGHVDSGKSTTTGHLI   27 (239)
T ss_dssp             CEEEEEEEEECTTSCHHHHHHHHH
T ss_pred             CCccEEEEEeCCCCCHHHHHHHHH
Confidence            345799999999999999999885

>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=95.34  E-value=0.0068  Score=31.34  Aligned_cols=21  Identities=19%  Similarity=0.244  Sum_probs=16.9

Q ss_pred             eEEEEECCC-CChHHHHHHHHh
Q 035301           13 FKVVLIGDS-GVGKSNLLSRFT   33 (68)
Q Consensus        13 ~ki~~iG~~-~vGKtsl~~~~~   33 (68)
                      -|++|.|-. |||||++.--++
T Consensus         2 ~~~~i~gt~~GVGKTtvs~~La   23 (224)
T d1byia_           2 KRYFVTGTDTEVGKTVASCALL   23 (224)
T ss_dssp             EEEEEEESSTTSCHHHHHHHHH
T ss_pred             ceEEEEECCCCccHHHHHHHHH
Confidence            378899996 999998866554

>d1cp2a_ c.37.1.10 (A:) Nitrogenase iron protein {Clostridium pasteurianum [TaxId: 1501]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Nitrogenase iron protein
species: Clostridium pasteurianum [TaxId: 1501]

Probab=95.21  E-value=0.008  Score=32.45  Aligned_cols=21  Identities=33%  Similarity=0.572  Sum_probs=17.1

Q ss_pred             eEEEEECCCCChHHHHHHHHh
Q 035301           13 FKVVLIGDSGVGKSNLLSRFT   33 (68)
Q Consensus        13 ~ki~~iG~~~vGKtsl~~~~~   33 (68)
                      -+|.+.|-.||||||+...++
T Consensus         2 r~Iai~gKGGvGKTT~a~nLA   22 (269)
T d1cp2a_           2 RQVAIYGKGGIGKSTTTQNLT   22 (269)
T ss_dssp             EEEEEEECTTSSHHHHHHHHH
T ss_pred             CEEEEECCCcCCHHHHHHHHH
Confidence            367789999999999977654

>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=95.08  E-value=0.011  Score=31.28  Aligned_cols=22  Identities=18%  Similarity=0.117  Sum_probs=18.9

Q ss_pred             eEEEEECCCCChHHHHHHHHhc
Q 035301           13 FKVVLIGDSGVGKSNLLSRFTR   34 (68)
Q Consensus        13 ~ki~~iG~~~vGKtsl~~~~~~   34 (68)
                      ..|.+.|..|+||||..+.+..
T Consensus         2 ~iIgiTG~igSGKsTva~~l~e   23 (241)
T d1deka_           2 KLIFLSGVKRSGKDTTADFIMS   23 (241)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHH
T ss_pred             EEEEEECCCCCCHHHHHHHHHH
Confidence            3578889999999999998864

>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=95.07  E-value=0.0088  Score=34.14  Aligned_cols=24  Identities=21%  Similarity=0.278  Sum_probs=20.7

Q ss_pred             ceeeEEEEECCCCChHHHHHHHHh
Q 035301           10 DYLFKVVLIGDSGVGKSNLLSRFT   33 (68)
Q Consensus        10 ~~~~ki~~iG~~~vGKtsl~~~~~   33 (68)
                      +..-.|+++|..+.|||||+.++.
T Consensus        15 ~~IRNI~iiGhvd~GKTTL~d~Ll   38 (341)
T d1n0ua2          15 TNVRNMSVIAHVDHGKSTLTDSLV   38 (341)
T ss_dssp             GGEEEEEEECCGGGTHHHHHHHHH
T ss_pred             ccCcEEEEEeCCCCcHHHHHHHHH
Confidence            344569999999999999999986

>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=94.97  E-value=0.01  Score=32.61  Aligned_cols=21  Identities=24%  Similarity=0.316  Sum_probs=17.7

Q ss_pred             EEEEECCCCChHHHHHHHHhc
Q 035301           14 KVVLIGDSGVGKSNLLSRFTR   34 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~   34 (68)
                      -..+.|++++|||+|+..++-
T Consensus        56 itei~G~~gsGKTtl~l~~~~   76 (263)
T d1u94a1          56 IVEIYGPESSGKTTLTLQVIA   76 (263)
T ss_dssp             EEEEECSTTSSHHHHHHHHHH
T ss_pred             EEEEecCCCcHHHHHHHHHHH
Confidence            457889999999999888764

>d1ihua1 c.37.1.10 (A:1-296) Arsenite-translocating ATPase ArsA {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Arsenite-translocating ATPase ArsA
species: Escherichia coli [TaxId: 562]

Probab=94.84  E-value=0.012  Score=31.89  Aligned_cols=20  Identities=25%  Similarity=0.492  Sum_probs=15.3

Q ss_pred             EEEEECCCCChHHHHHHHHh
Q 035301           14 KVVLIGDSGVGKSNLLSRFT   33 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~   33 (68)
                      -+++.|-.||||||+.-.++
T Consensus        10 ~i~~sGKGGVGKTTvaa~lA   29 (296)
T d1ihua1          10 YLFFTGKGGVGKTSISCATA   29 (296)
T ss_dssp             EEEEECSTTSSHHHHHHHHH
T ss_pred             EEEEECCCcChHHHHHHHHH
Confidence            45678999999999755543

>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=94.73  E-value=0.012  Score=31.85  Aligned_cols=23  Identities=30%  Similarity=0.400  Sum_probs=20.3

Q ss_pred             eeeEEEEECCCCChHHHHHHHHh
Q 035301           11 YLFKVVLIGDSGVGKSNLLSRFT   33 (68)
Q Consensus        11 ~~~ki~~iG~~~vGKtsl~~~~~   33 (68)
                      ..++|+++|--..|||||+.+++
T Consensus        23 ~~iNi~iiGHVD~GKSTL~~~Ll   45 (245)
T d1r5ba3          23 EHVNIVFIGHVDAGKSTLGGNIL   45 (245)
T ss_dssp             EEEEEEEEECGGGTHHHHHHHHH
T ss_pred             CceEEEEEeeCCCCHHHHHHHHH
Confidence            35689999999999999999984

>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=94.72  E-value=0.013  Score=31.83  Aligned_cols=21  Identities=33%  Similarity=0.599  Sum_probs=18.0

Q ss_pred             EEEEECCCCChHHHHHHHHhc
Q 035301           14 KVVLIGDSGVGKSNLLSRFTR   34 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~   34 (68)
                      -+++.|+.|+||+.+.+.+..
T Consensus        25 pvlI~Ge~GtGK~~~A~~ih~   45 (247)
T d1ny5a2          25 PVLITGESGVGKEVVARLIHK   45 (247)
T ss_dssp             CEEEECSTTSSHHHHHHHHHH
T ss_pred             CEEEECCCCcCHHHHHHHHHH
Confidence            478999999999998887754

>d1tuea_ c.37.1.20 (A:) Replication protein E1 helicase domain {Human papillomavirus type 18 [TaxId: 333761]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Replication protein E1 helicase domain
species: Human papillomavirus type 18 [TaxId: 333761]

Probab=94.66  E-value=0.0088  Score=32.02  Aligned_cols=22  Identities=27%  Similarity=0.323  Sum_probs=18.5

Q ss_pred             eEEEEECCCCChHHHHHHHHhc
Q 035301           13 FKVVLIGDSGVGKSNLLSRFTR   34 (68)
Q Consensus        13 ~ki~~iG~~~vGKtsl~~~~~~   34 (68)
                      -.+++.|++++|||.++..++.
T Consensus        54 n~i~~~GP~~TGKS~f~~sl~~   75 (205)
T d1tuea_          54 NCLVFCGPANTGKSYFGMSFIH   75 (205)
T ss_dssp             SEEEEESCGGGCHHHHHHHHHH
T ss_pred             eEEEEECCCCccHHHHHHHHHH
Confidence            4688999999999999887653

>d1wb9a2 c.37.1.12 (A:567-800) DNA repair protein MutS, the C-terminal domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: DNA repair protein MutS, the C-terminal domain
species: Escherichia coli [TaxId: 562]

Probab=94.47  E-value=0.017  Score=31.14  Aligned_cols=19  Identities=21%  Similarity=0.389  Sum_probs=16.6

Q ss_pred             EEEECCCCChHHHHHHHHh
Q 035301           15 VVLIGDSGVGKSNLLSRFT   33 (68)
Q Consensus        15 i~~iG~~~vGKtsl~~~~~   33 (68)
                      +++-|++.+|||++++.+.
T Consensus        44 ~iiTGpN~~GKSt~lk~i~   62 (234)
T d1wb9a2          44 LIITGPNMGGKSTYMRQTA   62 (234)
T ss_dssp             EEEECCTTSSHHHHHHHHH
T ss_pred             EEEeccCchhhHHHHHHHH
Confidence            6788999999999998754

>d2afhe1 c.37.1.10 (E:1-289) Nitrogenase iron protein {Azotobacter vinelandii [TaxId: 354]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Nitrogenase iron protein
species: Azotobacter vinelandii [TaxId: 354]

Probab=94.47  E-value=0.016  Score=31.59  Aligned_cols=20  Identities=25%  Similarity=0.556  Sum_probs=16.0

Q ss_pred             EEEEECCCCChHHHHHHHHh
Q 035301           14 KVVLIGDSGVGKSNLLSRFT   33 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~   33 (68)
                      +|++-|-.||||||+...++
T Consensus         4 ~IaisgKGGVGKTT~a~NLA   23 (289)
T d2afhe1           4 QCAIYGKGGIGKSTTTQNLV   23 (289)
T ss_dssp             EEEEEECTTSSHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHH
Confidence            67778999999999766544

>d1ihua2 c.37.1.10 (A:308-586) Arsenite-translocating ATPase ArsA {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Arsenite-translocating ATPase ArsA
species: Escherichia coli [TaxId: 562]

Probab=94.46  E-value=0.017  Score=31.19  Aligned_cols=21  Identities=24%  Similarity=0.667  Sum_probs=14.7

Q ss_pred             eEEEE-ECCCCChHHHHHHHHh
Q 035301           13 FKVVL-IGDSGVGKSNLLSRFT   33 (68)
Q Consensus        13 ~ki~~-iG~~~vGKtsl~~~~~   33 (68)
                      .+|++ -|-.||||||+.-.++
T Consensus        20 ~~iii~sGKGGVGKTT~a~nLA   41 (279)
T d1ihua2          20 HGLIMLMGKGGVGKTTMAAAIA   41 (279)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHH
T ss_pred             CEEEEEECCCCCCHHHHHHHHH
Confidence            34544 4999999999755443

>d1ewqa2 c.37.1.12 (A:542-765) DNA repair protein MutS, the C-terminal domain {Thermus aquaticus [TaxId: 271]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: DNA repair protein MutS, the C-terminal domain
species: Thermus aquaticus [TaxId: 271]

Probab=94.21  E-value=0.021  Score=30.65  Aligned_cols=19  Identities=32%  Similarity=0.510  Sum_probs=16.8

Q ss_pred             EEEECCCCChHHHHHHHHh
Q 035301           15 VVLIGDSGVGKSNLLSRFT   33 (68)
Q Consensus        15 i~~iG~~~vGKtsl~~~~~   33 (68)
                      +++-|++..|||++++.+.
T Consensus        38 ~iiTGpN~~GKSt~lk~i~   56 (224)
T d1ewqa2          38 VLITGPNMAGKSTFLRQTA   56 (224)
T ss_dssp             EEEESCSSSSHHHHHHHHH
T ss_pred             EEEECCCccccchhhhhhH
Confidence            7899999999999998754

>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=94.14  E-value=0.013  Score=32.71  Aligned_cols=21  Identities=24%  Similarity=0.414  Sum_probs=18.3

Q ss_pred             EEEEECCCCChHHHHHHHHhc
Q 035301           14 KVVLIGDSGVGKSNLLSRFTR   34 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~   34 (68)
                      |+.++|++|+|||+|+..++.
T Consensus        70 r~~If~~~g~GKt~ll~~~~~   90 (285)
T d2jdia3          70 RELIIGDRQTGKTSIAIDTII   90 (285)
T ss_dssp             BCEEEESTTSSHHHHHHHHHH
T ss_pred             EEEeecCCCCChHHHHHHHHH
Confidence            889999999999999876653

>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=94.11  E-value=0.022  Score=32.50  Aligned_cols=18  Identities=28%  Similarity=0.577  Sum_probs=14.9

Q ss_pred             EEEEECCCCChHHHHHHH
Q 035301           14 KVVLIGDSGVGKSNLLSR   31 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~   31 (68)
                      -.++.|++|+|||+++..
T Consensus       165 ~~vI~G~pGTGKTt~i~~  182 (359)
T d1w36d1         165 ISVISGGPGTGKTTTVAK  182 (359)
T ss_dssp             EEEEECCTTSTHHHHHHH
T ss_pred             eEEEEcCCCCCceehHHH
Confidence            577889999999988754

>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=94.05  E-value=0.023  Score=31.26  Aligned_cols=23  Identities=22%  Similarity=0.359  Sum_probs=19.2

Q ss_pred             eeEEEEECCCCChHHHHHHHHhc
Q 035301           12 LFKVVLIGDSGVGKSNLLSRFTR   34 (68)
Q Consensus        12 ~~ki~~iG~~~vGKtsl~~~~~~   34 (68)
                      +--+++.|+.+.|||.|+..++.
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            44678889999999999988764

>d1c9ka_ c.37.1.11 (A:) Adenosylcobinamide kinase/adenosylcobinamide phosphate guanylyltransferase CobU {Salmonella typhimurium [TaxId: 90371]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Adenosylcobinamide kinase/adenosylcobinamide phosphate guanylyltransferase CobU
species: Salmonella typhimurium [TaxId: 90371]

Probab=93.78  E-value=0.021  Score=29.83  Aligned_cols=21  Identities=19%  Similarity=0.371  Sum_probs=18.5

Q ss_pred             EEEECCCCChHHHHHHHHhcC
Q 035301           15 VVLIGDSGVGKSNLLSRFTRN   35 (68)
Q Consensus        15 i~~iG~~~vGKtsl~~~~~~~   35 (68)
                      ++|+|.+.+|||.+..+++..
T Consensus         2 iLVtGGarSGKS~~AE~l~~~   22 (180)
T d1c9ka_           2 ILVTGGARSGKSRHAEALIGD   22 (180)
T ss_dssp             EEEEECTTSSHHHHHHHHHCS
T ss_pred             EEEECCCCccHHHHHHHHHhc
Confidence            589999999999999988754

>d1fx0a3 c.37.1.11 (A:97-372) Central domain of alpha subunit of F1 ATP synthase {Spinach (Spinacia oleracea), chloroplast [TaxId: 3562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Central domain of alpha subunit of F1 ATP synthase
species: Spinach (Spinacia oleracea), chloroplast [TaxId: 3562]

Probab=93.25  E-value=0.023  Score=31.54  Aligned_cols=22  Identities=27%  Similarity=0.472  Sum_probs=18.6

Q ss_pred             EEEEECCCCChHHHHHHHHhcC
Q 035301           14 KVVLIGDSGVGKSNLLSRFTRN   35 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~~   35 (68)
                      |+.++|++|+|||+|+......
T Consensus        69 r~~Ifg~~g~GKt~l~~~~~~~   90 (276)
T d1fx0a3          69 RELIIGDRQTGKTAVATDTILN   90 (276)
T ss_dssp             BCBEEESSSSSHHHHHHHHHHT
T ss_pred             eEeeccCCCCChHHHHHHHHhh
Confidence            7899999999999998765543

>d1mo6a1 c.37.1.11 (A:1-269) RecA protein, ATPase-domain {Mycobacterium tuberculosis [TaxId: 1773]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: RecA protein, ATPase-domain
species: Mycobacterium tuberculosis [TaxId: 1773]

Probab=93.19  E-value=0.038  Score=30.47  Aligned_cols=21  Identities=14%  Similarity=0.241  Sum_probs=17.2

Q ss_pred             EEEEECCCCChHHHHHHHHhc
Q 035301           14 KVVLIGDSGVGKSNLLSRFTR   34 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~   34 (68)
                      -..+.|++++|||+|+..++.
T Consensus        62 i~e~~G~~~~GKT~l~l~~~~   82 (269)
T d1mo6a1          62 VIEIYGPESSGKTTVALHAVA   82 (269)
T ss_dssp             EEEEECSSSSSHHHHHHHHHH
T ss_pred             eEEEecCCCcHHHHHHHHHHH
Confidence            456889999999999877653

>d2olra1 c.91.1.1 (A:228-540) Phosphoenolpyruvate (PEP) carboxykinase (ATP-oxaloacetate carboxy-lyase) {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: PEP carboxykinase-like
superfamily: PEP carboxykinase-like
family: PEP carboxykinase C-terminal domain
domain: Phosphoenolpyruvate (PEP) carboxykinase (ATP-oxaloacetate carboxy-lyase)
species: Escherichia coli [TaxId: 562]

Probab=92.91  E-value=0.025  Score=31.98  Aligned_cols=14  Identities=50%  Similarity=0.750  Sum_probs=12.7

Q ss_pred             EEECCCCChHHHHH
Q 035301           16 VLIGDSGVGKSNLL   29 (68)
Q Consensus        16 ~~iG~~~vGKtsl~   29 (68)
                      ++.|-+|.|||||-
T Consensus        18 lfFGLSGTGKTTLs   31 (313)
T d2olra1          18 VFFGLSGTGKTTLS   31 (313)
T ss_dssp             EEECSTTSSHHHHH
T ss_pred             EEEccCCCCcccce
Confidence            68899999999975

>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=92.79  E-value=0.061  Score=26.43  Aligned_cols=24  Identities=21%  Similarity=0.180  Sum_probs=20.3

Q ss_pred             ceeeEEEEECCCCChHHHHHHHHh
Q 035301           10 DYLFKVVLIGDSGVGKSNLLSRFT   33 (68)
Q Consensus        10 ~~~~ki~~iG~~~vGKtsl~~~~~   33 (68)
                      ..-|-|++-|.+++||++|.+.+.
T Consensus         4 kqgf~i~~tg~~~~gk~~ia~al~   27 (122)
T d1g8fa3           4 KQGFSIVLGNSLTVSREQLSIALL   27 (122)
T ss_dssp             GCCEEEEECTTCCSCHHHHHHHHH
T ss_pred             ccceEEEEeCCCCCCHHHHHHHHH
Confidence            345789999999999999988765

>d1xp8a1 c.37.1.11 (A:15-282) RecA protein, ATPase-domain {Deinococcus radiodurans [TaxId: 1299]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: RecA protein, ATPase-domain
species: Deinococcus radiodurans [TaxId: 1299]

Probab=92.78  E-value=0.041  Score=30.26  Aligned_cols=21  Identities=19%  Similarity=0.218  Sum_probs=17.5

Q ss_pred             EEEEECCCCChHHHHHHHHhc
Q 035301           14 KVVLIGDSGVGKSNLLSRFTR   34 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~~   34 (68)
                      -..+-|++++|||+|+..++-
T Consensus        59 itei~G~~~sGKT~l~l~~~~   79 (268)
T d1xp8a1          59 ITEIYGPESGGKTTLALAIVA   79 (268)
T ss_dssp             EEEEEESTTSSHHHHHHHHHH
T ss_pred             EEEEecCCccchHHHHHHHHH
Confidence            456789999999999887764

>d1lkxa_ c.37.1.9 (A:) Myosin S1, motor domain {Dictyostelium discoideum, class-I myosin MyoE [TaxId: 44689]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Motor proteins
domain: Myosin S1, motor domain
species: Dictyostelium discoideum, class-I myosin MyoE [TaxId: 44689]

Probab=92.73  E-value=0.041  Score=33.92  Aligned_cols=19  Identities=32%  Similarity=0.625  Sum_probs=15.6

Q ss_pred             EEEEECCCCChHHHHHHHH
Q 035301           14 KVVLIGDSGVGKSNLLSRF   32 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~   32 (68)
                      .|++.|++|+|||.-.+.+
T Consensus        88 sIiisGeSGsGKTe~~k~i  106 (684)
T d1lkxa_          88 CVIISGESGAGKTEASKKI  106 (684)
T ss_dssp             EEEEECSTTSSHHHHHHHH
T ss_pred             EEEEEcCCCCCHHHHHHHH
Confidence            6999999999999765544

>d1j3ba1 c.91.1.1 (A:212-529) Phosphoenolpyruvate (PEP) carboxykinase (ATP-oxaloacetate carboxy-lyase) {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: PEP carboxykinase-like
superfamily: PEP carboxykinase-like
family: PEP carboxykinase C-terminal domain
domain: Phosphoenolpyruvate (PEP) carboxykinase (ATP-oxaloacetate carboxy-lyase)
species: Thermus thermophilus [TaxId: 274]

Probab=92.56  E-value=0.026  Score=31.99  Aligned_cols=16  Identities=44%  Similarity=0.690  Sum_probs=13.6

Q ss_pred             EEEECCCCChHHHHHH
Q 035301           15 VVLIGDSGVGKSNLLS   30 (68)
Q Consensus        15 i~~iG~~~vGKtsl~~   30 (68)
                      .++.|-+|.|||||-.
T Consensus        17 alffGLSGTGKTTLs~   32 (318)
T d1j3ba1          17 AVFFGLSGTGKTTLST   32 (318)
T ss_dssp             EEEEECTTSCHHHHTC
T ss_pred             EEEEccCCCCcccccc
Confidence            4888999999999753

>d1d0xa2 c.37.1.9 (A:2-33,A:80-759) Myosin S1, motor domain {Dictyostelium discoideum [TaxId: 44689]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Motor proteins
domain: Myosin S1, motor domain
species: Dictyostelium discoideum [TaxId: 44689]

Probab=92.50  E-value=0.046  Score=33.91  Aligned_cols=20  Identities=25%  Similarity=0.539  Sum_probs=16.1

Q ss_pred             eEEEEECCCCChHHHHHHHH
Q 035301           13 FKVVLIGDSGVGKSNLLSRF   32 (68)
Q Consensus        13 ~ki~~iG~~~vGKtsl~~~~   32 (68)
                      -.|++.|++|+|||.-.+.+
T Consensus       126 QsIiisGeSGaGKTe~~k~i  145 (712)
T d1d0xa2         126 QSLLITGESGAGKTENTKKV  145 (712)
T ss_dssp             EEEEEECSTTSSHHHHHHHH
T ss_pred             ceEEEeCCCCCCHHHHHHHH
Confidence            37999999999999655544

>d1ii2a1 c.91.1.1 (A:201-523) Phosphoenolpyruvate (PEP) carboxykinase (ATP-oxaloacetate carboxy-lyase) {Trypanosoma cruzi [TaxId: 5693]}

class: Alpha and beta proteins (a/b)
fold: PEP carboxykinase-like
superfamily: PEP carboxykinase-like
family: PEP carboxykinase C-terminal domain
domain: Phosphoenolpyruvate (PEP) carboxykinase (ATP-oxaloacetate carboxy-lyase)
species: Trypanosoma cruzi [TaxId: 5693]

Probab=92.29  E-value=0.035  Score=31.51  Aligned_cols=15  Identities=47%  Similarity=0.700  Sum_probs=13.3

Q ss_pred             EEEECCCCChHHHHH
Q 035301           15 VVLIGDSGVGKSNLL   29 (68)
Q Consensus        15 i~~iG~~~vGKtsl~   29 (68)
                      .++.|-||.|||||.
T Consensus        17 alfFGLSGTGKTTLs   31 (323)
T d1ii2a1          17 TVFFGLSGTGKTTLS   31 (323)
T ss_dssp             EEEECCTTSSHHHHH
T ss_pred             EEEEccCCCCcccce
Confidence            368899999999986

>d1br2a2 c.37.1.9 (A:80-789) Myosin S1, motor domain {Chicken (Gallus gallus), pectoral muscle [TaxId: 9031]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Motor proteins
domain: Myosin S1, motor domain
species: Chicken (Gallus gallus), pectoral muscle [TaxId: 9031]

Probab=92.26  E-value=0.051  Score=33.62  Aligned_cols=19  Identities=26%  Similarity=0.560  Sum_probs=15.7

Q ss_pred             EEEEECCCCChHHHHHHHH
Q 035301           14 KVVLIGDSGVGKSNLLSRF   32 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~   32 (68)
                      .|++.|++|+|||.-.+.+
T Consensus        93 ~IiisGeSGaGKTe~~k~i  111 (710)
T d1br2a2          93 SILCTGESGAGKTENTKKV  111 (710)
T ss_dssp             EEEEECSTTSSHHHHHHHH
T ss_pred             EEEEEeCCCCCHHHHHHHH
Confidence            5999999999999765544

>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=92.12  E-value=0.053  Score=26.14  Aligned_cols=20  Identities=25%  Similarity=0.217  Sum_probs=15.8

Q ss_pred             EEEEECCCCChHHHHHHHHh
Q 035301           14 KVVLIGDSGVGKSNLLSRFT   33 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~   33 (68)
                      ..++.++.|+|||.++-.++
T Consensus        10 ~~ll~apTGsGKT~~~~~~~   29 (136)
T d1a1va1          10 VAHLHAPTGSGKSTKVPAAY   29 (136)
T ss_dssp             EEEEECCTTSCTTTHHHHHH
T ss_pred             EEEEEeCCCCCHHHHHHHHH
Confidence            45778999999998876554

>d2mysa2 c.37.1.9 (A:4-33,A:80-843) Myosin S1, motor domain {Chicken (Gallus gallus), pectoral muscle [TaxId: 9031]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Motor proteins
domain: Myosin S1, motor domain
species: Chicken (Gallus gallus), pectoral muscle [TaxId: 9031]

Probab=91.81  E-value=0.053  Score=33.97  Aligned_cols=17  Identities=29%  Similarity=0.595  Sum_probs=14.3

Q ss_pred             EEEEECCCCChHHHHHH
Q 035301           14 KVVLIGDSGVGKSNLLS   30 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~   30 (68)
                      .|++.|++|+|||.-.+
T Consensus       125 sIiisGeSGaGKTe~~K  141 (794)
T d2mysa2         125 SILITGESGAGKTVNTK  141 (794)
T ss_dssp             EEEEEECTTSCHHHHHH
T ss_pred             EEEEEcCCCCCHHHHHH
Confidence            68999999999995444

>d1kk8a2 c.37.1.9 (A:1-28,A:77-837) Myosin S1, motor domain {Bay scallop (Aequipecten irradians) [TaxId: 31199]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Motor proteins
domain: Myosin S1, motor domain
species: Bay scallop (Aequipecten irradians) [TaxId: 31199]

Probab=91.64  E-value=0.066  Score=33.54  Aligned_cols=19  Identities=26%  Similarity=0.534  Sum_probs=15.1

Q ss_pred             eEEEEECCCCChHHHHHHH
Q 035301           13 FKVVLIGDSGVGKSNLLSR   31 (68)
Q Consensus        13 ~ki~~iG~~~vGKtsl~~~   31 (68)
                      -.|++.|++|+|||--.+.
T Consensus       122 Q~IiisGESGaGKTe~~K~  140 (789)
T d1kk8a2         122 QSCLITGESGAGKTENTKK  140 (789)
T ss_dssp             EEEEEECSTTSSHHHHHHH
T ss_pred             cEEEEEeCCCCCHHHHHHH
Confidence            4789999999999955443

>d1w7ja2 c.37.1.9 (A:63-792) Myosin S1, motor domain {Chicken (Gallus gallus), Va isoform [TaxId: 9031]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Motor proteins
domain: Myosin S1, motor domain
species: Chicken (Gallus gallus), Va isoform [TaxId: 9031]

Probab=91.13  E-value=0.08  Score=32.80  Aligned_cols=19  Identities=26%  Similarity=0.462  Sum_probs=15.3

Q ss_pred             EEEEECCCCChHHHHHHHH
Q 035301           14 KVVLIGDSGVGKSNLLSRF   32 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~   32 (68)
                      .|++.|++|+|||.-.+.+
T Consensus        96 ~IiisGeSGsGKTe~~k~i  114 (730)
T d1w7ja2          96 SIIVSGESGAGKTVSAKYA  114 (730)
T ss_dssp             EEEEECSTTSSHHHHHHHH
T ss_pred             EEEEEeCCCCCHHHHHHHH
Confidence            6899999999999655443

>d2gnoa2 c.37.1.20 (A:11-208) gamma subunit of DNA polymerase III, N-domain {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: gamma subunit of DNA polymerase III, N-domain
species: Thermotoga maritima [TaxId: 2336]

Probab=91.09  E-value=0.13  Score=26.80  Aligned_cols=23  Identities=4%  Similarity=0.040  Sum_probs=20.0

Q ss_pred             eeEEEEECCCCChHHHHHHHHhc
Q 035301           12 LFKVVLIGDSGVGKSNLLSRFTR   34 (68)
Q Consensus        12 ~~ki~~iG~~~vGKtsl~~~~~~   34 (68)
                      ...+++-|++|+|||++...+..
T Consensus        15 ~~~~l~~G~~g~gk~~~a~~l~~   37 (198)
T d2gnoa2          15 GISILINGEDLSYPREVSLELPE   37 (198)
T ss_dssp             SEEEEEECSSSSHHHHHHHHHHH
T ss_pred             CceEEEECCCCCCHHHHHHHHHH
Confidence            56899999999999999887764

>d1hyqa_ c.37.1.10 (A:) Cell division regulator MinD {Archaeon Archaeoglobus fulgidus [TaxId: 2234]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Cell division regulator MinD
species: Archaeon Archaeoglobus fulgidus [TaxId: 2234]

Probab=90.05  E-value=0.14  Score=26.44  Aligned_cols=15  Identities=27%  Similarity=0.660  Sum_probs=12.1

Q ss_pred             CCCCChHHHHHHHHh
Q 035301           19 GDSGVGKSNLLSRFT   33 (68)
Q Consensus        19 G~~~vGKtsl~~~~~   33 (68)
                      +-.|||||++...++
T Consensus         9 ~KGGvGKTtia~nlA   23 (232)
T d1hyqa_           9 GKGGTGKTTITANLG   23 (232)
T ss_dssp             SSSCSCHHHHHHHHH
T ss_pred             CCCCChHHHHHHHHH
Confidence            677999999877654

>d1g3qa_ c.37.1.10 (A:) Cell division regulator MinD {Archaeon Pyrococcus furiosus [TaxId: 2261]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Cell division regulator MinD
species: Archaeon Pyrococcus furiosus [TaxId: 2261]

Probab=89.84  E-value=0.15  Score=26.30  Aligned_cols=19  Identities=21%  Similarity=0.690  Sum_probs=14.1

Q ss_pred             EEEE-CCCCChHHHHHHHHh
Q 035301           15 VVLI-GDSGVGKSNLLSRFT   33 (68)
Q Consensus        15 i~~i-G~~~vGKtsl~~~~~   33 (68)
                      |.+. +..|||||++...++
T Consensus         5 Iav~~~kGGvGKTtia~nLA   24 (237)
T d1g3qa_           5 ISIVSGKGGTGKTTVTANLS   24 (237)
T ss_dssp             EEEECSSTTSSHHHHHHHHH
T ss_pred             EEEECCCCCCcHHHHHHHHH
Confidence            4455 567999999977665

>d1wp9a1 c.37.1.19 (A:1-200) putative ATP-dependent RNA helicase PF2015 {Pyrococcus furiosus [TaxId: 2261]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Tandem AAA-ATPase domain
domain: putative ATP-dependent RNA helicase PF2015
species: Pyrococcus furiosus [TaxId: 2261]

Probab=89.62  E-value=0.16  Score=25.79  Aligned_cols=17  Identities=18%  Similarity=0.429  Sum_probs=13.5

Q ss_pred             EEEEECCCCChHHHHHH
Q 035301           14 KVVLIGDSGVGKSNLLS   30 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~   30 (68)
                      .+++.++.|+|||.+..
T Consensus        25 n~lv~~pTGsGKT~i~~   41 (200)
T d1wp9a1          25 NCLIVLPTGLGKTLIAM   41 (200)
T ss_dssp             CEEEECCTTSCHHHHHH
T ss_pred             CeEEEeCCCCcHHHHHH
Confidence            47788999999996433

>d1xbta1 c.37.1.24 (A:18-150) Thymidine kinase, TK1, N-terminal domain {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Type II thymidine kinase
domain: Thymidine kinase, TK1, N-terminal domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=89.61  E-value=0.16  Score=24.93  Aligned_cols=19  Identities=42%  Similarity=0.454  Sum_probs=15.3

Q ss_pred             EEECCCCChHHHHHHHHhc
Q 035301           16 VLIGDSGVGKSNLLSRFTR   34 (68)
Q Consensus        16 ~~iG~~~vGKtsl~~~~~~   34 (68)
                      +++|+-.+|||+-+-+.+.
T Consensus         6 li~GpMfsGKTt~Li~~~~   24 (133)
T d1xbta1           6 VILGPMFSGKSTELMRRVR   24 (133)
T ss_dssp             EEECCTTSCHHHHHHHHHH
T ss_pred             EEEecccCHHHHHHHHHHH
Confidence            5679999999998777554

>d1xx6a1 c.37.1.24 (A:2-142) Thymidine kinase, TK1, N-terminal domain {Clostridium acetobutylicum [TaxId: 1488]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Type II thymidine kinase
domain: Thymidine kinase, TK1, N-terminal domain
species: Clostridium acetobutylicum [TaxId: 1488]

Probab=88.28  E-value=0.22  Score=24.73  Aligned_cols=19  Identities=42%  Similarity=0.469  Sum_probs=15.0

Q ss_pred             EEECCCCChHHHHHHHHhc
Q 035301           16 VLIGDSGVGKSNLLSRFTR   34 (68)
Q Consensus        16 ~~iG~~~vGKtsl~~~~~~   34 (68)
                      +++|+-.+|||+-+-+...
T Consensus        11 lI~GpMfSGKTteLi~~~~   29 (141)
T d1xx6a1          11 VIVGPMYSGKSEELIRRIR   29 (141)
T ss_dssp             EEECSTTSSHHHHHHHHHH
T ss_pred             EEEeccccHHHHHHHHHHH
Confidence            4579999999987776653

>d2p6ra3 c.37.1.19 (A:1-202) Hel308 helicase {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: Tandem AAA-ATPase domain
domain: Hel308 helicase
species: Archaeoglobus fulgidus [TaxId: 2234]

Probab=87.36  E-value=0.13  Score=26.34  Aligned_cols=16  Identities=25%  Similarity=0.347  Sum_probs=13.7

Q ss_pred             EEEEECCCCChHHHHH
Q 035301           14 KVVLIGDSGVGKSNLL   29 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~   29 (68)
                      ++++..+.|+|||...
T Consensus        42 ~~il~apTGsGKT~~a   57 (202)
T d2p6ra3          42 NLLLAMPTAAGKTLLA   57 (202)
T ss_dssp             CEEEECSSHHHHHHHH
T ss_pred             CEEEEcCCCCchhHHH
Confidence            6889999999999653

>d2b8ta1 c.37.1.24 (A:11-149) Thymidine kinase, TK1, N-terminal domain {Ureaplasma urealyticum [TaxId: 2130]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Type II thymidine kinase
domain: Thymidine kinase, TK1, N-terminal domain
species: Ureaplasma urealyticum [TaxId: 2130]

Probab=86.67  E-value=0.3  Score=24.06  Aligned_cols=17  Identities=29%  Similarity=0.268  Sum_probs=12.9

Q ss_pred             EEECCCCChHHHHHHHH
Q 035301           16 VLIGDSGVGKSNLLSRF   32 (68)
Q Consensus        16 ~~iG~~~vGKtsl~~~~   32 (68)
                      +++|+-.+|||+-+-+.
T Consensus         6 ~i~GpMfsGKTteLi~~   22 (139)
T d2b8ta1           6 FITGPMFAGKTAELIRR   22 (139)
T ss_dssp             EEECSTTSCHHHHHHHH
T ss_pred             EEEccccCHHHHHHHHH
Confidence            56799999999954443

>d2eyqa3 c.37.1.19 (A:546-778) Transcription-repair coupling factor, TRCF {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Tandem AAA-ATPase domain
domain: Transcription-repair coupling factor, TRCF
species: Escherichia coli [TaxId: 562]

Probab=85.90  E-value=0.37  Score=25.86  Aligned_cols=22  Identities=27%  Similarity=0.498  Sum_probs=17.1

Q ss_pred             eeEEEEECCCCChHHHHHHHHh
Q 035301           12 LFKVVLIGDSGVGKSNLLSRFT   33 (68)
Q Consensus        12 ~~ki~~iG~~~vGKtsl~~~~~   33 (68)
                      ....++.|+.|+|||-..-+.+
T Consensus        76 ~~~~LL~GdvGsGKT~V~~~a~   97 (233)
T d2eyqa3          76 AMDRLVCGDVGFGKTEVAMRAA   97 (233)
T ss_dssp             CCEEEEECCCCTTTHHHHHHHH
T ss_pred             ccCeEEEcCCCCCcHHHHHHHH
Confidence            4567888999999997765544

>d1gm5a3 c.37.1.19 (A:286-549) RecG helicase domain {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Tandem AAA-ATPase domain
domain: RecG helicase domain
species: Thermotoga maritima [TaxId: 2336]

Probab=85.00  E-value=0.37  Score=26.32  Aligned_cols=21  Identities=29%  Similarity=0.371  Sum_probs=15.8

Q ss_pred             eeEEEEECCCCChHHHHHHHH
Q 035301           12 LFKVVLIGDSGVGKSNLLSRF   32 (68)
Q Consensus        12 ~~ki~~iG~~~vGKtsl~~~~   32 (68)
                      ...-++-|+-|+|||-..-..
T Consensus       104 ~m~rLL~GdvGSGKT~Va~~a  124 (264)
T d1gm5a3         104 PMNRLLQGDVGSGKTVVAQLA  124 (264)
T ss_dssp             CCCCEEECCSSSSHHHHHHHH
T ss_pred             cceeeeeccccccccHHHHHH
Confidence            446688899999999665443

>d1yksa1 c.37.1.14 (A:185-324) YFV helicase domain {Yellow fever virus [TaxId: 11089]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RNA helicase
domain: YFV helicase domain
species: Yellow fever virus [TaxId: 11089]

Probab=84.39  E-value=0.13  Score=24.18  Aligned_cols=14  Identities=36%  Similarity=0.420  Sum_probs=11.6

Q ss_pred             EEEEECCCCChHHH
Q 035301           14 KVVLIGDSGVGKSN   27 (68)
Q Consensus        14 ki~~iG~~~vGKts   27 (68)
                      .+++..+.|+|||.
T Consensus         9 ~~il~~~tGsGKT~   22 (140)
T d1yksa1           9 TTVLDFHPGAGKTR   22 (140)
T ss_dssp             EEEECCCTTSSTTT
T ss_pred             cEEEEcCCCCChhH
Confidence            56777899999993

>d1p3da1 c.5.1.1 (A:11-106) UDP-N-acetylmuramate-alanine ligase MurC {Haemophilus influenzae [TaxId: 727]}

class: Alpha and beta proteins (a/b)
fold: MurCD N-terminal domain
superfamily: MurCD N-terminal domain
family: MurCD N-terminal domain
domain: UDP-N-acetylmuramate-alanine ligase MurC
species: Haemophilus influenzae [TaxId: 727]

Probab=84.12  E-value=0.6  Score=21.47  Aligned_cols=26  Identities=19%  Similarity=0.312  Sum_probs=21.4

Q ss_pred             eeeEEEEECCCCChHHHHHHHHhcCc
Q 035301           11 YLFKVVLIGDSGVGKSNLLSRFTRNE   36 (68)
Q Consensus        11 ~~~ki~~iG~~~vGKtsl~~~~~~~~   36 (68)
                      ..-++-++|-.|+|.|.|...+....
T Consensus         7 ~~~~ihfiGigG~GMs~LA~~L~~~G   32 (96)
T d1p3da1           7 RVQQIHFIGIGGAGMSGIAEILLNEG   32 (96)
T ss_dssp             TCCEEEEETTTSTTHHHHHHHHHHHT
T ss_pred             hCCEEEEEEECHHHHHHHHHHHHhCC
Confidence            45689999999999999988777543

>d1w36b1 c.37.1.19 (B:1-485) Exodeoxyribonuclease V beta chain (RecB), N-terminal domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Tandem AAA-ATPase domain
domain: Exodeoxyribonuclease V beta chain (RecB), N-terminal domain
species: Escherichia coli [TaxId: 562]

Probab=82.93  E-value=0.4  Score=27.09  Aligned_cols=20  Identities=15%  Similarity=0.371  Sum_probs=14.8

Q ss_pred             EEEEECCCCChHHHHH-HHHh
Q 035301           14 KVVLIGDSGVGKSNLL-SRFT   33 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~-~~~~   33 (68)
                      ..+|....|+|||+.+ .+++
T Consensus        18 ~~lv~A~AGsGKT~~l~~r~~   38 (485)
T d1w36b1          18 ERLIEASAGTGKTFTIAALYL   38 (485)
T ss_dssp             CEEEECCTTSCHHHHHHHHHH
T ss_pred             CeEEEEcCchHHHHHHHHHHH
Confidence            5778888999999654 4443

>d2fz4a1 c.37.1.19 (A:24-229) DNA repair protein RAD25 {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: Tandem AAA-ATPase domain
domain: DNA repair protein RAD25
species: Archaeoglobus fulgidus [TaxId: 2234]

Probab=82.73  E-value=0.62  Score=23.95  Aligned_cols=20  Identities=15%  Similarity=0.260  Sum_probs=15.6

Q ss_pred             EEEEECCCCChHHHHHHHHh
Q 035301           14 KVVLIGDSGVGKSNLLSRFT   33 (68)
Q Consensus        14 ki~~iG~~~vGKtsl~~~~~   33 (68)
                      +.++..+.|+|||-+.-.++
T Consensus        87 ~~ll~~~tG~GKT~~a~~~~  106 (206)
T d2fz4a1          87 RGCIVLPTGSGKTHVAMAAI  106 (206)
T ss_dssp             EEEEEESSSTTHHHHHHHHH
T ss_pred             CcEEEeCCCCCceehHHhHH
Confidence            56788999999997655544